Multiple sequence alignment - TraesCS6B01G446200

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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 TraesCS6B01G446200 chr6B 100.000 2489 0 0 1 2489 707396691 707394203 0.000000e+00 4597.0
1 TraesCS6B01G446200 chr6B 81.161 775 114 14 1474 2240 405861783 405862533 5.930000e-166 593.0
2 TraesCS6B01G446200 chr6B 78.947 152 19 7 2230 2374 405862466 405862611 9.480000e-15 91.6
3 TraesCS6B01G446200 chr2B 95.153 1011 44 3 1474 2483 579978035 579979041 0.000000e+00 1591.0
4 TraesCS6B01G446200 chr2B 87.792 1155 98 23 162 1303 579961120 579962244 0.000000e+00 1312.0
5 TraesCS6B01G446200 chr2B 90.422 616 57 2 854 1468 358756708 358757322 0.000000e+00 809.0
6 TraesCS6B01G446200 chr2B 95.758 165 7 0 1303 1467 579976455 579976619 1.470000e-67 267.0
7 TraesCS6B01G446200 chr2D 94.574 903 47 1 1480 2382 641118823 641117923 0.000000e+00 1395.0
8 TraesCS6B01G446200 chr2D 83.514 1013 114 26 1474 2454 330864053 330863062 0.000000e+00 896.0
9 TraesCS6B01G446200 chr2D 87.903 248 26 2 165 409 575757493 575757247 3.130000e-74 289.0
10 TraesCS6B01G446200 chr2D 92.793 111 7 1 2378 2487 575757089 575756979 2.560000e-35 159.0
11 TraesCS6B01G446200 chr2D 92.771 83 6 0 2292 2374 575757205 575757123 1.210000e-23 121.0
12 TraesCS6B01G446200 chrUn 94.719 871 35 9 165 1024 358481209 358480339 0.000000e+00 1343.0
13 TraesCS6B01G446200 chrUn 96.203 316 11 1 2175 2489 358479693 358479378 1.320000e-142 516.0
14 TraesCS6B01G446200 chr5B 94.719 871 35 9 165 1024 623209246 623208376 0.000000e+00 1343.0
15 TraesCS6B01G446200 chr5B 94.719 871 35 9 165 1024 623219200 623218330 0.000000e+00 1343.0
16 TraesCS6B01G446200 chr5B 94.719 871 35 9 165 1024 626871501 626870631 0.000000e+00 1343.0
17 TraesCS6B01G446200 chr5B 96.203 316 11 1 2175 2489 623216671 623216356 1.320000e-142 516.0
18 TraesCS6B01G446200 chr5B 96.203 316 11 1 2175 2489 626869985 626869670 1.320000e-142 516.0
19 TraesCS6B01G446200 chr5B 90.769 65 6 0 570 634 694527212 694527148 1.230000e-13 87.9
20 TraesCS6B01G446200 chr3D 91.878 788 55 7 684 1467 148505393 148504611 0.000000e+00 1092.0
21 TraesCS6B01G446200 chr3D 96.273 483 18 0 1480 1962 148503409 148502927 0.000000e+00 793.0
22 TraesCS6B01G446200 chr3D 90.602 532 26 9 1958 2489 148481740 148481233 0.000000e+00 684.0
23 TraesCS6B01G446200 chr3D 85.600 375 47 4 164 531 148515825 148515451 1.080000e-103 387.0
24 TraesCS6B01G446200 chr1B 90.244 615 58 2 854 1468 400359295 400359907 0.000000e+00 802.0
25 TraesCS6B01G446200 chr1A 83.315 887 122 20 1617 2489 35559048 35558174 0.000000e+00 795.0
26 TraesCS6B01G446200 chr1A 86.977 215 25 3 166 380 121139491 121139280 3.200000e-59 239.0
27 TraesCS6B01G446200 chr3B 89.886 613 60 2 854 1466 604141769 604141159 0.000000e+00 787.0
28 TraesCS6B01G446200 chr4B 89.593 615 61 3 854 1468 449517136 449517747 0.000000e+00 778.0
29 TraesCS6B01G446200 chr4B 89.542 612 63 1 854 1465 535284679 535285289 0.000000e+00 774.0
30 TraesCS6B01G446200 chr4B 82.891 754 115 10 1495 2243 428196468 428195724 0.000000e+00 665.0
31 TraesCS6B01G446200 chr7A 89.431 615 64 1 854 1468 297786452 297785839 0.000000e+00 774.0
32 TraesCS6B01G446200 chr7A 86.574 216 23 6 166 380 297787113 297786903 1.490000e-57 233.0
33 TraesCS6B01G446200 chr4D 84.706 765 106 8 1485 2243 145379677 145378918 0.000000e+00 754.0
34 TraesCS6B01G446200 chr4D 83.952 754 107 10 1495 2243 348040789 348040045 0.000000e+00 710.0
35 TraesCS6B01G446200 chr5D 84.575 765 107 8 1482 2240 538687531 538688290 0.000000e+00 749.0
36 TraesCS6B01G446200 chr7D 88.673 618 62 4 856 1468 578490974 578490360 0.000000e+00 747.0
37 TraesCS6B01G446200 chr7D 83.162 487 53 21 460 929 94211389 94210915 3.830000e-113 418.0
38 TraesCS6B01G446200 chr2A 83.355 763 97 16 1488 2239 404905916 404906659 0.000000e+00 678.0
39 TraesCS6B01G446200 chr6A 81.099 619 88 12 1486 2099 360515907 360515313 3.750000e-128 468.0
40 TraesCS6B01G446200 chr1D 87.278 338 35 5 592 929 78088149 78087820 1.810000e-101 379.0


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 TraesCS6B01G446200 chr6B 707394203 707396691 2488 True 4597.0 4597 100.0000 1 2489 1 chr6B.!!$R1 2488
1 TraesCS6B01G446200 chr6B 405861783 405862611 828 False 342.3 593 80.0540 1474 2374 2 chr6B.!!$F1 900
2 TraesCS6B01G446200 chr2B 579961120 579962244 1124 False 1312.0 1312 87.7920 162 1303 1 chr2B.!!$F2 1141
3 TraesCS6B01G446200 chr2B 579976455 579979041 2586 False 929.0 1591 95.4555 1303 2483 2 chr2B.!!$F3 1180
4 TraesCS6B01G446200 chr2B 358756708 358757322 614 False 809.0 809 90.4220 854 1468 1 chr2B.!!$F1 614
5 TraesCS6B01G446200 chr2D 641117923 641118823 900 True 1395.0 1395 94.5740 1480 2382 1 chr2D.!!$R2 902
6 TraesCS6B01G446200 chr2D 330863062 330864053 991 True 896.0 896 83.5140 1474 2454 1 chr2D.!!$R1 980
7 TraesCS6B01G446200 chrUn 358479378 358481209 1831 True 929.5 1343 95.4610 165 2489 2 chrUn.!!$R1 2324
8 TraesCS6B01G446200 chr5B 623208376 623209246 870 True 1343.0 1343 94.7190 165 1024 1 chr5B.!!$R1 859
9 TraesCS6B01G446200 chr5B 623216356 623219200 2844 True 929.5 1343 95.4610 165 2489 2 chr5B.!!$R3 2324
10 TraesCS6B01G446200 chr5B 626869670 626871501 1831 True 929.5 1343 95.4610 165 2489 2 chr5B.!!$R4 2324
11 TraesCS6B01G446200 chr3D 148502927 148505393 2466 True 942.5 1092 94.0755 684 1962 2 chr3D.!!$R3 1278
12 TraesCS6B01G446200 chr3D 148481233 148481740 507 True 684.0 684 90.6020 1958 2489 1 chr3D.!!$R1 531
13 TraesCS6B01G446200 chr1B 400359295 400359907 612 False 802.0 802 90.2440 854 1468 1 chr1B.!!$F1 614
14 TraesCS6B01G446200 chr1A 35558174 35559048 874 True 795.0 795 83.3150 1617 2489 1 chr1A.!!$R1 872
15 TraesCS6B01G446200 chr3B 604141159 604141769 610 True 787.0 787 89.8860 854 1466 1 chr3B.!!$R1 612
16 TraesCS6B01G446200 chr4B 449517136 449517747 611 False 778.0 778 89.5930 854 1468 1 chr4B.!!$F1 614
17 TraesCS6B01G446200 chr4B 535284679 535285289 610 False 774.0 774 89.5420 854 1465 1 chr4B.!!$F2 611
18 TraesCS6B01G446200 chr4B 428195724 428196468 744 True 665.0 665 82.8910 1495 2243 1 chr4B.!!$R1 748
19 TraesCS6B01G446200 chr7A 297785839 297787113 1274 True 503.5 774 88.0025 166 1468 2 chr7A.!!$R1 1302
20 TraesCS6B01G446200 chr4D 145378918 145379677 759 True 754.0 754 84.7060 1485 2243 1 chr4D.!!$R1 758
21 TraesCS6B01G446200 chr4D 348040045 348040789 744 True 710.0 710 83.9520 1495 2243 1 chr4D.!!$R2 748
22 TraesCS6B01G446200 chr5D 538687531 538688290 759 False 749.0 749 84.5750 1482 2240 1 chr5D.!!$F1 758
23 TraesCS6B01G446200 chr7D 578490360 578490974 614 True 747.0 747 88.6730 856 1468 1 chr7D.!!$R2 612
24 TraesCS6B01G446200 chr2A 404905916 404906659 743 False 678.0 678 83.3550 1488 2239 1 chr2A.!!$F1 751
25 TraesCS6B01G446200 chr6A 360515313 360515907 594 True 468.0 468 81.0990 1486 2099 1 chr6A.!!$R1 613

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
163 164 0.034059 CACAGGTGCTCGTTCCTCTT 59.966 55.0 0.0 0.0 30.91 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1652 4791 3.091545 CAAGAAAGGGGCATCAGCTTTA 58.908 45.455 0.0 0.0 41.7 1.85 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
31 32 9.685005 CTCCATTAATTTAAAGTTTCGTACTCG 57.315 33.333 0.00 0.00 35.54 4.18
32 33 9.206870 TCCATTAATTTAAAGTTTCGTACTCGT 57.793 29.630 0.00 0.00 35.54 4.18
33 34 9.257865 CCATTAATTTAAAGTTTCGTACTCGTG 57.742 33.333 0.00 0.00 35.54 4.35
34 35 9.257865 CATTAATTTAAAGTTTCGTACTCGTGG 57.742 33.333 0.00 0.00 35.54 4.94
35 36 4.713854 TTTAAAGTTTCGTACTCGTGGC 57.286 40.909 0.00 0.00 35.54 5.01
36 37 2.521105 AAAGTTTCGTACTCGTGGCT 57.479 45.000 0.00 0.00 35.54 4.75
37 38 1.779569 AAGTTTCGTACTCGTGGCTG 58.220 50.000 0.00 0.00 35.54 4.85
38 39 0.666577 AGTTTCGTACTCGTGGCTGC 60.667 55.000 0.00 0.00 38.33 5.25
39 40 1.373748 TTTCGTACTCGTGGCTGCC 60.374 57.895 12.87 12.87 38.33 4.85
40 41 2.089887 TTTCGTACTCGTGGCTGCCA 62.090 55.000 19.30 19.30 38.33 4.92
41 42 2.486636 TTCGTACTCGTGGCTGCCAG 62.487 60.000 24.10 16.04 38.33 4.85
42 43 2.970639 GTACTCGTGGCTGCCAGA 59.029 61.111 24.10 19.27 32.34 3.86
43 44 1.446272 GTACTCGTGGCTGCCAGAC 60.446 63.158 24.10 10.65 32.34 3.51
44 45 2.989881 TACTCGTGGCTGCCAGACG 61.990 63.158 24.10 22.59 32.34 4.18
55 56 3.357079 CCAGACGCCGCTTGCTTT 61.357 61.111 0.00 0.00 38.05 3.51
56 57 2.639286 CAGACGCCGCTTGCTTTT 59.361 55.556 0.00 0.00 38.05 2.27
57 58 1.727022 CAGACGCCGCTTGCTTTTG 60.727 57.895 0.00 0.00 38.05 2.44
58 59 2.429069 GACGCCGCTTGCTTTTGG 60.429 61.111 0.00 0.00 38.05 3.28
59 60 2.903547 GACGCCGCTTGCTTTTGGA 61.904 57.895 0.00 0.00 38.05 3.53
60 61 2.334653 CGCCGCTTGCTTTTGGAA 59.665 55.556 0.00 0.00 38.05 3.53
61 62 1.299773 CGCCGCTTGCTTTTGGAAA 60.300 52.632 0.00 0.00 38.05 3.13
62 63 0.873743 CGCCGCTTGCTTTTGGAAAA 60.874 50.000 0.00 0.00 38.05 2.29
63 64 0.861185 GCCGCTTGCTTTTGGAAAAG 59.139 50.000 7.39 7.39 46.25 2.27
64 65 1.537990 GCCGCTTGCTTTTGGAAAAGA 60.538 47.619 14.68 0.00 46.39 2.52
65 66 2.820330 CCGCTTGCTTTTGGAAAAGAA 58.180 42.857 14.68 2.41 46.39 2.52
66 67 2.796593 CCGCTTGCTTTTGGAAAAGAAG 59.203 45.455 14.68 14.15 46.39 2.85
67 68 2.219445 CGCTTGCTTTTGGAAAAGAAGC 59.781 45.455 22.70 22.70 46.39 3.86
72 73 2.539688 GCTTTTGGAAAAGAAGCAACCG 59.460 45.455 14.68 0.00 46.39 4.44
73 74 2.880963 TTTGGAAAAGAAGCAACCGG 57.119 45.000 0.00 0.00 0.00 5.28
74 75 1.036707 TTGGAAAAGAAGCAACCGGG 58.963 50.000 6.32 0.00 0.00 5.73
75 76 0.183971 TGGAAAAGAAGCAACCGGGA 59.816 50.000 6.32 0.00 0.00 5.14
76 77 1.324383 GGAAAAGAAGCAACCGGGAA 58.676 50.000 6.32 0.00 0.00 3.97
77 78 1.269723 GGAAAAGAAGCAACCGGGAAG 59.730 52.381 6.32 0.00 0.00 3.46
78 79 0.673985 AAAAGAAGCAACCGGGAAGC 59.326 50.000 6.32 6.67 0.00 3.86
79 80 0.467290 AAAGAAGCAACCGGGAAGCA 60.467 50.000 6.32 0.00 0.00 3.91
80 81 0.251341 AAGAAGCAACCGGGAAGCAT 60.251 50.000 6.32 0.00 0.00 3.79
81 82 0.962356 AGAAGCAACCGGGAAGCATG 60.962 55.000 6.32 0.00 0.00 4.06
82 83 1.937546 GAAGCAACCGGGAAGCATGG 61.938 60.000 6.32 0.00 0.00 3.66
83 84 2.361104 GCAACCGGGAAGCATGGA 60.361 61.111 6.32 0.00 0.00 3.41
84 85 1.976474 GCAACCGGGAAGCATGGAA 60.976 57.895 6.32 0.00 0.00 3.53
85 86 1.531739 GCAACCGGGAAGCATGGAAA 61.532 55.000 6.32 0.00 0.00 3.13
86 87 0.965439 CAACCGGGAAGCATGGAAAA 59.035 50.000 6.32 0.00 0.00 2.29
87 88 0.966179 AACCGGGAAGCATGGAAAAC 59.034 50.000 6.32 0.00 0.00 2.43
88 89 1.241315 ACCGGGAAGCATGGAAAACG 61.241 55.000 6.32 0.00 0.00 3.60
89 90 1.506262 CGGGAAGCATGGAAAACGG 59.494 57.895 0.00 0.00 0.00 4.44
90 91 1.241315 CGGGAAGCATGGAAAACGGT 61.241 55.000 0.00 0.00 0.00 4.83
91 92 0.526211 GGGAAGCATGGAAAACGGTC 59.474 55.000 0.00 0.00 0.00 4.79
92 93 1.243902 GGAAGCATGGAAAACGGTCA 58.756 50.000 0.00 0.00 0.00 4.02
93 94 1.818674 GGAAGCATGGAAAACGGTCAT 59.181 47.619 0.00 0.00 0.00 3.06
94 95 2.415893 GGAAGCATGGAAAACGGTCATG 60.416 50.000 0.00 3.82 40.66 3.07
95 96 1.909700 AGCATGGAAAACGGTCATGT 58.090 45.000 8.69 0.00 40.07 3.21
96 97 1.812571 AGCATGGAAAACGGTCATGTC 59.187 47.619 8.69 0.00 40.07 3.06
97 98 1.812571 GCATGGAAAACGGTCATGTCT 59.187 47.619 8.69 0.00 40.07 3.41
98 99 2.159517 GCATGGAAAACGGTCATGTCTC 60.160 50.000 8.69 0.00 40.07 3.36
99 100 3.338249 CATGGAAAACGGTCATGTCTCT 58.662 45.455 0.00 0.00 35.03 3.10
100 101 2.766313 TGGAAAACGGTCATGTCTCTG 58.234 47.619 0.00 0.00 0.00 3.35
101 102 2.104111 TGGAAAACGGTCATGTCTCTGT 59.896 45.455 0.00 0.00 0.00 3.41
102 103 2.480419 GGAAAACGGTCATGTCTCTGTG 59.520 50.000 0.00 0.00 0.00 3.66
103 104 2.910688 AAACGGTCATGTCTCTGTGT 57.089 45.000 0.00 0.00 0.00 3.72
104 105 2.154854 AACGGTCATGTCTCTGTGTG 57.845 50.000 0.00 0.00 0.00 3.82
105 106 0.318441 ACGGTCATGTCTCTGTGTGG 59.682 55.000 0.00 0.00 0.00 4.17
106 107 0.603065 CGGTCATGTCTCTGTGTGGA 59.397 55.000 0.00 0.00 0.00 4.02
107 108 1.670087 CGGTCATGTCTCTGTGTGGAC 60.670 57.143 0.00 0.00 0.00 4.02
108 109 1.670087 GGTCATGTCTCTGTGTGGACG 60.670 57.143 0.00 0.00 35.45 4.79
109 110 0.603065 TCATGTCTCTGTGTGGACGG 59.397 55.000 0.00 0.00 35.45 4.79
110 111 0.390340 CATGTCTCTGTGTGGACGGG 60.390 60.000 0.00 0.00 35.45 5.28
111 112 0.541998 ATGTCTCTGTGTGGACGGGA 60.542 55.000 0.00 0.00 35.45 5.14
112 113 1.179174 TGTCTCTGTGTGGACGGGAG 61.179 60.000 0.00 0.00 35.45 4.30
113 114 2.262915 CTCTGTGTGGACGGGAGC 59.737 66.667 0.00 0.00 0.00 4.70
114 115 2.523168 TCTGTGTGGACGGGAGCA 60.523 61.111 0.00 0.00 0.00 4.26
115 116 2.099652 CTCTGTGTGGACGGGAGCAA 62.100 60.000 0.00 0.00 0.00 3.91
116 117 1.227823 CTGTGTGGACGGGAGCAAA 60.228 57.895 0.00 0.00 0.00 3.68
117 118 1.507141 CTGTGTGGACGGGAGCAAAC 61.507 60.000 0.00 0.00 0.00 2.93
118 119 2.280524 TGTGGACGGGAGCAAACG 60.281 61.111 0.00 0.00 0.00 3.60
119 120 2.029964 GTGGACGGGAGCAAACGA 59.970 61.111 0.00 0.00 0.00 3.85
120 121 1.595929 GTGGACGGGAGCAAACGAA 60.596 57.895 0.00 0.00 0.00 3.85
121 122 1.146485 TGGACGGGAGCAAACGAAA 59.854 52.632 0.00 0.00 0.00 3.46
122 123 1.161563 TGGACGGGAGCAAACGAAAC 61.162 55.000 0.00 0.00 0.00 2.78
123 124 1.203313 GACGGGAGCAAACGAAACG 59.797 57.895 0.00 0.00 0.00 3.60
124 125 1.216941 GACGGGAGCAAACGAAACGA 61.217 55.000 0.00 0.00 0.00 3.85
125 126 1.203313 CGGGAGCAAACGAAACGAC 59.797 57.895 0.00 0.00 0.00 4.34
126 127 1.572941 GGGAGCAAACGAAACGACC 59.427 57.895 0.00 0.00 0.00 4.79
127 128 1.161563 GGGAGCAAACGAAACGACCA 61.162 55.000 0.00 0.00 0.00 4.02
128 129 0.041576 GGAGCAAACGAAACGACCAC 60.042 55.000 0.00 0.00 0.00 4.16
129 130 0.935196 GAGCAAACGAAACGACCACT 59.065 50.000 0.00 0.00 0.00 4.00
130 131 0.655733 AGCAAACGAAACGACCACTG 59.344 50.000 0.00 0.00 0.00 3.66
131 132 0.375803 GCAAACGAAACGACCACTGT 59.624 50.000 0.00 0.00 0.00 3.55
132 133 1.202098 GCAAACGAAACGACCACTGTT 60.202 47.619 0.00 0.00 0.00 3.16
133 134 2.729778 GCAAACGAAACGACCACTGTTT 60.730 45.455 0.00 0.00 41.94 2.83
134 135 3.494232 CAAACGAAACGACCACTGTTTT 58.506 40.909 0.00 0.00 39.51 2.43
135 136 4.649977 CAAACGAAACGACCACTGTTTTA 58.350 39.130 0.00 0.00 39.51 1.52
136 137 3.931285 ACGAAACGACCACTGTTTTAC 57.069 42.857 0.00 0.00 39.51 2.01
137 138 3.524541 ACGAAACGACCACTGTTTTACT 58.475 40.909 0.00 0.00 39.51 2.24
138 139 3.553105 ACGAAACGACCACTGTTTTACTC 59.447 43.478 0.00 0.00 39.51 2.59
139 140 3.361339 CGAAACGACCACTGTTTTACTCG 60.361 47.826 0.00 0.00 39.51 4.18
140 141 1.494824 ACGACCACTGTTTTACTCGC 58.505 50.000 0.00 0.00 0.00 5.03
141 142 1.068127 ACGACCACTGTTTTACTCGCT 59.932 47.619 0.00 0.00 0.00 4.93
142 143 1.455786 CGACCACTGTTTTACTCGCTG 59.544 52.381 0.00 0.00 0.00 5.18
143 144 2.480845 GACCACTGTTTTACTCGCTGT 58.519 47.619 0.00 0.00 0.00 4.40
144 145 2.475487 GACCACTGTTTTACTCGCTGTC 59.525 50.000 0.00 0.00 0.00 3.51
145 146 2.159014 ACCACTGTTTTACTCGCTGTCA 60.159 45.455 0.00 0.00 0.00 3.58
146 147 2.221055 CCACTGTTTTACTCGCTGTCAC 59.779 50.000 0.00 0.00 0.00 3.67
147 148 2.863740 CACTGTTTTACTCGCTGTCACA 59.136 45.455 0.00 0.00 0.00 3.58
148 149 3.060272 CACTGTTTTACTCGCTGTCACAG 60.060 47.826 0.00 0.00 37.36 3.66
149 150 2.476619 CTGTTTTACTCGCTGTCACAGG 59.523 50.000 7.00 0.00 32.25 4.00
150 151 2.159014 TGTTTTACTCGCTGTCACAGGT 60.159 45.455 7.00 0.00 31.21 4.00
151 152 2.148916 TTTACTCGCTGTCACAGGTG 57.851 50.000 7.00 0.64 31.21 4.00
152 153 0.319555 TTACTCGCTGTCACAGGTGC 60.320 55.000 7.00 0.00 31.21 5.01
153 154 1.179174 TACTCGCTGTCACAGGTGCT 61.179 55.000 7.00 0.00 31.21 4.40
154 155 1.735920 CTCGCTGTCACAGGTGCTC 60.736 63.158 7.00 0.00 31.21 4.26
155 156 3.108289 CGCTGTCACAGGTGCTCG 61.108 66.667 7.00 0.00 31.21 5.03
156 157 2.029666 GCTGTCACAGGTGCTCGT 59.970 61.111 7.00 0.00 31.21 4.18
157 158 1.595382 GCTGTCACAGGTGCTCGTT 60.595 57.895 7.00 0.00 31.21 3.85
158 159 1.560860 GCTGTCACAGGTGCTCGTTC 61.561 60.000 7.00 0.00 31.21 3.95
159 160 0.946221 CTGTCACAGGTGCTCGTTCC 60.946 60.000 0.00 0.00 0.00 3.62
160 161 1.367840 GTCACAGGTGCTCGTTCCT 59.632 57.895 0.00 0.00 33.96 3.36
161 162 0.667792 GTCACAGGTGCTCGTTCCTC 60.668 60.000 0.00 0.00 30.91 3.71
162 163 0.827925 TCACAGGTGCTCGTTCCTCT 60.828 55.000 0.00 0.00 30.91 3.69
163 164 0.034059 CACAGGTGCTCGTTCCTCTT 59.966 55.000 0.00 0.00 30.91 2.85
209 210 1.077787 GCCGGAATGTCATGGGTCA 60.078 57.895 5.05 0.00 0.00 4.02
210 211 0.679640 GCCGGAATGTCATGGGTCAA 60.680 55.000 5.05 0.00 0.00 3.18
214 215 2.807676 GGAATGTCATGGGTCAAACCT 58.192 47.619 0.00 0.00 38.64 3.50
277 278 2.294132 GAACCCACTCGTCCCCGATC 62.294 65.000 0.00 0.00 43.27 3.69
531 614 2.123077 CCCTCTCCCTCGCTCCAT 60.123 66.667 0.00 0.00 0.00 3.41
533 616 1.152567 CCTCTCCCTCGCTCCATCT 60.153 63.158 0.00 0.00 0.00 2.90
534 617 1.178534 CCTCTCCCTCGCTCCATCTC 61.179 65.000 0.00 0.00 0.00 2.75
535 618 1.152652 TCTCCCTCGCTCCATCTCC 60.153 63.158 0.00 0.00 0.00 3.71
536 619 1.152567 CTCCCTCGCTCCATCTCCT 60.153 63.158 0.00 0.00 0.00 3.69
537 620 1.456518 TCCCTCGCTCCATCTCCTG 60.457 63.158 0.00 0.00 0.00 3.86
538 621 2.420890 CCTCGCTCCATCTCCTGC 59.579 66.667 0.00 0.00 0.00 4.85
539 622 2.429767 CCTCGCTCCATCTCCTGCA 61.430 63.158 0.00 0.00 0.00 4.41
540 623 1.227205 CTCGCTCCATCTCCTGCAC 60.227 63.158 0.00 0.00 0.00 4.57
541 624 1.953231 CTCGCTCCATCTCCTGCACA 61.953 60.000 0.00 0.00 0.00 4.57
542 625 1.521010 CGCTCCATCTCCTGCACAG 60.521 63.158 0.00 0.00 0.00 3.66
543 626 1.818785 GCTCCATCTCCTGCACAGC 60.819 63.158 0.00 0.00 0.00 4.40
544 627 1.153208 CTCCATCTCCTGCACAGCC 60.153 63.158 0.00 0.00 0.00 4.85
545 628 2.124403 CCATCTCCTGCACAGCCC 60.124 66.667 0.00 0.00 0.00 5.19
546 629 2.677289 CCATCTCCTGCACAGCCCT 61.677 63.158 0.00 0.00 0.00 5.19
547 630 1.153208 CATCTCCTGCACAGCCCTC 60.153 63.158 0.00 0.00 0.00 4.30
548 631 2.729479 ATCTCCTGCACAGCCCTCG 61.729 63.158 0.00 0.00 0.00 4.63
554 637 4.479993 GCACAGCCCTCGCTCCAT 62.480 66.667 0.00 0.00 43.95 3.41
555 638 2.202987 CACAGCCCTCGCTCCATC 60.203 66.667 0.00 0.00 43.95 3.51
567 650 1.521010 CTCCATCTCCTGCACAGCG 60.521 63.158 0.00 0.00 0.00 5.18
599 682 1.153745 GCTCCAGATCTTGCGTCGT 60.154 57.895 0.00 0.00 0.00 4.34
731 892 1.153565 AGGGTACAAGGGGAAGAAGGA 59.846 52.381 0.00 0.00 0.00 3.36
757 918 4.746466 AGGAGAGAACAAGGAGAAGAAGA 58.254 43.478 0.00 0.00 0.00 2.87
759 920 4.282195 GGAGAGAACAAGGAGAAGAAGACA 59.718 45.833 0.00 0.00 0.00 3.41
957 1121 5.221880 TCTTTGCAATATATGGCGATTTGC 58.778 37.500 7.59 9.02 42.23 3.68
1005 1174 8.900781 CAATTGTAGATGGTCAAGAAGATGAAT 58.099 33.333 0.00 0.00 0.00 2.57
1151 2879 7.678837 AGAGATCAGGTCAGATTTGATTATCC 58.321 38.462 0.00 0.00 35.39 2.59
1242 2970 1.672737 CGCTTGTGTGGCATACTGAGA 60.673 52.381 15.56 0.00 0.00 3.27
1246 2974 4.442052 GCTTGTGTGGCATACTGAGAGATA 60.442 45.833 15.56 0.00 0.00 1.98
1248 2976 3.638627 TGTGTGGCATACTGAGAGATAGG 59.361 47.826 15.56 0.00 0.00 2.57
1254 2982 5.162980 TGGCATACTGAGAGATAGGGAGTTA 60.163 44.000 0.00 0.00 0.00 2.24
1320 3048 6.034470 CGATGTTTTTACATACAATTGGGCAC 59.966 38.462 10.83 0.00 0.00 5.01
1396 3124 6.190587 ACCAGCATCTATTTTAGAAAGGCTT 58.809 36.000 0.00 0.00 38.12 4.35
1421 3149 0.664767 GCCATAGGCGAGCTTCGTAG 60.665 60.000 7.27 0.00 42.81 3.51
1468 3196 0.320683 GACCCCTGCCAAAATTGCAC 60.321 55.000 0.00 0.00 34.46 4.57
1469 3197 1.053264 ACCCCTGCCAAAATTGCACA 61.053 50.000 0.00 0.00 34.46 4.57
1471 3199 1.271488 CCCCTGCCAAAATTGCACAAT 60.271 47.619 0.00 0.00 34.46 2.71
1472 3200 2.506444 CCCTGCCAAAATTGCACAATT 58.494 42.857 2.77 2.77 42.35 2.32
1476 4613 3.745332 GCCAAAATTGCACAATTAGGC 57.255 42.857 24.49 24.49 45.74 3.93
1602 4740 9.901172 TCTAATGCTATGAAATGATATCATGCT 57.099 29.630 18.85 9.39 38.01 3.79
2054 5201 3.753815 TGCTCATCTTGTTGACAATCCA 58.246 40.909 0.00 0.00 35.02 3.41
2329 5540 2.492088 GTGGCAAATGAACTTCCTACCC 59.508 50.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 9.685005 CGAGTACGAAACTTTAAATTAATGGAG 57.315 33.333 0.00 0.00 39.07 3.86
6 7 9.206870 ACGAGTACGAAACTTTAAATTAATGGA 57.793 29.630 0.00 0.00 39.07 3.41
7 8 9.257865 CACGAGTACGAAACTTTAAATTAATGG 57.742 33.333 0.00 0.00 39.07 3.16
8 9 9.257865 CCACGAGTACGAAACTTTAAATTAATG 57.742 33.333 0.00 0.00 39.07 1.90
9 10 7.959109 GCCACGAGTACGAAACTTTAAATTAAT 59.041 33.333 0.00 0.00 39.07 1.40
10 11 7.171337 AGCCACGAGTACGAAACTTTAAATTAA 59.829 33.333 0.00 0.00 39.07 1.40
11 12 6.646240 AGCCACGAGTACGAAACTTTAAATTA 59.354 34.615 0.00 0.00 39.07 1.40
12 13 5.467735 AGCCACGAGTACGAAACTTTAAATT 59.532 36.000 0.00 0.00 39.07 1.82
13 14 4.992951 AGCCACGAGTACGAAACTTTAAAT 59.007 37.500 0.00 0.00 39.07 1.40
14 15 4.209703 CAGCCACGAGTACGAAACTTTAAA 59.790 41.667 0.00 0.00 39.07 1.52
15 16 3.737266 CAGCCACGAGTACGAAACTTTAA 59.263 43.478 0.00 0.00 39.07 1.52
16 17 3.311106 CAGCCACGAGTACGAAACTTTA 58.689 45.455 0.00 0.00 39.07 1.85
17 18 2.132762 CAGCCACGAGTACGAAACTTT 58.867 47.619 0.00 0.00 39.07 2.66
18 19 1.779569 CAGCCACGAGTACGAAACTT 58.220 50.000 0.00 0.00 39.07 2.66
19 20 0.666577 GCAGCCACGAGTACGAAACT 60.667 55.000 0.00 0.00 42.80 2.66
20 21 1.623973 GGCAGCCACGAGTACGAAAC 61.624 60.000 6.55 0.00 42.66 2.78
21 22 1.373748 GGCAGCCACGAGTACGAAA 60.374 57.895 6.55 0.00 42.66 3.46
22 23 2.260434 GGCAGCCACGAGTACGAA 59.740 61.111 6.55 0.00 42.66 3.85
23 24 2.986979 TGGCAGCCACGAGTACGA 60.987 61.111 11.22 0.00 42.66 3.43
24 25 2.507102 CTGGCAGCCACGAGTACG 60.507 66.667 11.22 0.00 45.75 3.67
25 26 1.446272 GTCTGGCAGCCACGAGTAC 60.446 63.158 11.22 0.05 0.00 2.73
26 27 2.970639 GTCTGGCAGCCACGAGTA 59.029 61.111 11.22 0.00 0.00 2.59
27 28 4.363990 CGTCTGGCAGCCACGAGT 62.364 66.667 20.33 0.00 0.00 4.18
44 45 0.861185 CTTTTCCAAAAGCAAGCGGC 59.139 50.000 0.00 0.00 38.95 6.53
45 46 2.507339 TCTTTTCCAAAAGCAAGCGG 57.493 45.000 6.88 0.00 43.85 5.52
46 47 2.219445 GCTTCTTTTCCAAAAGCAAGCG 59.781 45.455 20.63 6.98 43.85 4.68
47 48 3.867055 GCTTCTTTTCCAAAAGCAAGC 57.133 42.857 20.63 20.63 43.85 4.01
51 52 2.539688 CGGTTGCTTCTTTTCCAAAAGC 59.460 45.455 6.88 0.00 43.85 3.51
52 53 3.123050 CCGGTTGCTTCTTTTCCAAAAG 58.877 45.455 5.56 5.56 45.17 2.27
53 54 2.159028 CCCGGTTGCTTCTTTTCCAAAA 60.159 45.455 0.00 0.00 0.00 2.44
54 55 1.410882 CCCGGTTGCTTCTTTTCCAAA 59.589 47.619 0.00 0.00 0.00 3.28
55 56 1.036707 CCCGGTTGCTTCTTTTCCAA 58.963 50.000 0.00 0.00 0.00 3.53
56 57 0.183971 TCCCGGTTGCTTCTTTTCCA 59.816 50.000 0.00 0.00 0.00 3.53
57 58 1.269723 CTTCCCGGTTGCTTCTTTTCC 59.730 52.381 0.00 0.00 0.00 3.13
58 59 1.335964 GCTTCCCGGTTGCTTCTTTTC 60.336 52.381 0.00 0.00 0.00 2.29
59 60 0.673985 GCTTCCCGGTTGCTTCTTTT 59.326 50.000 0.00 0.00 0.00 2.27
60 61 0.467290 TGCTTCCCGGTTGCTTCTTT 60.467 50.000 0.00 0.00 0.00 2.52
61 62 0.251341 ATGCTTCCCGGTTGCTTCTT 60.251 50.000 0.00 0.00 0.00 2.52
62 63 0.962356 CATGCTTCCCGGTTGCTTCT 60.962 55.000 0.00 0.00 0.00 2.85
63 64 1.508088 CATGCTTCCCGGTTGCTTC 59.492 57.895 0.00 0.00 0.00 3.86
64 65 1.978617 CCATGCTTCCCGGTTGCTT 60.979 57.895 0.00 0.00 0.00 3.91
65 66 2.361610 CCATGCTTCCCGGTTGCT 60.362 61.111 0.00 0.00 0.00 3.91
66 67 1.531739 TTTCCATGCTTCCCGGTTGC 61.532 55.000 0.00 1.72 0.00 4.17
67 68 0.965439 TTTTCCATGCTTCCCGGTTG 59.035 50.000 0.00 0.00 0.00 3.77
68 69 0.966179 GTTTTCCATGCTTCCCGGTT 59.034 50.000 0.00 0.00 0.00 4.44
69 70 1.241315 CGTTTTCCATGCTTCCCGGT 61.241 55.000 0.00 0.00 0.00 5.28
70 71 1.506262 CGTTTTCCATGCTTCCCGG 59.494 57.895 0.00 0.00 0.00 5.73
71 72 1.241315 ACCGTTTTCCATGCTTCCCG 61.241 55.000 0.00 0.00 0.00 5.14
72 73 0.526211 GACCGTTTTCCATGCTTCCC 59.474 55.000 0.00 0.00 0.00 3.97
73 74 1.243902 TGACCGTTTTCCATGCTTCC 58.756 50.000 0.00 0.00 0.00 3.46
74 75 2.228822 ACATGACCGTTTTCCATGCTTC 59.771 45.455 0.00 0.00 40.81 3.86
75 76 2.228822 GACATGACCGTTTTCCATGCTT 59.771 45.455 0.00 0.00 40.81 3.91
76 77 1.812571 GACATGACCGTTTTCCATGCT 59.187 47.619 0.00 0.00 40.81 3.79
77 78 1.812571 AGACATGACCGTTTTCCATGC 59.187 47.619 0.00 0.00 40.81 4.06
78 79 3.125829 CAGAGACATGACCGTTTTCCATG 59.874 47.826 0.00 0.00 42.32 3.66
79 80 3.244561 ACAGAGACATGACCGTTTTCCAT 60.245 43.478 0.00 0.00 0.00 3.41
80 81 2.104111 ACAGAGACATGACCGTTTTCCA 59.896 45.455 0.00 0.00 0.00 3.53
81 82 2.480419 CACAGAGACATGACCGTTTTCC 59.520 50.000 0.00 0.00 0.00 3.13
82 83 3.059597 CACACAGAGACATGACCGTTTTC 60.060 47.826 0.00 0.00 0.00 2.29
83 84 2.872245 CACACAGAGACATGACCGTTTT 59.128 45.455 0.00 0.00 0.00 2.43
84 85 2.483876 CACACAGAGACATGACCGTTT 58.516 47.619 0.00 0.00 0.00 3.60
85 86 1.270305 CCACACAGAGACATGACCGTT 60.270 52.381 0.00 0.00 0.00 4.44
86 87 0.318441 CCACACAGAGACATGACCGT 59.682 55.000 0.00 0.00 0.00 4.83
87 88 0.603065 TCCACACAGAGACATGACCG 59.397 55.000 0.00 0.00 0.00 4.79
88 89 1.670087 CGTCCACACAGAGACATGACC 60.670 57.143 0.00 0.00 33.08 4.02
89 90 1.670087 CCGTCCACACAGAGACATGAC 60.670 57.143 0.00 0.00 33.08 3.06
90 91 0.603065 CCGTCCACACAGAGACATGA 59.397 55.000 0.00 0.00 33.08 3.07
91 92 0.390340 CCCGTCCACACAGAGACATG 60.390 60.000 0.00 0.00 33.08 3.21
92 93 0.541998 TCCCGTCCACACAGAGACAT 60.542 55.000 0.00 0.00 33.08 3.06
93 94 1.152631 TCCCGTCCACACAGAGACA 60.153 57.895 0.00 0.00 33.08 3.41
94 95 1.587054 CTCCCGTCCACACAGAGAC 59.413 63.158 0.00 0.00 0.00 3.36
95 96 2.276116 GCTCCCGTCCACACAGAGA 61.276 63.158 0.00 0.00 0.00 3.10
96 97 2.099652 TTGCTCCCGTCCACACAGAG 62.100 60.000 0.00 0.00 0.00 3.35
97 98 1.691195 TTTGCTCCCGTCCACACAGA 61.691 55.000 0.00 0.00 0.00 3.41
98 99 1.227823 TTTGCTCCCGTCCACACAG 60.228 57.895 0.00 0.00 0.00 3.66
99 100 1.525077 GTTTGCTCCCGTCCACACA 60.525 57.895 0.00 0.00 0.00 3.72
100 101 2.604174 CGTTTGCTCCCGTCCACAC 61.604 63.158 0.00 0.00 0.00 3.82
101 102 2.280524 CGTTTGCTCCCGTCCACA 60.281 61.111 0.00 0.00 0.00 4.17
102 103 1.161563 TTTCGTTTGCTCCCGTCCAC 61.162 55.000 0.00 0.00 0.00 4.02
103 104 1.146485 TTTCGTTTGCTCCCGTCCA 59.854 52.632 0.00 0.00 0.00 4.02
104 105 1.572941 GTTTCGTTTGCTCCCGTCC 59.427 57.895 0.00 0.00 0.00 4.79
105 106 1.203313 CGTTTCGTTTGCTCCCGTC 59.797 57.895 0.00 0.00 0.00 4.79
106 107 1.227321 TCGTTTCGTTTGCTCCCGT 60.227 52.632 0.00 0.00 0.00 5.28
107 108 1.203313 GTCGTTTCGTTTGCTCCCG 59.797 57.895 0.00 0.00 0.00 5.14
108 109 1.161563 TGGTCGTTTCGTTTGCTCCC 61.162 55.000 0.00 0.00 0.00 4.30
109 110 0.041576 GTGGTCGTTTCGTTTGCTCC 60.042 55.000 0.00 0.00 0.00 4.70
110 111 0.935196 AGTGGTCGTTTCGTTTGCTC 59.065 50.000 0.00 0.00 0.00 4.26
111 112 0.655733 CAGTGGTCGTTTCGTTTGCT 59.344 50.000 0.00 0.00 0.00 3.91
112 113 0.375803 ACAGTGGTCGTTTCGTTTGC 59.624 50.000 0.00 0.00 0.00 3.68
113 114 2.817538 AACAGTGGTCGTTTCGTTTG 57.182 45.000 0.00 0.00 0.00 2.93
114 115 3.835378 AAAACAGTGGTCGTTTCGTTT 57.165 38.095 0.00 0.00 35.57 3.60
115 116 3.934579 AGTAAAACAGTGGTCGTTTCGTT 59.065 39.130 0.00 0.00 35.57 3.85
116 117 3.524541 AGTAAAACAGTGGTCGTTTCGT 58.475 40.909 0.00 0.00 35.57 3.85
117 118 3.361339 CGAGTAAAACAGTGGTCGTTTCG 60.361 47.826 0.00 0.00 35.57 3.46
118 119 3.603173 GCGAGTAAAACAGTGGTCGTTTC 60.603 47.826 0.00 0.00 35.57 2.78
119 120 2.286025 GCGAGTAAAACAGTGGTCGTTT 59.714 45.455 0.00 0.00 38.19 3.60
120 121 1.862827 GCGAGTAAAACAGTGGTCGTT 59.137 47.619 0.00 0.00 0.00 3.85
121 122 1.068127 AGCGAGTAAAACAGTGGTCGT 59.932 47.619 0.00 0.00 0.00 4.34
122 123 1.455786 CAGCGAGTAAAACAGTGGTCG 59.544 52.381 0.00 0.00 0.00 4.79
123 124 2.475487 GACAGCGAGTAAAACAGTGGTC 59.525 50.000 0.00 0.00 0.00 4.02
124 125 2.159014 TGACAGCGAGTAAAACAGTGGT 60.159 45.455 0.00 0.00 0.00 4.16
125 126 2.221055 GTGACAGCGAGTAAAACAGTGG 59.779 50.000 0.00 0.00 0.00 4.00
126 127 2.863740 TGTGACAGCGAGTAAAACAGTG 59.136 45.455 0.00 0.00 0.00 3.66
127 128 3.123804 CTGTGACAGCGAGTAAAACAGT 58.876 45.455 0.00 0.00 34.23 3.55
128 129 2.476619 CCTGTGACAGCGAGTAAAACAG 59.523 50.000 7.16 11.75 36.63 3.16
129 130 2.159014 ACCTGTGACAGCGAGTAAAACA 60.159 45.455 7.16 0.00 0.00 2.83
130 131 2.221055 CACCTGTGACAGCGAGTAAAAC 59.779 50.000 7.16 0.00 0.00 2.43
131 132 2.479837 CACCTGTGACAGCGAGTAAAA 58.520 47.619 7.16 0.00 0.00 1.52
132 133 1.872237 GCACCTGTGACAGCGAGTAAA 60.872 52.381 7.16 0.00 0.00 2.01
133 134 0.319555 GCACCTGTGACAGCGAGTAA 60.320 55.000 7.16 0.00 0.00 2.24
134 135 1.179174 AGCACCTGTGACAGCGAGTA 61.179 55.000 7.16 0.00 0.00 2.59
135 136 2.029666 GCACCTGTGACAGCGAGT 59.970 61.111 7.16 0.00 0.00 4.18
136 137 1.735920 GAGCACCTGTGACAGCGAG 60.736 63.158 7.16 0.00 0.00 5.03
137 138 2.340078 GAGCACCTGTGACAGCGA 59.660 61.111 7.16 0.00 0.00 4.93
138 139 3.108289 CGAGCACCTGTGACAGCG 61.108 66.667 7.16 0.81 0.00 5.18
139 140 1.560860 GAACGAGCACCTGTGACAGC 61.561 60.000 7.16 0.00 0.00 4.40
140 141 0.946221 GGAACGAGCACCTGTGACAG 60.946 60.000 5.42 5.42 0.00 3.51
141 142 1.069090 GGAACGAGCACCTGTGACA 59.931 57.895 0.51 0.00 0.00 3.58
142 143 0.667792 GAGGAACGAGCACCTGTGAC 60.668 60.000 0.51 0.00 36.57 3.67
143 144 0.827925 AGAGGAACGAGCACCTGTGA 60.828 55.000 0.51 0.00 36.57 3.58
144 145 0.034059 AAGAGGAACGAGCACCTGTG 59.966 55.000 0.00 0.00 36.57 3.66
145 146 0.759346 AAAGAGGAACGAGCACCTGT 59.241 50.000 0.00 0.00 36.57 4.00
146 147 1.884235 AAAAGAGGAACGAGCACCTG 58.116 50.000 0.00 0.00 36.57 4.00
147 148 3.320673 CTAAAAGAGGAACGAGCACCT 57.679 47.619 0.00 0.00 39.41 4.00
158 159 3.562182 ACCAAACACACCCTAAAAGAGG 58.438 45.455 0.00 0.00 46.25 3.69
159 160 4.401202 ACAACCAAACACACCCTAAAAGAG 59.599 41.667 0.00 0.00 0.00 2.85
160 161 4.345854 ACAACCAAACACACCCTAAAAGA 58.654 39.130 0.00 0.00 0.00 2.52
161 162 4.729227 ACAACCAAACACACCCTAAAAG 57.271 40.909 0.00 0.00 0.00 2.27
162 163 5.262804 ACTACAACCAAACACACCCTAAAA 58.737 37.500 0.00 0.00 0.00 1.52
163 164 4.857679 ACTACAACCAAACACACCCTAAA 58.142 39.130 0.00 0.00 0.00 1.85
209 210 5.222048 TGGAATGAAGCCTAGTAACAGGTTT 60.222 40.000 0.00 0.00 41.34 3.27
210 211 4.288626 TGGAATGAAGCCTAGTAACAGGTT 59.711 41.667 0.00 0.00 38.05 3.50
214 215 3.678806 CGCTGGAATGAAGCCTAGTAACA 60.679 47.826 0.00 0.00 37.37 2.41
244 245 2.613506 GGTTCTGTTCCGGTTGGCG 61.614 63.158 0.00 0.00 34.14 5.69
416 424 4.095400 GGGAGGGAGAGGGCTGGA 62.095 72.222 0.00 0.00 0.00 3.86
531 614 3.385384 CGAGGGCTGTGCAGGAGA 61.385 66.667 1.11 0.00 0.00 3.71
542 625 2.841988 AGGAGATGGAGCGAGGGC 60.842 66.667 0.00 0.00 40.37 5.19
543 626 3.136750 CAGGAGATGGAGCGAGGG 58.863 66.667 0.00 0.00 0.00 4.30
544 627 2.420890 GCAGGAGATGGAGCGAGG 59.579 66.667 0.00 0.00 0.00 4.63
545 628 1.227205 GTGCAGGAGATGGAGCGAG 60.227 63.158 0.00 0.00 0.00 5.03
546 629 1.953231 CTGTGCAGGAGATGGAGCGA 61.953 60.000 0.00 0.00 0.00 4.93
547 630 1.521010 CTGTGCAGGAGATGGAGCG 60.521 63.158 0.00 0.00 0.00 5.03
548 631 1.818785 GCTGTGCAGGAGATGGAGC 60.819 63.158 1.11 0.00 0.00 4.70
549 632 1.521010 CGCTGTGCAGGAGATGGAG 60.521 63.158 1.11 0.00 0.00 3.86
550 633 2.580815 CGCTGTGCAGGAGATGGA 59.419 61.111 1.11 0.00 0.00 3.41
551 634 2.513204 CCGCTGTGCAGGAGATGG 60.513 66.667 1.11 0.00 0.00 3.51
552 635 2.513204 CCCGCTGTGCAGGAGATG 60.513 66.667 1.11 0.00 0.00 2.90
553 636 4.479993 GCCCGCTGTGCAGGAGAT 62.480 66.667 1.11 0.00 0.00 2.75
599 682 0.772384 GGATAGAGGGAGAGGTCCGA 59.228 60.000 0.00 0.00 45.05 4.55
731 892 5.646215 TCTTCTCCTTGTTCTCTCCTACTT 58.354 41.667 0.00 0.00 0.00 2.24
757 918 1.510480 GGTTTGCTTCGCTCTGCTGT 61.510 55.000 0.00 0.00 0.00 4.40
759 920 2.320587 CGGTTTGCTTCGCTCTGCT 61.321 57.895 0.00 0.00 0.00 4.24
1242 2970 7.215743 ACTGTCTTCTAGTAACTCCCTATCT 57.784 40.000 0.00 0.00 0.00 1.98
1246 2974 4.044317 TGGACTGTCTTCTAGTAACTCCCT 59.956 45.833 7.85 0.00 0.00 4.20
1248 2976 4.765856 TGTGGACTGTCTTCTAGTAACTCC 59.234 45.833 7.85 0.00 0.00 3.85
1254 2982 5.126384 GCTAAGATGTGGACTGTCTTCTAGT 59.874 44.000 7.85 0.00 34.33 2.57
1320 3048 7.328277 TGAAATAACCCTATTCCGAACATTG 57.672 36.000 0.00 0.00 0.00 2.82
1421 3149 4.460263 TGATGGTGGCCTTATGTAATCAC 58.540 43.478 3.32 0.00 0.00 3.06
1468 3196 6.748333 TCTTCAAGATGACAAGCCTAATTG 57.252 37.500 0.00 0.00 36.22 2.32
1469 3197 7.951347 ATTCTTCAAGATGACAAGCCTAATT 57.049 32.000 0.00 0.00 0.00 1.40
1471 3199 7.765695 AAATTCTTCAAGATGACAAGCCTAA 57.234 32.000 0.00 0.00 0.00 2.69
1472 3200 8.862325 TTAAATTCTTCAAGATGACAAGCCTA 57.138 30.769 0.00 0.00 0.00 3.93
1476 4613 8.786898 TCCACTTAAATTCTTCAAGATGACAAG 58.213 33.333 0.00 0.00 0.00 3.16
1568 4706 9.790344 ATCATTTCATAGCATTAGAAGCTTACT 57.210 29.630 0.00 1.02 43.25 2.24
1602 4740 9.791801 TGATTAGCATAATGTAGGCAGAAAATA 57.208 29.630 0.00 0.00 38.06 1.40
1652 4791 3.091545 CAAGAAAGGGGCATCAGCTTTA 58.908 45.455 0.00 0.00 41.70 1.85
2179 5333 5.065613 ACCAAATGGCACTACATCCATAT 57.934 39.130 0.00 0.00 41.92 1.78
2329 5540 8.993121 AGCAACAATATCATTAAGTAGGAATCG 58.007 33.333 0.00 0.00 0.00 3.34
2390 5601 9.245284 CGTTTGTATTTTGAAGAAAAACAACAC 57.755 29.630 0.00 0.00 40.51 3.32


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

AutoCloner maintained by Alex Coulton.