Multiple sequence alignment - TraesCS1D01G393600

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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 TraesCS1D01G393600 chr1D 100.000 3112 0 0 738 3849 463017112 463020223 0.000000e+00 5747.0
1 TraesCS1D01G393600 chr1D 100.000 449 0 0 1 449 463016375 463016823 0.000000e+00 830.0
2 TraesCS1D01G393600 chr1A 92.066 1462 65 23 745 2177 554887566 554889005 0.000000e+00 2010.0
3 TraesCS1D01G393600 chr1A 92.539 965 46 10 2180 3143 554889043 554889982 0.000000e+00 1360.0
4 TraesCS1D01G393600 chr1A 89.011 637 60 3 3215 3849 554895842 554896470 0.000000e+00 780.0
5 TraesCS1D01G393600 chr1A 87.805 451 33 10 2 446 554887109 554887543 3.430000e-140 508.0
6 TraesCS1D01G393600 chr1B 93.056 936 46 13 2192 3121 638015058 638015980 0.000000e+00 1351.0
7 TraesCS1D01G393600 chr1B 86.489 940 68 38 1252 2177 638014044 638014938 0.000000e+00 977.0
8 TraesCS1D01G393600 chr1B 90.828 447 23 10 745 1180 638013451 638013890 1.990000e-162 582.0
9 TraesCS1D01G393600 chr1B 88.235 442 28 8 6 444 638013002 638013422 1.230000e-139 507.0
10 TraesCS1D01G393600 chr3D 83.333 126 18 3 1058 1182 370618671 370618794 3.140000e-21 113.0
11 TraesCS1D01G393600 chr3B 82.540 126 19 3 1058 1182 482002230 482002353 1.460000e-19 108.0
12 TraesCS1D01G393600 chr3A 82.609 115 17 3 1069 1182 491521785 491521897 8.800000e-17 99.0
13 TraesCS1D01G393600 chr3A 87.273 55 6 1 3793 3847 147380581 147380528 1.150000e-05 62.1
14 TraesCS1D01G393600 chr7A 90.000 50 3 2 3795 3843 674873345 674873297 3.210000e-06 63.9
15 TraesCS1D01G393600 chrUn 95.000 40 0 2 3791 3828 146355393 146355354 1.150000e-05 62.1
16 TraesCS1D01G393600 chr5B 84.746 59 8 1 3791 3849 509671894 509671951 1.490000e-04 58.4
17 TraesCS1D01G393600 chr5B 84.746 59 8 1 3791 3849 509677741 509677798 1.490000e-04 58.4
18 TraesCS1D01G393600 chr5D 89.130 46 2 2 3792 3834 457643955 457644000 2.000000e-03 54.7
19 TraesCS1D01G393600 chr5D 85.185 54 5 3 3789 3841 485162412 485162463 7.000000e-03 52.8
20 TraesCS1D01G393600 chr2D 85.185 54 7 1 3794 3847 650564361 650564309 2.000000e-03 54.7


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 TraesCS1D01G393600 chr1D 463016375 463020223 3848 False 3288.500000 5747 100.000000 1 3849 2 chr1D.!!$F1 3848
1 TraesCS1D01G393600 chr1A 554887109 554889982 2873 False 1292.666667 2010 90.803333 2 3143 3 chr1A.!!$F2 3141
2 TraesCS1D01G393600 chr1A 554895842 554896470 628 False 780.000000 780 89.011000 3215 3849 1 chr1A.!!$F1 634
3 TraesCS1D01G393600 chr1B 638013002 638015980 2978 False 854.250000 1351 89.652000 6 3121 4 chr1B.!!$F1 3115

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
987 1022 0.028242 CACCGACGGAGAAGAGATCG 59.972 60.0 23.38 0.0 0.0 3.69 F
1479 1617 0.386113 GTCTGCCCTCATACCTCGAC 59.614 60.0 0.00 0.0 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2011 2157 0.032815 TCAGTGCAACCGATCGACAA 59.967 50.0 18.66 0.0 37.80 3.18 R
3180 3451 0.108138 CAAGGAGTACCGAAGCCCTG 60.108 60.0 0.00 0.0 41.83 4.45 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
30 36 3.644966 TCCCACACCCTTCATGTTATC 57.355 47.619 0.00 0.00 0.00 1.75
41 47 4.814771 CCTTCATGTTATCCGGTTAGGTTC 59.185 45.833 0.00 0.00 41.99 3.62
68 74 3.773630 CAACCGCGCCACAGTACG 61.774 66.667 0.00 0.00 0.00 3.67
92 98 1.281960 CCGTACTCCTACATCCGCG 59.718 63.158 0.00 0.00 0.00 6.46
118 124 2.411547 CCATTTTCGTCTTCGTCACAGC 60.412 50.000 0.00 0.00 38.33 4.40
119 125 2.218953 TTTTCGTCTTCGTCACAGCT 57.781 45.000 0.00 0.00 38.33 4.24
121 127 0.666374 TTCGTCTTCGTCACAGCTCA 59.334 50.000 0.00 0.00 38.33 4.26
122 128 0.040336 TCGTCTTCGTCACAGCTCAC 60.040 55.000 0.00 0.00 38.33 3.51
123 129 0.317854 CGTCTTCGTCACAGCTCACA 60.318 55.000 0.00 0.00 0.00 3.58
124 130 1.413382 GTCTTCGTCACAGCTCACAG 58.587 55.000 0.00 0.00 0.00 3.66
125 131 0.315251 TCTTCGTCACAGCTCACAGG 59.685 55.000 0.00 0.00 0.00 4.00
126 132 0.315251 CTTCGTCACAGCTCACAGGA 59.685 55.000 0.00 0.00 0.00 3.86
127 133 0.032130 TTCGTCACAGCTCACAGGAC 59.968 55.000 0.00 0.00 0.00 3.85
128 134 1.373497 CGTCACAGCTCACAGGACC 60.373 63.158 0.00 0.00 0.00 4.46
129 135 1.373497 GTCACAGCTCACAGGACCG 60.373 63.158 0.00 0.00 0.00 4.79
130 136 1.832608 TCACAGCTCACAGGACCGT 60.833 57.895 0.00 0.00 0.00 4.83
131 137 1.373497 CACAGCTCACAGGACCGTC 60.373 63.158 0.00 0.00 0.00 4.79
132 138 2.262915 CAGCTCACAGGACCGTCC 59.737 66.667 9.81 9.81 36.58 4.79
133 139 3.374402 AGCTCACAGGACCGTCCG 61.374 66.667 12.04 9.50 42.75 4.79
134 140 3.371063 GCTCACAGGACCGTCCGA 61.371 66.667 12.04 2.91 42.75 4.55
205 211 1.754380 AAGCCACACGCACTCCACTA 61.754 55.000 0.00 0.00 41.38 2.74
369 390 3.036084 GCGAGGACACCACACACG 61.036 66.667 0.00 0.00 0.00 4.49
849 870 3.590574 GCAACCTCCCAACCCCCT 61.591 66.667 0.00 0.00 0.00 4.79
850 871 2.763902 CAACCTCCCAACCCCCTC 59.236 66.667 0.00 0.00 0.00 4.30
885 906 1.124780 GCCTCCTAAACTCCTCTCCC 58.875 60.000 0.00 0.00 0.00 4.30
887 908 1.008449 CCTCCTAAACTCCTCTCCCCA 59.992 57.143 0.00 0.00 0.00 4.96
920 951 3.484557 CCGCGCAAATAATACGTTCTTGT 60.485 43.478 8.75 0.00 0.00 3.16
921 952 3.473550 CGCGCAAATAATACGTTCTTGTG 59.526 43.478 8.75 0.00 0.00 3.33
985 1020 1.668101 GCCACCGACGGAGAAGAGAT 61.668 60.000 23.38 0.00 0.00 2.75
987 1022 0.028242 CACCGACGGAGAAGAGATCG 59.972 60.000 23.38 0.00 0.00 3.69
996 1031 4.202274 ACGGAGAAGAGATCGAGTGAGATA 60.202 45.833 0.00 0.00 0.00 1.98
1008 1043 1.000163 AGTGAGATAAGTATGGCGCGG 60.000 52.381 8.83 0.00 0.00 6.46
1241 1350 5.625656 GCTGTAGAATGTAGGCTTCTTGAGT 60.626 44.000 0.00 0.00 34.81 3.41
1242 1351 6.360370 TGTAGAATGTAGGCTTCTTGAGTT 57.640 37.500 0.00 0.00 34.81 3.01
1316 1445 4.579869 AGTTCATGCGAGGAAACAATAGT 58.420 39.130 0.00 0.00 0.00 2.12
1364 1493 8.146479 TCCATGAATCATTACTCATTTTCTCG 57.854 34.615 0.00 0.00 29.69 4.04
1414 1548 2.697654 AGTGTCAGAGCAGAGCAATTC 58.302 47.619 0.00 0.00 0.00 2.17
1467 1601 1.071699 TGGGATAATAAGCGTCTGCCC 59.928 52.381 0.00 0.00 44.31 5.36
1468 1602 1.348036 GGGATAATAAGCGTCTGCCCT 59.652 52.381 0.00 0.00 44.31 5.19
1469 1603 2.613223 GGGATAATAAGCGTCTGCCCTC 60.613 54.545 0.00 0.00 44.31 4.30
1479 1617 0.386113 GTCTGCCCTCATACCTCGAC 59.614 60.000 0.00 0.00 0.00 4.20
1541 1685 1.590932 CTCAGCTCCGCAATAGCAAT 58.409 50.000 4.92 0.00 42.62 3.56
1542 1686 1.263484 CTCAGCTCCGCAATAGCAATG 59.737 52.381 4.92 0.00 42.62 2.82
1544 1688 1.003116 CAGCTCCGCAATAGCAATGAC 60.003 52.381 4.92 0.00 42.62 3.06
1549 1693 4.285292 CTCCGCAATAGCAATGACAATTC 58.715 43.478 0.00 0.00 42.27 2.17
1649 1795 2.597903 GTGGGGATGGGCTTCTCC 59.402 66.667 0.55 0.55 36.73 3.71
1724 1870 3.727258 CTCCCCCACATCCGCCAA 61.727 66.667 0.00 0.00 0.00 4.52
1814 1960 2.428071 GACCACACCGTCGTCGTC 60.428 66.667 0.71 0.00 35.01 4.20
1856 2002 2.096268 CGCGTTTCAGCTGAAATTCTCA 60.096 45.455 37.03 17.35 44.69 3.27
1967 2113 3.559655 CCTTCACATTCGACTTCACAACA 59.440 43.478 0.00 0.00 0.00 3.33
1973 2119 5.179368 CACATTCGACTTCACAACAGGTAAT 59.821 40.000 0.00 0.00 0.00 1.89
1974 2120 5.179368 ACATTCGACTTCACAACAGGTAATG 59.821 40.000 0.00 0.00 0.00 1.90
1982 2128 7.328737 ACTTCACAACAGGTAATGTAGATACC 58.671 38.462 0.00 0.00 43.00 2.73
1993 2139 8.041323 AGGTAATGTAGATACCAACTGTTTCTG 58.959 37.037 5.60 0.00 44.35 3.02
2009 2155 8.463930 ACTGTTTCTGTGGAATTTCTTAATCA 57.536 30.769 0.00 0.00 0.00 2.57
2010 2156 9.082313 ACTGTTTCTGTGGAATTTCTTAATCAT 57.918 29.630 0.00 0.00 0.00 2.45
2011 2157 9.918630 CTGTTTCTGTGGAATTTCTTAATCATT 57.081 29.630 0.00 0.00 0.00 2.57
2068 2215 5.009310 GTCGGTTACCAGAAAAGGTTTTCAT 59.991 40.000 15.72 5.32 46.81 2.57
2129 2284 2.017049 GCACCACCTTTACATAGCTGG 58.983 52.381 0.00 0.00 0.00 4.85
2170 2325 4.574599 ACAACAGAATGCCTTTTCTCAC 57.425 40.909 0.00 0.00 42.53 3.51
2177 2332 6.127535 ACAGAATGCCTTTTCTCACCATTATG 60.128 38.462 0.00 0.00 42.53 1.90
2178 2333 5.954150 AGAATGCCTTTTCTCACCATTATGT 59.046 36.000 0.00 0.00 29.99 2.29
2182 2372 6.186957 TGCCTTTTCTCACCATTATGTGTAT 58.813 36.000 0.00 0.00 37.51 2.29
2488 2750 1.874129 TCCTTTTCCTCGGCATCCTA 58.126 50.000 0.00 0.00 0.00 2.94
2508 2770 2.451490 ACAGGTCGATCACTCACTCAT 58.549 47.619 0.00 0.00 0.00 2.90
2517 2779 4.336713 CGATCACTCACTCATTGTCCTCTA 59.663 45.833 0.00 0.00 0.00 2.43
2527 2789 6.257411 CACTCATTGTCCTCTACTATGCTTTG 59.743 42.308 0.00 0.00 40.04 2.77
2537 2799 3.920231 ACTATGCTTTGATGCTCTGGA 57.080 42.857 0.00 0.00 0.00 3.86
2552 2814 3.286353 CTCTGGAGCATGTCTAGACTGA 58.714 50.000 23.01 4.87 37.84 3.41
2554 2816 3.635836 TCTGGAGCATGTCTAGACTGATG 59.364 47.826 23.01 18.86 37.84 3.07
2559 2821 5.244851 GGAGCATGTCTAGACTGATGGATTA 59.755 44.000 23.01 0.31 0.00 1.75
2779 3042 3.532155 GCCATCCTCCTCGTCGCT 61.532 66.667 0.00 0.00 0.00 4.93
2859 3126 0.882474 ACGTACTGAGCTCTGTCACC 59.118 55.000 27.17 15.98 0.00 4.02
2941 3212 7.334844 TCCTTTTCTTTTCTTTTCTGGTCTC 57.665 36.000 0.00 0.00 0.00 3.36
3093 3364 6.570672 TTACAACGGTATAAATGCACCAAA 57.429 33.333 0.00 0.00 34.25 3.28
3121 3392 2.466870 TGAACAACACACGAATGCAC 57.533 45.000 0.00 0.00 0.00 4.57
3143 3414 0.379669 CGTGAGCCTATACGACCGTT 59.620 55.000 0.00 0.00 42.54 4.44
3144 3415 1.599071 CGTGAGCCTATACGACCGTTA 59.401 52.381 0.00 0.00 42.54 3.18
3145 3416 2.032054 CGTGAGCCTATACGACCGTTAA 59.968 50.000 0.00 0.00 42.54 2.01
3146 3417 3.625938 GTGAGCCTATACGACCGTTAAG 58.374 50.000 0.00 0.00 0.00 1.85
3147 3418 3.313526 GTGAGCCTATACGACCGTTAAGA 59.686 47.826 0.00 0.00 0.00 2.10
3148 3419 3.313526 TGAGCCTATACGACCGTTAAGAC 59.686 47.826 0.00 0.00 0.00 3.01
3149 3420 3.282021 AGCCTATACGACCGTTAAGACA 58.718 45.455 0.00 0.00 0.00 3.41
3150 3421 3.696051 AGCCTATACGACCGTTAAGACAA 59.304 43.478 0.00 0.00 0.00 3.18
3151 3422 4.340381 AGCCTATACGACCGTTAAGACAAT 59.660 41.667 0.00 0.00 0.00 2.71
3152 3423 5.045872 GCCTATACGACCGTTAAGACAATT 58.954 41.667 0.00 0.00 0.00 2.32
3153 3424 5.521372 GCCTATACGACCGTTAAGACAATTT 59.479 40.000 0.00 0.00 0.00 1.82
3154 3425 6.036408 GCCTATACGACCGTTAAGACAATTTT 59.964 38.462 0.00 0.00 0.00 1.82
3155 3426 7.396419 CCTATACGACCGTTAAGACAATTTTG 58.604 38.462 0.00 0.00 0.00 2.44
3156 3427 7.276218 CCTATACGACCGTTAAGACAATTTTGA 59.724 37.037 0.00 0.00 0.00 2.69
3157 3428 5.934935 ACGACCGTTAAGACAATTTTGAT 57.065 34.783 0.00 0.00 0.00 2.57
3158 3429 5.685841 ACGACCGTTAAGACAATTTTGATG 58.314 37.500 0.00 0.00 0.00 3.07
3159 3430 5.086058 CGACCGTTAAGACAATTTTGATGG 58.914 41.667 0.00 0.00 0.00 3.51
3160 3431 5.334569 CGACCGTTAAGACAATTTTGATGGT 60.335 40.000 0.00 0.00 36.47 3.55
3161 3432 6.399639 ACCGTTAAGACAATTTTGATGGTT 57.600 33.333 0.00 0.00 31.56 3.67
3162 3433 6.811954 ACCGTTAAGACAATTTTGATGGTTT 58.188 32.000 0.00 0.00 31.56 3.27
3163 3434 6.921307 ACCGTTAAGACAATTTTGATGGTTTC 59.079 34.615 0.00 0.00 31.56 2.78
3164 3435 6.920758 CCGTTAAGACAATTTTGATGGTTTCA 59.079 34.615 0.00 0.00 0.00 2.69
3165 3436 7.598493 CCGTTAAGACAATTTTGATGGTTTCAT 59.402 33.333 0.00 0.00 33.34 2.57
3179 3450 5.200368 TGGTTTCATCTTTTTCAGGAAGC 57.800 39.130 0.00 0.00 0.00 3.86
3180 3451 4.039124 TGGTTTCATCTTTTTCAGGAAGCC 59.961 41.667 0.00 0.00 38.74 4.35
3181 3452 4.039124 GGTTTCATCTTTTTCAGGAAGCCA 59.961 41.667 0.00 0.00 38.33 4.75
3182 3453 5.225642 GTTTCATCTTTTTCAGGAAGCCAG 58.774 41.667 0.00 0.00 0.00 4.85
3183 3454 3.424703 TCATCTTTTTCAGGAAGCCAGG 58.575 45.455 0.00 0.00 0.00 4.45
3184 3455 2.292828 TCTTTTTCAGGAAGCCAGGG 57.707 50.000 0.00 0.00 0.00 4.45
3185 3456 0.605083 CTTTTTCAGGAAGCCAGGGC 59.395 55.000 0.97 0.97 42.33 5.19
3195 3466 2.187163 GCCAGGGCTTCGGTACTC 59.813 66.667 2.30 0.00 38.26 2.59
3196 3467 2.901042 CCAGGGCTTCGGTACTCC 59.099 66.667 0.00 0.00 0.00 3.85
3197 3468 1.686110 CCAGGGCTTCGGTACTCCT 60.686 63.158 0.00 0.00 0.00 3.69
3198 3469 1.265454 CCAGGGCTTCGGTACTCCTT 61.265 60.000 0.00 0.00 0.00 3.36
3199 3470 0.108138 CAGGGCTTCGGTACTCCTTG 60.108 60.000 0.00 0.00 0.00 3.61
3200 3471 0.252103 AGGGCTTCGGTACTCCTTGA 60.252 55.000 0.00 0.00 0.00 3.02
3201 3472 0.108281 GGGCTTCGGTACTCCTTGAC 60.108 60.000 0.00 0.00 0.00 3.18
3202 3473 0.896226 GGCTTCGGTACTCCTTGACT 59.104 55.000 0.00 0.00 0.00 3.41
3203 3474 1.275573 GGCTTCGGTACTCCTTGACTT 59.724 52.381 0.00 0.00 0.00 3.01
3204 3475 2.289506 GGCTTCGGTACTCCTTGACTTT 60.290 50.000 0.00 0.00 0.00 2.66
3205 3476 2.737252 GCTTCGGTACTCCTTGACTTTG 59.263 50.000 0.00 0.00 0.00 2.77
3206 3477 3.802675 GCTTCGGTACTCCTTGACTTTGT 60.803 47.826 0.00 0.00 0.00 2.83
3207 3478 3.655276 TCGGTACTCCTTGACTTTGTC 57.345 47.619 0.00 0.00 0.00 3.18
3208 3479 2.298163 TCGGTACTCCTTGACTTTGTCC 59.702 50.000 0.00 0.00 0.00 4.02
3209 3480 2.685100 GGTACTCCTTGACTTTGTCCG 58.315 52.381 0.00 0.00 0.00 4.79
3210 3481 2.036862 GGTACTCCTTGACTTTGTCCGT 59.963 50.000 0.00 0.00 0.00 4.69
3211 3482 3.493873 GGTACTCCTTGACTTTGTCCGTT 60.494 47.826 0.00 0.00 0.00 4.44
3212 3483 3.277142 ACTCCTTGACTTTGTCCGTTT 57.723 42.857 0.00 0.00 0.00 3.60
3213 3484 2.943033 ACTCCTTGACTTTGTCCGTTTG 59.057 45.455 0.00 0.00 0.00 2.93
3214 3485 2.290641 CTCCTTGACTTTGTCCGTTTGG 59.709 50.000 0.00 0.00 0.00 3.28
3215 3486 2.092861 TCCTTGACTTTGTCCGTTTGGA 60.093 45.455 0.00 0.00 43.88 3.53
3244 3515 3.119316 CGATAGAGCTCCGGCATAGATTT 60.119 47.826 10.93 0.00 41.70 2.17
3254 3525 6.611613 TCCGGCATAGATTTCTATCATCTT 57.388 37.500 0.00 0.00 37.07 2.40
3257 3528 7.038729 TCCGGCATAGATTTCTATCATCTTCTT 60.039 37.037 0.00 0.00 37.07 2.52
3262 3533 5.629125 AGATTTCTATCATCTTCTTGGGGC 58.371 41.667 0.00 0.00 32.95 5.80
3269 3540 0.110486 ATCTTCTTGGGGCAACGTGT 59.890 50.000 0.00 0.00 37.60 4.49
3282 3553 3.362693 GGCAACGTGTTTAGAGTTTCTCG 60.363 47.826 0.00 0.00 35.36 4.04
3285 3556 4.297299 ACGTGTTTAGAGTTTCTCGTCA 57.703 40.909 0.00 0.00 35.36 4.35
3294 3565 0.451135 GTTTCTCGTCATGTGCGTGC 60.451 55.000 10.94 0.00 0.00 5.34
3297 3568 3.059472 CTCGTCATGTGCGTGCGAC 62.059 63.158 10.94 0.00 0.00 5.19
3298 3569 3.402233 CGTCATGTGCGTGCGACA 61.402 61.111 0.00 0.00 0.00 4.35
3332 3603 6.042777 GGTGTCAGACAATTCAGATCGATTA 58.957 40.000 4.32 0.00 0.00 1.75
3333 3604 6.703607 GGTGTCAGACAATTCAGATCGATTAT 59.296 38.462 4.32 0.00 0.00 1.28
3346 3617 2.896168 TCGATTATGGGGTTCAACGAC 58.104 47.619 0.00 0.00 0.00 4.34
3354 3625 2.654912 GGTTCAACGACGCCGACTG 61.655 63.158 0.00 0.00 39.50 3.51
3355 3626 3.033764 TTCAACGACGCCGACTGC 61.034 61.111 0.00 0.00 39.50 4.40
3382 3653 2.372852 GACACTGGTCCTTAGGGCA 58.627 57.895 4.86 0.00 38.12 5.36
3415 3686 4.962155 AGAGTTCCTAACTGTCACAAAGG 58.038 43.478 0.00 0.00 43.03 3.11
3444 3715 1.301623 CCATTGCCTTGGGACCGTA 59.698 57.895 0.00 0.00 32.80 4.02
3461 3732 5.360429 GGACCGTAGAGGAAAAGATAGAAGT 59.640 44.000 0.00 0.00 45.00 3.01
3462 3733 6.127394 GGACCGTAGAGGAAAAGATAGAAGTT 60.127 42.308 0.00 0.00 45.00 2.66
3465 3736 6.752815 CCGTAGAGGAAAAGATAGAAGTTGTC 59.247 42.308 0.00 0.00 45.00 3.18
3467 3738 7.976734 CGTAGAGGAAAAGATAGAAGTTGTCAT 59.023 37.037 0.00 0.00 0.00 3.06
3546 3817 5.794894 AGAATCGTCAAGAAACACCTACAT 58.205 37.500 0.00 0.00 0.00 2.29
3555 3826 4.575885 AGAAACACCTACATTATGCACGT 58.424 39.130 0.00 0.00 0.00 4.49
3561 3832 6.346096 ACACCTACATTATGCACGTATCTTT 58.654 36.000 0.00 0.00 0.00 2.52
3641 3912 1.165270 GTTGTCGTATTGGCAGGCTT 58.835 50.000 0.00 0.00 0.00 4.35
3650 3921 5.479027 TCGTATTGGCAGGCTTCATATAGTA 59.521 40.000 0.00 0.00 0.00 1.82
3651 3922 6.014925 TCGTATTGGCAGGCTTCATATAGTAA 60.015 38.462 0.00 0.00 0.00 2.24
3652 3923 6.649141 CGTATTGGCAGGCTTCATATAGTAAA 59.351 38.462 0.00 0.00 0.00 2.01
3653 3924 7.172532 CGTATTGGCAGGCTTCATATAGTAAAA 59.827 37.037 0.00 0.00 0.00 1.52
3654 3925 7.896383 ATTGGCAGGCTTCATATAGTAAAAA 57.104 32.000 0.00 0.00 0.00 1.94
3716 3987 0.250338 ACGAAGGTTGCTGAGGGAAC 60.250 55.000 0.00 0.00 41.97 3.62
3741 4012 6.239008 CGCCCAAACATAGATTCACCATAAAT 60.239 38.462 0.00 0.00 0.00 1.40
3742 4013 7.500141 GCCCAAACATAGATTCACCATAAATT 58.500 34.615 0.00 0.00 0.00 1.82
3757 4028 9.585369 TCACCATAAATTCATGCTCCATAATTA 57.415 29.630 0.00 0.00 0.00 1.40
3770 4041 9.754382 ATGCTCCATAATTATTTTTCATGTGAC 57.246 29.630 0.00 0.00 0.00 3.67
3780 4051 5.446143 TTTTTCATGTGACACCCATGTAC 57.554 39.130 2.45 0.00 39.95 2.90
3786 4057 0.606096 TGACACCCATGTACGAGTGG 59.394 55.000 0.00 6.95 39.95 4.00
3796 4067 1.202830 TGTACGAGTGGCCACCAATTT 60.203 47.619 32.29 13.84 34.18 1.82
3810 4081 6.144175 GCCACCAATTTGAAAAATGTTCATG 58.856 36.000 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.456287 GGTGTGGGAAGCTGGACTT 59.544 57.895 0.00 0.00 42.98 3.01
7 8 0.251341 ACATGAAGGGTGTGGGAAGC 60.251 55.000 0.00 0.00 0.00 3.86
11 12 2.654863 GGATAACATGAAGGGTGTGGG 58.345 52.381 0.00 0.00 0.00 4.61
30 36 1.378119 GCCCAAGGAACCTAACCGG 60.378 63.158 0.00 0.00 39.35 5.28
41 47 4.341502 CGCGGTTGTTGCCCAAGG 62.342 66.667 0.00 0.00 32.51 3.61
68 74 1.105759 ATGTAGGAGTACGGCGGGAC 61.106 60.000 13.24 9.15 30.95 4.46
92 98 0.094730 CGAAGACGAAAATGGCCGAC 59.905 55.000 0.00 0.00 42.66 4.79
103 109 0.040336 GTGAGCTGTGACGAAGACGA 60.040 55.000 0.00 0.00 42.66 4.20
118 124 1.924320 GACTCGGACGGTCCTGTGAG 61.924 65.000 23.86 22.62 33.30 3.51
119 125 1.970114 GACTCGGACGGTCCTGTGA 60.970 63.158 23.86 13.31 33.30 3.58
121 127 2.675772 GGACTCGGACGGTCCTGT 60.676 66.667 23.86 20.75 46.89 4.00
124 130 3.507009 CTCGGACTCGGACGGTCC 61.507 72.222 17.38 17.38 46.93 4.46
125 131 4.176851 GCTCGGACTCGGACGGTC 62.177 72.222 0.00 0.00 36.95 4.79
126 132 4.719106 AGCTCGGACTCGGACGGT 62.719 66.667 0.00 0.00 36.95 4.83
127 133 3.441290 AAGCTCGGACTCGGACGG 61.441 66.667 0.00 0.00 36.95 4.79
128 134 2.202492 CAAGCTCGGACTCGGACG 60.202 66.667 0.00 0.00 36.95 4.79
129 135 1.153997 GTCAAGCTCGGACTCGGAC 60.154 63.158 10.38 0.00 36.95 4.79
130 136 2.341101 GGTCAAGCTCGGACTCGGA 61.341 63.158 15.59 0.00 35.61 4.55
131 137 2.182030 GGTCAAGCTCGGACTCGG 59.818 66.667 15.59 0.00 35.61 4.63
132 138 2.202492 CGGTCAAGCTCGGACTCG 60.202 66.667 15.59 13.49 35.61 4.18
133 139 1.153997 GTCGGTCAAGCTCGGACTC 60.154 63.158 15.59 7.37 35.61 3.36
134 140 1.901948 TGTCGGTCAAGCTCGGACT 60.902 57.895 15.59 0.00 36.54 3.85
192 198 1.374252 GTGGGTAGTGGAGTGCGTG 60.374 63.158 0.00 0.00 0.00 5.34
737 758 0.179073 GTGTCACTGCGGCCTATCAT 60.179 55.000 0.00 0.00 0.00 2.45
738 759 1.218047 GTGTCACTGCGGCCTATCA 59.782 57.895 0.00 0.00 0.00 2.15
739 760 0.807667 CAGTGTCACTGCGGCCTATC 60.808 60.000 19.69 0.00 39.62 2.08
740 761 1.219124 CAGTGTCACTGCGGCCTAT 59.781 57.895 19.69 0.00 39.62 2.57
741 762 2.656646 CAGTGTCACTGCGGCCTA 59.343 61.111 19.69 0.00 39.62 3.93
861 882 0.688087 AGGAGTTTAGGAGGCGGAGG 60.688 60.000 0.00 0.00 0.00 4.30
862 883 0.747852 GAGGAGTTTAGGAGGCGGAG 59.252 60.000 0.00 0.00 0.00 4.63
863 884 0.335361 AGAGGAGTTTAGGAGGCGGA 59.665 55.000 0.00 0.00 0.00 5.54
905 936 3.602483 ACGGCCACAAGAACGTATTATT 58.398 40.909 2.24 0.00 37.85 1.40
985 1020 2.031069 GCGCCATACTTATCTCACTCGA 60.031 50.000 0.00 0.00 0.00 4.04
987 1022 2.320367 CGCGCCATACTTATCTCACTC 58.680 52.381 0.00 0.00 0.00 3.51
1316 1445 6.015350 GGATATCTGCAGCTTTACCAGTACTA 60.015 42.308 9.47 0.00 0.00 1.82
1364 1493 4.518211 CCAACTCTAGCCCATTGAATCATC 59.482 45.833 0.00 0.00 0.00 2.92
1414 1548 1.296056 CCCTGCTTTTCACCGTACCG 61.296 60.000 0.00 0.00 0.00 4.02
1467 1601 1.410517 ACATGGCAGTCGAGGTATGAG 59.589 52.381 0.00 0.00 0.00 2.90
1468 1602 1.136891 CACATGGCAGTCGAGGTATGA 59.863 52.381 0.00 0.00 0.00 2.15
1469 1603 1.575244 CACATGGCAGTCGAGGTATG 58.425 55.000 0.00 0.00 0.00 2.39
1498 1636 6.324819 GCTGATAGCTAGATCATCTGAGTTC 58.675 44.000 0.00 0.00 38.45 3.01
1541 1685 3.572604 TCGCATGCAAATGAATTGTCA 57.427 38.095 19.57 0.00 41.32 3.58
1542 1686 5.252583 CAAATCGCATGCAAATGAATTGTC 58.747 37.500 19.57 0.00 41.32 3.18
1544 1688 4.025750 GCAAATCGCATGCAAATGAATTG 58.974 39.130 19.57 15.91 43.29 2.32
1688 1834 1.755783 GCCCTTCTTGCCCATCCAG 60.756 63.158 0.00 0.00 0.00 3.86
1724 1870 0.618968 ACTTGGAGCGGAGGGAGAAT 60.619 55.000 0.00 0.00 0.00 2.40
1814 1960 0.531532 CGTAGATCTTGGCCTGCTGG 60.532 60.000 3.32 5.03 0.00 4.85
1856 2002 1.762460 CTGGTGGGAGAGGCGGTAT 60.762 63.158 0.00 0.00 0.00 2.73
1967 2113 8.041323 CAGAAACAGTTGGTATCTACATTACCT 58.959 37.037 1.94 0.00 39.91 3.08
1973 2119 5.305902 TCCACAGAAACAGTTGGTATCTACA 59.694 40.000 0.00 0.00 0.00 2.74
1974 2120 5.790593 TCCACAGAAACAGTTGGTATCTAC 58.209 41.667 0.00 0.00 0.00 2.59
1982 2128 9.185192 GATTAAGAAATTCCACAGAAACAGTTG 57.815 33.333 0.00 0.00 35.09 3.16
1993 2139 9.226345 GATCGACAAATGATTAAGAAATTCCAC 57.774 33.333 0.00 0.00 0.00 4.02
2009 2155 1.464608 CAGTGCAACCGATCGACAAAT 59.535 47.619 18.66 0.00 37.80 2.32
2010 2156 0.865111 CAGTGCAACCGATCGACAAA 59.135 50.000 18.66 0.00 37.80 2.83
2011 2157 0.032815 TCAGTGCAACCGATCGACAA 59.967 50.000 18.66 0.00 37.80 3.18
2012 2158 0.032815 TTCAGTGCAACCGATCGACA 59.967 50.000 18.66 6.34 37.80 4.35
2042 2189 3.121738 ACCTTTTCTGGTAACCGACAG 57.878 47.619 0.00 0.00 38.79 3.51
2129 2284 4.368315 TGTACGGTATGATGTTGATCTGC 58.632 43.478 0.00 0.00 0.00 4.26
2170 2325 3.243035 CGGCCAACACATACACATAATGG 60.243 47.826 2.24 0.00 0.00 3.16
2177 2332 1.130373 CACATCGGCCAACACATACAC 59.870 52.381 2.24 0.00 0.00 2.90
2178 2333 1.447945 CACATCGGCCAACACATACA 58.552 50.000 2.24 0.00 0.00 2.29
2182 2372 1.603171 ATGCACATCGGCCAACACA 60.603 52.632 2.24 0.00 0.00 3.72
2452 2714 1.146930 GATGAAGATGCCGAGGCCA 59.853 57.895 12.05 2.00 41.09 5.36
2488 2750 1.911057 TGAGTGAGTGATCGACCTGT 58.089 50.000 0.00 0.00 0.00 4.00
2508 2770 5.104776 AGCATCAAAGCATAGTAGAGGACAA 60.105 40.000 0.00 0.00 36.85 3.18
2517 2779 3.806380 CTCCAGAGCATCAAAGCATAGT 58.194 45.455 0.00 0.00 37.82 2.12
2537 2799 6.496218 TCATAATCCATCAGTCTAGACATGCT 59.504 38.462 24.44 8.86 0.00 3.79
2539 2801 9.152595 CATTCATAATCCATCAGTCTAGACATG 57.847 37.037 24.44 18.45 0.00 3.21
2546 2808 6.039047 GCACAACATTCATAATCCATCAGTCT 59.961 38.462 0.00 0.00 0.00 3.24
2549 2811 6.139048 TGCACAACATTCATAATCCATCAG 57.861 37.500 0.00 0.00 0.00 2.90
2779 3042 1.248101 TGAACTCGAGCCCGATGACA 61.248 55.000 13.61 0.00 44.62 3.58
2918 3189 7.100458 TGAGACCAGAAAAGAAAAGAAAAGG 57.900 36.000 0.00 0.00 0.00 3.11
2925 3196 6.376864 TCACACAATGAGACCAGAAAAGAAAA 59.623 34.615 0.00 0.00 31.91 2.29
2926 3197 5.885352 TCACACAATGAGACCAGAAAAGAAA 59.115 36.000 0.00 0.00 31.91 2.52
2927 3198 5.436175 TCACACAATGAGACCAGAAAAGAA 58.564 37.500 0.00 0.00 31.91 2.52
2928 3199 5.034852 TCACACAATGAGACCAGAAAAGA 57.965 39.130 0.00 0.00 31.91 2.52
2929 3200 5.954296 ATCACACAATGAGACCAGAAAAG 57.046 39.130 0.00 0.00 41.91 2.27
2941 3212 9.649024 GAACCAAAAACAAAATATCACACAATG 57.351 29.630 0.00 0.00 0.00 2.82
2994 3265 7.535489 ACTACGCTTAAATTCCAGTAATCAC 57.465 36.000 0.00 0.00 0.00 3.06
2999 3270 7.504911 AGGATCTACTACGCTTAAATTCCAGTA 59.495 37.037 0.00 0.00 0.00 2.74
3004 3275 6.217294 AGCAGGATCTACTACGCTTAAATTC 58.783 40.000 0.00 0.00 0.00 2.17
3074 3345 6.334102 TCTTTTTGGTGCATTTATACCGTT 57.666 33.333 0.00 0.00 39.87 4.44
3093 3364 5.303747 TCGTGTGTTGTTCAACATTCTTT 57.696 34.783 18.99 0.00 34.86 2.52
3121 3392 0.592148 GGTCGTATAGGCTCACGAGG 59.408 60.000 20.52 0.00 46.82 4.63
3144 3415 9.617523 AAAAGATGAAACCATCAAAATTGTCTT 57.382 25.926 7.97 0.00 42.54 3.01
3145 3416 9.617523 AAAAAGATGAAACCATCAAAATTGTCT 57.382 25.926 7.97 0.00 42.54 3.41
3146 3417 9.868389 GAAAAAGATGAAACCATCAAAATTGTC 57.132 29.630 7.97 0.27 42.54 3.18
3147 3418 9.393512 TGAAAAAGATGAAACCATCAAAATTGT 57.606 25.926 7.97 0.00 42.54 2.71
3148 3419 9.872757 CTGAAAAAGATGAAACCATCAAAATTG 57.127 29.630 7.97 0.00 42.54 2.32
3149 3420 9.059260 CCTGAAAAAGATGAAACCATCAAAATT 57.941 29.630 7.97 0.00 42.54 1.82
3150 3421 8.431222 TCCTGAAAAAGATGAAACCATCAAAAT 58.569 29.630 7.97 0.00 42.54 1.82
3151 3422 7.790027 TCCTGAAAAAGATGAAACCATCAAAA 58.210 30.769 7.97 0.00 42.54 2.44
3152 3423 7.358770 TCCTGAAAAAGATGAAACCATCAAA 57.641 32.000 7.97 0.00 42.54 2.69
3153 3424 6.975196 TCCTGAAAAAGATGAAACCATCAA 57.025 33.333 7.97 0.00 42.54 2.57
3154 3425 6.517194 GCTTCCTGAAAAAGATGAAACCATCA 60.517 38.462 7.97 0.00 42.15 3.07
3155 3426 5.866092 GCTTCCTGAAAAAGATGAAACCATC 59.134 40.000 0.00 0.00 40.48 3.51
3156 3427 5.279657 GGCTTCCTGAAAAAGATGAAACCAT 60.280 40.000 0.00 0.00 0.00 3.55
3157 3428 4.039124 GGCTTCCTGAAAAAGATGAAACCA 59.961 41.667 0.00 0.00 0.00 3.67
3158 3429 4.039124 TGGCTTCCTGAAAAAGATGAAACC 59.961 41.667 0.00 0.00 0.00 3.27
3159 3430 5.200368 TGGCTTCCTGAAAAAGATGAAAC 57.800 39.130 0.00 0.00 0.00 2.78
3160 3431 4.281688 CCTGGCTTCCTGAAAAAGATGAAA 59.718 41.667 0.00 0.00 0.00 2.69
3161 3432 3.828451 CCTGGCTTCCTGAAAAAGATGAA 59.172 43.478 0.00 0.00 0.00 2.57
3162 3433 3.424703 CCTGGCTTCCTGAAAAAGATGA 58.575 45.455 0.00 0.00 0.00 2.92
3163 3434 2.494870 CCCTGGCTTCCTGAAAAAGATG 59.505 50.000 0.00 0.00 0.00 2.90
3164 3435 2.812658 CCCTGGCTTCCTGAAAAAGAT 58.187 47.619 0.00 0.00 0.00 2.40
3165 3436 1.823250 GCCCTGGCTTCCTGAAAAAGA 60.823 52.381 0.00 0.00 38.26 2.52
3166 3437 0.605083 GCCCTGGCTTCCTGAAAAAG 59.395 55.000 0.00 0.00 38.26 2.27
3167 3438 2.745379 GCCCTGGCTTCCTGAAAAA 58.255 52.632 0.00 0.00 38.26 1.94
3168 3439 4.519610 GCCCTGGCTTCCTGAAAA 57.480 55.556 0.00 0.00 38.26 2.29
3178 3449 2.187163 GAGTACCGAAGCCCTGGC 59.813 66.667 0.00 0.00 42.33 4.85
3179 3450 1.265454 AAGGAGTACCGAAGCCCTGG 61.265 60.000 0.00 0.00 41.83 4.45
3180 3451 0.108138 CAAGGAGTACCGAAGCCCTG 60.108 60.000 0.00 0.00 41.83 4.45
3181 3452 0.252103 TCAAGGAGTACCGAAGCCCT 60.252 55.000 0.00 0.00 41.83 5.19
3182 3453 0.108281 GTCAAGGAGTACCGAAGCCC 60.108 60.000 0.00 0.00 41.83 5.19
3183 3454 0.896226 AGTCAAGGAGTACCGAAGCC 59.104 55.000 0.00 0.00 41.83 4.35
3184 3455 2.737252 CAAAGTCAAGGAGTACCGAAGC 59.263 50.000 0.00 0.00 41.83 3.86
3185 3456 3.988517 GACAAAGTCAAGGAGTACCGAAG 59.011 47.826 0.00 0.00 35.40 3.79
3186 3457 3.243975 GGACAAAGTCAAGGAGTACCGAA 60.244 47.826 0.00 0.00 36.34 4.30
3187 3458 2.298163 GGACAAAGTCAAGGAGTACCGA 59.702 50.000 0.00 0.00 36.34 4.69
3188 3459 2.685100 GGACAAAGTCAAGGAGTACCG 58.315 52.381 0.00 0.00 36.34 4.02
3189 3460 2.036862 ACGGACAAAGTCAAGGAGTACC 59.963 50.000 0.00 0.00 33.68 3.34
3190 3461 3.382048 ACGGACAAAGTCAAGGAGTAC 57.618 47.619 0.00 0.00 33.68 2.73
3191 3462 4.124238 CAAACGGACAAAGTCAAGGAGTA 58.876 43.478 0.00 0.00 33.68 2.59
3192 3463 2.943033 CAAACGGACAAAGTCAAGGAGT 59.057 45.455 0.00 0.00 33.68 3.85
3193 3464 2.290641 CCAAACGGACAAAGTCAAGGAG 59.709 50.000 0.00 0.00 33.68 3.69
3194 3465 2.092861 TCCAAACGGACAAAGTCAAGGA 60.093 45.455 0.00 0.00 33.68 3.36
3195 3466 2.294074 TCCAAACGGACAAAGTCAAGG 58.706 47.619 0.00 0.00 33.68 3.61
3209 3480 2.795331 GCTCTATCGACTCCGTCCAAAC 60.795 54.545 0.00 0.00 37.05 2.93
3210 3481 1.404391 GCTCTATCGACTCCGTCCAAA 59.596 52.381 0.00 0.00 37.05 3.28
3211 3482 1.022735 GCTCTATCGACTCCGTCCAA 58.977 55.000 0.00 0.00 37.05 3.53
3212 3483 0.180642 AGCTCTATCGACTCCGTCCA 59.819 55.000 0.00 0.00 37.05 4.02
3213 3484 0.869730 GAGCTCTATCGACTCCGTCC 59.130 60.000 6.43 0.00 37.05 4.79
3214 3485 0.869730 GGAGCTCTATCGACTCCGTC 59.130 60.000 14.64 0.00 40.59 4.79
3215 3486 3.009612 GGAGCTCTATCGACTCCGT 57.990 57.895 14.64 0.00 40.59 4.69
3217 3488 1.858372 GCCGGAGCTCTATCGACTCC 61.858 65.000 14.64 8.60 45.44 3.85
3218 3489 1.167155 TGCCGGAGCTCTATCGACTC 61.167 60.000 14.64 2.86 40.80 3.36
3229 3500 4.193826 TGATAGAAATCTATGCCGGAGC 57.806 45.455 5.05 0.00 39.14 4.70
3233 3504 7.064371 CCAAGAAGATGATAGAAATCTATGCCG 59.936 40.741 7.65 0.00 39.14 5.69
3244 3515 3.432186 CGTTGCCCCAAGAAGATGATAGA 60.432 47.826 0.00 0.00 0.00 1.98
3254 3525 1.141254 TCTAAACACGTTGCCCCAAGA 59.859 47.619 0.00 0.00 0.00 3.02
3257 3528 0.470766 ACTCTAAACACGTTGCCCCA 59.529 50.000 0.00 0.00 0.00 4.96
3262 3533 4.501559 TGACGAGAAACTCTAAACACGTTG 59.498 41.667 0.00 0.00 33.10 4.10
3269 3540 3.673338 CGCACATGACGAGAAACTCTAAA 59.327 43.478 0.00 0.00 0.00 1.85
3282 3553 2.471607 CTGTCGCACGCACATGAC 59.528 61.111 0.00 0.00 0.00 3.06
3294 3565 1.337167 TGACACCAGATCTTGCTGTCG 60.337 52.381 16.97 0.00 42.72 4.35
3297 3568 2.756840 TCTGACACCAGATCTTGCTG 57.243 50.000 0.00 0.00 44.01 4.41
3308 3579 3.849911 TCGATCTGAATTGTCTGACACC 58.150 45.455 10.56 3.72 34.88 4.16
3332 3603 2.359478 GGCGTCGTTGAACCCCAT 60.359 61.111 0.00 0.00 0.00 4.00
3333 3604 4.973055 CGGCGTCGTTGAACCCCA 62.973 66.667 0.00 0.00 0.00 4.96
3370 3641 0.323360 TGCACATTGCCCTAAGGACC 60.323 55.000 0.00 0.00 44.23 4.46
3380 3651 1.400242 GGAACTCTTCGTGCACATTGC 60.400 52.381 18.64 2.49 45.29 3.56
3381 3652 2.146342 AGGAACTCTTCGTGCACATTG 58.854 47.619 18.64 5.64 0.00 2.82
3382 3653 2.550830 AGGAACTCTTCGTGCACATT 57.449 45.000 18.64 0.40 0.00 2.71
3389 3660 3.635373 TGTGACAGTTAGGAACTCTTCGT 59.365 43.478 0.00 0.00 40.46 3.85
3415 3686 3.940852 CCAAGGCAATGGGAATTTAAAGC 59.059 43.478 1.64 0.00 36.79 3.51
3442 3713 9.660180 AATGACAACTTCTATCTTTTCCTCTAC 57.340 33.333 0.00 0.00 0.00 2.59
3444 3715 8.160106 ACAATGACAACTTCTATCTTTTCCTCT 58.840 33.333 0.00 0.00 0.00 3.69
3461 3732 3.181492 ACAACGCAATCACACAATGACAA 60.181 39.130 0.00 0.00 41.24 3.18
3462 3733 2.357323 ACAACGCAATCACACAATGACA 59.643 40.909 0.00 0.00 41.24 3.58
3465 3736 2.997463 TCACAACGCAATCACACAATG 58.003 42.857 0.00 0.00 0.00 2.82
3467 3738 2.794282 GCTTCACAACGCAATCACACAA 60.794 45.455 0.00 0.00 0.00 3.33
3570 3841 3.569701 TGTTTTCCTTCAAGGACTGCATC 59.430 43.478 5.30 0.00 45.78 3.91
3576 3847 3.004315 TGCGATTGTTTTCCTTCAAGGAC 59.996 43.478 5.30 0.00 45.78 3.85
3582 3853 4.622701 AGCTATGCGATTGTTTTCCTTC 57.377 40.909 0.00 0.00 0.00 3.46
3586 3857 5.201181 GCTCTAAGCTATGCGATTGTTTTC 58.799 41.667 0.00 0.00 38.45 2.29
3587 3858 4.635765 TGCTCTAAGCTATGCGATTGTTTT 59.364 37.500 0.11 0.00 42.97 2.43
3624 3895 0.323302 TGAAGCCTGCCAATACGACA 59.677 50.000 0.00 0.00 0.00 4.35
3626 3897 3.769739 ATATGAAGCCTGCCAATACGA 57.230 42.857 0.00 0.00 0.00 3.43
3651 3922 4.397730 GGAGCCAACCAACAATTTGTTTTT 59.602 37.500 12.02 6.13 38.77 1.94
3652 3923 3.944650 GGAGCCAACCAACAATTTGTTTT 59.055 39.130 12.02 3.00 38.77 2.43
3653 3924 3.054802 TGGAGCCAACCAACAATTTGTTT 60.055 39.130 12.02 0.00 38.77 2.83
3654 3925 2.503356 TGGAGCCAACCAACAATTTGTT 59.497 40.909 8.97 8.97 42.08 2.83
3655 3926 2.114616 TGGAGCCAACCAACAATTTGT 58.885 42.857 0.00 0.00 36.96 2.83
3656 3927 2.906691 TGGAGCCAACCAACAATTTG 57.093 45.000 0.00 0.00 36.96 2.32
3657 3928 5.957774 ACTATATGGAGCCAACCAACAATTT 59.042 36.000 0.00 0.00 43.47 1.82
3658 3929 5.518865 ACTATATGGAGCCAACCAACAATT 58.481 37.500 0.00 0.00 43.47 2.32
3659 3930 5.129368 ACTATATGGAGCCAACCAACAAT 57.871 39.130 0.00 0.00 43.47 2.71
3660 3931 4.584638 ACTATATGGAGCCAACCAACAA 57.415 40.909 0.00 0.00 43.47 2.83
3661 3932 5.904984 ATACTATATGGAGCCAACCAACA 57.095 39.130 0.00 0.00 43.47 3.33
3662 3933 6.823689 CCATATACTATATGGAGCCAACCAAC 59.176 42.308 23.36 0.00 45.57 3.77
3663 3934 6.503924 ACCATATACTATATGGAGCCAACCAA 59.496 38.462 30.32 0.00 45.57 3.67
3664 3935 6.029431 ACCATATACTATATGGAGCCAACCA 58.971 40.000 30.32 0.00 45.57 3.67
3670 3941 8.478775 TCCATGTACCATATACTATATGGAGC 57.521 38.462 30.32 23.14 45.57 4.70
3698 3969 1.291877 CGTTCCCTCAGCAACCTTCG 61.292 60.000 0.00 0.00 0.00 3.79
3702 3973 3.056328 GGCGTTCCCTCAGCAACC 61.056 66.667 0.00 0.00 0.00 3.77
3716 3987 2.364632 TGGTGAATCTATGTTTGGGCG 58.635 47.619 0.00 0.00 0.00 6.13
3742 4013 9.752961 CACATGAAAAATAATTATGGAGCATGA 57.247 29.630 23.85 1.33 34.93 3.07
3757 4028 5.335583 CGTACATGGGTGTCACATGAAAAAT 60.336 40.000 17.18 0.00 46.60 1.82
3770 4041 1.449601 GGCCACTCGTACATGGGTG 60.450 63.158 0.00 2.47 36.41 4.61
3780 4051 0.958091 TTCAAATTGGTGGCCACTCG 59.042 50.000 33.91 16.23 30.78 4.18
3786 4057 5.747951 TGAACATTTTTCAAATTGGTGGC 57.252 34.783 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.