Multiple sequence alignment - TraesCS4D01G177700

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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 TraesCS4D01G177700 chr4D 100.000 4049 0 0 1 4049 309498727 309502775 0.000000e+00 7478.0
1 TraesCS4D01G177700 chr4D 92.308 52 4 0 1469 1520 493017018 493017069 1.560000e-09 75.0
2 TraesCS4D01G177700 chr4A 91.744 3900 149 63 229 4049 165758344 165754539 0.000000e+00 5258.0
3 TraesCS4D01G177700 chr4A 92.437 119 7 1 113 229 165795444 165795326 6.960000e-38 169.0
4 TraesCS4D01G177700 chr4B 93.446 3250 97 40 264 3468 386201975 386205153 0.000000e+00 4715.0
5 TraesCS4D01G177700 chr4B 97.064 579 12 4 3472 4049 386207823 386208397 0.000000e+00 970.0
6 TraesCS4D01G177700 chr4B 95.062 81 4 0 147 227 386200860 386200940 1.180000e-25 128.0
7 TraesCS4D01G177700 chr7A 90.476 105 10 0 1 105 99797420 99797524 5.460000e-29 139.0
8 TraesCS4D01G177700 chr5B 90.566 106 8 2 1 105 320494400 320494504 5.460000e-29 139.0
9 TraesCS4D01G177700 chr5B 90.000 100 10 0 4 103 546427147 546427048 3.280000e-26 130.0
10 TraesCS4D01G177700 chr5D 89.623 106 11 0 1 106 344691692 344691797 7.060000e-28 135.0
11 TraesCS4D01G177700 chr5D 88.571 105 12 0 4 108 469097012 469096908 1.180000e-25 128.0
12 TraesCS4D01G177700 chr7D 88.679 106 12 0 1 106 387382001 387382106 3.280000e-26 130.0
13 TraesCS4D01G177700 chr6B 88.679 106 12 0 1 106 632522533 632522638 3.280000e-26 130.0
14 TraesCS4D01G177700 chr3D 89.320 103 11 0 1 103 126392438 126392336 3.280000e-26 130.0
15 TraesCS4D01G177700 chr1A 88.571 105 12 0 1 105 344296169 344296065 1.180000e-25 128.0
16 TraesCS4D01G177700 chr2D 88.060 67 8 0 1454 1520 592411291 592411357 3.350000e-11 80.5
17 TraesCS4D01G177700 chr2D 92.308 52 4 0 1469 1520 619046361 619046310 1.560000e-09 75.0
18 TraesCS4D01G177700 chr2B 88.060 67 8 0 1454 1520 718396635 718396701 3.350000e-11 80.5
19 TraesCS4D01G177700 chr2B 92.308 52 4 0 1469 1520 756553073 756553022 1.560000e-09 75.0
20 TraesCS4D01G177700 chr2A 88.060 67 8 0 1454 1520 726986410 726986476 3.350000e-11 80.5
21 TraesCS4D01G177700 chr2A 92.308 52 4 0 1469 1520 749904111 749904060 1.560000e-09 75.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G177700 chr4D 309498727 309502775 4048 False 7478.000000 7478 100.000000 1 4049 1 chr4D.!!$F1 4048
1 TraesCS4D01G177700 chr4A 165754539 165758344 3805 True 5258.000000 5258 91.744000 229 4049 1 chr4A.!!$R1 3820
2 TraesCS4D01G177700 chr4B 386200860 386208397 7537 False 1937.666667 4715 95.190667 147 4049 3 chr4B.!!$F1 3902

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
62 63 0.035915 TCCGTGCCGATCCAAATGAA 60.036 50.000 0.00 0.0 0.00 2.57 F
63 64 0.098728 CCGTGCCGATCCAAATGAAC 59.901 55.000 0.00 0.0 0.00 3.18 F
64 65 0.247655 CGTGCCGATCCAAATGAACG 60.248 55.000 0.00 0.0 38.83 3.95 F
69 70 0.248215 CGATCCAAATGAACGCCTGC 60.248 55.000 0.00 0.0 32.33 4.85 F
79 80 0.248215 GAACGCCTGCGGATGAAATG 60.248 55.000 16.63 0.0 44.69 2.32 F
104 105 0.323629 CCCCGTTGGAGTTGCTCTTA 59.676 55.000 0.00 0.0 35.39 2.10 F
1934 3018 1.004320 CCAATCAACGTCGGGGTGA 60.004 57.895 0.00 0.0 0.00 4.02 F
2612 3716 0.251916 TCCTCCAGTATTGTTGCCCG 59.748 55.000 0.00 0.0 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1916 3000 0.392461 ATCACCCCGACGTTGATTGG 60.392 55.000 3.74 4.45 0.00 3.16 R
1934 3018 0.611618 TTTGGCGCCCACTGATTGAT 60.612 50.000 26.77 0.00 30.78 2.57 R
2150 3237 9.165035 CATAAGGTAACGGGATAAGTTTTTGTA 57.835 33.333 0.00 0.00 46.39 2.41 R
2429 3533 4.141937 CCTTCCCAAAGCCCTAATTTTAGC 60.142 45.833 0.00 0.00 0.00 3.09 R
2502 3606 3.526931 GCTGACTGCATGGTAGAGTAA 57.473 47.619 0.00 0.00 42.31 2.24 R
2545 3649 4.712829 GGGGAGGAGCTATTATCTTACTCC 59.287 50.000 0.00 0.00 45.99 3.85 R
2867 3975 0.404040 TTTTCTAGGCAGTGGGGTGG 59.596 55.000 0.00 0.00 0.00 4.61 R
3612 7421 0.746659 GTTTGCAGCTTGTTCCAGGT 59.253 50.000 0.00 0.00 0.00 4.00 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
17 18 4.160635 GACGCGCGTCCATTTGGG 62.161 66.667 44.30 10.93 39.08 4.12
19 20 4.160635 CGCGCGTCCATTTGGGTC 62.161 66.667 24.19 0.00 38.11 4.46
20 21 3.053291 GCGCGTCCATTTGGGTCA 61.053 61.111 8.43 0.00 38.11 4.02
21 22 3.039202 GCGCGTCCATTTGGGTCAG 62.039 63.158 8.43 0.00 38.11 3.51
22 23 2.877691 GCGTCCATTTGGGTCAGC 59.122 61.111 0.00 0.00 38.11 4.26
23 24 3.039202 GCGTCCATTTGGGTCAGCG 62.039 63.158 0.00 0.00 38.11 5.18
24 25 2.877691 GTCCATTTGGGTCAGCGC 59.122 61.111 0.00 0.00 38.11 5.92
25 26 2.745884 TCCATTTGGGTCAGCGCG 60.746 61.111 0.00 0.00 38.11 6.86
26 27 3.055719 CCATTTGGGTCAGCGCGT 61.056 61.111 8.43 0.00 0.00 6.01
27 28 2.625823 CCATTTGGGTCAGCGCGTT 61.626 57.895 8.43 0.00 0.00 4.84
28 29 1.442520 CATTTGGGTCAGCGCGTTG 60.443 57.895 17.58 17.58 0.00 4.10
29 30 2.625823 ATTTGGGTCAGCGCGTTGG 61.626 57.895 22.99 5.26 0.00 3.77
33 34 4.681978 GGTCAGCGCGTTGGGTCT 62.682 66.667 22.99 0.00 0.00 3.85
34 35 2.260434 GTCAGCGCGTTGGGTCTA 59.740 61.111 22.99 0.00 0.00 2.59
35 36 2.092882 GTCAGCGCGTTGGGTCTAC 61.093 63.158 22.99 9.46 0.00 2.59
36 37 2.261671 CAGCGCGTTGGGTCTACT 59.738 61.111 15.84 0.00 0.00 2.57
37 38 1.374252 CAGCGCGTTGGGTCTACTT 60.374 57.895 15.84 0.00 0.00 2.24
38 39 0.949105 CAGCGCGTTGGGTCTACTTT 60.949 55.000 15.84 0.00 0.00 2.66
39 40 0.250166 AGCGCGTTGGGTCTACTTTT 60.250 50.000 8.43 0.00 0.00 2.27
40 41 0.110373 GCGCGTTGGGTCTACTTTTG 60.110 55.000 8.43 0.00 0.00 2.44
41 42 1.223187 CGCGTTGGGTCTACTTTTGT 58.777 50.000 0.00 0.00 0.00 2.83
42 43 1.070175 CGCGTTGGGTCTACTTTTGTG 60.070 52.381 0.00 0.00 0.00 3.33
43 44 1.944709 GCGTTGGGTCTACTTTTGTGT 59.055 47.619 0.00 0.00 0.00 3.72
44 45 2.032290 GCGTTGGGTCTACTTTTGTGTC 60.032 50.000 0.00 0.00 0.00 3.67
45 46 2.546789 CGTTGGGTCTACTTTTGTGTCC 59.453 50.000 0.00 0.00 0.00 4.02
46 47 2.536761 TGGGTCTACTTTTGTGTCCG 57.463 50.000 0.00 0.00 0.00 4.79
47 48 1.764134 TGGGTCTACTTTTGTGTCCGT 59.236 47.619 0.00 0.00 0.00 4.69
48 49 2.140717 GGGTCTACTTTTGTGTCCGTG 58.859 52.381 0.00 0.00 0.00 4.94
49 50 1.529865 GGTCTACTTTTGTGTCCGTGC 59.470 52.381 0.00 0.00 0.00 5.34
50 51 1.529865 GTCTACTTTTGTGTCCGTGCC 59.470 52.381 0.00 0.00 0.00 5.01
51 52 0.511221 CTACTTTTGTGTCCGTGCCG 59.489 55.000 0.00 0.00 0.00 5.69
52 53 0.104487 TACTTTTGTGTCCGTGCCGA 59.896 50.000 0.00 0.00 0.00 5.54
53 54 0.534203 ACTTTTGTGTCCGTGCCGAT 60.534 50.000 0.00 0.00 0.00 4.18
54 55 0.165944 CTTTTGTGTCCGTGCCGATC 59.834 55.000 0.00 0.00 0.00 3.69
55 56 1.231958 TTTTGTGTCCGTGCCGATCC 61.232 55.000 0.00 0.00 0.00 3.36
56 57 2.384653 TTTGTGTCCGTGCCGATCCA 62.385 55.000 0.00 0.00 0.00 3.41
57 58 2.047655 GTGTCCGTGCCGATCCAA 60.048 61.111 0.00 0.00 0.00 3.53
58 59 1.669760 GTGTCCGTGCCGATCCAAA 60.670 57.895 0.00 0.00 0.00 3.28
59 60 1.024579 GTGTCCGTGCCGATCCAAAT 61.025 55.000 0.00 0.00 0.00 2.32
60 61 1.024046 TGTCCGTGCCGATCCAAATG 61.024 55.000 0.00 0.00 0.00 2.32
61 62 0.742990 GTCCGTGCCGATCCAAATGA 60.743 55.000 0.00 0.00 0.00 2.57
62 63 0.035915 TCCGTGCCGATCCAAATGAA 60.036 50.000 0.00 0.00 0.00 2.57
63 64 0.098728 CCGTGCCGATCCAAATGAAC 59.901 55.000 0.00 0.00 0.00 3.18
64 65 0.247655 CGTGCCGATCCAAATGAACG 60.248 55.000 0.00 0.00 38.83 3.95
65 66 0.523335 GTGCCGATCCAAATGAACGC 60.523 55.000 0.00 0.00 37.88 4.84
66 67 1.064134 GCCGATCCAAATGAACGCC 59.936 57.895 0.00 0.00 37.88 5.68
67 68 1.376609 GCCGATCCAAATGAACGCCT 61.377 55.000 0.00 0.00 37.88 5.52
68 69 0.378257 CCGATCCAAATGAACGCCTG 59.622 55.000 0.00 0.00 37.88 4.85
69 70 0.248215 CGATCCAAATGAACGCCTGC 60.248 55.000 0.00 0.00 32.33 4.85
70 71 0.248215 GATCCAAATGAACGCCTGCG 60.248 55.000 10.40 10.40 46.03 5.18
71 72 1.656818 ATCCAAATGAACGCCTGCGG 61.657 55.000 16.63 0.00 44.69 5.69
72 73 2.331893 CCAAATGAACGCCTGCGGA 61.332 57.895 16.63 0.00 44.69 5.54
73 74 1.656818 CCAAATGAACGCCTGCGGAT 61.657 55.000 16.63 4.08 44.69 4.18
74 75 0.523968 CAAATGAACGCCTGCGGATG 60.524 55.000 16.63 1.90 44.69 3.51
75 76 0.676466 AAATGAACGCCTGCGGATGA 60.676 50.000 16.63 0.00 44.69 2.92
76 77 0.676466 AATGAACGCCTGCGGATGAA 60.676 50.000 16.63 0.00 44.69 2.57
77 78 0.676466 ATGAACGCCTGCGGATGAAA 60.676 50.000 16.63 0.00 44.69 2.69
78 79 0.676466 TGAACGCCTGCGGATGAAAT 60.676 50.000 16.63 0.00 44.69 2.17
79 80 0.248215 GAACGCCTGCGGATGAAATG 60.248 55.000 16.63 0.00 44.69 2.32
80 81 1.656818 AACGCCTGCGGATGAAATGG 61.657 55.000 16.63 0.00 44.69 3.16
81 82 2.837883 CGCCTGCGGATGAAATGGG 61.838 63.158 3.07 0.00 35.56 4.00
82 83 1.754234 GCCTGCGGATGAAATGGGT 60.754 57.895 0.00 0.00 0.00 4.51
83 84 1.728490 GCCTGCGGATGAAATGGGTC 61.728 60.000 0.00 0.00 0.00 4.46
84 85 1.439353 CCTGCGGATGAAATGGGTCG 61.439 60.000 0.00 0.00 0.00 4.79
85 86 2.051804 CTGCGGATGAAATGGGTCGC 62.052 60.000 0.00 0.00 42.90 5.19
86 87 2.834618 GCGGATGAAATGGGTCGCC 61.835 63.158 0.00 0.00 37.62 5.54
87 88 2.186826 CGGATGAAATGGGTCGCCC 61.187 63.158 7.87 7.87 45.71 6.13
97 98 4.324991 GGTCGCCCCGTTGGAGTT 62.325 66.667 0.00 0.00 35.07 3.01
98 99 3.047877 GTCGCCCCGTTGGAGTTG 61.048 66.667 0.00 0.00 35.07 3.16
101 102 3.056328 GCCCCGTTGGAGTTGCTC 61.056 66.667 0.00 0.00 35.39 4.26
102 103 2.750350 CCCCGTTGGAGTTGCTCT 59.250 61.111 0.00 0.00 35.39 4.09
103 104 1.073199 CCCCGTTGGAGTTGCTCTT 59.927 57.895 0.00 0.00 35.39 2.85
104 105 0.323629 CCCCGTTGGAGTTGCTCTTA 59.676 55.000 0.00 0.00 35.39 2.10
105 106 1.065418 CCCCGTTGGAGTTGCTCTTAT 60.065 52.381 0.00 0.00 35.39 1.73
106 107 2.618045 CCCCGTTGGAGTTGCTCTTATT 60.618 50.000 0.00 0.00 35.39 1.40
107 108 3.081804 CCCGTTGGAGTTGCTCTTATTT 58.918 45.455 0.00 0.00 0.00 1.40
108 109 3.506067 CCCGTTGGAGTTGCTCTTATTTT 59.494 43.478 0.00 0.00 0.00 1.82
109 110 4.475944 CCGTTGGAGTTGCTCTTATTTTG 58.524 43.478 0.00 0.00 0.00 2.44
110 111 4.475944 CGTTGGAGTTGCTCTTATTTTGG 58.524 43.478 0.00 0.00 0.00 3.28
111 112 4.237724 GTTGGAGTTGCTCTTATTTTGGC 58.762 43.478 0.00 0.00 0.00 4.52
112 113 3.495331 TGGAGTTGCTCTTATTTTGGCA 58.505 40.909 0.00 0.00 0.00 4.92
113 114 3.894427 TGGAGTTGCTCTTATTTTGGCAA 59.106 39.130 0.00 0.00 41.47 4.52
128 129 3.616956 TGGCAACACAAATTGGAACAA 57.383 38.095 0.00 0.00 45.14 2.83
129 130 3.942829 TGGCAACACAAATTGGAACAAA 58.057 36.364 0.00 0.00 45.14 2.83
130 131 3.686726 TGGCAACACAAATTGGAACAAAC 59.313 39.130 0.00 0.00 45.14 2.93
131 132 5.396663 TGGCAACACAAATTGGAACAAACC 61.397 41.667 0.00 0.00 45.14 3.27
132 133 7.549175 TGGCAACACAAATTGGAACAAACCT 62.549 40.000 0.00 0.00 45.14 3.50
143 144 5.217978 TGGAACAAACCTGACGTATTACT 57.782 39.130 0.00 0.00 31.92 2.24
144 145 5.232463 TGGAACAAACCTGACGTATTACTC 58.768 41.667 0.00 0.00 31.92 2.59
145 146 5.221481 TGGAACAAACCTGACGTATTACTCA 60.221 40.000 0.00 0.00 31.92 3.41
146 147 5.873164 GGAACAAACCTGACGTATTACTCAT 59.127 40.000 0.00 0.00 0.00 2.90
147 148 6.370718 GGAACAAACCTGACGTATTACTCATT 59.629 38.462 0.00 0.00 0.00 2.57
148 149 6.963049 ACAAACCTGACGTATTACTCATTC 57.037 37.500 0.00 0.00 0.00 2.67
202 203 3.864686 CGCAGTCGGCATTTCGGG 61.865 66.667 0.00 0.00 45.17 5.14
223 224 2.170607 GACCAGCCTAGCTCATTTACCA 59.829 50.000 0.00 0.00 36.40 3.25
224 225 2.171448 ACCAGCCTAGCTCATTTACCAG 59.829 50.000 0.00 0.00 36.40 4.00
225 226 2.486191 CCAGCCTAGCTCATTTACCAGG 60.486 54.545 0.00 0.00 36.40 4.45
226 227 1.598882 GCCTAGCTCATTTACCAGGC 58.401 55.000 4.21 4.21 41.57 4.85
227 228 1.141858 GCCTAGCTCATTTACCAGGCT 59.858 52.381 11.81 0.00 44.15 4.58
232 233 2.158696 AGCTCATTTACCAGGCTCATCC 60.159 50.000 0.00 0.00 0.00 3.51
268 1277 2.985456 GCACCAGCCTAGCTCTGT 59.015 61.111 0.00 0.00 36.40 3.41
438 1456 3.436001 CGGCATCGTTTACTGGAGT 57.564 52.632 0.00 0.00 0.00 3.85
439 1457 2.572191 CGGCATCGTTTACTGGAGTA 57.428 50.000 0.00 0.00 0.00 2.59
440 1458 2.190981 CGGCATCGTTTACTGGAGTAC 58.809 52.381 0.00 0.00 0.00 2.73
441 1459 2.190981 GGCATCGTTTACTGGAGTACG 58.809 52.381 0.00 0.00 32.90 3.67
442 1460 2.416431 GGCATCGTTTACTGGAGTACGT 60.416 50.000 0.00 0.00 33.27 3.57
446 1464 5.517770 GCATCGTTTACTGGAGTACGTATTT 59.482 40.000 0.00 0.00 33.27 1.40
503 1533 1.066858 TCTGAATGGAGCGGACTGTTC 60.067 52.381 0.00 0.00 0.00 3.18
736 1790 2.755103 CTCCCTTTTTGGATTCTTCCCG 59.245 50.000 0.00 0.00 41.83 5.14
981 2036 2.724454 GGCCAGTGAGTACTCTACTGA 58.276 52.381 33.62 13.89 39.59 3.41
1215 2278 4.899239 CGGGCCCAGATGACGCTC 62.899 72.222 24.92 0.00 0.00 5.03
1323 2392 4.007940 CGCCACAACAACGTCGGG 62.008 66.667 0.00 0.00 0.00 5.14
1693 2768 5.593010 CAGCTCAGGAGTTACAAGGTATAC 58.407 45.833 0.00 0.00 0.00 1.47
1694 2769 5.361285 CAGCTCAGGAGTTACAAGGTATACT 59.639 44.000 2.25 0.00 0.00 2.12
1695 2770 6.546403 CAGCTCAGGAGTTACAAGGTATACTA 59.454 42.308 2.25 0.00 0.00 1.82
1697 2772 6.546772 GCTCAGGAGTTACAAGGTATACTACT 59.453 42.308 2.25 0.00 32.00 2.57
1698 2773 7.255208 GCTCAGGAGTTACAAGGTATACTACTC 60.255 44.444 2.25 6.56 29.36 2.59
1699 2774 7.059156 TCAGGAGTTACAAGGTATACTACTCC 58.941 42.308 18.87 18.87 46.63 3.85
1723 2798 6.717084 CCCAACTAAATCTCAAGTTTTCCTCT 59.283 38.462 0.00 0.00 33.72 3.69
1777 2861 1.830477 AGGCTCGCTCAAGAGAAGAAT 59.170 47.619 0.32 0.00 40.57 2.40
1778 2862 2.235898 AGGCTCGCTCAAGAGAAGAATT 59.764 45.455 0.32 0.00 40.57 2.17
1779 2863 3.006247 GGCTCGCTCAAGAGAAGAATTT 58.994 45.455 0.32 0.00 40.57 1.82
1780 2864 3.063316 GGCTCGCTCAAGAGAAGAATTTC 59.937 47.826 0.32 0.00 40.57 2.17
1781 2865 3.241932 GCTCGCTCAAGAGAAGAATTTCG 60.242 47.826 0.32 0.00 40.57 3.46
1782 2866 3.914312 TCGCTCAAGAGAAGAATTTCGT 58.086 40.909 0.32 0.00 38.38 3.85
1783 2867 3.921021 TCGCTCAAGAGAAGAATTTCGTC 59.079 43.478 0.32 4.39 38.38 4.20
1784 2868 3.675225 CGCTCAAGAGAAGAATTTCGTCA 59.325 43.478 13.61 0.00 38.38 4.35
1785 2869 4.150627 CGCTCAAGAGAAGAATTTCGTCAA 59.849 41.667 13.61 0.00 38.38 3.18
1874 2958 7.685849 ATTCCCTAATACTAGTGCCTAACAA 57.314 36.000 5.39 0.00 0.00 2.83
1916 3000 2.939460 AACAAACCGCTATCCATTGC 57.061 45.000 0.00 0.00 0.00 3.56
1934 3018 1.004320 CCAATCAACGTCGGGGTGA 60.004 57.895 0.00 0.00 0.00 4.02
2150 3237 3.144506 CCTTGTCACTGCTTCATCTTGT 58.855 45.455 0.00 0.00 0.00 3.16
2215 3302 5.508994 CCCTACCAAAACTACCTTTTGCAAG 60.509 44.000 0.00 0.00 45.22 4.01
2271 3365 6.238731 CGTGGATAAATAATGAGCCAACATGT 60.239 38.462 0.00 0.00 0.00 3.21
2274 3368 6.421801 GGATAAATAATGAGCCAACATGTTGC 59.578 38.462 29.42 23.70 39.16 4.17
2275 3369 4.804868 AATAATGAGCCAACATGTTGCA 57.195 36.364 29.42 22.45 39.16 4.08
2276 3370 5.347620 AATAATGAGCCAACATGTTGCAT 57.652 34.783 29.42 23.48 39.16 3.96
2324 3422 6.255237 CGAGGATCAATCATTTCCATCTATCG 59.745 42.308 0.00 0.00 33.17 2.92
2429 3533 9.110502 GTTATTTTCTTAACCTACTGGATGGAG 57.889 37.037 0.00 0.00 37.04 3.86
2502 3606 5.573219 TCAGTTCCTTCATCACCAATTCAT 58.427 37.500 0.00 0.00 0.00 2.57
2544 3648 7.716560 TCAGCATCACCGTACTTATTAGTAGTA 59.283 37.037 0.00 0.00 37.53 1.82
2545 3649 8.016229 CAGCATCACCGTACTTATTAGTAGTAG 58.984 40.741 0.00 0.00 37.53 2.57
2546 3650 7.174599 AGCATCACCGTACTTATTAGTAGTAGG 59.825 40.741 0.00 0.03 37.53 3.18
2612 3716 0.251916 TCCTCCAGTATTGTTGCCCG 59.748 55.000 0.00 0.00 0.00 6.13
2624 3728 1.302511 TTGCCCGTCTCTTTCAGCC 60.303 57.895 0.00 0.00 0.00 4.85
2716 3824 2.470999 CCGCACATTTTTCGTTTTCTGG 59.529 45.455 0.00 0.00 0.00 3.86
2723 3831 7.678454 GCACATTTTTCGTTTTCTGGGATTTTT 60.678 33.333 0.00 0.00 0.00 1.94
2750 3858 2.797786 ACTAGTCTCGTGCTCCTTTCT 58.202 47.619 0.00 0.00 0.00 2.52
2866 3974 0.457166 TGCGTACGAAATCCTGACCG 60.457 55.000 21.65 0.00 0.00 4.79
2867 3975 1.749609 GCGTACGAAATCCTGACCGC 61.750 60.000 21.65 0.00 0.00 5.68
2868 3976 1.143969 CGTACGAAATCCTGACCGCC 61.144 60.000 10.44 0.00 0.00 6.13
2869 3977 0.108520 GTACGAAATCCTGACCGCCA 60.109 55.000 0.00 0.00 0.00 5.69
2870 3978 0.108520 TACGAAATCCTGACCGCCAC 60.109 55.000 0.00 0.00 0.00 5.01
3064 4172 7.353497 CAGCTTCTGATCATCATCATGTTAAC 58.647 38.462 0.00 0.00 38.42 2.01
3121 4230 6.655062 TGCAAAATTTGTAACTGACTACTCG 58.345 36.000 7.60 0.00 0.00 4.18
3337 4457 4.384208 GGAAACAGAATTCCTAGCCTAGCA 60.384 45.833 0.65 0.00 44.54 3.49
3346 4466 5.730296 TTCCTAGCCTAGCAGTCATATTC 57.270 43.478 0.00 0.00 0.00 1.75
3347 4467 4.090090 TCCTAGCCTAGCAGTCATATTCC 58.910 47.826 0.00 0.00 0.00 3.01
3348 4468 3.834813 CCTAGCCTAGCAGTCATATTCCA 59.165 47.826 0.00 0.00 0.00 3.53
3349 4469 4.081752 CCTAGCCTAGCAGTCATATTCCAG 60.082 50.000 0.00 0.00 0.00 3.86
3350 4470 2.038295 AGCCTAGCAGTCATATTCCAGC 59.962 50.000 0.00 0.00 0.00 4.85
3351 4471 2.038295 GCCTAGCAGTCATATTCCAGCT 59.962 50.000 0.00 0.00 36.20 4.24
3352 4472 3.864160 GCCTAGCAGTCATATTCCAGCTC 60.864 52.174 0.00 0.00 33.83 4.09
3353 4473 3.577848 CCTAGCAGTCATATTCCAGCTCT 59.422 47.826 0.00 0.00 33.83 4.09
3354 4474 4.040217 CCTAGCAGTCATATTCCAGCTCTT 59.960 45.833 0.00 0.00 33.83 2.85
3355 4475 4.500499 AGCAGTCATATTCCAGCTCTTT 57.500 40.909 0.00 0.00 0.00 2.52
3356 4476 5.620738 AGCAGTCATATTCCAGCTCTTTA 57.379 39.130 0.00 0.00 0.00 1.85
3411 4551 3.202097 TCGTTCACACAAAAGATCAGCA 58.798 40.909 0.00 0.00 0.00 4.41
3531 7340 2.007608 CTGTAGTCAGGATCGTCGTCA 58.992 52.381 0.00 0.00 37.97 4.35
3555 7364 7.952368 TCAGGGAGTATCAATCTAAGATCATCA 59.048 37.037 0.00 0.00 36.25 3.07
3612 7421 2.799126 ACGCAAAGAACCCCATCATA 57.201 45.000 0.00 0.00 0.00 2.15
3984 7799 6.767456 AGAGATCACAGACAAAGACATTTCT 58.233 36.000 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.160635 CCCAAATGGACGCGCGTC 62.161 66.667 45.60 45.60 43.87 5.19
2 3 4.160635 GACCCAAATGGACGCGCG 62.161 66.667 30.96 30.96 37.39 6.86
3 4 3.039202 CTGACCCAAATGGACGCGC 62.039 63.158 5.73 0.00 37.39 6.86
4 5 3.039202 GCTGACCCAAATGGACGCG 62.039 63.158 3.53 3.53 37.39 6.01
5 6 2.877691 GCTGACCCAAATGGACGC 59.122 61.111 0.00 0.66 37.39 5.19
6 7 3.039202 GCGCTGACCCAAATGGACG 62.039 63.158 0.00 0.00 37.39 4.79
7 8 2.877691 GCGCTGACCCAAATGGAC 59.122 61.111 0.00 0.00 37.39 4.02
8 9 2.745884 CGCGCTGACCCAAATGGA 60.746 61.111 5.56 0.00 37.39 3.41
9 10 2.625823 AACGCGCTGACCCAAATGG 61.626 57.895 5.73 0.00 41.37 3.16
10 11 1.442520 CAACGCGCTGACCCAAATG 60.443 57.895 5.73 0.00 0.00 2.32
11 12 2.625823 CCAACGCGCTGACCCAAAT 61.626 57.895 11.83 0.00 0.00 2.32
12 13 3.283684 CCAACGCGCTGACCCAAA 61.284 61.111 11.83 0.00 0.00 3.28
16 17 3.291101 TAGACCCAACGCGCTGACC 62.291 63.158 11.83 0.00 0.00 4.02
17 18 2.092882 GTAGACCCAACGCGCTGAC 61.093 63.158 11.83 2.32 0.00 3.51
18 19 1.812686 AAGTAGACCCAACGCGCTGA 61.813 55.000 11.83 0.00 0.00 4.26
19 20 0.949105 AAAGTAGACCCAACGCGCTG 60.949 55.000 5.73 3.47 0.00 5.18
20 21 0.250166 AAAAGTAGACCCAACGCGCT 60.250 50.000 5.73 0.00 0.00 5.92
21 22 0.110373 CAAAAGTAGACCCAACGCGC 60.110 55.000 5.73 0.00 0.00 6.86
22 23 1.070175 CACAAAAGTAGACCCAACGCG 60.070 52.381 3.53 3.53 0.00 6.01
23 24 1.944709 ACACAAAAGTAGACCCAACGC 59.055 47.619 0.00 0.00 0.00 4.84
24 25 2.546789 GGACACAAAAGTAGACCCAACG 59.453 50.000 0.00 0.00 0.00 4.10
25 26 2.546789 CGGACACAAAAGTAGACCCAAC 59.453 50.000 0.00 0.00 0.00 3.77
26 27 2.171027 ACGGACACAAAAGTAGACCCAA 59.829 45.455 0.00 0.00 0.00 4.12
27 28 1.764134 ACGGACACAAAAGTAGACCCA 59.236 47.619 0.00 0.00 0.00 4.51
28 29 2.140717 CACGGACACAAAAGTAGACCC 58.859 52.381 0.00 0.00 0.00 4.46
29 30 1.529865 GCACGGACACAAAAGTAGACC 59.470 52.381 0.00 0.00 0.00 3.85
30 31 1.529865 GGCACGGACACAAAAGTAGAC 59.470 52.381 0.00 0.00 0.00 2.59
31 32 1.873698 GGCACGGACACAAAAGTAGA 58.126 50.000 0.00 0.00 0.00 2.59
46 47 0.523335 GCGTTCATTTGGATCGGCAC 60.523 55.000 0.00 0.00 38.76 5.01
47 48 1.800032 GCGTTCATTTGGATCGGCA 59.200 52.632 0.00 0.00 38.76 5.69
48 49 4.690159 GCGTTCATTTGGATCGGC 57.310 55.556 0.00 0.00 38.76 5.54
49 50 0.378257 CAGGCGTTCATTTGGATCGG 59.622 55.000 0.00 0.00 38.76 4.18
50 51 0.248215 GCAGGCGTTCATTTGGATCG 60.248 55.000 0.00 0.00 40.76 3.69
51 52 0.248215 CGCAGGCGTTCATTTGGATC 60.248 55.000 5.34 0.00 34.35 3.36
52 53 1.656818 CCGCAGGCGTTCATTTGGAT 61.657 55.000 13.07 0.00 46.14 3.41
53 54 2.331893 CCGCAGGCGTTCATTTGGA 61.332 57.895 13.07 0.00 46.14 3.53
54 55 2.179018 CCGCAGGCGTTCATTTGG 59.821 61.111 13.07 0.00 46.14 3.28
66 67 2.016961 CGACCCATTTCATCCGCAG 58.983 57.895 0.00 0.00 0.00 5.18
67 68 2.112198 GCGACCCATTTCATCCGCA 61.112 57.895 0.00 0.00 41.89 5.69
68 69 2.715624 GCGACCCATTTCATCCGC 59.284 61.111 0.00 0.00 35.91 5.54
69 70 3.420943 GGCGACCCATTTCATCCG 58.579 61.111 0.00 0.00 0.00 4.18
81 82 3.047877 CAACTCCAACGGGGCGAC 61.048 66.667 0.00 0.00 36.21 5.19
84 85 3.056328 GAGCAACTCCAACGGGGC 61.056 66.667 0.00 0.00 36.21 5.80
85 86 0.323629 TAAGAGCAACTCCAACGGGG 59.676 55.000 0.00 0.00 38.37 5.73
86 87 2.403252 ATAAGAGCAACTCCAACGGG 57.597 50.000 0.00 0.00 0.00 5.28
87 88 4.475944 CAAAATAAGAGCAACTCCAACGG 58.524 43.478 0.00 0.00 0.00 4.44
88 89 4.475944 CCAAAATAAGAGCAACTCCAACG 58.524 43.478 0.00 0.00 0.00 4.10
89 90 4.237724 GCCAAAATAAGAGCAACTCCAAC 58.762 43.478 0.00 0.00 0.00 3.77
90 91 3.894427 TGCCAAAATAAGAGCAACTCCAA 59.106 39.130 0.00 0.00 30.97 3.53
91 92 3.495331 TGCCAAAATAAGAGCAACTCCA 58.505 40.909 0.00 0.00 30.97 3.86
92 93 4.519540 TTGCCAAAATAAGAGCAACTCC 57.480 40.909 0.00 0.00 40.13 3.85
96 97 4.662468 TGTGTTGCCAAAATAAGAGCAA 57.338 36.364 0.00 0.00 42.60 3.91
97 98 4.662468 TTGTGTTGCCAAAATAAGAGCA 57.338 36.364 0.00 0.00 0.00 4.26
98 99 6.365050 CAATTTGTGTTGCCAAAATAAGAGC 58.635 36.000 0.00 0.00 37.81 4.09
99 100 6.705381 TCCAATTTGTGTTGCCAAAATAAGAG 59.295 34.615 0.00 0.00 37.81 2.85
100 101 6.586344 TCCAATTTGTGTTGCCAAAATAAGA 58.414 32.000 0.00 0.00 37.81 2.10
101 102 6.857777 TCCAATTTGTGTTGCCAAAATAAG 57.142 33.333 0.00 0.00 37.81 1.73
102 103 6.599244 TGTTCCAATTTGTGTTGCCAAAATAA 59.401 30.769 0.00 0.00 37.81 1.40
103 104 6.115446 TGTTCCAATTTGTGTTGCCAAAATA 58.885 32.000 0.00 0.00 37.81 1.40
104 105 4.946157 TGTTCCAATTTGTGTTGCCAAAAT 59.054 33.333 0.00 0.00 37.81 1.82
105 106 4.326826 TGTTCCAATTTGTGTTGCCAAAA 58.673 34.783 0.00 0.00 37.81 2.44
106 107 3.942829 TGTTCCAATTTGTGTTGCCAAA 58.057 36.364 0.00 0.00 38.58 3.28
107 108 3.616956 TGTTCCAATTTGTGTTGCCAA 57.383 38.095 0.00 0.00 0.00 4.52
108 109 3.616956 TTGTTCCAATTTGTGTTGCCA 57.383 38.095 0.00 0.00 0.00 4.92
109 110 3.064682 GGTTTGTTCCAATTTGTGTTGCC 59.935 43.478 0.00 0.00 0.00 4.52
110 111 3.938334 AGGTTTGTTCCAATTTGTGTTGC 59.062 39.130 0.00 0.00 0.00 4.17
111 112 5.063312 GTCAGGTTTGTTCCAATTTGTGTTG 59.937 40.000 0.00 0.00 0.00 3.33
112 113 5.175127 GTCAGGTTTGTTCCAATTTGTGTT 58.825 37.500 0.00 0.00 0.00 3.32
113 114 4.676723 CGTCAGGTTTGTTCCAATTTGTGT 60.677 41.667 0.00 0.00 0.00 3.72
114 115 3.796178 CGTCAGGTTTGTTCCAATTTGTG 59.204 43.478 0.00 0.00 0.00 3.33
115 116 3.445805 ACGTCAGGTTTGTTCCAATTTGT 59.554 39.130 0.00 0.00 0.00 2.83
116 117 4.040445 ACGTCAGGTTTGTTCCAATTTG 57.960 40.909 0.00 0.00 0.00 2.32
117 118 6.399639 AATACGTCAGGTTTGTTCCAATTT 57.600 33.333 0.00 0.00 0.00 1.82
118 119 6.713450 AGTAATACGTCAGGTTTGTTCCAATT 59.287 34.615 0.00 0.00 0.00 2.32
119 120 6.235664 AGTAATACGTCAGGTTTGTTCCAAT 58.764 36.000 0.00 0.00 0.00 3.16
120 121 5.613329 AGTAATACGTCAGGTTTGTTCCAA 58.387 37.500 0.00 0.00 0.00 3.53
121 122 5.217978 AGTAATACGTCAGGTTTGTTCCA 57.782 39.130 0.00 0.00 0.00 3.53
122 123 5.232463 TGAGTAATACGTCAGGTTTGTTCC 58.768 41.667 0.00 0.00 0.00 3.62
123 124 6.963049 ATGAGTAATACGTCAGGTTTGTTC 57.037 37.500 0.00 0.00 0.00 3.18
124 125 6.932400 TGAATGAGTAATACGTCAGGTTTGTT 59.068 34.615 0.00 0.00 0.00 2.83
125 126 6.460781 TGAATGAGTAATACGTCAGGTTTGT 58.539 36.000 0.00 0.00 0.00 2.83
126 127 6.961359 TGAATGAGTAATACGTCAGGTTTG 57.039 37.500 0.00 0.00 0.00 2.93
127 128 6.475727 CGATGAATGAGTAATACGTCAGGTTT 59.524 38.462 0.00 0.00 0.00 3.27
128 129 5.977725 CGATGAATGAGTAATACGTCAGGTT 59.022 40.000 0.00 0.00 0.00 3.50
129 130 5.298527 TCGATGAATGAGTAATACGTCAGGT 59.701 40.000 0.00 0.00 0.00 4.00
130 131 5.758924 TCGATGAATGAGTAATACGTCAGG 58.241 41.667 0.00 0.00 0.00 3.86
131 132 7.078228 TGATCGATGAATGAGTAATACGTCAG 58.922 38.462 0.54 0.00 0.00 3.51
132 133 6.966021 TGATCGATGAATGAGTAATACGTCA 58.034 36.000 0.54 0.00 0.00 4.35
133 134 7.591795 ACTTGATCGATGAATGAGTAATACGTC 59.408 37.037 0.54 0.00 0.00 4.34
134 135 7.426410 ACTTGATCGATGAATGAGTAATACGT 58.574 34.615 0.54 0.00 0.00 3.57
135 136 7.859613 ACTTGATCGATGAATGAGTAATACG 57.140 36.000 0.54 0.00 0.00 3.06
136 137 9.249457 TCAACTTGATCGATGAATGAGTAATAC 57.751 33.333 0.54 0.00 0.00 1.89
137 138 9.816354 TTCAACTTGATCGATGAATGAGTAATA 57.184 29.630 0.54 0.00 0.00 0.98
138 139 8.607459 GTTCAACTTGATCGATGAATGAGTAAT 58.393 33.333 0.54 0.00 34.62 1.89
139 140 7.201435 CGTTCAACTTGATCGATGAATGAGTAA 60.201 37.037 14.50 0.00 40.81 2.24
140 141 6.253512 CGTTCAACTTGATCGATGAATGAGTA 59.746 38.462 14.50 0.00 40.81 2.59
141 142 5.062683 CGTTCAACTTGATCGATGAATGAGT 59.937 40.000 14.50 0.00 40.81 3.41
142 143 5.289434 TCGTTCAACTTGATCGATGAATGAG 59.711 40.000 17.21 0.00 41.79 2.90
143 144 5.062183 GTCGTTCAACTTGATCGATGAATGA 59.938 40.000 21.80 13.73 46.15 2.57
144 145 5.062683 AGTCGTTCAACTTGATCGATGAATG 59.937 40.000 21.80 6.35 46.15 2.67
145 146 5.171476 AGTCGTTCAACTTGATCGATGAAT 58.829 37.500 21.80 10.37 46.15 2.57
146 147 4.556233 AGTCGTTCAACTTGATCGATGAA 58.444 39.130 21.80 0.00 46.15 2.57
147 148 4.174411 AGTCGTTCAACTTGATCGATGA 57.826 40.909 21.80 0.00 46.15 2.92
148 149 4.385748 TGAAGTCGTTCAACTTGATCGATG 59.614 41.667 21.80 2.48 46.15 3.84
200 201 0.548510 AAATGAGCTAGGCTGGTCCC 59.451 55.000 0.00 0.00 39.88 4.46
202 203 2.170607 TGGTAAATGAGCTAGGCTGGTC 59.829 50.000 0.00 3.19 39.88 4.02
223 224 2.143419 GGGATGACCGGATGAGCCT 61.143 63.158 9.46 0.00 36.97 4.58
224 225 2.143419 AGGGATGACCGGATGAGCC 61.143 63.158 9.46 2.68 46.96 4.70
225 226 1.070445 CAGGGATGACCGGATGAGC 59.930 63.158 9.46 0.00 46.96 4.26
226 227 1.070445 GCAGGGATGACCGGATGAG 59.930 63.158 9.46 0.00 46.96 2.90
227 228 1.056125 ATGCAGGGATGACCGGATGA 61.056 55.000 9.46 0.00 46.96 2.92
232 233 1.439353 CCGAAATGCAGGGATGACCG 61.439 60.000 0.00 0.00 46.96 4.79
267 1276 1.064458 GAGAAGCCTAGGACGCGAC 59.936 63.158 15.93 6.56 0.00 5.19
268 1277 2.119655 GGAGAAGCCTAGGACGCGA 61.120 63.158 15.93 0.00 0.00 5.87
388 1406 3.665745 AGCAAAGCAAAACATTCCGAT 57.334 38.095 0.00 0.00 0.00 4.18
434 1452 3.313526 TCGACCTAGCAAATACGTACTCC 59.686 47.826 0.00 0.00 0.00 3.85
435 1453 4.542662 TCGACCTAGCAAATACGTACTC 57.457 45.455 0.00 0.00 0.00 2.59
436 1454 4.970662 TTCGACCTAGCAAATACGTACT 57.029 40.909 0.00 0.00 0.00 2.73
437 1455 6.292008 GGAATTTCGACCTAGCAAATACGTAC 60.292 42.308 0.00 0.00 0.00 3.67
438 1456 5.750067 GGAATTTCGACCTAGCAAATACGTA 59.250 40.000 0.00 0.00 0.00 3.57
439 1457 4.569564 GGAATTTCGACCTAGCAAATACGT 59.430 41.667 0.00 0.00 0.00 3.57
440 1458 4.569162 TGGAATTTCGACCTAGCAAATACG 59.431 41.667 0.00 0.00 0.00 3.06
441 1459 5.504173 GCTGGAATTTCGACCTAGCAAATAC 60.504 44.000 0.00 0.00 33.73 1.89
442 1460 4.574828 GCTGGAATTTCGACCTAGCAAATA 59.425 41.667 0.00 0.00 33.73 1.40
446 1464 1.277842 TGCTGGAATTTCGACCTAGCA 59.722 47.619 9.24 9.24 37.68 3.49
869 1923 1.152271 ACTCCTCTCCTTTCCCTTGGA 59.848 52.381 0.00 0.00 0.00 3.53
870 1924 1.280421 CACTCCTCTCCTTTCCCTTGG 59.720 57.143 0.00 0.00 0.00 3.61
871 1925 1.280421 CCACTCCTCTCCTTTCCCTTG 59.720 57.143 0.00 0.00 0.00 3.61
981 2036 3.197333 CCATTCACTCACTCCTCACTCAT 59.803 47.826 0.00 0.00 0.00 2.90
1399 2474 3.508840 CTTTCGCCCGGACATGGC 61.509 66.667 0.73 0.00 45.70 4.40
1506 2581 4.020617 CCCACCTGCTTCCTCGCA 62.021 66.667 0.00 0.00 38.40 5.10
1532 2607 1.132500 GATTTGGGGTCTCGAGGGAT 58.868 55.000 13.56 0.00 0.00 3.85
1693 2768 8.622948 AAAACTTGAGATTTAGTTGGGAGTAG 57.377 34.615 0.00 0.00 34.95 2.57
1694 2769 7.664318 GGAAAACTTGAGATTTAGTTGGGAGTA 59.336 37.037 0.00 0.00 34.95 2.59
1695 2770 6.490381 GGAAAACTTGAGATTTAGTTGGGAGT 59.510 38.462 0.00 0.00 34.95 3.85
1697 2772 6.610830 AGGAAAACTTGAGATTTAGTTGGGA 58.389 36.000 0.00 0.00 34.95 4.37
1698 2773 6.717084 AGAGGAAAACTTGAGATTTAGTTGGG 59.283 38.462 0.00 0.00 34.95 4.12
1699 2774 7.445402 TCAGAGGAAAACTTGAGATTTAGTTGG 59.555 37.037 0.00 0.00 34.95 3.77
1778 2862 9.661563 AGAAGTGGTAATAATATTGTTGACGAA 57.338 29.630 7.63 0.00 0.00 3.85
1779 2863 9.661563 AAGAAGTGGTAATAATATTGTTGACGA 57.338 29.630 7.63 0.00 0.00 4.20
1780 2864 9.702726 CAAGAAGTGGTAATAATATTGTTGACG 57.297 33.333 7.63 0.00 0.00 4.35
1783 2867 9.702726 CGACAAGAAGTGGTAATAATATTGTTG 57.297 33.333 7.63 0.00 0.00 3.33
1784 2868 9.661563 TCGACAAGAAGTGGTAATAATATTGTT 57.338 29.630 2.82 2.82 0.00 2.83
1785 2869 9.832445 ATCGACAAGAAGTGGTAATAATATTGT 57.168 29.630 0.00 0.00 0.00 2.71
1867 2951 4.761739 TCAGCAGATTTGTCCTTTGTTAGG 59.238 41.667 0.00 0.00 46.27 2.69
1874 2958 2.300152 TCGTCTCAGCAGATTTGTCCTT 59.700 45.455 0.00 0.00 0.00 3.36
1916 3000 0.392461 ATCACCCCGACGTTGATTGG 60.392 55.000 3.74 4.45 0.00 3.16
1934 3018 0.611618 TTTGGCGCCCACTGATTGAT 60.612 50.000 26.77 0.00 30.78 2.57
2150 3237 9.165035 CATAAGGTAACGGGATAAGTTTTTGTA 57.835 33.333 0.00 0.00 46.39 2.41
2429 3533 4.141937 CCTTCCCAAAGCCCTAATTTTAGC 60.142 45.833 0.00 0.00 0.00 3.09
2502 3606 3.526931 GCTGACTGCATGGTAGAGTAA 57.473 47.619 0.00 0.00 42.31 2.24
2545 3649 4.712829 GGGGAGGAGCTATTATCTTACTCC 59.287 50.000 0.00 0.00 45.99 3.85
2546 3650 5.334421 TGGGGAGGAGCTATTATCTTACTC 58.666 45.833 0.00 0.00 0.00 2.59
2612 3716 2.161211 GCACATCAAGGCTGAAAGAGAC 59.839 50.000 0.00 0.00 34.49 3.36
2624 3728 7.489113 GGATACCAGTAAATTTTGCACATCAAG 59.511 37.037 0.00 0.00 35.84 3.02
2723 3831 3.937706 GGAGCACGAGACTAGTACTACAA 59.062 47.826 0.00 0.00 0.00 2.41
2750 3858 6.824704 TCTTCAGATTTCATGACATGTGCATA 59.175 34.615 14.98 0.00 0.00 3.14
2866 3974 2.137177 TTTCTAGGCAGTGGGGTGGC 62.137 60.000 0.00 0.00 43.28 5.01
2867 3975 0.404040 TTTTCTAGGCAGTGGGGTGG 59.596 55.000 0.00 0.00 0.00 4.61
2868 3976 2.493278 CAATTTTCTAGGCAGTGGGGTG 59.507 50.000 0.00 0.00 0.00 4.61
2869 3977 2.110011 ACAATTTTCTAGGCAGTGGGGT 59.890 45.455 0.00 0.00 0.00 4.95
2870 3978 2.493278 CACAATTTTCTAGGCAGTGGGG 59.507 50.000 0.00 0.00 0.00 4.96
3009 4117 2.358737 CGCCGGAGCTGGTTCTTT 60.359 61.111 5.05 0.00 36.60 2.52
3064 4172 3.326747 GGGCAGTTCAACACTAGTACTG 58.673 50.000 15.49 15.49 35.77 2.74
3326 4446 3.834813 TGGAATATGACTGCTAGGCTAGG 59.165 47.826 22.40 9.69 0.00 3.02
3337 4457 5.957771 TGGTAAAGAGCTGGAATATGACT 57.042 39.130 0.00 0.00 0.00 3.41
3346 4466 2.507471 AGAAGGGATGGTAAAGAGCTGG 59.493 50.000 0.00 0.00 0.00 4.85
3347 4467 3.054802 ACAGAAGGGATGGTAAAGAGCTG 60.055 47.826 0.00 0.00 0.00 4.24
3348 4468 3.185455 ACAGAAGGGATGGTAAAGAGCT 58.815 45.455 0.00 0.00 0.00 4.09
3349 4469 3.055094 TGACAGAAGGGATGGTAAAGAGC 60.055 47.826 0.00 0.00 0.00 4.09
3350 4470 4.826274 TGACAGAAGGGATGGTAAAGAG 57.174 45.455 0.00 0.00 0.00 2.85
3351 4471 5.500234 CAATGACAGAAGGGATGGTAAAGA 58.500 41.667 0.00 0.00 0.00 2.52
3352 4472 4.096984 GCAATGACAGAAGGGATGGTAAAG 59.903 45.833 0.00 0.00 0.00 1.85
3353 4473 4.016444 GCAATGACAGAAGGGATGGTAAA 58.984 43.478 0.00 0.00 0.00 2.01
3354 4474 3.010027 TGCAATGACAGAAGGGATGGTAA 59.990 43.478 0.00 0.00 0.00 2.85
3355 4475 2.575735 TGCAATGACAGAAGGGATGGTA 59.424 45.455 0.00 0.00 0.00 3.25
3356 4476 1.355381 TGCAATGACAGAAGGGATGGT 59.645 47.619 0.00 0.00 0.00 3.55
3531 7340 8.914213 ATGATGATCTTAGATTGATACTCCCT 57.086 34.615 0.00 0.00 0.00 4.20
3612 7421 0.746659 GTTTGCAGCTTGTTCCAGGT 59.253 50.000 0.00 0.00 0.00 4.00
3676 7488 6.663093 TCAATTGGTGGTGCTTATGTTAGATT 59.337 34.615 5.42 0.00 0.00 2.40
3677 7489 6.186957 TCAATTGGTGGTGCTTATGTTAGAT 58.813 36.000 5.42 0.00 0.00 1.98
3984 7799 9.901172 AAAGAAGAAAGTGAAGAAGTAGGTTTA 57.099 29.630 0.00 0.00 0.00 2.01


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

AutoCloner maintained by Alex Coulton.