Multiple sequence alignment - TraesCS6D01G110200

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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 TraesCS6D01G110200 chr6D 100.000 2213 0 0 1 2213 76006670 76008882 0.000000e+00 4087.0
1 TraesCS6D01G110200 chr6D 84.789 1374 149 28 96 1443 390608723 390610062 0.000000e+00 1325.0
2 TraesCS6D01G110200 chr6D 99.419 172 1 0 98 269 12636490 12636661 1.650000e-81 313.0
3 TraesCS6D01G110200 chr6D 94.737 95 5 0 1 95 12636352 12636446 4.920000e-32 148.0
4 TraesCS6D01G110200 chr6D 87.379 103 6 5 1359 1454 386473637 386473739 6.460000e-21 111.0
5 TraesCS6D01G110200 chr4D 86.667 975 114 7 416 1375 443715360 443714387 0.000000e+00 1066.0
6 TraesCS6D01G110200 chr4D 84.615 78 8 2 21 95 451883402 451883326 8.470000e-10 75.0
7 TraesCS6D01G110200 chr6B 91.763 777 44 9 1441 2213 149604606 149605366 0.000000e+00 1062.0
8 TraesCS6D01G110200 chr6B 85.614 994 120 11 402 1377 433047852 433046864 0.000000e+00 1022.0
9 TraesCS6D01G110200 chr7A 85.028 1062 119 14 96 1157 3809686 3808665 0.000000e+00 1044.0
10 TraesCS6D01G110200 chr7A 82.845 956 101 22 519 1448 736099752 736098834 0.000000e+00 798.0
11 TraesCS6D01G110200 chr7A 82.500 960 104 22 519 1452 191846759 191847680 0.000000e+00 784.0
12 TraesCS6D01G110200 chr7A 83.333 336 29 5 1135 1444 77667963 77668297 3.600000e-73 285.0
13 TraesCS6D01G110200 chr4B 85.513 994 121 14 402 1377 301700389 301699401 0.000000e+00 1016.0
14 TraesCS6D01G110200 chr4B 85.513 994 121 14 402 1377 301810746 301809758 0.000000e+00 1016.0
15 TraesCS6D01G110200 chr4B 85.513 994 121 14 402 1377 301837077 301836089 0.000000e+00 1016.0
16 TraesCS6D01G110200 chr4B 85.584 985 120 13 402 1369 301781262 301780283 0.000000e+00 1013.0
17 TraesCS6D01G110200 chr4B 85.412 994 122 14 402 1377 301754205 301753217 0.000000e+00 1011.0
18 TraesCS6D01G110200 chr4B 87.222 180 19 3 96 275 649830101 649830276 3.730000e-48 202.0
19 TraesCS6D01G110200 chr4B 88.172 93 7 3 1355 1443 301753026 301752934 8.360000e-20 108.0
20 TraesCS6D01G110200 chr4B 88.172 93 7 3 1355 1443 301809567 301809475 8.360000e-20 108.0
21 TraesCS6D01G110200 chr4B 88.172 93 7 3 1355 1443 301835899 301835807 8.360000e-20 108.0
22 TraesCS6D01G110200 chr3D 85.714 980 120 8 409 1372 549726218 549725243 0.000000e+00 1016.0
23 TraesCS6D01G110200 chr3D 79.101 378 50 19 1 371 455016054 455015699 1.320000e-57 233.0
24 TraesCS6D01G110200 chr3D 88.060 201 18 5 96 296 549726607 549726413 1.320000e-57 233.0
25 TraesCS6D01G110200 chr3D 91.667 48 0 1 2096 2139 238618237 238618284 1.830000e-06 63.9
26 TraesCS6D01G110200 chr5B 83.844 359 46 7 104 453 548377960 548378315 4.550000e-87 331.0
27 TraesCS6D01G110200 chr5B 82.985 335 30 8 1135 1443 491820423 491820756 6.020000e-71 278.0
28 TraesCS6D01G110200 chr2D 80.054 371 45 20 8 371 356535277 356534929 4.720000e-62 248.0
29 TraesCS6D01G110200 chr2D 85.897 78 8 1 21 95 344567741 344567818 1.820000e-11 80.5
30 TraesCS6D01G110200 chr2D 100.000 29 0 0 2116 2144 58996808 58996836 1.000000e-03 54.7
31 TraesCS6D01G110200 chr3B 80.912 351 29 14 1126 1450 720201194 720201532 2.200000e-60 243.0
32 TraesCS6D01G110200 chr3B 85.294 68 7 3 26 90 5798114 5798047 1.420000e-07 67.6
33 TraesCS6D01G110200 chrUn 87.222 180 19 3 96 275 369753974 369753799 3.730000e-48 202.0


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 TraesCS6D01G110200 chr6D 76006670 76008882 2212 False 4087.0 4087 100.0000 1 2213 1 chr6D.!!$F1 2212
1 TraesCS6D01G110200 chr6D 390608723 390610062 1339 False 1325.0 1325 84.7890 96 1443 1 chr6D.!!$F3 1347
2 TraesCS6D01G110200 chr4D 443714387 443715360 973 True 1066.0 1066 86.6670 416 1375 1 chr4D.!!$R1 959
3 TraesCS6D01G110200 chr6B 149604606 149605366 760 False 1062.0 1062 91.7630 1441 2213 1 chr6B.!!$F1 772
4 TraesCS6D01G110200 chr6B 433046864 433047852 988 True 1022.0 1022 85.6140 402 1377 1 chr6B.!!$R1 975
5 TraesCS6D01G110200 chr7A 3808665 3809686 1021 True 1044.0 1044 85.0280 96 1157 1 chr7A.!!$R1 1061
6 TraesCS6D01G110200 chr7A 736098834 736099752 918 True 798.0 798 82.8450 519 1448 1 chr7A.!!$R2 929
7 TraesCS6D01G110200 chr7A 191846759 191847680 921 False 784.0 784 82.5000 519 1452 1 chr7A.!!$F2 933
8 TraesCS6D01G110200 chr4B 301699401 301700389 988 True 1016.0 1016 85.5130 402 1377 1 chr4B.!!$R1 975
9 TraesCS6D01G110200 chr4B 301780283 301781262 979 True 1013.0 1013 85.5840 402 1369 1 chr4B.!!$R2 967
10 TraesCS6D01G110200 chr4B 301809475 301810746 1271 True 562.0 1016 86.8425 402 1443 2 chr4B.!!$R4 1041
11 TraesCS6D01G110200 chr4B 301835807 301837077 1270 True 562.0 1016 86.8425 402 1443 2 chr4B.!!$R5 1041
12 TraesCS6D01G110200 chr4B 301752934 301754205 1271 True 559.5 1011 86.7920 402 1443 2 chr4B.!!$R3 1041
13 TraesCS6D01G110200 chr3D 549725243 549726607 1364 True 624.5 1016 86.8870 96 1372 2 chr3D.!!$R2 1276

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
91 92 0.115349 AGGAGGTAGACACAGCCAGT 59.885 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1655 1985 0.108615 AGAACCGCTGATCGAACCAG 60.109 55.0 12.27 12.27 41.67 4.0 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
19 20 2.888513 CCAACTGAAATCACAGCGAG 57.111 50.000 0.00 0.00 41.06 5.03
20 21 2.416747 CCAACTGAAATCACAGCGAGA 58.583 47.619 0.00 0.00 41.06 4.04
21 22 3.005554 CCAACTGAAATCACAGCGAGAT 58.994 45.455 0.00 0.00 41.06 2.75
22 23 4.183865 CCAACTGAAATCACAGCGAGATA 58.816 43.478 0.00 0.00 41.06 1.98
23 24 4.631377 CCAACTGAAATCACAGCGAGATAA 59.369 41.667 0.00 0.00 41.06 1.75
24 25 5.122239 CCAACTGAAATCACAGCGAGATAAA 59.878 40.000 0.00 0.00 41.06 1.40
25 26 6.183360 CCAACTGAAATCACAGCGAGATAAAT 60.183 38.462 0.00 0.00 41.06 1.40
26 27 6.595772 ACTGAAATCACAGCGAGATAAATC 57.404 37.500 0.00 0.00 41.06 2.17
27 28 6.108687 ACTGAAATCACAGCGAGATAAATCA 58.891 36.000 0.00 0.00 41.06 2.57
28 29 6.257411 ACTGAAATCACAGCGAGATAAATCAG 59.743 38.462 15.94 15.94 41.06 2.90
29 30 5.007039 TGAAATCACAGCGAGATAAATCAGC 59.993 40.000 0.00 3.25 34.44 4.26
30 31 3.808466 TCACAGCGAGATAAATCAGCT 57.192 42.857 7.01 7.01 41.42 4.24
31 32 4.128925 TCACAGCGAGATAAATCAGCTT 57.871 40.909 9.33 1.96 39.71 3.74
32 33 5.262588 TCACAGCGAGATAAATCAGCTTA 57.737 39.130 9.33 0.00 39.71 3.09
33 34 5.660460 TCACAGCGAGATAAATCAGCTTAA 58.340 37.500 9.33 0.00 39.71 1.85
34 35 6.283694 TCACAGCGAGATAAATCAGCTTAAT 58.716 36.000 9.33 0.00 39.71 1.40
35 36 6.763135 TCACAGCGAGATAAATCAGCTTAATT 59.237 34.615 9.33 0.00 39.71 1.40
36 37 7.926018 TCACAGCGAGATAAATCAGCTTAATTA 59.074 33.333 9.33 0.00 39.71 1.40
37 38 8.715998 CACAGCGAGATAAATCAGCTTAATTAT 58.284 33.333 9.33 0.00 39.71 1.28
38 39 9.277783 ACAGCGAGATAAATCAGCTTAATTATT 57.722 29.630 9.33 0.00 39.71 1.40
39 40 9.752274 CAGCGAGATAAATCAGCTTAATTATTC 57.248 33.333 9.33 0.00 39.71 1.75
40 41 8.940952 AGCGAGATAAATCAGCTTAATTATTCC 58.059 33.333 7.01 0.00 39.03 3.01
41 42 8.721478 GCGAGATAAATCAGCTTAATTATTCCA 58.279 33.333 0.00 0.00 32.52 3.53
50 51 9.905713 ATCAGCTTAATTATTCCACTACTTTCA 57.094 29.630 0.00 0.00 0.00 2.69
51 52 9.733556 TCAGCTTAATTATTCCACTACTTTCAA 57.266 29.630 0.00 0.00 0.00 2.69
52 53 9.994432 CAGCTTAATTATTCCACTACTTTCAAG 57.006 33.333 0.00 0.00 0.00 3.02
53 54 9.959721 AGCTTAATTATTCCACTACTTTCAAGA 57.040 29.630 0.00 0.00 0.00 3.02
58 59 9.739276 AATTATTCCACTACTTTCAAGATGACA 57.261 29.630 0.00 0.00 0.00 3.58
59 60 8.777865 TTATTCCACTACTTTCAAGATGACAG 57.222 34.615 0.00 0.00 30.88 3.51
60 61 4.569943 TCCACTACTTTCAAGATGACAGC 58.430 43.478 0.00 0.00 27.57 4.40
61 62 4.040339 TCCACTACTTTCAAGATGACAGCA 59.960 41.667 0.00 0.00 27.57 4.41
62 63 4.391216 CCACTACTTTCAAGATGACAGCAG 59.609 45.833 0.00 0.00 27.57 4.24
63 64 4.993584 CACTACTTTCAAGATGACAGCAGT 59.006 41.667 0.00 0.00 32.59 4.40
64 65 5.468072 CACTACTTTCAAGATGACAGCAGTT 59.532 40.000 0.00 0.00 30.62 3.16
65 66 6.646653 CACTACTTTCAAGATGACAGCAGTTA 59.353 38.462 0.00 0.00 30.62 2.24
66 67 7.171508 CACTACTTTCAAGATGACAGCAGTTAA 59.828 37.037 0.00 0.00 30.62 2.01
67 68 6.942532 ACTTTCAAGATGACAGCAGTTAAA 57.057 33.333 0.00 0.00 27.57 1.52
68 69 6.729187 ACTTTCAAGATGACAGCAGTTAAAC 58.271 36.000 0.00 0.00 27.57 2.01
69 70 6.318648 ACTTTCAAGATGACAGCAGTTAAACA 59.681 34.615 0.00 0.00 27.57 2.83
70 71 6.691754 TTCAAGATGACAGCAGTTAAACAA 57.308 33.333 0.00 0.00 0.00 2.83
71 72 6.304356 TCAAGATGACAGCAGTTAAACAAG 57.696 37.500 0.00 0.00 0.00 3.16
72 73 6.054941 TCAAGATGACAGCAGTTAAACAAGA 58.945 36.000 0.00 0.00 0.00 3.02
73 74 6.203530 TCAAGATGACAGCAGTTAAACAAGAG 59.796 38.462 0.00 0.00 0.00 2.85
74 75 4.999950 AGATGACAGCAGTTAAACAAGAGG 59.000 41.667 0.00 0.00 0.00 3.69
75 76 4.415881 TGACAGCAGTTAAACAAGAGGA 57.584 40.909 0.00 0.00 0.00 3.71
76 77 4.380531 TGACAGCAGTTAAACAAGAGGAG 58.619 43.478 0.00 0.00 0.00 3.69
77 78 3.744660 ACAGCAGTTAAACAAGAGGAGG 58.255 45.455 0.00 0.00 0.00 4.30
78 79 3.136626 ACAGCAGTTAAACAAGAGGAGGT 59.863 43.478 0.00 0.00 0.00 3.85
79 80 4.347000 ACAGCAGTTAAACAAGAGGAGGTA 59.653 41.667 0.00 0.00 0.00 3.08
80 81 4.932200 CAGCAGTTAAACAAGAGGAGGTAG 59.068 45.833 0.00 0.00 0.00 3.18
81 82 4.838986 AGCAGTTAAACAAGAGGAGGTAGA 59.161 41.667 0.00 0.00 0.00 2.59
82 83 4.930405 GCAGTTAAACAAGAGGAGGTAGAC 59.070 45.833 0.00 0.00 0.00 2.59
83 84 5.510861 GCAGTTAAACAAGAGGAGGTAGACA 60.511 44.000 0.00 0.00 0.00 3.41
84 85 5.927115 CAGTTAAACAAGAGGAGGTAGACAC 59.073 44.000 0.00 0.00 0.00 3.67
85 86 5.601313 AGTTAAACAAGAGGAGGTAGACACA 59.399 40.000 0.00 0.00 0.00 3.72
86 87 4.608948 AAACAAGAGGAGGTAGACACAG 57.391 45.455 0.00 0.00 0.00 3.66
87 88 1.896465 ACAAGAGGAGGTAGACACAGC 59.104 52.381 0.00 0.00 0.00 4.40
88 89 1.205893 CAAGAGGAGGTAGACACAGCC 59.794 57.143 0.00 0.00 0.00 4.85
89 90 0.409876 AGAGGAGGTAGACACAGCCA 59.590 55.000 0.00 0.00 0.00 4.75
90 91 0.820871 GAGGAGGTAGACACAGCCAG 59.179 60.000 0.00 0.00 0.00 4.85
91 92 0.115349 AGGAGGTAGACACAGCCAGT 59.885 55.000 0.00 0.00 0.00 4.00
129 130 9.787532 ATTGTTTGTACATCGGAAAGAATATTG 57.212 29.630 0.00 0.00 33.44 1.90
148 149 4.668576 TTGCTTCTTCTTCACTAATGCG 57.331 40.909 0.00 0.00 0.00 4.73
166 167 3.190079 TGCGTGCTATTTGATCAGTCTC 58.810 45.455 0.00 0.00 0.00 3.36
204 205 3.945981 ATGCATGCAAGTTGATCAACA 57.054 38.095 33.92 18.07 43.47 3.33
236 237 4.463050 ACAAACTTATTCCAGGGACCAA 57.537 40.909 0.00 0.00 0.00 3.67
270 271 6.798482 TGTTTGCTATTCATTAATGCTCTGG 58.202 36.000 10.76 1.41 0.00 3.86
293 344 9.176181 CTGGTTTATTTGTTGTTACATGTACAC 57.824 33.333 4.68 7.97 33.44 2.90
319 370 4.277515 TGCTTACTGCTTCTCACTGATT 57.722 40.909 0.00 0.00 43.37 2.57
400 484 9.743937 CATCCAATTAAATGAAATGTGTTTTCG 57.256 29.630 0.00 0.00 45.63 3.46
422 506 6.106673 TCGGATTCAATAGGTCTTCTGTTTC 58.893 40.000 0.00 0.00 0.00 2.78
441 535 7.556275 TCTGTTTCTTTATGTTGTCCTCTGTTT 59.444 33.333 0.00 0.00 0.00 2.83
442 536 7.479980 TGTTTCTTTATGTTGTCCTCTGTTTG 58.520 34.615 0.00 0.00 0.00 2.93
443 537 7.122055 TGTTTCTTTATGTTGTCCTCTGTTTGT 59.878 33.333 0.00 0.00 0.00 2.83
444 538 6.618287 TCTTTATGTTGTCCTCTGTTTGTG 57.382 37.500 0.00 0.00 0.00 3.33
445 539 6.119536 TCTTTATGTTGTCCTCTGTTTGTGT 58.880 36.000 0.00 0.00 0.00 3.72
446 540 6.601613 TCTTTATGTTGTCCTCTGTTTGTGTT 59.398 34.615 0.00 0.00 0.00 3.32
447 541 4.900635 ATGTTGTCCTCTGTTTGTGTTC 57.099 40.909 0.00 0.00 0.00 3.18
466 560 7.167535 TGTGTTCCAAACTCTTATCATGATCA 58.832 34.615 12.53 0.00 0.00 2.92
494 588 0.528924 ATTCGTCACATCCGAACCGA 59.471 50.000 0.00 0.00 45.89 4.69
526 620 2.412847 GCACAACAAGCCATTCGAGTAC 60.413 50.000 0.00 0.00 0.00 2.73
546 640 1.656818 ATTCATCGCCCACGCAAAGG 61.657 55.000 0.00 0.00 39.84 3.11
574 668 5.115480 TCAATCCAAAAGTTCAAAGGCAAC 58.885 37.500 0.00 0.00 0.00 4.17
581 675 6.128063 CCAAAAGTTCAAAGGCAACAAAATCA 60.128 34.615 0.00 0.00 41.41 2.57
600 694 6.765915 AATCAATCTAAAGCCTGGAAAGTC 57.234 37.500 0.00 0.00 0.00 3.01
620 714 2.429610 TCCATTCTACGTGGTAAGAGCC 59.570 50.000 0.00 0.00 37.96 4.70
649 743 5.934781 ACTCTTCTCATTCCAACAACTCTT 58.065 37.500 0.00 0.00 0.00 2.85
710 804 1.147153 GGTGAGCCTAGCATCCACC 59.853 63.158 9.07 9.07 38.07 4.61
713 807 1.147153 GAGCCTAGCATCCACCACC 59.853 63.158 0.00 0.00 0.00 4.61
734 828 2.279582 AGATGAGTTTAGTCGCCACG 57.720 50.000 0.00 0.00 0.00 4.94
741 835 2.126467 GTTTAGTCGCCACGTTGTGTA 58.874 47.619 0.00 0.00 0.00 2.90
765 859 2.478134 GCAACACAGTTGAGCTCTACAG 59.522 50.000 26.45 21.64 0.00 2.74
766 860 3.800261 GCAACACAGTTGAGCTCTACAGA 60.800 47.826 26.45 0.00 0.00 3.41
783 877 7.024340 TCTACAGACATAATGTTCGTAGACC 57.976 40.000 9.20 0.00 38.42 3.85
811 905 3.952508 ATCCGCAGCACCACCACA 61.953 61.111 0.00 0.00 0.00 4.17
827 921 3.568430 CACCACACCTGATCGCTACTATA 59.432 47.826 0.00 0.00 0.00 1.31
837 931 3.364889 TCGCTACTATATGTGCCACAC 57.635 47.619 0.00 0.00 34.56 3.82
841 935 2.203800 ACTATATGTGCCACACGACG 57.796 50.000 0.00 0.00 37.14 5.12
868 962 1.327303 TTGCTACAGTGGGCAAAAGG 58.673 50.000 18.80 0.00 44.01 3.11
907 1001 5.525378 CAGTTGCTCTGTCCTATTTCATACC 59.475 44.000 2.20 0.00 39.17 2.73
910 1004 5.614308 TGCTCTGTCCTATTTCATACCATG 58.386 41.667 0.00 0.00 0.00 3.66
915 1009 5.316167 TGTCCTATTTCATACCATGGCATC 58.684 41.667 13.04 0.00 0.00 3.91
917 1011 4.285775 TCCTATTTCATACCATGGCATCGA 59.714 41.667 13.04 2.36 0.00 3.59
931 1025 8.677300 ACCATGGCATCGAATAAAATGATATAC 58.323 33.333 13.04 0.00 0.00 1.47
971 1065 6.778069 TGTCATTTACAATACTTTGGGGTTCA 59.222 34.615 0.00 0.00 37.15 3.18
984 1078 2.100197 GGGGTTCACTTTTCTATGGGC 58.900 52.381 0.00 0.00 0.00 5.36
993 1087 6.306987 TCACTTTTCTATGGGCTCTCTTTTT 58.693 36.000 0.00 0.00 0.00 1.94
1046 1140 2.695666 CAATCACTACTGGAGACGGGAT 59.304 50.000 0.00 0.00 42.76 3.85
1091 1186 2.107366 CAAGGGTGTTGACAAAAGGGT 58.893 47.619 0.00 0.00 0.00 4.34
1103 1198 4.003648 GACAAAAGGGTCACCATCACTAG 58.996 47.826 0.00 0.00 40.13 2.57
1131 1226 1.801913 CGACTTCTTCCGTCAGGCG 60.802 63.158 0.00 0.00 40.95 5.52
1140 1235 2.743752 CCGTCAGGCGCACATGAAG 61.744 63.158 10.83 12.22 39.71 3.02
1146 1241 0.250901 AGGCGCACATGAAGAAAGGT 60.251 50.000 10.83 0.00 0.00 3.50
1178 1273 3.383761 CTTTCGCCTTCAAATGCACTTT 58.616 40.909 0.00 0.00 0.00 2.66
1213 1308 6.379386 CGCCTGATCGTCTACTCAATATAAA 58.621 40.000 0.00 0.00 0.00 1.40
1228 1323 9.013229 ACTCAATATAAACAAGTTGCAAGATCA 57.987 29.630 0.00 0.00 0.00 2.92
1293 1389 8.697507 AGACTTCTGTGTTTATCATCCTTTTT 57.302 30.769 0.00 0.00 0.00 1.94
1295 1391 7.147976 ACTTCTGTGTTTATCATCCTTTTTGC 58.852 34.615 0.00 0.00 0.00 3.68
1342 1452 2.811431 TGTGCGTTATTTGCTGCTTAGT 59.189 40.909 0.00 0.00 0.00 2.24
1369 1479 5.528043 TGTGTGGTATGCTTTTGAAACAT 57.472 34.783 0.00 0.00 0.00 2.71
1388 1717 8.581578 TGAAACATCCATATATACGCACTCTTA 58.418 33.333 0.00 0.00 0.00 2.10
1495 1824 5.556915 TGAGTTACACCTTTGACCCAATAG 58.443 41.667 0.00 0.00 0.00 1.73
1505 1834 1.922447 TGACCCAATAGCCATCTTGGT 59.078 47.619 0.00 0.00 40.46 3.67
1615 1945 1.353076 GTACATCGAACCGGTGAACC 58.647 55.000 8.52 0.00 40.81 3.62
1646 1976 1.951602 ACAGTAAAAACCTGAACCGGC 59.048 47.619 0.00 0.00 34.04 6.13
1649 1979 0.890090 TAAAAACCTGAACCGGCGGG 60.890 55.000 31.78 14.51 40.29 6.13
1667 1997 1.880340 GCCTCGCTGGTTCGATCAG 60.880 63.158 10.76 10.76 37.87 2.90
1680 2010 4.094442 GGTTCGATCAGCGGTTCTATTTTT 59.906 41.667 0.00 0.00 41.33 1.94
1702 2032 2.109425 AACTATGCGGGAAAGTGGTC 57.891 50.000 0.00 0.00 0.00 4.02
1703 2033 0.981183 ACTATGCGGGAAAGTGGTCA 59.019 50.000 0.00 0.00 0.00 4.02
1708 2038 0.534203 GCGGGAAAGTGGTCAGTTGA 60.534 55.000 0.00 0.00 0.00 3.18
1719 2049 7.687941 AAGTGGTCAGTTGATATCGAATTTT 57.312 32.000 0.00 0.00 0.00 1.82
1728 2058 5.403897 TGATATCGAATTTTTGGCGAGTC 57.596 39.130 0.00 0.00 37.48 3.36
1797 2128 1.754234 CCGGATGGGCAAAGAAGGG 60.754 63.158 0.00 0.00 0.00 3.95
1862 2193 3.690460 AGGCTAAATCCAAACAGGTCTG 58.310 45.455 0.00 0.00 39.02 3.51
1876 2207 1.625818 AGGTCTGTGGTTCCTGCTTAG 59.374 52.381 0.00 0.00 0.00 2.18
1886 2217 6.071728 TGTGGTTCCTGCTTAGTAAGTACTAC 60.072 42.308 11.51 9.90 38.43 2.73
1949 2281 9.623000 TGATGATTTGATCAACATAATCTGAGT 57.377 29.630 7.89 0.00 43.50 3.41
1985 2317 6.855667 TCCTCCAATCCATATGAATTGATGT 58.144 36.000 15.60 0.00 0.00 3.06
2109 2441 6.397272 AGTATTAGACCGACCTAGAGATACG 58.603 44.000 0.00 0.00 0.00 3.06
2110 2442 1.881591 AGACCGACCTAGAGATACGC 58.118 55.000 0.00 0.00 0.00 4.42
2135 2467 5.675538 CAGGACCTATAAACCAGAAAGGAG 58.324 45.833 0.00 0.00 41.22 3.69
2147 2479 2.171448 CAGAAAGGAGGGAGTATGGGTG 59.829 54.545 0.00 0.00 0.00 4.61
2148 2480 2.045885 AGAAAGGAGGGAGTATGGGTGA 59.954 50.000 0.00 0.00 0.00 4.02
2149 2481 2.661176 AAGGAGGGAGTATGGGTGAA 57.339 50.000 0.00 0.00 0.00 3.18
2150 2482 1.880941 AGGAGGGAGTATGGGTGAAC 58.119 55.000 0.00 0.00 0.00 3.18
2151 2483 0.464452 GGAGGGAGTATGGGTGAACG 59.536 60.000 0.00 0.00 0.00 3.95
2152 2484 1.192428 GAGGGAGTATGGGTGAACGT 58.808 55.000 0.00 0.00 0.00 3.99
2153 2485 1.136500 GAGGGAGTATGGGTGAACGTC 59.864 57.143 0.00 0.00 0.00 4.34
2154 2486 0.899720 GGGAGTATGGGTGAACGTCA 59.100 55.000 0.00 0.00 0.00 4.35
2155 2487 1.134788 GGGAGTATGGGTGAACGTCAG 60.135 57.143 0.00 0.00 0.00 3.51
2156 2488 1.134788 GGAGTATGGGTGAACGTCAGG 60.135 57.143 0.00 0.00 0.00 3.86
2167 2499 3.424529 GTGAACGTCAGGTACTCTTTTCG 59.575 47.826 0.00 0.00 34.60 3.46
2172 2504 6.500684 ACGTCAGGTACTCTTTTCGTTATA 57.499 37.500 0.00 0.00 34.60 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.416747 TCTCGCTGTGATTTCAGTTGG 58.583 47.619 0.00 0.00 37.70 3.77
1 2 5.784750 TTATCTCGCTGTGATTTCAGTTG 57.215 39.130 0.00 0.00 37.70 3.16
2 3 6.595326 TGATTTATCTCGCTGTGATTTCAGTT 59.405 34.615 0.00 0.00 37.70 3.16
3 4 6.108687 TGATTTATCTCGCTGTGATTTCAGT 58.891 36.000 0.00 0.00 37.70 3.41
4 5 6.594284 TGATTTATCTCGCTGTGATTTCAG 57.406 37.500 0.00 0.00 38.35 3.02
5 6 5.007039 GCTGATTTATCTCGCTGTGATTTCA 59.993 40.000 0.00 0.00 0.00 2.69
6 7 5.236047 AGCTGATTTATCTCGCTGTGATTTC 59.764 40.000 0.00 0.00 34.61 2.17
7 8 5.121811 AGCTGATTTATCTCGCTGTGATTT 58.878 37.500 0.00 0.00 34.61 2.17
8 9 4.701765 AGCTGATTTATCTCGCTGTGATT 58.298 39.130 0.00 0.00 34.61 2.57
9 10 4.333913 AGCTGATTTATCTCGCTGTGAT 57.666 40.909 0.00 0.00 34.61 3.06
10 11 3.808466 AGCTGATTTATCTCGCTGTGA 57.192 42.857 0.00 0.00 34.61 3.58
11 12 5.973651 TTAAGCTGATTTATCTCGCTGTG 57.026 39.130 0.00 0.00 35.54 3.66
12 13 8.839310 ATAATTAAGCTGATTTATCTCGCTGT 57.161 30.769 0.00 3.24 35.54 4.40
13 14 9.752274 GAATAATTAAGCTGATTTATCTCGCTG 57.248 33.333 0.00 0.00 35.54 5.18
14 15 8.940952 GGAATAATTAAGCTGATTTATCTCGCT 58.059 33.333 0.00 0.00 36.39 4.93
15 16 8.721478 TGGAATAATTAAGCTGATTTATCTCGC 58.279 33.333 0.00 0.00 0.00 5.03
24 25 9.905713 TGAAAGTAGTGGAATAATTAAGCTGAT 57.094 29.630 0.00 0.00 0.00 2.90
25 26 9.733556 TTGAAAGTAGTGGAATAATTAAGCTGA 57.266 29.630 0.00 0.00 0.00 4.26
26 27 9.994432 CTTGAAAGTAGTGGAATAATTAAGCTG 57.006 33.333 0.00 0.00 0.00 4.24
27 28 9.959721 TCTTGAAAGTAGTGGAATAATTAAGCT 57.040 29.630 0.00 0.00 0.00 3.74
32 33 9.739276 TGTCATCTTGAAAGTAGTGGAATAATT 57.261 29.630 0.00 0.00 0.00 1.40
33 34 9.388506 CTGTCATCTTGAAAGTAGTGGAATAAT 57.611 33.333 0.00 0.00 27.06 1.28
34 35 7.334421 GCTGTCATCTTGAAAGTAGTGGAATAA 59.666 37.037 0.00 0.00 34.20 1.40
35 36 6.818644 GCTGTCATCTTGAAAGTAGTGGAATA 59.181 38.462 0.00 0.00 34.20 1.75
36 37 5.645497 GCTGTCATCTTGAAAGTAGTGGAAT 59.355 40.000 0.00 0.00 34.20 3.01
37 38 4.997395 GCTGTCATCTTGAAAGTAGTGGAA 59.003 41.667 0.00 0.00 34.20 3.53
38 39 4.040339 TGCTGTCATCTTGAAAGTAGTGGA 59.960 41.667 0.00 0.00 34.20 4.02
39 40 4.318332 TGCTGTCATCTTGAAAGTAGTGG 58.682 43.478 0.00 0.00 34.20 4.00
40 41 5.527511 CTGCTGTCATCTTGAAAGTAGTG 57.472 43.478 5.03 0.00 38.94 2.74
42 43 7.658179 TTAACTGCTGTCATCTTGAAAGTAG 57.342 36.000 10.21 10.21 46.07 2.57
43 44 7.497579 TGTTTAACTGCTGTCATCTTGAAAGTA 59.502 33.333 0.00 0.00 34.20 2.24
44 45 6.318648 TGTTTAACTGCTGTCATCTTGAAAGT 59.681 34.615 0.00 0.00 34.20 2.66
45 46 6.728200 TGTTTAACTGCTGTCATCTTGAAAG 58.272 36.000 0.00 0.00 34.82 2.62
46 47 6.691754 TGTTTAACTGCTGTCATCTTGAAA 57.308 33.333 0.00 0.00 0.00 2.69
47 48 6.542005 TCTTGTTTAACTGCTGTCATCTTGAA 59.458 34.615 0.00 0.00 0.00 2.69
48 49 6.054941 TCTTGTTTAACTGCTGTCATCTTGA 58.945 36.000 0.00 0.00 0.00 3.02
49 50 6.304356 TCTTGTTTAACTGCTGTCATCTTG 57.696 37.500 0.00 0.00 0.00 3.02
50 51 5.471456 CCTCTTGTTTAACTGCTGTCATCTT 59.529 40.000 0.00 0.00 0.00 2.40
51 52 4.999950 CCTCTTGTTTAACTGCTGTCATCT 59.000 41.667 0.00 0.00 0.00 2.90
52 53 4.997395 TCCTCTTGTTTAACTGCTGTCATC 59.003 41.667 0.00 0.00 0.00 2.92
53 54 4.973168 TCCTCTTGTTTAACTGCTGTCAT 58.027 39.130 0.00 0.00 0.00 3.06
54 55 4.380531 CTCCTCTTGTTTAACTGCTGTCA 58.619 43.478 0.00 0.00 0.00 3.58
55 56 3.748568 CCTCCTCTTGTTTAACTGCTGTC 59.251 47.826 0.00 0.00 0.00 3.51
56 57 3.136626 ACCTCCTCTTGTTTAACTGCTGT 59.863 43.478 0.00 0.00 0.00 4.40
57 58 3.744660 ACCTCCTCTTGTTTAACTGCTG 58.255 45.455 0.00 0.00 0.00 4.41
58 59 4.838986 TCTACCTCCTCTTGTTTAACTGCT 59.161 41.667 0.00 0.00 0.00 4.24
59 60 4.930405 GTCTACCTCCTCTTGTTTAACTGC 59.070 45.833 0.00 0.00 0.00 4.40
60 61 5.927115 GTGTCTACCTCCTCTTGTTTAACTG 59.073 44.000 0.00 0.00 0.00 3.16
61 62 5.601313 TGTGTCTACCTCCTCTTGTTTAACT 59.399 40.000 0.00 0.00 0.00 2.24
62 63 5.850614 TGTGTCTACCTCCTCTTGTTTAAC 58.149 41.667 0.00 0.00 0.00 2.01
63 64 5.510861 GCTGTGTCTACCTCCTCTTGTTTAA 60.511 44.000 0.00 0.00 0.00 1.52
64 65 4.021368 GCTGTGTCTACCTCCTCTTGTTTA 60.021 45.833 0.00 0.00 0.00 2.01
65 66 3.244249 GCTGTGTCTACCTCCTCTTGTTT 60.244 47.826 0.00 0.00 0.00 2.83
66 67 2.300437 GCTGTGTCTACCTCCTCTTGTT 59.700 50.000 0.00 0.00 0.00 2.83
67 68 1.896465 GCTGTGTCTACCTCCTCTTGT 59.104 52.381 0.00 0.00 0.00 3.16
68 69 1.205893 GGCTGTGTCTACCTCCTCTTG 59.794 57.143 0.00 0.00 0.00 3.02
69 70 1.203187 TGGCTGTGTCTACCTCCTCTT 60.203 52.381 0.00 0.00 0.00 2.85
70 71 0.409876 TGGCTGTGTCTACCTCCTCT 59.590 55.000 0.00 0.00 0.00 3.69
71 72 0.820871 CTGGCTGTGTCTACCTCCTC 59.179 60.000 0.00 0.00 0.00 3.71
72 73 0.115349 ACTGGCTGTGTCTACCTCCT 59.885 55.000 0.00 0.00 0.00 3.69
73 74 0.247736 CACTGGCTGTGTCTACCTCC 59.752 60.000 15.53 0.00 41.53 4.30
74 75 1.257743 TCACTGGCTGTGTCTACCTC 58.742 55.000 21.64 0.00 46.27 3.85
75 76 1.944177 ATCACTGGCTGTGTCTACCT 58.056 50.000 21.64 1.77 46.27 3.08
76 77 2.770164 AATCACTGGCTGTGTCTACC 57.230 50.000 21.64 0.00 46.27 3.18
77 78 4.457834 AGTAATCACTGGCTGTGTCTAC 57.542 45.455 21.64 20.80 46.27 2.59
78 79 6.791867 ATAAGTAATCACTGGCTGTGTCTA 57.208 37.500 21.64 12.52 46.27 2.59
79 80 5.683876 ATAAGTAATCACTGGCTGTGTCT 57.316 39.130 21.64 13.37 46.27 3.41
80 81 8.338259 CAATTATAAGTAATCACTGGCTGTGTC 58.662 37.037 21.64 12.01 46.27 3.67
81 82 7.829211 ACAATTATAAGTAATCACTGGCTGTGT 59.171 33.333 21.64 8.37 46.27 3.72
83 84 8.807948 AACAATTATAAGTAATCACTGGCTGT 57.192 30.769 0.00 0.00 34.36 4.40
84 85 9.507280 CAAACAATTATAAGTAATCACTGGCTG 57.493 33.333 0.00 0.00 34.36 4.85
85 86 9.243105 ACAAACAATTATAAGTAATCACTGGCT 57.757 29.630 0.00 0.00 34.36 4.75
126 127 4.697352 ACGCATTAGTGAAGAAGAAGCAAT 59.303 37.500 0.00 0.00 0.00 3.56
129 130 3.726190 GCACGCATTAGTGAAGAAGAAGC 60.726 47.826 0.88 0.00 44.43 3.86
172 173 8.465201 TCAACTTGCATGCATATGTGTTAATTA 58.535 29.630 23.37 0.00 36.65 1.40
173 174 7.321908 TCAACTTGCATGCATATGTGTTAATT 58.678 30.769 23.37 0.00 36.65 1.40
174 175 6.865411 TCAACTTGCATGCATATGTGTTAAT 58.135 32.000 23.37 3.08 36.65 1.40
175 176 6.264841 TCAACTTGCATGCATATGTGTTAA 57.735 33.333 23.37 5.60 36.65 2.01
176 177 5.893897 TCAACTTGCATGCATATGTGTTA 57.106 34.783 23.37 2.30 36.65 2.41
177 178 4.787260 TCAACTTGCATGCATATGTGTT 57.213 36.364 23.37 17.17 36.65 3.32
178 179 4.399934 TGATCAACTTGCATGCATATGTGT 59.600 37.500 23.37 12.40 36.65 3.72
179 180 4.927422 TGATCAACTTGCATGCATATGTG 58.073 39.130 23.37 16.67 36.65 3.21
180 181 5.105675 TGTTGATCAACTTGCATGCATATGT 60.106 36.000 32.57 17.36 41.67 2.29
181 182 5.344884 TGTTGATCAACTTGCATGCATATG 58.655 37.500 32.57 19.56 41.67 1.78
182 183 5.585820 TGTTGATCAACTTGCATGCATAT 57.414 34.783 32.57 10.00 41.67 1.78
223 224 2.573463 ACACCTATTGGTCCCTGGAAT 58.427 47.619 0.00 0.00 46.60 3.01
236 237 7.944729 AATGAATAGCAAACAGAACACCTAT 57.055 32.000 0.00 0.00 0.00 2.57
270 271 7.376336 TGCGTGTACATGTAACAACAAATAAAC 59.624 33.333 16.28 0.00 0.00 2.01
279 280 3.500299 AGCATTGCGTGTACATGTAACAA 59.500 39.130 19.11 13.36 0.00 2.83
353 404 9.337396 TGGATGGTAAATTAGATTGTGTGTATC 57.663 33.333 0.00 0.00 0.00 2.24
372 423 9.571816 AAAACACATTTCATTTAATTGGATGGT 57.428 25.926 13.87 9.09 0.00 3.55
390 441 6.180472 AGACCTATTGAATCCGAAAACACAT 58.820 36.000 0.00 0.00 0.00 3.21
400 484 7.929941 AAGAAACAGAAGACCTATTGAATCC 57.070 36.000 0.00 0.00 0.00 3.01
422 506 6.377327 ACACAAACAGAGGACAACATAAAG 57.623 37.500 0.00 0.00 0.00 1.85
441 535 7.119699 GTGATCATGATAAGAGTTTGGAACACA 59.880 37.037 8.54 0.00 39.29 3.72
442 536 7.414540 GGTGATCATGATAAGAGTTTGGAACAC 60.415 40.741 8.54 7.40 39.29 3.32
443 537 6.599244 GGTGATCATGATAAGAGTTTGGAACA 59.401 38.462 8.54 0.00 0.00 3.18
444 538 6.825721 AGGTGATCATGATAAGAGTTTGGAAC 59.174 38.462 8.54 0.00 0.00 3.62
445 539 6.962182 AGGTGATCATGATAAGAGTTTGGAA 58.038 36.000 8.54 0.00 0.00 3.53
446 540 6.566079 AGGTGATCATGATAAGAGTTTGGA 57.434 37.500 8.54 0.00 0.00 3.53
447 541 8.915057 ATAAGGTGATCATGATAAGAGTTTGG 57.085 34.615 8.54 0.00 0.00 3.28
458 552 7.014230 TGTGACGAATAGATAAGGTGATCATGA 59.986 37.037 0.00 0.00 0.00 3.07
466 560 4.825634 TCGGATGTGACGAATAGATAAGGT 59.174 41.667 0.00 0.00 37.42 3.50
494 588 0.737804 TTGTTGTGCTTGCGACACAT 59.262 45.000 7.03 0.00 46.72 3.21
511 605 4.318333 CGATGAATGTACTCGAATGGCTTG 60.318 45.833 0.00 0.00 34.41 4.01
526 620 0.523968 CTTTGCGTGGGCGATGAATG 60.524 55.000 0.00 0.00 44.10 2.67
546 640 6.018751 GCCTTTGAACTTTTGGATTGAGTTTC 60.019 38.462 0.00 0.00 34.02 2.78
574 668 7.381323 ACTTTCCAGGCTTTAGATTGATTTTG 58.619 34.615 0.00 0.00 0.00 2.44
581 675 4.657814 TGGACTTTCCAGGCTTTAGATT 57.342 40.909 0.00 0.00 42.67 2.40
600 694 2.167693 TGGCTCTTACCACGTAGAATGG 59.832 50.000 0.00 0.00 43.43 3.16
620 714 7.173907 AGTTGTTGGAATGAGAAGAGTAATGTG 59.826 37.037 0.00 0.00 0.00 3.21
701 795 2.045524 CTCATCTAGGTGGTGGATGCT 58.954 52.381 2.43 0.00 42.53 3.79
710 804 3.130516 TGGCGACTAAACTCATCTAGGTG 59.869 47.826 0.00 0.00 0.00 4.00
713 807 3.181499 ACGTGGCGACTAAACTCATCTAG 60.181 47.826 0.00 0.00 0.00 2.43
741 835 0.536006 GAGCTCAACTGTGTTGCCCT 60.536 55.000 9.40 4.50 0.00 5.19
755 849 5.583495 ACGAACATTATGTCTGTAGAGCTC 58.417 41.667 5.27 5.27 0.00 4.09
811 905 3.193691 GGCACATATAGTAGCGATCAGGT 59.806 47.826 0.00 0.00 0.00 4.00
827 921 1.227704 TTTCCGTCGTGTGGCACAT 60.228 52.632 24.95 0.00 44.52 3.21
841 935 1.265905 CCCACTGTAGCAAACGTTTCC 59.734 52.381 11.37 1.05 0.00 3.13
853 947 1.427368 ACCATCCTTTTGCCCACTGTA 59.573 47.619 0.00 0.00 0.00 2.74
858 952 2.745968 GGATTACCATCCTTTTGCCCA 58.254 47.619 0.00 0.00 45.41 5.36
868 962 3.445096 AGCAACTGCAAAGGATTACCATC 59.555 43.478 4.22 0.00 45.16 3.51
945 1039 7.453126 TGAACCCCAAAGTATTGTAAATGACAT 59.547 33.333 0.00 0.00 38.07 3.06
949 1043 7.227049 AGTGAACCCCAAAGTATTGTAAATG 57.773 36.000 0.00 0.00 34.60 2.32
954 1048 5.897250 AGAAAAGTGAACCCCAAAGTATTGT 59.103 36.000 0.00 0.00 34.60 2.71
964 1058 2.100197 GCCCATAGAAAAGTGAACCCC 58.900 52.381 0.00 0.00 0.00 4.95
966 1060 3.942115 GAGAGCCCATAGAAAAGTGAACC 59.058 47.826 0.00 0.00 0.00 3.62
971 1065 5.712446 GGAAAAAGAGAGCCCATAGAAAAGT 59.288 40.000 0.00 0.00 0.00 2.66
1046 1140 1.301087 CGGGTTGTGACAGCGGTAA 60.301 57.895 0.00 0.00 0.00 2.85
1091 1186 1.043116 CCGGCCTCTAGTGATGGTGA 61.043 60.000 0.00 0.00 0.00 4.02
1103 1198 2.892542 GAAGAAGTCGCTCCGGCCTC 62.893 65.000 0.00 0.00 34.44 4.70
1131 1226 2.294233 TGCTTGACCTTTCTTCATGTGC 59.706 45.455 0.00 0.00 0.00 4.57
1178 1273 2.244117 GATCAGGCGCAGTCCCTTGA 62.244 60.000 10.83 1.13 0.00 3.02
1266 1361 9.793259 AAAAGGATGATAAACACAGAAGTCTTA 57.207 29.630 0.00 0.00 0.00 2.10
1274 1370 7.318141 AGATGCAAAAAGGATGATAAACACAG 58.682 34.615 0.00 0.00 0.00 3.66
1293 1389 7.373617 TGGTCTTAGGATTACATAAGATGCA 57.626 36.000 7.42 0.00 46.16 3.96
1295 1391 8.820831 AGGATGGTCTTAGGATTACATAAGATG 58.179 37.037 7.42 0.00 46.16 2.90
1342 1452 2.553602 CAAAAGCATACCACACAGCAGA 59.446 45.455 0.00 0.00 0.00 4.26
1369 1479 9.239551 AGTATTGTAAGAGTGCGTATATATGGA 57.760 33.333 4.14 0.00 0.00 3.41
1378 1500 3.000727 GCCAAGTATTGTAAGAGTGCGT 58.999 45.455 0.00 0.00 46.99 5.24
1380 1502 5.642063 TGTAAGCCAAGTATTGTAAGAGTGC 59.358 40.000 0.00 0.00 46.99 4.40
1388 1717 3.596214 CCGAGTGTAAGCCAAGTATTGT 58.404 45.455 0.00 0.00 46.99 2.71
1505 1834 4.664150 AATTGAAAAGAAAGTTGGCCGA 57.336 36.364 0.00 0.00 0.00 5.54
1589 1918 1.799994 CCGGTTCGATGTACGGTTTTT 59.200 47.619 0.00 0.00 41.34 1.94
1595 1924 0.986992 GTTCACCGGTTCGATGTACG 59.013 55.000 2.97 0.00 44.09 3.67
1596 1925 1.353076 GGTTCACCGGTTCGATGTAC 58.647 55.000 2.97 0.00 0.00 2.90
1597 1926 3.818586 GGTTCACCGGTTCGATGTA 57.181 52.632 2.97 0.00 0.00 2.29
1615 1945 6.128661 TCAGGTTTTTACTGTTCGAATCATCG 60.129 38.462 0.00 0.00 42.18 3.84
1624 1954 3.549423 GCCGGTTCAGGTTTTTACTGTTC 60.549 47.826 1.90 0.00 37.25 3.18
1649 1979 1.880340 CTGATCGAACCAGCGAGGC 60.880 63.158 5.43 0.00 44.26 4.70
1651 1981 3.698382 GCTGATCGAACCAGCGAG 58.302 61.111 21.83 0.80 46.03 5.03
1655 1985 0.108615 AGAACCGCTGATCGAACCAG 60.109 55.000 12.27 12.27 41.67 4.00
1680 2010 4.004982 GACCACTTTCCCGCATAGTTTAA 58.995 43.478 0.00 0.00 0.00 1.52
1690 2020 2.185004 ATCAACTGACCACTTTCCCG 57.815 50.000 0.00 0.00 0.00 5.14
1702 2032 5.568482 TCGCCAAAAATTCGATATCAACTG 58.432 37.500 3.12 0.00 0.00 3.16
1703 2033 5.354234 ACTCGCCAAAAATTCGATATCAACT 59.646 36.000 3.12 0.00 0.00 3.16
1708 2038 5.220854 CCAAGACTCGCCAAAAATTCGATAT 60.221 40.000 0.00 0.00 0.00 1.63
1719 2049 1.896660 GGTTGCCAAGACTCGCCAA 60.897 57.895 0.00 0.00 0.00 4.52
1773 2104 0.536006 CTTTGCCCATCCGGATCTCC 60.536 60.000 15.88 5.88 0.00 3.71
1776 2107 1.312815 CTTCTTTGCCCATCCGGATC 58.687 55.000 15.88 4.05 0.00 3.36
1811 2142 3.761140 CCAATGCATGGGCGCACA 61.761 61.111 18.16 18.16 46.56 4.57
1823 2154 2.095059 GCCTACAAAGACACTGCCAATG 60.095 50.000 0.00 0.00 0.00 2.82
1838 2169 4.288626 AGACCTGTTTGGATTTAGCCTACA 59.711 41.667 0.00 0.00 39.71 2.74
1862 2193 5.402997 AGTACTTACTAAGCAGGAACCAC 57.597 43.478 0.00 0.00 34.13 4.16
1962 2294 6.071560 CCACATCAATTCATATGGATTGGAGG 60.072 42.308 28.76 21.81 31.12 4.30
1985 2317 4.145807 CCCACAATGTTGTACTAAACCCA 58.854 43.478 0.00 0.00 39.91 4.51
2047 2379 9.651913 ATCACAAAATTTATGCCGTTAGAAAAT 57.348 25.926 0.00 0.00 0.00 1.82
2084 2416 7.542890 CGTATCTCTAGGTCGGTCTAATACTA 58.457 42.308 0.00 0.00 0.00 1.82
2085 2417 6.397272 CGTATCTCTAGGTCGGTCTAATACT 58.603 44.000 0.00 0.00 0.00 2.12
2086 2418 5.063312 GCGTATCTCTAGGTCGGTCTAATAC 59.937 48.000 0.00 0.00 0.00 1.89
2109 2441 1.138266 TCTGGTTTATAGGTCCTGCGC 59.862 52.381 0.00 0.00 0.00 6.09
2110 2442 3.536956 TTCTGGTTTATAGGTCCTGCG 57.463 47.619 0.00 0.00 0.00 5.18
2135 2467 0.899720 TGACGTTCACCCATACTCCC 59.100 55.000 0.00 0.00 0.00 4.30
2147 2479 3.636381 ACGAAAAGAGTACCTGACGTTC 58.364 45.455 0.00 0.00 0.00 3.95
2148 2480 3.722728 ACGAAAAGAGTACCTGACGTT 57.277 42.857 0.00 0.00 0.00 3.99
2149 2481 3.722728 AACGAAAAGAGTACCTGACGT 57.277 42.857 0.00 0.00 33.02 4.34
2150 2482 7.982371 ATTATAACGAAAAGAGTACCTGACG 57.018 36.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.