Multiple sequence alignment - TraesCS2D01G465900

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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 TraesCS2D01G465900 chr2D 100.000 4360 0 0 1 4360 571663323 571658964 0.000000e+00 8052.0
1 TraesCS2D01G465900 chr2D 90.889 1778 103 22 424 2166 571550337 571548584 0.000000e+00 2331.0
2 TraesCS2D01G465900 chr2D 92.308 624 31 8 3593 4212 571545622 571545012 0.000000e+00 870.0
3 TraesCS2D01G465900 chr2D 86.239 763 41 28 2287 3015 571548585 571547853 0.000000e+00 769.0
4 TraesCS2D01G465900 chr2D 91.477 528 26 12 3069 3594 571546244 571545734 0.000000e+00 708.0
5 TraesCS2D01G465900 chr2D 88.010 392 25 8 1 391 571550707 571550337 1.110000e-120 444.0
6 TraesCS2D01G465900 chr2D 80.000 350 36 11 3527 3867 571560848 571560524 1.220000e-55 228.0
7 TraesCS2D01G465900 chr2D 92.063 63 4 1 3002 3064 624557048 624557109 2.160000e-13 87.9
8 TraesCS2D01G465900 chr2B 90.419 3058 186 45 3 2987 683275568 683272545 0.000000e+00 3925.0
9 TraesCS2D01G465900 chr2B 89.870 2922 193 38 3 2878 683488397 683485533 0.000000e+00 3661.0
10 TraesCS2D01G465900 chr2B 87.551 2948 192 61 1 2878 683690449 683687607 0.000000e+00 3249.0
11 TraesCS2D01G465900 chr2B 89.533 2226 124 45 843 2987 683386509 683384312 0.000000e+00 2719.0
12 TraesCS2D01G465900 chr2B 90.649 1850 123 21 850 2669 683592366 683590537 0.000000e+00 2412.0
13 TraesCS2D01G465900 chr2B 91.391 1452 83 23 856 2278 683310130 683308692 0.000000e+00 1951.0
14 TraesCS2D01G465900 chr2B 92.532 1165 41 12 3060 4212 683272504 683271374 0.000000e+00 1628.0
15 TraesCS2D01G465900 chr2B 89.888 801 70 7 3 793 683311123 683310324 0.000000e+00 1020.0
16 TraesCS2D01G465900 chr2B 89.744 780 52 13 3060 3824 683484055 683483289 0.000000e+00 972.0
17 TraesCS2D01G465900 chr2B 91.020 735 35 5 2274 2987 683308531 683307807 0.000000e+00 963.0
18 TraesCS2D01G465900 chr2B 89.487 780 54 13 3060 3824 683686126 683685360 0.000000e+00 961.0
19 TraesCS2D01G465900 chr2B 92.473 558 29 8 3060 3614 683307781 683307234 0.000000e+00 785.0
20 TraesCS2D01G465900 chr2B 92.473 558 29 8 3060 3614 683590097 683589550 0.000000e+00 785.0
21 TraesCS2D01G465900 chr2B 90.861 569 35 7 3086 3654 683384284 683383733 0.000000e+00 747.0
22 TraesCS2D01G465900 chr2B 90.158 569 53 2 7 573 683702739 683702172 0.000000e+00 737.0
23 TraesCS2D01G465900 chr2B 85.465 344 17 6 2667 2987 683590456 683590123 1.170000e-85 327.0
24 TraesCS2D01G465900 chr2B 88.938 226 21 3 3989 4212 683383310 683383087 4.300000e-70 276.0
25 TraesCS2D01G465900 chr2B 95.092 163 7 1 4199 4360 557359280 557359118 5.600000e-64 255.0
26 TraesCS2D01G465900 chr2B 88.764 178 16 4 3649 3823 683383640 683383464 9.500000e-52 215.0
27 TraesCS2D01G465900 chr2B 78.348 351 37 12 3527 3868 683747337 683747017 1.600000e-44 191.0
28 TraesCS2D01G465900 chr2B 83.436 163 6 6 2863 3015 683686279 683686128 9.840000e-27 132.0
29 TraesCS2D01G465900 chr2B 90.769 65 6 0 2998 3062 785825905 785825969 2.160000e-13 87.9
30 TraesCS2D01G465900 chr2B 92.593 54 4 0 3009 3062 140225859 140225806 1.300000e-10 78.7
31 TraesCS2D01G465900 chr2B 87.302 63 7 1 3863 3924 619391818 619391880 2.180000e-08 71.3
32 TraesCS2D01G465900 chr2A 93.069 1991 116 10 1 1974 710276627 710274642 0.000000e+00 2892.0
33 TraesCS2D01G465900 chr2A 91.117 1092 49 10 1959 3015 710274601 710273523 0.000000e+00 1435.0
34 TraesCS2D01G465900 chr2A 93.476 935 47 8 3283 4212 710273208 710272283 0.000000e+00 1376.0
35 TraesCS2D01G465900 chr2A 89.294 850 44 11 1930 2776 710345177 710344372 0.000000e+00 1022.0
36 TraesCS2D01G465900 chr2A 88.623 334 26 2 3279 3600 710343180 710342847 3.160000e-106 396.0
37 TraesCS2D01G465900 chr2A 93.156 263 18 0 2140 2402 710345538 710345276 1.900000e-103 387.0
38 TraesCS2D01G465900 chr2A 96.476 227 8 0 1848 2074 710345764 710345538 4.120000e-100 375.0
39 TraesCS2D01G465900 chr2A 94.196 224 11 2 3060 3281 710344157 710343934 1.500000e-89 340.0
40 TraesCS2D01G465900 chr2A 84.653 202 15 11 3086 3287 710273519 710273334 2.070000e-43 187.0
41 TraesCS2D01G465900 chr2A 81.875 160 20 5 3718 3868 710349224 710349065 4.580000e-25 126.0
42 TraesCS2D01G465900 chr2A 91.525 59 3 2 3005 3062 708157987 708157930 3.610000e-11 80.5
43 TraesCS2D01G465900 chr2A 100.000 28 0 0 2794 2821 710344333 710344306 8.000000e-03 52.8
44 TraesCS2D01G465900 chr6A 83.221 596 85 11 2084 2675 602750998 602750414 2.310000e-147 532.0
45 TraesCS2D01G465900 chr4D 82.202 663 77 10 134 792 465604959 465604334 2.310000e-147 532.0
46 TraesCS2D01G465900 chr4D 96.319 163 5 1 4199 4360 83022908 83023070 2.590000e-67 267.0
47 TraesCS2D01G465900 chr4D 93.865 163 9 1 4199 4360 65072317 65072479 1.210000e-60 244.0
48 TraesCS2D01G465900 chr5D 77.233 571 95 15 129 665 390330935 390331504 7.090000e-78 302.0
49 TraesCS2D01G465900 chr5D 96.319 163 5 1 4199 4360 389489181 389489019 2.590000e-67 267.0
50 TraesCS2D01G465900 chr7A 96.933 163 4 1 4199 4360 108877481 108877319 5.560000e-69 272.0
51 TraesCS2D01G465900 chr7A 92.857 56 4 0 3865 3920 660551993 660551938 1.000000e-11 82.4
52 TraesCS2D01G465900 chr7A 94.231 52 3 0 3013 3064 700690045 700690096 3.610000e-11 80.5
53 TraesCS2D01G465900 chr4B 81.761 318 56 2 1029 1345 82277253 82276937 9.300000e-67 265.0
54 TraesCS2D01G465900 chr7D 95.706 163 6 1 4199 4360 425438725 425438887 1.200000e-65 261.0
55 TraesCS2D01G465900 chr7B 95.706 163 6 1 4199 4360 147748004 147748166 1.200000e-65 261.0
56 TraesCS2D01G465900 chr1D 95.706 163 6 1 4199 4360 143359239 143359077 1.200000e-65 261.0
57 TraesCS2D01G465900 chrUn 95.092 163 7 1 4199 4360 28295214 28295376 5.600000e-64 255.0
58 TraesCS2D01G465900 chr6B 92.857 56 4 0 3865 3920 633918957 633919012 1.000000e-11 82.4
59 TraesCS2D01G465900 chr6B 91.379 58 4 1 3865 3921 720577754 720577811 1.300000e-10 78.7
60 TraesCS2D01G465900 chr5B 91.525 59 4 1 3005 3063 249579720 249579777 3.610000e-11 80.5
61 TraesCS2D01G465900 chr5B 92.453 53 2 1 3012 3064 285934871 285934821 1.680000e-09 75.0
62 TraesCS2D01G465900 chr4A 92.727 55 4 0 3866 3920 701953772 701953718 3.610000e-11 80.5
63 TraesCS2D01G465900 chr1B 92.727 55 4 0 3866 3920 4556311 4556365 3.610000e-11 80.5
64 TraesCS2D01G465900 chr6D 94.000 50 3 0 3013 3062 423213882 423213833 4.680000e-10 76.8
65 TraesCS2D01G465900 chr5A 92.308 52 4 0 3013 3064 568885833 568885782 1.680000e-09 75.0
66 TraesCS2D01G465900 chr1A 84.000 75 7 5 660 730 549847605 549847532 2.810000e-07 67.6


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 TraesCS2D01G465900 chr2D 571658964 571663323 4359 True 8052.000000 8052 100.000000 1 4360 1 chr2D.!!$R2 4359
1 TraesCS2D01G465900 chr2D 571545012 571550707 5695 True 1024.400000 2331 89.784600 1 4212 5 chr2D.!!$R3 4211
2 TraesCS2D01G465900 chr2B 683271374 683275568 4194 True 2776.500000 3925 91.475500 3 4212 2 chr2B.!!$R5 4209
3 TraesCS2D01G465900 chr2B 683483289 683488397 5108 True 2316.500000 3661 89.807000 3 3824 2 chr2B.!!$R8 3821
4 TraesCS2D01G465900 chr2B 683685360 683690449 5089 True 1447.333333 3249 86.824667 1 3824 3 chr2B.!!$R10 3823
5 TraesCS2D01G465900 chr2B 683307234 683311123 3889 True 1179.750000 1951 91.193000 3 3614 4 chr2B.!!$R6 3611
6 TraesCS2D01G465900 chr2B 683589550 683592366 2816 True 1174.666667 2412 89.529000 850 3614 3 chr2B.!!$R9 2764
7 TraesCS2D01G465900 chr2B 683383087 683386509 3422 True 989.250000 2719 89.524000 843 4212 4 chr2B.!!$R7 3369
8 TraesCS2D01G465900 chr2B 683702172 683702739 567 True 737.000000 737 90.158000 7 573 1 chr2B.!!$R3 566
9 TraesCS2D01G465900 chr2A 710272283 710276627 4344 True 1472.500000 2892 90.578750 1 4212 4 chr2A.!!$R2 4211
10 TraesCS2D01G465900 chr2A 710342847 710349224 6377 True 385.542857 1022 91.945714 1848 3868 7 chr2A.!!$R3 2020
11 TraesCS2D01G465900 chr6A 602750414 602750998 584 True 532.000000 532 83.221000 2084 2675 1 chr6A.!!$R1 591
12 TraesCS2D01G465900 chr4D 465604334 465604959 625 True 532.000000 532 82.202000 134 792 1 chr4D.!!$R1 658
13 TraesCS2D01G465900 chr5D 390330935 390331504 569 False 302.000000 302 77.233000 129 665 1 chr5D.!!$F1 536

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
971 1209 0.897621 GCCTTTGCCATTTGCTACCT 59.102 50.0 0.00 0.00 42.00 3.08 F
1012 1250 0.039035 TTTTTCCATGGGGAGGTCGG 59.961 55.0 13.02 0.00 46.01 4.79 F
2149 4356 0.913934 TCTCAGCACCAAGGGGCATA 60.914 55.0 16.83 1.62 37.90 3.14 F
2399 4796 1.033746 AGGTGAAAGATGCATGCCCG 61.034 55.0 16.68 0.00 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2563 4961 1.274728 GAGTGACACCATCTGACAGCT 59.725 52.381 0.84 0.0 0.00 4.24 R
2737 5220 2.818274 CCGGGCTAAACGGTGAGC 60.818 66.667 0.00 0.0 46.03 4.26 R
3035 6894 2.100916 AGTGTAGTGTCAACAACGCTCT 59.899 45.455 0.00 0.0 45.69 4.09 R
4259 10960 0.033208 GGCAAATCCCCCTGATGTGA 60.033 55.000 0.00 0.0 40.66 3.58 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
219 228 6.043411 GGTATGAGTATAGCCCGATCAAATC 58.957 44.000 0.00 0.00 32.42 2.17
315 325 1.303282 CCAGCCCCAACCCTAGTTC 59.697 63.158 0.00 0.00 32.45 3.01
657 705 4.904116 TGACAAATTTCGGTCATTATCGC 58.096 39.130 7.14 0.00 39.00 4.58
971 1209 0.897621 GCCTTTGCCATTTGCTACCT 59.102 50.000 0.00 0.00 42.00 3.08
1012 1250 0.039035 TTTTTCCATGGGGAGGTCGG 59.961 55.000 13.02 0.00 46.01 4.79
1209 1447 1.810532 GTTCGGCTCGATCCAGACT 59.189 57.895 6.06 0.00 35.23 3.24
1316 1563 2.720134 GCTTCTCCTCGCTGCTCCT 61.720 63.158 0.00 0.00 0.00 3.69
1318 1565 1.304464 TTCTCCTCGCTGCTCCTGA 60.304 57.895 0.00 0.00 0.00 3.86
1471 1727 2.051345 CCGTGTTCGCAAAGCCAC 60.051 61.111 0.00 0.00 35.54 5.01
1883 3518 1.903877 AACACCGATGCTGGGAGAGG 61.904 60.000 0.00 0.00 0.00 3.69
1996 3687 1.504446 GCAATTGCCGGCGAAACTA 59.496 52.632 22.97 0.00 34.31 2.24
2149 4356 0.913934 TCTCAGCACCAAGGGGCATA 60.914 55.000 16.83 1.62 37.90 3.14
2158 4365 2.225496 ACCAAGGGGCATATGTTTGGAA 60.225 45.455 24.32 0.00 40.52 3.53
2323 4720 6.456988 CCAATAAGTTCGAGGTACATTCTTGC 60.457 42.308 0.00 0.00 0.00 4.01
2340 4737 3.072330 TCTTGCACTAATGTCCCAACAGA 59.928 43.478 0.00 0.00 39.20 3.41
2399 4796 1.033746 AGGTGAAAGATGCATGCCCG 61.034 55.000 16.68 0.00 0.00 6.13
2563 4961 5.294306 CAGTGCTTAAAAGAGTGACTGTGAA 59.706 40.000 0.00 0.00 30.76 3.18
2744 5227 6.331061 ACAGTTTATAAGTCTAAGCTCACCG 58.669 40.000 0.00 0.00 0.00 4.94
2792 5297 2.553602 TGAAATGTGTCAGTGACATGGC 59.446 45.455 27.82 16.09 44.63 4.40
2879 6727 1.077572 TGTGATGGTCCGCATGCAT 60.078 52.632 19.57 2.33 0.00 3.96
2900 6749 2.578495 GCTTCAGCAATGTTCTTCGTG 58.422 47.619 0.00 0.00 41.59 4.35
2941 6791 7.812690 TTCTTAGGTTCAGTTTCCCTTTAAC 57.187 36.000 0.00 0.00 0.00 2.01
2942 6792 5.993441 TCTTAGGTTCAGTTTCCCTTTAACG 59.007 40.000 0.00 0.00 0.00 3.18
2943 6793 2.882761 AGGTTCAGTTTCCCTTTAACGC 59.117 45.455 0.00 0.00 0.00 4.84
2944 6794 2.619646 GGTTCAGTTTCCCTTTAACGCA 59.380 45.455 0.00 0.00 0.00 5.24
2945 6795 3.304458 GGTTCAGTTTCCCTTTAACGCAG 60.304 47.826 0.00 0.00 0.00 5.18
2946 6796 3.478857 TCAGTTTCCCTTTAACGCAGA 57.521 42.857 0.00 0.00 0.00 4.26
3009 6868 4.431416 ACCATCAACTTTGGTCTACACA 57.569 40.909 0.00 0.00 44.15 3.72
3010 6869 4.985538 ACCATCAACTTTGGTCTACACAT 58.014 39.130 0.00 0.00 44.15 3.21
3011 6870 6.121776 ACCATCAACTTTGGTCTACACATA 57.878 37.500 0.00 0.00 44.15 2.29
3012 6871 6.721318 ACCATCAACTTTGGTCTACACATAT 58.279 36.000 0.00 0.00 44.15 1.78
3013 6872 7.857456 ACCATCAACTTTGGTCTACACATATA 58.143 34.615 0.00 0.00 44.15 0.86
3014 6873 7.769044 ACCATCAACTTTGGTCTACACATATAC 59.231 37.037 0.00 0.00 44.15 1.47
3015 6874 7.987458 CCATCAACTTTGGTCTACACATATACT 59.013 37.037 0.00 0.00 0.00 2.12
3017 6876 8.362464 TCAACTTTGGTCTACACATATACTCT 57.638 34.615 0.00 0.00 0.00 3.24
3018 6877 8.467598 TCAACTTTGGTCTACACATATACTCTC 58.532 37.037 0.00 0.00 0.00 3.20
3019 6878 8.470805 CAACTTTGGTCTACACATATACTCTCT 58.529 37.037 0.00 0.00 0.00 3.10
3020 6879 8.228035 ACTTTGGTCTACACATATACTCTCTC 57.772 38.462 0.00 0.00 0.00 3.20
3021 6880 7.285858 ACTTTGGTCTACACATATACTCTCTCC 59.714 40.741 0.00 0.00 0.00 3.71
3022 6881 5.306394 TGGTCTACACATATACTCTCTCCG 58.694 45.833 0.00 0.00 0.00 4.63
3023 6882 5.163227 TGGTCTACACATATACTCTCTCCGT 60.163 44.000 0.00 0.00 0.00 4.69
3024 6883 5.409214 GGTCTACACATATACTCTCTCCGTC 59.591 48.000 0.00 0.00 0.00 4.79
3025 6884 5.409214 GTCTACACATATACTCTCTCCGTCC 59.591 48.000 0.00 0.00 0.00 4.79
3026 6885 3.488363 ACACATATACTCTCTCCGTCCC 58.512 50.000 0.00 0.00 0.00 4.46
3027 6886 3.117625 ACACATATACTCTCTCCGTCCCA 60.118 47.826 0.00 0.00 0.00 4.37
3028 6887 4.082845 CACATATACTCTCTCCGTCCCAT 58.917 47.826 0.00 0.00 0.00 4.00
3029 6888 5.222068 ACACATATACTCTCTCCGTCCCATA 60.222 44.000 0.00 0.00 0.00 2.74
3030 6889 5.710567 CACATATACTCTCTCCGTCCCATAA 59.289 44.000 0.00 0.00 0.00 1.90
3031 6890 6.378564 CACATATACTCTCTCCGTCCCATAAT 59.621 42.308 0.00 0.00 0.00 1.28
3032 6891 7.556635 CACATATACTCTCTCCGTCCCATAATA 59.443 40.741 0.00 0.00 0.00 0.98
3033 6892 8.282982 ACATATACTCTCTCCGTCCCATAATAT 58.717 37.037 0.00 0.00 0.00 1.28
3034 6893 9.794719 CATATACTCTCTCCGTCCCATAATATA 57.205 37.037 0.00 0.00 0.00 0.86
3036 6895 8.754991 ATACTCTCTCCGTCCCATAATATAAG 57.245 38.462 0.00 0.00 0.00 1.73
3037 6896 6.791371 ACTCTCTCCGTCCCATAATATAAGA 58.209 40.000 0.00 0.00 0.00 2.10
3038 6897 6.887545 ACTCTCTCCGTCCCATAATATAAGAG 59.112 42.308 0.00 0.00 33.36 2.85
3039 6898 5.652891 TCTCTCCGTCCCATAATATAAGAGC 59.347 44.000 0.00 0.00 0.00 4.09
3040 6899 4.398358 TCTCCGTCCCATAATATAAGAGCG 59.602 45.833 0.00 0.00 0.00 5.03
3041 6900 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
3042 6901 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
3043 6902 4.625742 CCGTCCCATAATATAAGAGCGTTG 59.374 45.833 0.00 0.00 0.00 4.10
3044 6903 5.227908 CGTCCCATAATATAAGAGCGTTGT 58.772 41.667 0.00 0.00 0.00 3.32
3045 6904 5.694910 CGTCCCATAATATAAGAGCGTTGTT 59.305 40.000 0.00 0.00 0.00 2.83
3046 6905 6.346598 CGTCCCATAATATAAGAGCGTTGTTG 60.347 42.308 0.00 0.00 0.00 3.33
3047 6906 6.704493 GTCCCATAATATAAGAGCGTTGTTGA 59.296 38.462 0.00 0.00 0.00 3.18
3048 6907 6.704493 TCCCATAATATAAGAGCGTTGTTGAC 59.296 38.462 0.00 0.00 0.00 3.18
3049 6908 6.481976 CCCATAATATAAGAGCGTTGTTGACA 59.518 38.462 0.00 0.00 0.00 3.58
3050 6909 7.345192 CCATAATATAAGAGCGTTGTTGACAC 58.655 38.462 0.00 0.00 0.00 3.67
3051 6910 7.224753 CCATAATATAAGAGCGTTGTTGACACT 59.775 37.037 0.00 0.00 0.00 3.55
3052 6911 9.244799 CATAATATAAGAGCGTTGTTGACACTA 57.755 33.333 0.00 0.00 0.00 2.74
3053 6912 7.521509 AATATAAGAGCGTTGTTGACACTAC 57.478 36.000 0.00 0.00 0.00 2.73
3054 6913 2.882927 AGAGCGTTGTTGACACTACA 57.117 45.000 0.00 0.00 0.00 2.74
3055 6914 2.470821 AGAGCGTTGTTGACACTACAC 58.529 47.619 0.00 0.00 0.00 2.90
3056 6915 2.100916 AGAGCGTTGTTGACACTACACT 59.899 45.455 0.00 0.00 0.00 3.55
3057 6916 3.317149 AGAGCGTTGTTGACACTACACTA 59.683 43.478 0.00 0.00 0.00 2.74
3058 6917 3.639538 AGCGTTGTTGACACTACACTAG 58.360 45.455 0.00 0.00 0.00 2.57
3153 8610 0.105964 CCACCGAAGTCTGGTTGTGA 59.894 55.000 0.00 0.00 37.72 3.58
3155 8612 0.106149 ACCGAAGTCTGGTTGTGACC 59.894 55.000 0.00 0.00 46.71 4.02
3348 9698 1.303561 CTGCAGGGCCAAAGCTGTA 60.304 57.895 6.18 0.61 39.73 2.74
3854 10543 4.261155 GCCACATATATGTTCAACGTGCAT 60.261 41.667 15.85 0.00 39.39 3.96
3889 10578 4.463891 ACTTCCTCCGTCCGAAATTACTTA 59.536 41.667 0.00 0.00 0.00 2.24
3948 10637 7.634522 TCCATTTTTGCGAAAAGTAATTTTGG 58.365 30.769 16.68 15.90 38.09 3.28
3954 10643 6.325919 TGCGAAAAGTAATTTTGGACAGAT 57.674 33.333 13.53 0.00 33.62 2.90
3980 10673 6.042208 GGAGTATTACATTTGCCTCTCCTAGT 59.958 42.308 0.00 0.00 37.71 2.57
3981 10674 7.232941 GGAGTATTACATTTGCCTCTCCTAGTA 59.767 40.741 0.00 0.00 37.71 1.82
3982 10675 8.728596 AGTATTACATTTGCCTCTCCTAGTAT 57.271 34.615 0.00 0.00 0.00 2.12
3983 10676 9.160412 AGTATTACATTTGCCTCTCCTAGTATT 57.840 33.333 0.00 0.00 0.00 1.89
3984 10677 9.425577 GTATTACATTTGCCTCTCCTAGTATTC 57.574 37.037 0.00 0.00 0.00 1.75
3985 10678 4.950050 ACATTTGCCTCTCCTAGTATTCG 58.050 43.478 0.00 0.00 0.00 3.34
3986 10679 4.202264 ACATTTGCCTCTCCTAGTATTCGG 60.202 45.833 0.00 0.00 0.00 4.30
3987 10680 1.329256 TGCCTCTCCTAGTATTCGGC 58.671 55.000 0.00 0.00 36.64 5.54
4023 10724 5.161943 AGAGTTATTTTTACGGCTCCTGT 57.838 39.130 0.00 0.00 0.00 4.00
4205 10906 7.722363 TGTTTAGAAGGGAAATGGTTTTCTTC 58.278 34.615 0.00 0.00 40.91 2.87
4206 10907 7.343316 TGTTTAGAAGGGAAATGGTTTTCTTCA 59.657 33.333 15.19 0.00 40.91 3.02
4208 10909 6.161855 AGAAGGGAAATGGTTTTCTTCAAC 57.838 37.500 15.19 0.00 40.91 3.18
4209 10910 4.955811 AGGGAAATGGTTTTCTTCAACC 57.044 40.909 0.00 0.00 45.88 3.77
4210 10911 4.556697 AGGGAAATGGTTTTCTTCAACCT 58.443 39.130 4.32 0.00 45.87 3.50
4211 10912 4.968719 AGGGAAATGGTTTTCTTCAACCTT 59.031 37.500 4.32 0.00 45.87 3.50
4212 10913 5.056480 GGGAAATGGTTTTCTTCAACCTTG 58.944 41.667 4.32 0.00 45.87 3.61
4214 10915 5.523552 GGAAATGGTTTTCTTCAACCTTGTG 59.476 40.000 4.32 0.00 45.87 3.33
4215 10916 4.670896 ATGGTTTTCTTCAACCTTGTGG 57.329 40.909 4.32 0.00 45.87 4.17
4216 10917 6.852033 GAAATGGTTTTCTTCAACCTTGTGGT 60.852 38.462 4.32 0.00 45.87 4.16
4217 10918 8.275215 GAAATGGTTTTCTTCAACCTTGTGGTT 61.275 37.037 4.32 0.00 45.87 3.67
4224 10925 3.354678 ACCTTGTGGTTGATGCGC 58.645 55.556 0.00 0.00 46.05 6.09
4225 10926 1.228245 ACCTTGTGGTTGATGCGCT 60.228 52.632 9.73 0.00 46.05 5.92
4226 10927 1.237285 ACCTTGTGGTTGATGCGCTC 61.237 55.000 9.73 4.27 46.05 5.03
4227 10928 1.133253 CTTGTGGTTGATGCGCTCG 59.867 57.895 9.73 0.00 0.00 5.03
4228 10929 2.839324 CTTGTGGTTGATGCGCTCGC 62.839 60.000 9.73 7.38 42.35 5.03
4229 10930 3.121030 GTGGTTGATGCGCTCGCT 61.121 61.111 9.73 1.08 42.51 4.93
4230 10931 2.358615 TGGTTGATGCGCTCGCTT 60.359 55.556 9.73 9.07 42.51 4.68
4231 10932 2.390599 TGGTTGATGCGCTCGCTTC 61.391 57.895 19.05 19.05 43.05 3.86
4232 10933 2.020559 GTTGATGCGCTCGCTTCG 59.979 61.111 20.01 0.00 44.86 3.79
4233 10934 2.126110 TTGATGCGCTCGCTTCGA 60.126 55.556 20.01 17.03 44.86 3.71
4234 10935 1.519234 TTGATGCGCTCGCTTCGAT 60.519 52.632 20.01 5.34 44.86 3.59
4235 10936 1.083806 TTGATGCGCTCGCTTCGATT 61.084 50.000 20.01 0.00 44.86 3.34
4236 10937 1.200348 GATGCGCTCGCTTCGATTC 59.800 57.895 9.73 0.23 42.51 2.52
4237 10938 1.211818 GATGCGCTCGCTTCGATTCT 61.212 55.000 9.73 0.00 42.51 2.40
4238 10939 1.485838 ATGCGCTCGCTTCGATTCTG 61.486 55.000 9.73 0.00 42.51 3.02
4239 10940 2.864931 GCGCTCGCTTCGATTCTGG 61.865 63.158 0.00 0.00 34.61 3.86
4240 10941 1.226688 CGCTCGCTTCGATTCTGGA 60.227 57.895 0.00 0.00 34.61 3.86
4241 10942 1.475441 CGCTCGCTTCGATTCTGGAC 61.475 60.000 0.00 0.00 34.61 4.02
4242 10943 0.179124 GCTCGCTTCGATTCTGGACT 60.179 55.000 0.00 0.00 34.61 3.85
4243 10944 1.737363 GCTCGCTTCGATTCTGGACTT 60.737 52.381 0.00 0.00 34.61 3.01
4244 10945 1.923204 CTCGCTTCGATTCTGGACTTG 59.077 52.381 0.00 0.00 34.61 3.16
4245 10946 1.002366 CGCTTCGATTCTGGACTTGG 58.998 55.000 0.00 0.00 0.00 3.61
4246 10947 0.729690 GCTTCGATTCTGGACTTGGC 59.270 55.000 0.00 0.00 0.00 4.52
4247 10948 1.373570 CTTCGATTCTGGACTTGGCC 58.626 55.000 0.00 0.00 0.00 5.36
4248 10949 0.690192 TTCGATTCTGGACTTGGCCA 59.310 50.000 0.00 0.00 36.30 5.36
4249 10950 0.690192 TCGATTCTGGACTTGGCCAA 59.310 50.000 19.25 19.25 37.52 4.52
4250 10951 1.089920 CGATTCTGGACTTGGCCAAG 58.910 55.000 38.30 38.30 43.79 3.61
4251 10952 0.813821 GATTCTGGACTTGGCCAAGC 59.186 55.000 39.52 30.81 41.99 4.01
4252 10953 0.962356 ATTCTGGACTTGGCCAAGCG 60.962 55.000 39.52 26.09 41.99 4.68
4253 10954 3.741476 CTGGACTTGGCCAAGCGC 61.741 66.667 39.52 31.06 41.99 5.92
4264 10965 3.425713 CAAGCGCGCAGGTCACAT 61.426 61.111 35.10 6.63 0.00 3.21
4265 10966 3.121030 AAGCGCGCAGGTCACATC 61.121 61.111 35.10 0.00 0.00 3.06
4266 10967 3.881952 AAGCGCGCAGGTCACATCA 62.882 57.895 35.10 0.00 0.00 3.07
4267 10968 3.857854 GCGCGCAGGTCACATCAG 61.858 66.667 29.10 0.00 0.00 2.90
4268 10969 3.190849 CGCGCAGGTCACATCAGG 61.191 66.667 8.75 0.00 0.00 3.86
4269 10970 2.821366 GCGCAGGTCACATCAGGG 60.821 66.667 0.30 0.00 0.00 4.45
4270 10971 2.124983 CGCAGGTCACATCAGGGG 60.125 66.667 0.00 0.00 0.00 4.79
4271 10972 2.273449 GCAGGTCACATCAGGGGG 59.727 66.667 0.00 0.00 0.00 5.40
4272 10973 2.300967 GCAGGTCACATCAGGGGGA 61.301 63.158 0.00 0.00 0.00 4.81
4273 10974 1.639635 GCAGGTCACATCAGGGGGAT 61.640 60.000 0.00 0.00 36.39 3.85
4274 10975 0.921896 CAGGTCACATCAGGGGGATT 59.078 55.000 0.00 0.00 32.57 3.01
4275 10976 1.285962 CAGGTCACATCAGGGGGATTT 59.714 52.381 0.00 0.00 32.57 2.17
4276 10977 1.285962 AGGTCACATCAGGGGGATTTG 59.714 52.381 0.00 0.00 35.45 2.32
4277 10978 1.106285 GTCACATCAGGGGGATTTGC 58.894 55.000 0.00 0.00 34.38 3.68
4278 10979 0.033208 TCACATCAGGGGGATTTGCC 60.033 55.000 0.00 0.00 34.38 4.52
4288 10989 2.695561 GGATTTGCCCCCATTTGGT 58.304 52.632 0.00 0.00 0.00 3.67
4289 10990 0.252761 GGATTTGCCCCCATTTGGTG 59.747 55.000 0.00 0.00 0.00 4.17
4297 10998 3.311725 CCATTTGGTGGCCCATGG 58.688 61.111 4.14 4.14 42.12 3.66
4298 10999 2.368821 CCATTTGGTGGCCCATGGG 61.369 63.158 27.87 27.87 42.12 4.00
4320 11021 4.718940 GGTTTGACCCACCTTCAATATG 57.281 45.455 0.00 0.00 33.03 1.78
4321 11022 3.119137 GGTTTGACCCACCTTCAATATGC 60.119 47.826 0.00 0.00 33.03 3.14
4322 11023 2.036958 TGACCCACCTTCAATATGCG 57.963 50.000 0.00 0.00 0.00 4.73
4323 11024 1.308998 GACCCACCTTCAATATGCGG 58.691 55.000 0.00 0.00 0.00 5.69
4324 11025 0.916086 ACCCACCTTCAATATGCGGA 59.084 50.000 0.00 0.00 0.00 5.54
4325 11026 1.494721 ACCCACCTTCAATATGCGGAT 59.505 47.619 0.00 0.00 0.00 4.18
4326 11027 1.881973 CCCACCTTCAATATGCGGATG 59.118 52.381 0.00 0.00 0.00 3.51
4327 11028 2.487086 CCCACCTTCAATATGCGGATGA 60.487 50.000 0.00 0.00 0.00 2.92
4328 11029 2.549754 CCACCTTCAATATGCGGATGAC 59.450 50.000 0.00 0.00 0.00 3.06
4329 11030 3.205338 CACCTTCAATATGCGGATGACA 58.795 45.455 0.00 0.00 0.00 3.58
4330 11031 3.002656 CACCTTCAATATGCGGATGACAC 59.997 47.826 0.00 0.00 0.00 3.67
4331 11032 2.549754 CCTTCAATATGCGGATGACACC 59.450 50.000 0.00 0.00 0.00 4.16
4332 11033 2.998316 TCAATATGCGGATGACACCA 57.002 45.000 0.00 0.00 0.00 4.17
4333 11034 3.490439 TCAATATGCGGATGACACCAT 57.510 42.857 0.00 0.00 35.29 3.55
4334 11035 3.819368 TCAATATGCGGATGACACCATT 58.181 40.909 0.00 0.00 32.09 3.16
4335 11036 4.967036 TCAATATGCGGATGACACCATTA 58.033 39.130 0.00 0.00 32.09 1.90
4336 11037 5.559770 TCAATATGCGGATGACACCATTAT 58.440 37.500 0.00 0.00 32.09 1.28
4337 11038 5.412286 TCAATATGCGGATGACACCATTATG 59.588 40.000 0.00 0.00 32.09 1.90
4338 11039 2.998316 TGCGGATGACACCATTATGA 57.002 45.000 0.00 0.00 32.09 2.15
4339 11040 3.490439 TGCGGATGACACCATTATGAT 57.510 42.857 0.00 0.00 32.09 2.45
4340 11041 3.140623 TGCGGATGACACCATTATGATG 58.859 45.455 0.00 0.00 32.09 3.07
4352 11053 3.891366 CCATTATGATGGTTGAAGGGTCC 59.109 47.826 8.36 0.00 46.48 4.46
4353 11054 3.275617 TTATGATGGTTGAAGGGTCCG 57.724 47.619 0.00 0.00 0.00 4.79
4354 11055 1.285280 ATGATGGTTGAAGGGTCCGA 58.715 50.000 0.00 0.00 0.00 4.55
4355 11056 0.323629 TGATGGTTGAAGGGTCCGAC 59.676 55.000 0.00 0.00 0.00 4.79
4356 11057 0.739813 GATGGTTGAAGGGTCCGACG 60.740 60.000 0.00 0.00 0.00 5.12
4357 11058 1.189524 ATGGTTGAAGGGTCCGACGA 61.190 55.000 0.00 0.00 0.00 4.20
4358 11059 1.368579 GGTTGAAGGGTCCGACGAA 59.631 57.895 0.00 0.00 0.00 3.85
4359 11060 0.669625 GGTTGAAGGGTCCGACGAAG 60.670 60.000 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.306989 CGGGAGCTAATCAAGGATGCATA 60.307 47.826 0.00 0.00 0.00 3.14
12 13 2.710096 TTTCCGGGAGCTAATCAAGG 57.290 50.000 0.00 0.00 0.00 3.61
97 106 5.011227 CCCCGTTTTGGAGGAAGAAATTAAA 59.989 40.000 0.00 0.00 42.00 1.52
219 228 3.188667 GGAAGTTCTACAAAGGCCGAAAG 59.811 47.826 2.25 0.00 0.00 2.62
315 325 2.059541 GAACGAAGAGAGGAAACGTGG 58.940 52.381 0.00 0.00 37.28 4.94
523 570 0.250640 AAGTGCAGCCTTGACCTCAG 60.251 55.000 0.00 0.00 0.00 3.35
657 705 3.987220 ACGAAAAATGGCCGAAATTTGAG 59.013 39.130 0.00 0.00 0.00 3.02
751 820 1.408266 CCGGACCTTAGTGAAATGGGG 60.408 57.143 0.00 0.00 0.00 4.96
971 1209 1.573932 CGATGCAACTCAAACGGCA 59.426 52.632 0.00 0.00 41.00 5.69
1012 1250 2.928116 CTGGACGTTCGGATCTTTTACC 59.072 50.000 0.00 0.00 0.00 2.85
1316 1563 1.210413 GAGAGACTCGCAGCGTTCA 59.790 57.895 15.93 0.00 0.00 3.18
1318 1565 2.177038 CGAGAGACTCGCAGCGTT 59.823 61.111 15.93 2.60 46.75 4.84
1996 3687 5.046591 TCGACAAGACATCCTGGATAAGTTT 60.047 40.000 9.27 0.00 0.00 2.66
2149 4356 3.197265 GCAGCACAAAAGTTCCAAACAT 58.803 40.909 0.00 0.00 0.00 2.71
2158 4365 2.283145 AGGAGATGCAGCACAAAAGT 57.717 45.000 4.07 0.00 0.00 2.66
2323 4720 3.981071 TCCTCTGTTGGGACATTAGTG 57.019 47.619 0.00 0.00 39.30 2.74
2340 4737 9.753674 TTACAGAAAGAAATTATGGATGTTCCT 57.246 29.630 0.00 0.00 37.46 3.36
2399 4796 4.333926 GGCTCATCACAGAGACAATTTACC 59.666 45.833 0.00 0.00 43.39 2.85
2541 4939 5.734855 TTCACAGTCACTCTTTTAAGCAC 57.265 39.130 0.00 0.00 0.00 4.40
2563 4961 1.274728 GAGTGACACCATCTGACAGCT 59.725 52.381 0.84 0.00 0.00 4.24
2737 5220 2.818274 CCGGGCTAAACGGTGAGC 60.818 66.667 0.00 0.00 46.03 4.26
2744 5227 5.415389 TCAAAATAAAGGTACCGGGCTAAAC 59.585 40.000 6.32 0.00 0.00 2.01
2792 5297 8.994429 ACTAAGTCAGACTTGAACAGATATTG 57.006 34.615 23.92 0.00 39.11 1.90
3010 6869 9.848710 CTTATATTATGGGACGGAGAGAGTATA 57.151 37.037 0.00 0.00 0.00 1.47
3011 6870 8.558312 TCTTATATTATGGGACGGAGAGAGTAT 58.442 37.037 0.00 0.00 0.00 2.12
3012 6871 7.925622 TCTTATATTATGGGACGGAGAGAGTA 58.074 38.462 0.00 0.00 0.00 2.59
3013 6872 6.791371 TCTTATATTATGGGACGGAGAGAGT 58.209 40.000 0.00 0.00 0.00 3.24
3014 6873 6.183360 GCTCTTATATTATGGGACGGAGAGAG 60.183 46.154 0.00 0.00 32.02 3.20
3015 6874 5.652891 GCTCTTATATTATGGGACGGAGAGA 59.347 44.000 0.00 0.00 32.02 3.10
3017 6876 4.398358 CGCTCTTATATTATGGGACGGAGA 59.602 45.833 0.00 0.00 0.00 3.71
3018 6877 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
3019 6878 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
3020 6879 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
3021 6880 5.227908 ACAACGCTCTTATATTATGGGACG 58.772 41.667 0.00 0.00 0.00 4.79
3022 6881 6.704493 TCAACAACGCTCTTATATTATGGGAC 59.296 38.462 0.00 0.00 0.00 4.46
3023 6882 6.704493 GTCAACAACGCTCTTATATTATGGGA 59.296 38.462 0.00 0.00 0.00 4.37
3024 6883 6.481976 TGTCAACAACGCTCTTATATTATGGG 59.518 38.462 0.00 0.00 0.00 4.00
3025 6884 7.224753 AGTGTCAACAACGCTCTTATATTATGG 59.775 37.037 0.00 0.00 45.69 2.74
3026 6885 8.131455 AGTGTCAACAACGCTCTTATATTATG 57.869 34.615 0.00 0.00 45.69 1.90
3027 6886 9.245962 GTAGTGTCAACAACGCTCTTATATTAT 57.754 33.333 0.00 0.00 45.69 1.28
3028 6887 8.245491 TGTAGTGTCAACAACGCTCTTATATTA 58.755 33.333 0.00 0.00 45.69 0.98
3029 6888 7.063074 GTGTAGTGTCAACAACGCTCTTATATT 59.937 37.037 0.00 0.00 45.69 1.28
3030 6889 6.530534 GTGTAGTGTCAACAACGCTCTTATAT 59.469 38.462 0.00 0.00 45.69 0.86
3031 6890 5.860182 GTGTAGTGTCAACAACGCTCTTATA 59.140 40.000 0.00 0.00 45.69 0.98
3032 6891 4.684703 GTGTAGTGTCAACAACGCTCTTAT 59.315 41.667 0.00 0.00 45.69 1.73
3033 6892 4.046462 GTGTAGTGTCAACAACGCTCTTA 58.954 43.478 0.00 0.00 45.69 2.10
3034 6893 2.864343 GTGTAGTGTCAACAACGCTCTT 59.136 45.455 0.00 0.00 45.69 2.85
3035 6894 2.100916 AGTGTAGTGTCAACAACGCTCT 59.899 45.455 0.00 0.00 45.69 4.09
3036 6895 2.470821 AGTGTAGTGTCAACAACGCTC 58.529 47.619 0.00 0.00 45.69 5.03
3038 6897 3.378339 ACTAGTGTAGTGTCAACAACGC 58.622 45.455 0.00 0.00 37.69 4.84
3049 6908 7.284074 AGTATAGCATCTGACACTAGTGTAGT 58.716 38.462 27.98 11.62 45.05 2.73
3050 6909 7.737972 AGTATAGCATCTGACACTAGTGTAG 57.262 40.000 27.98 22.31 45.05 2.74
3051 6910 8.430431 AGTAGTATAGCATCTGACACTAGTGTA 58.570 37.037 27.98 13.80 45.05 2.90
3053 6912 7.737972 AGTAGTATAGCATCTGACACTAGTG 57.262 40.000 21.44 21.44 0.00 2.74
3054 6913 8.754991 AAAGTAGTATAGCATCTGACACTAGT 57.245 34.615 0.00 0.00 0.00 2.57
3055 6914 9.672086 GAAAAGTAGTATAGCATCTGACACTAG 57.328 37.037 0.00 0.00 0.00 2.57
3056 6915 9.409918 AGAAAAGTAGTATAGCATCTGACACTA 57.590 33.333 0.00 0.00 0.00 2.74
3057 6916 8.299990 AGAAAAGTAGTATAGCATCTGACACT 57.700 34.615 0.00 0.00 0.00 3.55
3058 6917 8.934507 AAGAAAAGTAGTATAGCATCTGACAC 57.065 34.615 0.00 0.00 0.00 3.67
3096 8553 9.050601 AGTATAGCATCTGATAAGAAAAACAGC 57.949 33.333 0.00 0.00 0.00 4.40
3680 10273 2.435059 GAGAAGCCTCGTGCCACC 60.435 66.667 0.00 0.00 42.71 4.61
3854 10543 5.237236 ACGGAGGAAGTATTTGAAAAGGA 57.763 39.130 0.00 0.00 0.00 3.36
3889 10578 6.918067 TCTAGATACATCCATTTCCGTGAT 57.082 37.500 0.00 0.00 0.00 3.06
3948 10637 6.058183 AGGCAAATGTAATACTCCATCTGTC 58.942 40.000 0.00 0.00 0.00 3.51
3954 10643 4.721776 AGGAGAGGCAAATGTAATACTCCA 59.278 41.667 0.00 0.00 43.23 3.86
3987 10680 6.595772 AAATAACTCTTGCTCTGCGAATAG 57.404 37.500 0.00 0.00 0.00 1.73
4023 10724 5.297547 GGTTATTCGAATACTGCCTGATCA 58.702 41.667 17.33 0.00 0.00 2.92
4179 10880 7.290110 AGAAAACCATTTCCCTTCTAAACAG 57.710 36.000 0.00 0.00 44.96 3.16
4208 10909 1.503542 GAGCGCATCAACCACAAGG 59.496 57.895 11.47 0.00 42.21 3.61
4209 10910 1.133253 CGAGCGCATCAACCACAAG 59.867 57.895 11.47 0.00 0.00 3.16
4210 10911 2.965147 GCGAGCGCATCAACCACAA 61.965 57.895 11.47 0.00 41.49 3.33
4211 10912 3.422303 GCGAGCGCATCAACCACA 61.422 61.111 11.47 0.00 41.49 4.17
4212 10913 2.568935 GAAGCGAGCGCATCAACCAC 62.569 60.000 17.68 0.00 44.88 4.16
4214 10915 2.401195 GAAGCGAGCGCATCAACC 59.599 61.111 17.68 0.00 44.88 3.77
4215 10916 1.756375 ATCGAAGCGAGCGCATCAAC 61.756 55.000 17.68 0.00 44.88 3.18
4216 10917 1.083806 AATCGAAGCGAGCGCATCAA 61.084 50.000 17.68 0.00 44.88 2.57
4217 10918 1.482621 GAATCGAAGCGAGCGCATCA 61.483 55.000 17.68 6.23 44.88 3.07
4218 10919 1.200348 GAATCGAAGCGAGCGCATC 59.800 57.895 17.68 13.52 44.88 3.91
4219 10920 1.227089 AGAATCGAAGCGAGCGCAT 60.227 52.632 17.68 4.74 44.88 4.73
4220 10921 2.160853 CAGAATCGAAGCGAGCGCA 61.161 57.895 17.68 0.00 44.88 6.09
4221 10922 2.617762 CAGAATCGAAGCGAGCGC 59.382 61.111 6.78 6.78 39.91 5.92
4222 10923 1.226688 TCCAGAATCGAAGCGAGCG 60.227 57.895 0.00 0.00 39.91 5.03
4223 10924 0.179124 AGTCCAGAATCGAAGCGAGC 60.179 55.000 0.00 0.00 39.91 5.03
4224 10925 1.923204 CAAGTCCAGAATCGAAGCGAG 59.077 52.381 0.00 0.00 39.91 5.03
4225 10926 1.404181 CCAAGTCCAGAATCGAAGCGA 60.404 52.381 0.00 0.00 41.13 4.93
4226 10927 1.002366 CCAAGTCCAGAATCGAAGCG 58.998 55.000 0.00 0.00 0.00 4.68
4227 10928 0.729690 GCCAAGTCCAGAATCGAAGC 59.270 55.000 0.00 0.00 0.00 3.86
4228 10929 1.339055 TGGCCAAGTCCAGAATCGAAG 60.339 52.381 0.61 0.00 0.00 3.79
4229 10930 0.690192 TGGCCAAGTCCAGAATCGAA 59.310 50.000 0.61 0.00 0.00 3.71
4230 10931 0.690192 TTGGCCAAGTCCAGAATCGA 59.310 50.000 16.05 0.00 37.44 3.59
4231 10932 1.089920 CTTGGCCAAGTCCAGAATCG 58.910 55.000 33.46 8.43 37.44 3.34
4232 10933 0.813821 GCTTGGCCAAGTCCAGAATC 59.186 55.000 38.87 20.67 40.45 2.52
4233 10934 0.962356 CGCTTGGCCAAGTCCAGAAT 60.962 55.000 38.87 0.00 40.45 2.40
4234 10935 1.600636 CGCTTGGCCAAGTCCAGAA 60.601 57.895 38.87 8.37 40.45 3.02
4235 10936 2.032528 CGCTTGGCCAAGTCCAGA 59.967 61.111 38.87 9.16 40.45 3.86
4236 10937 3.741476 GCGCTTGGCCAAGTCCAG 61.741 66.667 38.87 28.64 40.45 3.86
4247 10948 3.372676 GATGTGACCTGCGCGCTTG 62.373 63.158 33.29 24.28 0.00 4.01
4248 10949 3.121030 GATGTGACCTGCGCGCTT 61.121 61.111 33.29 16.69 0.00 4.68
4249 10950 4.377708 TGATGTGACCTGCGCGCT 62.378 61.111 33.29 12.78 0.00 5.92
4250 10951 3.857854 CTGATGTGACCTGCGCGC 61.858 66.667 27.26 27.26 0.00 6.86
4251 10952 3.190849 CCTGATGTGACCTGCGCG 61.191 66.667 0.00 0.00 0.00 6.86
4252 10953 2.821366 CCCTGATGTGACCTGCGC 60.821 66.667 0.00 0.00 0.00 6.09
4253 10954 2.124983 CCCCTGATGTGACCTGCG 60.125 66.667 0.00 0.00 0.00 5.18
4254 10955 1.639635 ATCCCCCTGATGTGACCTGC 61.640 60.000 0.00 0.00 30.54 4.85
4255 10956 0.921896 AATCCCCCTGATGTGACCTG 59.078 55.000 0.00 0.00 32.68 4.00
4256 10957 1.285962 CAAATCCCCCTGATGTGACCT 59.714 52.381 0.00 0.00 40.66 3.85
4257 10958 1.767759 CAAATCCCCCTGATGTGACC 58.232 55.000 0.00 0.00 40.66 4.02
4258 10959 1.106285 GCAAATCCCCCTGATGTGAC 58.894 55.000 0.00 0.00 40.66 3.67
4259 10960 0.033208 GGCAAATCCCCCTGATGTGA 60.033 55.000 0.00 0.00 40.66 3.58
4260 10961 2.508361 GGCAAATCCCCCTGATGTG 58.492 57.895 0.00 0.00 41.07 3.21
4270 10971 0.252761 CACCAAATGGGGGCAAATCC 59.747 55.000 4.17 0.00 42.91 3.01
4271 10972 3.859278 CACCAAATGGGGGCAAATC 57.141 52.632 4.17 0.00 42.91 2.17
4299 11000 3.119137 GCATATTGAAGGTGGGTCAAACC 60.119 47.826 0.00 0.00 38.44 3.27
4300 11001 3.427503 CGCATATTGAAGGTGGGTCAAAC 60.428 47.826 0.00 0.00 38.44 2.93
4301 11002 2.752354 CGCATATTGAAGGTGGGTCAAA 59.248 45.455 0.00 0.00 38.44 2.69
4302 11003 2.364632 CGCATATTGAAGGTGGGTCAA 58.635 47.619 0.00 0.00 39.24 3.18
4303 11004 1.408127 CCGCATATTGAAGGTGGGTCA 60.408 52.381 0.00 0.00 0.00 4.02
4304 11005 1.134220 TCCGCATATTGAAGGTGGGTC 60.134 52.381 0.00 0.00 33.08 4.46
4305 11006 0.916086 TCCGCATATTGAAGGTGGGT 59.084 50.000 0.00 0.00 33.08 4.51
4306 11007 1.881973 CATCCGCATATTGAAGGTGGG 59.118 52.381 0.00 0.00 33.08 4.61
4307 11008 2.549754 GTCATCCGCATATTGAAGGTGG 59.450 50.000 0.00 0.00 0.00 4.61
4308 11009 3.002656 GTGTCATCCGCATATTGAAGGTG 59.997 47.826 0.00 0.00 0.00 4.00
4309 11010 3.206150 GTGTCATCCGCATATTGAAGGT 58.794 45.455 0.00 0.00 0.00 3.50
4310 11011 2.549754 GGTGTCATCCGCATATTGAAGG 59.450 50.000 0.00 0.00 0.00 3.46
4311 11012 3.205338 TGGTGTCATCCGCATATTGAAG 58.795 45.455 0.00 0.00 0.00 3.02
4312 11013 3.274095 TGGTGTCATCCGCATATTGAA 57.726 42.857 0.00 0.00 0.00 2.69
4313 11014 2.998316 TGGTGTCATCCGCATATTGA 57.002 45.000 0.00 0.00 0.00 2.57
4314 11015 5.412286 TCATAATGGTGTCATCCGCATATTG 59.588 40.000 0.00 0.00 32.24 1.90
4315 11016 5.559770 TCATAATGGTGTCATCCGCATATT 58.440 37.500 0.00 0.00 32.24 1.28
4316 11017 5.164620 TCATAATGGTGTCATCCGCATAT 57.835 39.130 0.00 0.00 32.24 1.78
4317 11018 4.615588 TCATAATGGTGTCATCCGCATA 57.384 40.909 0.00 0.00 32.24 3.14
4318 11019 3.490439 TCATAATGGTGTCATCCGCAT 57.510 42.857 0.00 0.00 32.24 4.73
4319 11020 2.998316 TCATAATGGTGTCATCCGCA 57.002 45.000 0.00 0.00 32.24 5.69
4320 11021 2.485426 CCATCATAATGGTGTCATCCGC 59.515 50.000 0.00 0.00 46.43 5.54
4331 11032 3.565482 CGGACCCTTCAACCATCATAATG 59.435 47.826 0.00 0.00 0.00 1.90
4332 11033 3.458118 TCGGACCCTTCAACCATCATAAT 59.542 43.478 0.00 0.00 0.00 1.28
4333 11034 2.841266 TCGGACCCTTCAACCATCATAA 59.159 45.455 0.00 0.00 0.00 1.90
4334 11035 2.169769 GTCGGACCCTTCAACCATCATA 59.830 50.000 0.00 0.00 0.00 2.15
4335 11036 1.065418 GTCGGACCCTTCAACCATCAT 60.065 52.381 0.00 0.00 0.00 2.45
4336 11037 0.323629 GTCGGACCCTTCAACCATCA 59.676 55.000 0.00 0.00 0.00 3.07
4337 11038 0.739813 CGTCGGACCCTTCAACCATC 60.740 60.000 1.91 0.00 0.00 3.51
4338 11039 1.189524 TCGTCGGACCCTTCAACCAT 61.190 55.000 1.91 0.00 0.00 3.55
4339 11040 1.401318 TTCGTCGGACCCTTCAACCA 61.401 55.000 1.91 0.00 0.00 3.67
4340 11041 0.669625 CTTCGTCGGACCCTTCAACC 60.670 60.000 1.91 0.00 0.00 3.77
4341 11042 2.823628 CTTCGTCGGACCCTTCAAC 58.176 57.895 1.91 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.