Multiple sequence alignment - TraesCS3A01G482600

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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 TraesCS3A01G482600 chr3A 100.000 3716 0 0 1 3716 713209539 713213254 0.000000e+00 6863.0
1 TraesCS3A01G482600 chr3B 91.790 2570 159 27 1 2540 770729566 770727019 0.000000e+00 3530.0
2 TraesCS3A01G482600 chr3B 77.527 752 117 29 2800 3507 770726623 770725880 4.470000e-109 405.0
3 TraesCS3A01G482600 chr3B 81.070 243 16 10 2588 2806 770726902 770726666 2.300000e-37 167.0
4 TraesCS3A01G482600 chr3B 91.781 73 2 4 2722 2793 45266453 45266384 8.490000e-17 99.0
5 TraesCS3A01G482600 chr3D 92.529 1700 79 20 119 1803 577613268 577614934 0.000000e+00 2392.0
6 TraesCS3A01G482600 chr3D 92.991 1013 34 16 1800 2794 577648195 577649188 0.000000e+00 1443.0
7 TraesCS3A01G482600 chr3D 96.512 172 6 0 3514 3685 365345248 365345419 6.070000e-73 285.0
8 TraesCS3A01G482600 chr3D 95.906 171 7 0 3515 3685 250958336 250958506 1.020000e-70 278.0
9 TraesCS3A01G482600 chr3D 95.930 172 6 1 3514 3685 432682668 432682838 1.020000e-70 278.0
10 TraesCS3A01G482600 chr3D 95.376 173 7 1 3514 3685 443601203 443601031 1.310000e-69 274.0
11 TraesCS3A01G482600 chr3D 93.590 156 10 0 1315 1470 531413784 531413939 2.230000e-57 233.0
12 TraesCS3A01G482600 chr3D 92.248 129 10 0 1 129 577611684 577611812 2.280000e-42 183.0
13 TraesCS3A01G482600 chr3D 86.441 177 7 7 2801 2968 577649244 577649412 1.060000e-40 178.0
14 TraesCS3A01G482600 chr3D 91.736 121 10 0 1315 1435 602381505 602381385 6.380000e-38 169.0
15 TraesCS3A01G482600 chr3D 91.026 78 2 4 2719 2793 26617612 26617537 2.360000e-17 100.0
16 TraesCS3A01G482600 chr3D 100.000 28 0 0 3684 3711 137157565 137157538 7.000000e-03 52.8
17 TraesCS3A01G482600 chr7D 96.571 175 5 1 3511 3685 117232286 117232113 4.700000e-74 289.0
18 TraesCS3A01G482600 chr7D 96.491 171 6 0 3515 3685 193245746 193245916 2.180000e-72 283.0
19 TraesCS3A01G482600 chr7D 83.838 99 11 4 2696 2793 630540447 630540353 5.110000e-14 89.8
20 TraesCS3A01G482600 chr6D 97.041 169 5 0 3515 3683 152475756 152475588 6.070000e-73 285.0
21 TraesCS3A01G482600 chr6D 96.491 171 6 0 3515 3685 170718367 170718197 2.180000e-72 283.0
22 TraesCS3A01G482600 chr1B 95.930 172 7 0 3514 3685 153636349 153636520 2.830000e-71 279.0
23 TraesCS3A01G482600 chr2A 86.735 98 11 2 2696 2792 705586504 705586408 1.410000e-19 108.0
24 TraesCS3A01G482600 chr2D 88.764 89 5 5 2708 2793 533061719 533061633 1.830000e-18 104.0
25 TraesCS3A01G482600 chr6A 85.859 99 9 4 2696 2793 32602231 32602325 2.360000e-17 100.0
26 TraesCS3A01G482600 chrUn 91.781 73 2 4 2722 2793 380277834 380277903 8.490000e-17 99.0
27 TraesCS3A01G482600 chr2B 85.149 101 9 6 2696 2792 677013305 677013207 8.490000e-17 99.0
28 TraesCS3A01G482600 chr4A 85.714 91 9 3 2708 2794 725744005 725744095 3.950000e-15 93.5
29 TraesCS3A01G482600 chr7A 100.000 33 0 0 3684 3716 89923147 89923179 1.110000e-05 62.1
30 TraesCS3A01G482600 chr6B 100.000 30 0 0 3684 3713 713153411 713153440 5.180000e-04 56.5
31 TraesCS3A01G482600 chr4D 96.970 33 1 0 3684 3716 489748564 489748532 5.180000e-04 56.5
32 TraesCS3A01G482600 chr1A 96.970 33 1 0 3684 3716 534264798 534264766 5.180000e-04 56.5
33 TraesCS3A01G482600 chr1A 100.000 30 0 0 3684 3713 577892283 577892312 5.180000e-04 56.5


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 TraesCS3A01G482600 chr3A 713209539 713213254 3715 False 6863.000000 6863 100.000000 1 3716 1 chr3A.!!$F1 3715
1 TraesCS3A01G482600 chr3B 770725880 770729566 3686 True 1367.333333 3530 83.462333 1 3507 3 chr3B.!!$R2 3506
2 TraesCS3A01G482600 chr3D 577611684 577614934 3250 False 1287.500000 2392 92.388500 1 1803 2 chr3D.!!$F5 1802
3 TraesCS3A01G482600 chr3D 577648195 577649412 1217 False 810.500000 1443 89.716000 1800 2968 2 chr3D.!!$F6 1168

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
282 1754 0.108207 GCCCCATGACTCATCCTCAG 59.892 60.0 0.00 0.00 0.00 3.35 F
1244 2742 0.179043 TCCTCGAGGAGATCTCACGG 60.179 60.0 30.49 21.46 42.55 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1733 3234 1.270358 GCCTTGTGGAAGAACTCGTCT 60.270 52.381 0.00 0.0 38.69 4.18 R
3206 4898 0.032540 CTCCGCGTCATCATCCATGA 59.967 55.000 4.92 0.0 39.39 3.07 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
55 56 2.869192 GGCTTCGGAGATCAATCTTGTC 59.131 50.000 0.00 0.00 37.25 3.18
84 85 3.148279 CGAAGGCTAGCCCGACCT 61.148 66.667 30.42 8.58 39.21 3.85
87 88 0.462225 GAAGGCTAGCCCGACCTTTC 60.462 60.000 30.42 20.92 43.82 2.62
97 98 1.154654 CGACCTTTCTTTCGCGTGC 60.155 57.895 5.77 0.00 0.00 5.34
102 103 2.764251 CTTTCTTTCGCGTGCCGTGG 62.764 60.000 5.77 0.00 37.97 4.94
103 104 4.595538 TCTTTCGCGTGCCGTGGT 62.596 61.111 5.77 0.00 37.97 4.16
132 1599 1.861202 GCCATGTCGAAAATCCATGCG 60.861 52.381 7.29 3.40 35.70 4.73
134 1601 2.159393 CCATGTCGAAAATCCATGCGTT 60.159 45.455 7.29 0.00 35.70 4.84
254 1721 2.030579 CGAGTCTATGCTCTCGTTTCGA 59.969 50.000 6.44 0.00 45.37 3.71
255 1722 3.303461 CGAGTCTATGCTCTCGTTTCGAT 60.303 47.826 6.44 0.00 45.37 3.59
256 1723 3.958704 AGTCTATGCTCTCGTTTCGATG 58.041 45.455 0.00 0.00 34.61 3.84
258 1725 2.034685 TCTATGCTCTCGTTTCGATGGG 59.965 50.000 0.00 0.00 34.61 4.00
259 1726 0.811616 ATGCTCTCGTTTCGATGGGC 60.812 55.000 0.00 6.55 34.61 5.36
260 1727 2.174319 GCTCTCGTTTCGATGGGCC 61.174 63.158 0.00 0.00 34.61 5.80
261 1728 1.218047 CTCTCGTTTCGATGGGCCA 59.782 57.895 9.61 9.61 34.61 5.36
262 1729 0.391130 CTCTCGTTTCGATGGGCCAA 60.391 55.000 11.89 0.00 34.61 4.52
282 1754 0.108207 GCCCCATGACTCATCCTCAG 59.892 60.000 0.00 0.00 0.00 3.35
294 1766 2.109774 CATCCTCAGCTCCTTCACTCT 58.890 52.381 0.00 0.00 0.00 3.24
557 2040 0.321653 AACCGGCTCTCATTTTCGCT 60.322 50.000 0.00 0.00 0.00 4.93
601 2084 1.348696 GGGTTCCCTTTGGTTCGTCTA 59.651 52.381 0.00 0.00 0.00 2.59
685 2170 5.949735 ACCAGCACCGATACATTTAAAAAG 58.050 37.500 0.00 0.00 0.00 2.27
724 2209 5.829924 ACAATGTCTGTTGATTGGTCTTCTT 59.170 36.000 0.00 0.00 32.99 2.52
741 2226 5.049749 GTCTTCTTCTTCACTCTTCTTTGCC 60.050 44.000 0.00 0.00 0.00 4.52
792 2277 3.013921 CGAGCTCTAGAGAGTCAAAGGT 58.986 50.000 24.24 0.00 43.85 3.50
798 2283 2.918712 AGAGAGTCAAAGGTGTGTGG 57.081 50.000 0.00 0.00 0.00 4.17
842 2328 9.806203 TGAGCAAATATTTGTCCATTAGATTTG 57.194 29.630 25.15 2.28 40.24 2.32
856 2342 8.370940 TCCATTAGATTTGCCAATTTACAAACA 58.629 29.630 5.08 0.00 38.50 2.83
872 2358 8.600449 TTTACAAACATTTCTTAATGGCCTTG 57.400 30.769 3.32 0.00 44.42 3.61
946 2432 2.053747 TTGAGGGGGAACACATACCT 57.946 50.000 0.00 0.00 34.58 3.08
999 2485 2.228822 CCGAACCATTGGACTTTCCTTG 59.771 50.000 10.37 0.00 37.46 3.61
1025 2520 1.928868 ATGAGTTGGGCCTCAAAAGG 58.071 50.000 4.53 0.00 44.21 3.11
1105 2600 4.310769 CGCCGATTTATTCTCTTCCATCT 58.689 43.478 0.00 0.00 0.00 2.90
1113 2608 7.865706 TTTATTCTCTTCCATCTGTTAAGGC 57.134 36.000 0.00 0.00 0.00 4.35
1209 2707 3.691342 CCGCCTCCGACTGTTCCA 61.691 66.667 0.00 0.00 36.29 3.53
1220 2718 1.073722 CTGTTCCAGCCTTCTGCCA 59.926 57.895 0.00 0.00 42.71 4.92
1244 2742 0.179043 TCCTCGAGGAGATCTCACGG 60.179 60.000 30.49 21.46 42.55 4.94
1364 2862 2.047844 CTGCACCTCGTGTCCCTG 60.048 66.667 0.00 0.00 35.75 4.45
1365 2863 2.842462 TGCACCTCGTGTCCCTGT 60.842 61.111 0.00 0.00 35.75 4.00
1367 2865 2.357517 CACCTCGTGTCCCTGTGC 60.358 66.667 0.00 0.00 0.00 4.57
1590 3088 3.110178 CGTTCGACTGCGGGTTCC 61.110 66.667 0.00 0.00 38.28 3.62
1689 3187 1.559065 CCGGGGCCCTAACAAGAAGA 61.559 60.000 24.38 0.00 0.00 2.87
1690 3188 0.546598 CGGGGCCCTAACAAGAAGAT 59.453 55.000 24.38 0.00 0.00 2.40
1733 3234 2.124193 CCGATCCAGGCCATGCAA 60.124 61.111 5.01 0.00 0.00 4.08
1796 3297 3.764466 CGGCGGGAGAGCTTCACT 61.764 66.667 0.00 0.00 37.29 3.41
2309 3817 3.129502 TCGACGCGGGAGTACCAG 61.130 66.667 12.47 0.00 40.22 4.00
2354 3862 2.300066 CGTGCTCAAGTCGTTCGCA 61.300 57.895 0.00 0.00 0.00 5.10
2382 3890 1.522092 GACGCCATGGATGAGGACA 59.478 57.895 18.40 0.00 0.00 4.02
2462 3970 2.436824 GCCTCCAGGAAAGCCGTC 60.437 66.667 0.00 0.00 39.96 4.79
2560 4082 1.641677 GTGACAACTGACACCACGC 59.358 57.895 1.50 0.00 35.29 5.34
2561 4083 0.810031 GTGACAACTGACACCACGCT 60.810 55.000 1.50 0.00 35.29 5.07
2660 4241 5.029650 TGATCTGTCGAAATTCAAAACCG 57.970 39.130 0.00 0.00 0.00 4.44
2681 4262 0.103937 CATCTTCCTCCTCGAGTGCC 59.896 60.000 12.31 0.00 0.00 5.01
2691 4272 1.941476 CTCGAGTGCCGCGTTGTAAC 61.941 60.000 4.92 0.00 38.37 2.50
2692 4273 2.858158 GAGTGCCGCGTTGTAACC 59.142 61.111 4.92 0.00 0.00 2.85
2693 4274 1.666872 GAGTGCCGCGTTGTAACCT 60.667 57.895 4.92 0.00 0.00 3.50
2795 4396 9.746711 GCATATTCTTCAAGTATGTATAAAGCG 57.253 33.333 0.00 0.00 0.00 4.68
2814 4464 5.108385 AGCGTCTTCAAATACAACAAAGG 57.892 39.130 0.00 0.00 0.00 3.11
2898 4557 9.457110 TGTGTTCATGAAATTTTGTATGTGTAC 57.543 29.630 10.35 0.00 0.00 2.90
2977 4664 1.433534 GGCGAACACTCCTGAAGAAG 58.566 55.000 0.00 0.00 0.00 2.85
2980 4667 2.928731 GCGAACACTCCTGAAGAAGAGG 60.929 54.545 0.00 0.00 34.27 3.69
2983 4670 4.501571 CGAACACTCCTGAAGAAGAGGAAA 60.502 45.833 0.00 0.00 39.20 3.13
2986 4673 6.688073 ACACTCCTGAAGAAGAGGAAATTA 57.312 37.500 0.00 0.00 39.20 1.40
3022 4712 0.938192 TTTGTTCAGGGGAAGGGGTT 59.062 50.000 0.00 0.00 32.62 4.11
3026 4716 4.740822 CAGGGGAAGGGGTTGCCG 62.741 72.222 0.00 0.00 32.67 5.69
3037 4727 4.811761 GTTGCCGTCGCGAATGCC 62.812 66.667 23.38 6.52 38.08 4.40
3063 4753 0.800012 TACGTTGCATTCGCTTTCCC 59.200 50.000 10.87 0.00 39.64 3.97
3072 4762 0.251165 TTCGCTTTCCCCTTTCCCAG 60.251 55.000 0.00 0.00 0.00 4.45
3074 4764 0.678048 CGCTTTCCCCTTTCCCAGAG 60.678 60.000 0.00 0.00 0.00 3.35
3120 4811 1.417890 CCCACTCCATCGATTTAGGCT 59.582 52.381 0.00 0.00 0.00 4.58
3126 4817 2.953648 TCCATCGATTTAGGCTACGACA 59.046 45.455 7.74 0.00 37.58 4.35
3131 4823 3.624900 CGATTTAGGCTACGACAATCGA 58.375 45.455 24.41 0.00 45.83 3.59
3151 4843 1.138036 CGACGGCGGAGACAATGTA 59.862 57.895 13.24 0.00 27.25 2.29
3157 4849 0.872021 GCGGAGACAATGTAGAGGCG 60.872 60.000 0.00 0.00 0.00 5.52
3160 4852 1.202428 GGAGACAATGTAGAGGCGGAC 60.202 57.143 0.00 0.00 0.00 4.79
3162 4854 0.172803 GACAATGTAGAGGCGGACGT 59.827 55.000 0.00 0.00 0.00 4.34
3164 4856 0.866061 CAATGTAGAGGCGGACGTCG 60.866 60.000 9.92 6.26 42.76 5.12
3184 4876 2.125106 GACTGCGTGTGGGGATCC 60.125 66.667 1.92 1.92 0.00 3.36
3189 4881 3.095347 GCGTGTGGGGATCCCTCTC 62.095 68.421 30.08 19.64 45.70 3.20
3202 4894 1.220206 CCTCTCGTGGCTTCATGCT 59.780 57.895 0.00 0.00 42.39 3.79
3206 4898 0.176680 CTCGTGGCTTCATGCTAGGT 59.823 55.000 0.00 0.00 42.39 3.08
3216 4908 4.806625 GCTTCATGCTAGGTCATGGATGAT 60.807 45.833 9.60 0.00 42.96 2.45
3225 4917 0.032540 TCATGGATGATGACGCGGAG 59.967 55.000 12.47 0.00 36.06 4.63
3249 4941 2.281900 TTGTGGGCAAGGGCGTAC 60.282 61.111 0.00 0.00 42.47 3.67
3272 4964 4.537433 GATGCGGAGGCGGCTTCT 62.537 66.667 14.76 0.00 44.10 2.85
3276 4968 4.560856 CGGAGGCGGCTTCTCTCG 62.561 72.222 14.76 8.92 0.00 4.04
3277 4969 3.141488 GGAGGCGGCTTCTCTCGA 61.141 66.667 14.76 0.00 0.00 4.04
3281 4973 2.409651 GCGGCTTCTCTCGACGAT 59.590 61.111 0.00 0.00 0.00 3.73
3282 4974 1.941734 GCGGCTTCTCTCGACGATG 60.942 63.158 0.00 0.00 0.00 3.84
3283 4975 1.298713 CGGCTTCTCTCGACGATGG 60.299 63.158 0.00 0.00 0.00 3.51
3284 4976 1.590259 GGCTTCTCTCGACGATGGC 60.590 63.158 0.00 0.00 0.00 4.40
3285 4977 1.139734 GCTTCTCTCGACGATGGCA 59.860 57.895 0.00 0.00 0.00 4.92
3286 4978 0.249238 GCTTCTCTCGACGATGGCAT 60.249 55.000 0.00 0.00 0.00 4.40
3312 5029 1.474330 CTACCCTGGTTGATTTGGGC 58.526 55.000 0.00 0.00 43.25 5.36
3318 5035 0.608035 TGGTTGATTTGGGCGAGGTC 60.608 55.000 0.00 0.00 0.00 3.85
3333 5050 1.517257 GGTCGACATCTCGCAGGTG 60.517 63.158 18.91 0.00 39.96 4.00
3336 5053 1.333931 GTCGACATCTCGCAGGTGATA 59.666 52.381 11.55 0.00 39.96 2.15
3346 5063 0.179062 GCAGGTGATAGAGGCACTGG 60.179 60.000 0.00 0.00 41.55 4.00
3354 5071 0.904649 TAGAGGCACTGGTGGACATG 59.095 55.000 2.84 0.00 41.55 3.21
3357 5074 1.675641 GGCACTGGTGGACATGGAC 60.676 63.158 0.00 0.00 0.00 4.02
3359 5076 1.375908 CACTGGTGGACATGGACGG 60.376 63.158 0.00 0.00 0.00 4.79
3360 5077 2.436646 CTGGTGGACATGGACGGC 60.437 66.667 0.00 0.00 0.00 5.68
3361 5078 3.245346 TGGTGGACATGGACGGCA 61.245 61.111 0.00 0.00 0.00 5.69
3366 5083 1.146041 GGACATGGACGGCATAGCA 59.854 57.895 0.00 0.00 0.00 3.49
3369 5086 0.541392 ACATGGACGGCATAGCAGAA 59.459 50.000 0.00 0.00 0.00 3.02
3371 5088 0.533755 ATGGACGGCATAGCAGAAGC 60.534 55.000 0.00 0.00 42.56 3.86
3392 5109 4.980805 GCTGCCGACGGTGGACAA 62.981 66.667 16.73 0.00 0.00 3.18
3396 5113 2.978824 CCGACGGTGGACAAGGAT 59.021 61.111 5.48 0.00 0.00 3.24
3397 5114 1.447838 CCGACGGTGGACAAGGATG 60.448 63.158 5.48 0.00 0.00 3.51
3400 5117 0.391263 GACGGTGGACAAGGATGGAC 60.391 60.000 0.00 0.00 0.00 4.02
3409 5126 2.602676 AAGGATGGACACGGGGGTG 61.603 63.158 0.00 0.00 0.00 4.61
3410 5127 4.796495 GGATGGACACGGGGGTGC 62.796 72.222 0.00 0.00 0.00 5.01
3426 5143 2.045926 GCGGAGGTGGTGCTCAAT 60.046 61.111 0.00 0.00 0.00 2.57
3435 5152 0.323302 TGGTGCTCAATGCCGACTTA 59.677 50.000 0.00 0.00 42.00 2.24
3437 5154 1.405526 GGTGCTCAATGCCGACTTAGA 60.406 52.381 0.00 0.00 42.00 2.10
3465 5182 1.816224 GAGTATGGCCTCCGAGATCTC 59.184 57.143 13.05 13.05 0.00 2.75
3468 5185 0.541764 ATGGCCTCCGAGATCTCTCC 60.542 60.000 20.26 12.80 39.79 3.71
3475 5192 3.181480 CCTCCGAGATCTCTCCTTTTGAC 60.181 52.174 20.26 0.00 39.79 3.18
3486 5203 6.129179 TCTCTCCTTTTGACATGTTTTTCCT 58.871 36.000 0.00 0.00 0.00 3.36
3487 5204 7.287061 TCTCTCCTTTTGACATGTTTTTCCTA 58.713 34.615 0.00 0.00 0.00 2.94
3490 5207 7.723616 TCTCCTTTTGACATGTTTTTCCTATCA 59.276 33.333 0.00 0.00 0.00 2.15
3491 5208 8.243961 TCCTTTTGACATGTTTTTCCTATCAA 57.756 30.769 0.00 0.00 0.00 2.57
3503 5220 7.288852 TGTTTTTCCTATCAATCTTTGTTCCCA 59.711 33.333 0.00 0.00 0.00 4.37
3507 5224 4.891756 CCTATCAATCTTTGTTCCCATGCT 59.108 41.667 0.00 0.00 0.00 3.79
3508 5225 6.064060 CCTATCAATCTTTGTTCCCATGCTA 58.936 40.000 0.00 0.00 0.00 3.49
3509 5226 5.841957 ATCAATCTTTGTTCCCATGCTAC 57.158 39.130 0.00 0.00 0.00 3.58
3510 5227 4.922206 TCAATCTTTGTTCCCATGCTACT 58.078 39.130 0.00 0.00 0.00 2.57
3511 5228 6.061022 TCAATCTTTGTTCCCATGCTACTA 57.939 37.500 0.00 0.00 0.00 1.82
3512 5229 5.880332 TCAATCTTTGTTCCCATGCTACTAC 59.120 40.000 0.00 0.00 0.00 2.73
3513 5230 5.700402 ATCTTTGTTCCCATGCTACTACT 57.300 39.130 0.00 0.00 0.00 2.57
3514 5231 6.808321 ATCTTTGTTCCCATGCTACTACTA 57.192 37.500 0.00 0.00 0.00 1.82
3515 5232 5.974108 TCTTTGTTCCCATGCTACTACTAC 58.026 41.667 0.00 0.00 0.00 2.73
3516 5233 5.720041 TCTTTGTTCCCATGCTACTACTACT 59.280 40.000 0.00 0.00 0.00 2.57
3517 5234 6.893554 TCTTTGTTCCCATGCTACTACTACTA 59.106 38.462 0.00 0.00 0.00 1.82
3518 5235 6.710597 TTGTTCCCATGCTACTACTACTAG 57.289 41.667 0.00 0.00 0.00 2.57
3519 5236 5.763355 TGTTCCCATGCTACTACTACTAGT 58.237 41.667 0.00 0.00 37.04 2.57
3520 5237 6.903516 TGTTCCCATGCTACTACTACTAGTA 58.096 40.000 1.89 1.89 34.79 1.82
3521 5238 7.348815 TGTTCCCATGCTACTACTACTAGTAA 58.651 38.462 3.76 0.00 35.43 2.24
3522 5239 7.501559 TGTTCCCATGCTACTACTACTAGTAAG 59.498 40.741 3.76 2.12 35.43 2.34
3523 5240 6.540995 TCCCATGCTACTACTACTAGTAAGG 58.459 44.000 3.76 0.00 35.43 2.69
3524 5241 6.102321 TCCCATGCTACTACTACTAGTAAGGT 59.898 42.308 3.76 2.19 35.43 3.50
3525 5242 7.293299 TCCCATGCTACTACTACTAGTAAGGTA 59.707 40.741 3.76 3.27 35.43 3.08
3526 5243 7.390162 CCCATGCTACTACTACTAGTAAGGTAC 59.610 44.444 3.76 0.00 35.43 3.34
3527 5244 7.935755 CCATGCTACTACTACTAGTAAGGTACA 59.064 40.741 3.76 8.36 35.43 2.90
3528 5245 8.772705 CATGCTACTACTACTAGTAAGGTACAC 58.227 40.741 3.76 2.46 35.43 2.90
3529 5246 6.980978 TGCTACTACTACTAGTAAGGTACACG 59.019 42.308 3.76 0.00 35.43 4.49
3530 5247 6.981559 GCTACTACTACTAGTAAGGTACACGT 59.018 42.308 3.76 0.00 35.43 4.49
3531 5248 7.043059 GCTACTACTACTAGTAAGGTACACGTG 60.043 44.444 15.48 15.48 35.43 4.49
3532 5249 4.954092 ACTACTAGTAAGGTACACGTGC 57.046 45.455 17.22 0.00 0.00 5.34
3533 5250 4.326826 ACTACTAGTAAGGTACACGTGCA 58.673 43.478 17.22 0.00 0.00 4.57
3534 5251 4.946157 ACTACTAGTAAGGTACACGTGCAT 59.054 41.667 17.22 0.00 0.00 3.96
3535 5252 4.796038 ACTAGTAAGGTACACGTGCATT 57.204 40.909 17.22 6.89 0.00 3.56
3536 5253 4.491676 ACTAGTAAGGTACACGTGCATTG 58.508 43.478 17.22 0.00 0.00 2.82
3537 5254 2.073816 AGTAAGGTACACGTGCATTGC 58.926 47.619 17.22 7.97 0.00 3.56
3538 5255 1.801771 GTAAGGTACACGTGCATTGCA 59.198 47.619 17.22 7.38 35.60 4.08
3550 5267 3.945981 TGCATTGCACACATGAGATTT 57.054 38.095 7.38 0.00 31.71 2.17
3551 5268 3.580731 TGCATTGCACACATGAGATTTG 58.419 40.909 7.38 0.00 31.71 2.32
3552 5269 2.927477 GCATTGCACACATGAGATTTGG 59.073 45.455 3.15 0.00 0.00 3.28
3553 5270 2.728690 TTGCACACATGAGATTTGGC 57.271 45.000 0.00 0.00 0.00 4.52
3554 5271 1.618487 TGCACACATGAGATTTGGCA 58.382 45.000 0.00 0.00 0.00 4.92
3555 5272 1.962100 TGCACACATGAGATTTGGCAA 59.038 42.857 0.00 0.00 0.00 4.52
3556 5273 2.288334 TGCACACATGAGATTTGGCAAC 60.288 45.455 0.00 0.00 0.00 4.17
3557 5274 2.927871 GCACACATGAGATTTGGCAACC 60.928 50.000 0.00 0.00 0.00 3.77
3558 5275 2.296752 CACACATGAGATTTGGCAACCA 59.703 45.455 0.00 0.00 0.00 3.67
3559 5276 2.964464 ACACATGAGATTTGGCAACCAA 59.036 40.909 0.00 0.00 42.29 3.67
3575 5292 9.606631 TTGGCAACCAAATTATGAATAAATACC 57.393 29.630 0.00 0.00 40.92 2.73
3576 5293 8.762645 TGGCAACCAAATTATGAATAAATACCA 58.237 29.630 0.00 0.00 0.00 3.25
3577 5294 9.040939 GGCAACCAAATTATGAATAAATACCAC 57.959 33.333 0.00 0.00 0.00 4.16
3578 5295 9.593134 GCAACCAAATTATGAATAAATACCACA 57.407 29.630 0.00 0.00 0.00 4.17
3613 5330 7.756722 AGCATGTAAGTTTTGAGTCATTTATGC 59.243 33.333 13.08 13.08 36.02 3.14
3614 5331 7.541783 GCATGTAAGTTTTGAGTCATTTATGCA 59.458 33.333 14.66 0.00 35.88 3.96
3615 5332 9.577110 CATGTAAGTTTTGAGTCATTTATGCAT 57.423 29.630 3.79 3.79 0.00 3.96
3616 5333 8.969121 TGTAAGTTTTGAGTCATTTATGCATG 57.031 30.769 10.16 0.00 0.00 4.06
3617 5334 8.791675 TGTAAGTTTTGAGTCATTTATGCATGA 58.208 29.630 10.16 0.00 0.00 3.07
3618 5335 9.793252 GTAAGTTTTGAGTCATTTATGCATGAT 57.207 29.630 10.16 0.04 35.60 2.45
3619 5336 8.697846 AAGTTTTGAGTCATTTATGCATGATG 57.302 30.769 10.16 13.32 35.60 3.07
3620 5337 7.833786 AGTTTTGAGTCATTTATGCATGATGT 58.166 30.769 10.16 0.00 35.60 3.06
3621 5338 8.959548 AGTTTTGAGTCATTTATGCATGATGTA 58.040 29.630 10.16 0.00 35.60 2.29
3622 5339 9.229784 GTTTTGAGTCATTTATGCATGATGTAG 57.770 33.333 10.16 0.00 35.60 2.74
3623 5340 8.735692 TTTGAGTCATTTATGCATGATGTAGA 57.264 30.769 10.16 0.00 35.60 2.59
3624 5341 8.913487 TTGAGTCATTTATGCATGATGTAGAT 57.087 30.769 10.16 2.44 35.60 1.98
3625 5342 8.319143 TGAGTCATTTATGCATGATGTAGATG 57.681 34.615 10.16 1.54 35.60 2.90
3626 5343 7.935210 TGAGTCATTTATGCATGATGTAGATGT 59.065 33.333 10.16 0.00 35.60 3.06
3627 5344 8.687292 AGTCATTTATGCATGATGTAGATGTT 57.313 30.769 10.16 0.00 35.60 2.71
3628 5345 8.781196 AGTCATTTATGCATGATGTAGATGTTC 58.219 33.333 10.16 0.91 35.60 3.18
3629 5346 8.562052 GTCATTTATGCATGATGTAGATGTTCA 58.438 33.333 10.16 0.00 35.60 3.18
3630 5347 9.292195 TCATTTATGCATGATGTAGATGTTCAT 57.708 29.630 10.16 0.00 0.00 2.57
3631 5348 9.908152 CATTTATGCATGATGTAGATGTTCATT 57.092 29.630 10.16 0.00 0.00 2.57
3637 5354 9.955208 TGCATGATGTAGATGTTCATTTAATTC 57.045 29.630 0.00 0.00 0.00 2.17
3698 5415 3.764237 AAAGCTACTTCCTCCGTTTCA 57.236 42.857 0.00 0.00 0.00 2.69
3699 5416 3.320673 AAGCTACTTCCTCCGTTTCAG 57.679 47.619 0.00 0.00 0.00 3.02
3700 5417 2.249139 AGCTACTTCCTCCGTTTCAGT 58.751 47.619 0.00 0.00 0.00 3.41
3701 5418 2.633481 AGCTACTTCCTCCGTTTCAGTT 59.367 45.455 0.00 0.00 0.00 3.16
3702 5419 3.071167 AGCTACTTCCTCCGTTTCAGTTT 59.929 43.478 0.00 0.00 0.00 2.66
3703 5420 4.282703 AGCTACTTCCTCCGTTTCAGTTTA 59.717 41.667 0.00 0.00 0.00 2.01
3704 5421 5.046520 AGCTACTTCCTCCGTTTCAGTTTAT 60.047 40.000 0.00 0.00 0.00 1.40
3705 5422 6.154021 AGCTACTTCCTCCGTTTCAGTTTATA 59.846 38.462 0.00 0.00 0.00 0.98
3706 5423 6.815142 GCTACTTCCTCCGTTTCAGTTTATAA 59.185 38.462 0.00 0.00 0.00 0.98
3707 5424 7.010275 GCTACTTCCTCCGTTTCAGTTTATAAG 59.990 40.741 0.00 0.00 0.00 1.73
3708 5425 6.766429 ACTTCCTCCGTTTCAGTTTATAAGT 58.234 36.000 0.00 0.00 0.00 2.24
3709 5426 6.872547 ACTTCCTCCGTTTCAGTTTATAAGTC 59.127 38.462 0.00 0.00 0.00 3.01
3710 5427 5.727434 TCCTCCGTTTCAGTTTATAAGTCC 58.273 41.667 0.00 0.00 0.00 3.85
3711 5428 5.482878 TCCTCCGTTTCAGTTTATAAGTCCT 59.517 40.000 0.00 0.00 0.00 3.85
3712 5429 5.581085 CCTCCGTTTCAGTTTATAAGTCCTG 59.419 44.000 3.66 3.66 0.00 3.86
3713 5430 6.105397 TCCGTTTCAGTTTATAAGTCCTGT 57.895 37.500 8.06 0.00 0.00 4.00
3714 5431 5.929992 TCCGTTTCAGTTTATAAGTCCTGTG 59.070 40.000 8.06 0.00 0.00 3.66
3715 5432 5.390567 CCGTTTCAGTTTATAAGTCCTGTGC 60.391 44.000 8.06 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 2.173669 CGACATGGCATGGGACGAC 61.174 63.158 29.49 12.89 33.60 4.34
103 104 1.893919 TTCGACATGGCATGGGACGA 61.894 55.000 29.49 28.71 34.66 4.20
132 1599 4.329545 TCGTGGGCCTGCCTGAAC 62.330 66.667 4.53 3.91 36.10 3.18
162 1629 0.393820 GCAAACATGGCCATATGGGG 59.606 55.000 20.30 8.32 37.04 4.96
188 1655 1.439143 AGAAGGAAAGAGGAGGAGGGT 59.561 52.381 0.00 0.00 0.00 4.34
245 1712 1.982073 GCTTGGCCCATCGAAACGAG 61.982 60.000 0.00 0.00 39.91 4.18
248 1715 2.885113 GGCTTGGCCCATCGAAAC 59.115 61.111 0.00 0.00 44.06 2.78
258 1725 1.076485 ATGAGTCATGGGGCTTGGC 60.076 57.895 4.39 0.00 0.00 4.52
259 1726 0.466922 GGATGAGTCATGGGGCTTGG 60.467 60.000 11.20 0.00 0.00 3.61
260 1727 0.549950 AGGATGAGTCATGGGGCTTG 59.450 55.000 11.20 0.00 0.00 4.01
261 1728 0.842635 GAGGATGAGTCATGGGGCTT 59.157 55.000 11.20 0.00 0.00 4.35
262 1729 0.326904 TGAGGATGAGTCATGGGGCT 60.327 55.000 11.20 0.00 0.00 5.19
282 1754 1.567357 AGAAGGGAGAGTGAAGGAGC 58.433 55.000 0.00 0.00 0.00 4.70
294 1766 6.642733 AAGAGAAATATGTGGAAGAAGGGA 57.357 37.500 0.00 0.00 0.00 4.20
557 2040 4.155826 CCTGCCAGTTTTCATGTAAATCGA 59.844 41.667 0.55 0.00 0.00 3.59
685 2170 2.884639 ACATTGTGTTGCCAACCTAGTC 59.115 45.455 4.90 0.00 0.00 2.59
715 2200 5.878406 AAGAAGAGTGAAGAAGAAGACCA 57.122 39.130 0.00 0.00 0.00 4.02
724 2209 2.039084 GAGGGGCAAAGAAGAGTGAAGA 59.961 50.000 0.00 0.00 0.00 2.87
741 2226 1.526917 GGATGGACATTGCGGAGGG 60.527 63.158 0.00 0.00 0.00 4.30
792 2277 1.267121 GCTTAGGGAGAGACCACACA 58.733 55.000 0.00 0.00 41.20 3.72
798 2283 0.827368 CACTGGGCTTAGGGAGAGAC 59.173 60.000 0.00 0.00 0.00 3.36
842 2328 7.962373 GCCATTAAGAAATGTTTGTAAATTGGC 59.038 33.333 0.00 0.00 40.84 4.52
856 2342 7.397192 ACAAGTGTATCAAGGCCATTAAGAAAT 59.603 33.333 5.01 0.00 0.00 2.17
872 2358 8.839310 AGGATGCATATAGAAACAAGTGTATC 57.161 34.615 0.00 0.00 0.00 2.24
929 2415 1.633945 ACAAGGTATGTGTTCCCCCTC 59.366 52.381 0.00 0.00 41.93 4.30
930 2416 1.755200 ACAAGGTATGTGTTCCCCCT 58.245 50.000 0.00 0.00 41.93 4.79
931 2417 2.167662 CAACAAGGTATGTGTTCCCCC 58.832 52.381 0.00 0.00 42.99 5.40
932 2418 2.167662 CCAACAAGGTATGTGTTCCCC 58.832 52.381 0.00 0.00 42.99 4.81
946 2432 2.203480 GTGAGCCCTGCCCAACAA 60.203 61.111 0.00 0.00 0.00 2.83
999 2485 4.826274 TGAGGCCCAACTCATATATAGC 57.174 45.455 0.00 0.00 42.26 2.97
1105 2600 4.175516 CGTAATCGTAGGTTGCCTTAACA 58.824 43.478 0.00 0.00 41.18 2.41
1113 2608 5.594724 TTTGAAACCGTAATCGTAGGTTG 57.405 39.130 0.00 0.00 46.45 3.77
1205 2703 1.681666 CTCTGGCAGAAGGCTGGAA 59.318 57.895 19.29 0.00 42.53 3.53
1209 2707 2.668120 GGAGCTCTGGCAGAAGGCT 61.668 63.158 25.83 25.83 44.01 4.58
1424 2922 2.202756 GCGTCGCTCCCAAGGTAG 60.203 66.667 10.68 0.00 0.00 3.18
1483 2981 4.086178 CGACGACGACGAGCCAGT 62.086 66.667 15.32 0.00 42.66 4.00
1623 3121 4.090057 GGAGAAACACGCGCCTGC 62.090 66.667 5.73 0.00 37.91 4.85
1624 3122 3.777925 CGGAGAAACACGCGCCTG 61.778 66.667 5.73 2.58 0.00 4.85
1625 3123 4.295119 ACGGAGAAACACGCGCCT 62.295 61.111 5.73 0.00 0.00 5.52
1733 3234 1.270358 GCCTTGTGGAAGAACTCGTCT 60.270 52.381 0.00 0.00 38.69 4.18
2234 3742 3.060000 TCGTCGCCGATGTCCTGT 61.060 61.111 6.17 0.00 38.40 4.00
2354 3862 3.379445 ATGGCGTCGAACTCGGGT 61.379 61.111 0.00 0.00 40.29 5.28
2382 3890 0.956410 CACTCCTCCACGTCGTCTCT 60.956 60.000 0.00 0.00 0.00 3.10
2569 4091 2.028930 ACAGAGAAAAGTCGCTACTGGG 60.029 50.000 0.00 0.00 35.62 4.45
2660 4241 1.202359 GCACTCGAGGAGGAAGATGTC 60.202 57.143 18.41 0.00 33.35 3.06
2794 4395 7.305993 GCTTTTCCTTTGTTGTATTTGAAGACG 60.306 37.037 0.00 0.00 0.00 4.18
2795 4396 7.706607 AGCTTTTCCTTTGTTGTATTTGAAGAC 59.293 33.333 0.00 0.00 0.00 3.01
2798 4399 7.551585 TGAGCTTTTCCTTTGTTGTATTTGAA 58.448 30.769 0.00 0.00 0.00 2.69
2814 4464 9.899226 AAATACACAGACTAAAATGAGCTTTTC 57.101 29.630 0.00 0.00 38.09 2.29
2977 4664 2.612672 GGCTAACGTGGCTAATTTCCTC 59.387 50.000 12.39 0.00 0.00 3.71
2980 4667 2.640184 AGGGCTAACGTGGCTAATTTC 58.360 47.619 12.39 0.00 0.00 2.17
2983 4670 2.801077 AAAGGGCTAACGTGGCTAAT 57.199 45.000 12.39 0.00 0.00 1.73
2986 4673 3.432262 AAAAAGGGCTAACGTGGCT 57.568 47.368 12.39 0.00 0.00 4.75
3009 4699 4.740822 CGGCAACCCCTTCCCCTG 62.741 72.222 0.00 0.00 0.00 4.45
3037 4727 0.380378 CGAATGCAACGTATTGGGGG 59.620 55.000 8.20 0.00 36.23 5.40
3042 4732 2.159435 GGGAAAGCGAATGCAACGTATT 60.159 45.455 15.74 11.58 46.23 1.89
3043 4733 1.400494 GGGAAAGCGAATGCAACGTAT 59.600 47.619 15.74 5.08 46.23 3.06
3048 4738 1.272212 GAAAGGGGAAAGCGAATGCAA 59.728 47.619 0.00 0.00 46.23 4.08
3050 4740 0.173481 GGAAAGGGGAAAGCGAATGC 59.827 55.000 0.00 0.00 43.24 3.56
3051 4741 0.817654 GGGAAAGGGGAAAGCGAATG 59.182 55.000 0.00 0.00 0.00 2.67
3052 4742 0.407918 TGGGAAAGGGGAAAGCGAAT 59.592 50.000 0.00 0.00 0.00 3.34
3063 4753 2.684499 GGGGAGGCTCTGGGAAAGG 61.684 68.421 15.23 0.00 0.00 3.11
3072 4762 1.418264 GTAGAGAAATGGGGGAGGCTC 59.582 57.143 5.78 5.78 0.00 4.70
3074 4764 0.474614 GGTAGAGAAATGGGGGAGGC 59.525 60.000 0.00 0.00 0.00 4.70
3120 4811 1.061411 CCGTCGCTCGATTGTCGTA 59.939 57.895 0.00 0.00 41.35 3.43
3126 4817 4.554363 CTCCGCCGTCGCTCGATT 62.554 66.667 6.69 0.00 42.86 3.34
3131 4823 3.760035 ATTGTCTCCGCCGTCGCT 61.760 61.111 0.00 0.00 0.00 4.93
3146 4838 1.432251 CGACGTCCGCCTCTACATT 59.568 57.895 10.58 0.00 0.00 2.71
3166 4858 2.509336 GATCCCCACACGCAGTCG 60.509 66.667 0.00 0.00 41.61 4.18
3184 4876 3.805267 GCATGAAGCCACGAGAGG 58.195 61.111 0.00 0.00 37.23 3.69
3189 4881 3.629494 CATGACCTAGCATGAAGCCACG 61.629 54.545 0.00 0.00 46.64 4.94
3206 4898 0.032540 CTCCGCGTCATCATCCATGA 59.967 55.000 4.92 0.00 39.39 3.07
3231 4923 2.281900 TACGCCCTTGCCCACAAC 60.282 61.111 0.00 0.00 0.00 3.32
3232 4924 2.281900 GTACGCCCTTGCCCACAA 60.282 61.111 0.00 0.00 0.00 3.33
3240 4932 3.081409 ATCCCTGCGTACGCCCTT 61.081 61.111 35.11 14.26 41.09 3.95
3241 4933 3.849951 CATCCCTGCGTACGCCCT 61.850 66.667 35.11 13.74 41.09 5.19
3259 4951 4.560856 CGAGAGAAGCCGCCTCCG 62.561 72.222 0.00 0.00 0.00 4.63
3272 4964 2.140065 GATGAATGCCATCGTCGAGA 57.860 50.000 0.00 0.00 41.88 4.04
3281 4973 0.179048 CAGGGTAGCGATGAATGCCA 60.179 55.000 0.00 0.00 0.00 4.92
3282 4974 0.886490 CCAGGGTAGCGATGAATGCC 60.886 60.000 0.00 0.00 0.00 4.40
3283 4975 0.179045 ACCAGGGTAGCGATGAATGC 60.179 55.000 0.00 0.00 0.00 3.56
3284 4976 1.942657 CAACCAGGGTAGCGATGAATG 59.057 52.381 0.00 0.00 0.00 2.67
3285 4977 1.837439 TCAACCAGGGTAGCGATGAAT 59.163 47.619 0.00 0.00 0.00 2.57
3286 4978 1.271856 TCAACCAGGGTAGCGATGAA 58.728 50.000 0.00 0.00 0.00 2.57
3292 4984 1.474330 CCCAAATCAACCAGGGTAGC 58.526 55.000 0.00 0.00 36.52 3.58
3294 4986 0.322997 CGCCCAAATCAACCAGGGTA 60.323 55.000 0.00 0.00 43.42 3.69
3295 4987 1.606313 CGCCCAAATCAACCAGGGT 60.606 57.895 0.00 0.00 43.42 4.34
3322 5039 0.965439 GCCTCTATCACCTGCGAGAT 59.035 55.000 0.00 0.00 0.00 2.75
3328 5045 1.134580 CACCAGTGCCTCTATCACCTG 60.135 57.143 0.00 0.00 35.14 4.00
3333 5050 1.195115 TGTCCACCAGTGCCTCTATC 58.805 55.000 0.00 0.00 0.00 2.08
3336 5053 1.681666 CATGTCCACCAGTGCCTCT 59.318 57.895 0.00 0.00 0.00 3.69
3346 5063 1.160329 GCTATGCCGTCCATGTCCAC 61.160 60.000 0.00 0.00 35.34 4.02
3354 5071 2.240500 CGCTTCTGCTATGCCGTCC 61.241 63.158 0.00 0.00 36.97 4.79
3357 5074 2.202932 ACCGCTTCTGCTATGCCG 60.203 61.111 0.00 0.00 36.97 5.69
3359 5076 1.817099 AGCACCGCTTCTGCTATGC 60.817 57.895 0.00 0.00 43.37 3.14
3360 5077 2.012237 CAGCACCGCTTCTGCTATG 58.988 57.895 0.00 0.00 43.34 2.23
3361 5078 4.528674 CAGCACCGCTTCTGCTAT 57.471 55.556 0.00 0.00 43.34 2.97
3384 5101 0.673644 CGTGTCCATCCTTGTCCACC 60.674 60.000 0.00 0.00 0.00 4.61
3389 5106 2.602676 CCCCCGTGTCCATCCTTGT 61.603 63.158 0.00 0.00 0.00 3.16
3390 5107 2.272146 CCCCCGTGTCCATCCTTG 59.728 66.667 0.00 0.00 0.00 3.61
3391 5108 2.204090 ACCCCCGTGTCCATCCTT 60.204 61.111 0.00 0.00 0.00 3.36
3392 5109 3.009115 CACCCCCGTGTCCATCCT 61.009 66.667 0.00 0.00 35.10 3.24
3409 5126 2.045926 ATTGAGCACCACCTCCGC 60.046 61.111 0.00 0.00 0.00 5.54
3410 5127 2.401766 GCATTGAGCACCACCTCCG 61.402 63.158 0.00 0.00 44.79 4.63
3426 5143 2.753452 CTCCTTGTACTCTAAGTCGGCA 59.247 50.000 0.00 0.00 0.00 5.69
3435 5152 3.301274 GAGGCCATACTCCTTGTACTCT 58.699 50.000 5.01 0.00 33.24 3.24
3457 5174 4.753233 ACATGTCAAAAGGAGAGATCTCG 58.247 43.478 16.97 1.26 43.76 4.04
3460 5177 7.040132 AGGAAAAACATGTCAAAAGGAGAGATC 60.040 37.037 0.00 0.00 0.00 2.75
3465 5182 7.885297 TGATAGGAAAAACATGTCAAAAGGAG 58.115 34.615 0.00 0.00 28.52 3.69
3468 5185 9.918630 AGATTGATAGGAAAAACATGTCAAAAG 57.081 29.630 0.00 0.00 41.80 2.27
3475 5192 9.143631 GGAACAAAGATTGATAGGAAAAACATG 57.856 33.333 0.00 0.00 0.00 3.21
3503 5220 7.655328 CGTGTACCTTACTAGTAGTAGTAGCAT 59.345 40.741 15.40 8.88 41.75 3.79
3507 5224 6.757010 GCACGTGTACCTTACTAGTAGTAGTA 59.243 42.308 18.38 12.58 40.23 1.82
3508 5225 5.582665 GCACGTGTACCTTACTAGTAGTAGT 59.417 44.000 18.38 14.57 42.49 2.73
3509 5226 5.582269 TGCACGTGTACCTTACTAGTAGTAG 59.418 44.000 18.38 2.87 31.47 2.57
3510 5227 5.487433 TGCACGTGTACCTTACTAGTAGTA 58.513 41.667 18.38 5.90 0.00 1.82
3511 5228 4.326826 TGCACGTGTACCTTACTAGTAGT 58.673 43.478 18.38 8.14 0.00 2.73
3512 5229 4.952262 TGCACGTGTACCTTACTAGTAG 57.048 45.455 18.38 0.00 0.00 2.57
3513 5230 5.643664 CAATGCACGTGTACCTTACTAGTA 58.356 41.667 18.38 0.00 0.00 1.82
3514 5231 4.491676 CAATGCACGTGTACCTTACTAGT 58.508 43.478 18.38 0.00 0.00 2.57
3515 5232 3.306166 GCAATGCACGTGTACCTTACTAG 59.694 47.826 18.38 0.00 0.00 2.57
3516 5233 3.255725 GCAATGCACGTGTACCTTACTA 58.744 45.455 18.38 0.00 0.00 1.82
3517 5234 2.073816 GCAATGCACGTGTACCTTACT 58.926 47.619 18.38 0.00 0.00 2.24
3518 5235 1.801771 TGCAATGCACGTGTACCTTAC 59.198 47.619 18.38 0.27 31.71 2.34
3519 5236 2.171341 TGCAATGCACGTGTACCTTA 57.829 45.000 18.38 0.00 31.71 2.69
3520 5237 3.014037 TGCAATGCACGTGTACCTT 57.986 47.368 18.38 1.63 31.71 3.50
3521 5238 4.789977 TGCAATGCACGTGTACCT 57.210 50.000 18.38 0.33 31.71 3.08
3530 5247 3.580731 CAAATCTCATGTGTGCAATGCA 58.419 40.909 2.72 2.72 35.60 3.96
3531 5248 2.927477 CCAAATCTCATGTGTGCAATGC 59.073 45.455 0.00 0.00 0.00 3.56
3532 5249 2.927477 GCCAAATCTCATGTGTGCAATG 59.073 45.455 0.00 0.00 0.00 2.82
3533 5250 2.563620 TGCCAAATCTCATGTGTGCAAT 59.436 40.909 0.00 0.00 0.00 3.56
3534 5251 1.962100 TGCCAAATCTCATGTGTGCAA 59.038 42.857 0.00 0.00 0.00 4.08
3535 5252 1.618487 TGCCAAATCTCATGTGTGCA 58.382 45.000 0.00 0.00 0.00 4.57
3536 5253 2.331194 GTTGCCAAATCTCATGTGTGC 58.669 47.619 0.00 0.00 0.00 4.57
3537 5254 2.296752 TGGTTGCCAAATCTCATGTGTG 59.703 45.455 0.00 0.00 0.00 3.82
3538 5255 2.596346 TGGTTGCCAAATCTCATGTGT 58.404 42.857 0.00 0.00 0.00 3.72
3539 5256 3.663995 TTGGTTGCCAAATCTCATGTG 57.336 42.857 0.00 0.00 40.92 3.21
3549 5266 9.606631 GGTATTTATTCATAATTTGGTTGCCAA 57.393 29.630 0.00 0.00 42.29 4.52
3550 5267 8.762645 TGGTATTTATTCATAATTTGGTTGCCA 58.237 29.630 0.00 0.00 0.00 4.92
3551 5268 9.040939 GTGGTATTTATTCATAATTTGGTTGCC 57.959 33.333 0.00 0.00 0.00 4.52
3552 5269 9.593134 TGTGGTATTTATTCATAATTTGGTTGC 57.407 29.630 0.00 0.00 0.00 4.17
3587 5304 7.756722 GCATAAATGACTCAAAACTTACATGCT 59.243 33.333 0.00 0.00 32.05 3.79
3588 5305 7.541783 TGCATAAATGACTCAAAACTTACATGC 59.458 33.333 0.00 0.00 34.58 4.06
3589 5306 8.969121 TGCATAAATGACTCAAAACTTACATG 57.031 30.769 0.00 0.00 0.00 3.21
3590 5307 9.577110 CATGCATAAATGACTCAAAACTTACAT 57.423 29.630 0.00 0.00 0.00 2.29
3591 5308 8.791675 TCATGCATAAATGACTCAAAACTTACA 58.208 29.630 0.00 0.00 31.58 2.41
3592 5309 9.793252 ATCATGCATAAATGACTCAAAACTTAC 57.207 29.630 0.00 0.00 39.32 2.34
3593 5310 9.791820 CATCATGCATAAATGACTCAAAACTTA 57.208 29.630 13.47 0.00 39.32 2.24
3594 5311 8.308931 ACATCATGCATAAATGACTCAAAACTT 58.691 29.630 21.79 0.21 39.32 2.66
3595 5312 7.833786 ACATCATGCATAAATGACTCAAAACT 58.166 30.769 21.79 0.78 39.32 2.66
3596 5313 9.229784 CTACATCATGCATAAATGACTCAAAAC 57.770 33.333 21.79 0.00 39.32 2.43
3597 5314 9.176460 TCTACATCATGCATAAATGACTCAAAA 57.824 29.630 21.79 4.02 39.32 2.44
3598 5315 8.735692 TCTACATCATGCATAAATGACTCAAA 57.264 30.769 21.79 4.77 39.32 2.69
3599 5316 8.780249 CATCTACATCATGCATAAATGACTCAA 58.220 33.333 21.79 7.92 39.32 3.02
3600 5317 7.935210 ACATCTACATCATGCATAAATGACTCA 59.065 33.333 21.79 8.07 39.32 3.41
3601 5318 8.320396 ACATCTACATCATGCATAAATGACTC 57.680 34.615 21.79 0.00 39.32 3.36
3602 5319 8.687292 AACATCTACATCATGCATAAATGACT 57.313 30.769 21.79 8.25 39.32 3.41
3603 5320 8.562052 TGAACATCTACATCATGCATAAATGAC 58.438 33.333 21.79 9.33 39.32 3.06
3604 5321 8.680039 TGAACATCTACATCATGCATAAATGA 57.320 30.769 21.79 8.89 40.73 2.57
3605 5322 9.908152 AATGAACATCTACATCATGCATAAATG 57.092 29.630 16.01 16.01 34.21 2.32
3611 5328 9.955208 GAATTAAATGAACATCTACATCATGCA 57.045 29.630 0.00 0.00 34.21 3.96
3676 5393 4.457466 TGAAACGGAGGAAGTAGCTTTTT 58.543 39.130 0.00 0.00 0.00 1.94
3677 5394 4.065789 CTGAAACGGAGGAAGTAGCTTTT 58.934 43.478 0.00 0.00 0.00 2.27
3678 5395 3.071167 ACTGAAACGGAGGAAGTAGCTTT 59.929 43.478 0.00 0.00 0.00 3.51
3679 5396 2.633481 ACTGAAACGGAGGAAGTAGCTT 59.367 45.455 0.00 0.00 0.00 3.74
3680 5397 2.249139 ACTGAAACGGAGGAAGTAGCT 58.751 47.619 0.00 0.00 0.00 3.32
3681 5398 2.745515 ACTGAAACGGAGGAAGTAGC 57.254 50.000 0.00 0.00 0.00 3.58
3682 5399 8.033626 ACTTATAAACTGAAACGGAGGAAGTAG 58.966 37.037 0.00 0.00 0.00 2.57
3683 5400 7.899973 ACTTATAAACTGAAACGGAGGAAGTA 58.100 34.615 0.00 0.00 0.00 2.24
3684 5401 6.766429 ACTTATAAACTGAAACGGAGGAAGT 58.234 36.000 0.00 0.00 0.00 3.01
3685 5402 6.313164 GGACTTATAAACTGAAACGGAGGAAG 59.687 42.308 0.00 0.00 0.00 3.46
3686 5403 6.013984 AGGACTTATAAACTGAAACGGAGGAA 60.014 38.462 0.00 0.00 0.00 3.36
3687 5404 5.482878 AGGACTTATAAACTGAAACGGAGGA 59.517 40.000 0.00 0.00 0.00 3.71
3688 5405 5.581085 CAGGACTTATAAACTGAAACGGAGG 59.419 44.000 5.87 0.00 32.86 4.30
3689 5406 6.090898 CACAGGACTTATAAACTGAAACGGAG 59.909 42.308 14.76 0.00 35.08 4.63
3690 5407 5.929992 CACAGGACTTATAAACTGAAACGGA 59.070 40.000 14.76 0.00 35.08 4.69
3691 5408 5.390567 GCACAGGACTTATAAACTGAAACGG 60.391 44.000 14.76 0.00 35.08 4.44
3692 5409 5.618561 GCACAGGACTTATAAACTGAAACG 58.381 41.667 14.76 0.00 35.08 3.60


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

AutoCloner maintained by Alex Coulton.