Multiple sequence alignment - TraesCS3D01G065100

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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 TraesCS3D01G065100 chr3D 100.000 3216 0 0 1 3216 28593313 28590098 0.000000e+00 5939.0
1 TraesCS3D01G065100 chr3D 87.844 1563 104 40 820 2349 28944197 28945706 0.000000e+00 1755.0
2 TraesCS3D01G065100 chr3D 91.449 1146 68 13 1084 2219 28547888 28546763 0.000000e+00 1546.0
3 TraesCS3D01G065100 chr3D 89.595 519 39 7 1708 2219 28857903 28857393 0.000000e+00 645.0
4 TraesCS3D01G065100 chr3D 89.362 517 49 5 1200 1713 28864700 28864187 0.000000e+00 645.0
5 TraesCS3D01G065100 chr3D 84.241 514 31 23 319 823 28943694 28944166 3.780000e-124 455.0
6 TraesCS3D01G065100 chr3D 86.538 312 26 8 294 604 28548914 28548618 2.390000e-86 329.0
7 TraesCS3D01G065100 chr3D 84.936 312 25 14 294 604 28869128 28868838 2.430000e-76 296.0
8 TraesCS3D01G065100 chr3D 87.764 237 13 5 838 1073 28548259 28548038 2.460000e-66 263.0
9 TraesCS3D01G065100 chr3D 91.743 109 5 2 920 1028 28867069 28866965 7.190000e-32 148.0
10 TraesCS3D01G065100 chr3D 90.698 86 7 1 2490 2574 577182081 577181996 2.620000e-21 113.0
11 TraesCS3D01G065100 chr3D 74.895 239 46 7 2920 3156 308775415 308775641 2.640000e-16 97.1
12 TraesCS3D01G065100 chr3D 85.714 63 4 3 627 684 28868794 28868732 9.630000e-06 62.1
13 TraesCS3D01G065100 chr3B 91.446 1286 77 14 1084 2349 49152039 49153311 0.000000e+00 1735.0
14 TraesCS3D01G065100 chr3B 92.671 805 36 5 2376 3157 191191912 191192716 0.000000e+00 1138.0
15 TraesCS3D01G065100 chr3B 90.051 784 64 7 1438 2214 47476690 47475914 0.000000e+00 1003.0
16 TraesCS3D01G065100 chr3B 91.535 697 49 5 1528 2218 47742108 47741416 0.000000e+00 952.0
17 TraesCS3D01G065100 chr3B 90.674 697 55 5 1528 2218 48079304 48078612 0.000000e+00 918.0
18 TraesCS3D01G065100 chr3B 90.531 697 56 4 1528 2218 47809870 47809178 0.000000e+00 913.0
19 TraesCS3D01G065100 chr3B 83.378 746 86 27 2423 3155 148485862 148486582 0.000000e+00 656.0
20 TraesCS3D01G065100 chr3B 89.954 438 32 7 1106 1538 47864535 47864105 3.620000e-154 555.0
21 TraesCS3D01G065100 chr3B 89.703 437 35 5 1106 1538 48080113 48079683 1.690000e-152 549.0
22 TraesCS3D01G065100 chr3B 88.813 438 37 7 1106 1538 47742890 47742460 7.900000e-146 527.0
23 TraesCS3D01G065100 chr3B 84.936 312 26 11 294 604 49151241 49151532 2.430000e-76 296.0
24 TraesCS3D01G065100 chr3B 82.555 321 36 13 294 604 47543847 47543537 6.840000e-67 265.0
25 TraesCS3D01G065100 chr3B 87.363 182 14 5 838 1018 47543209 47543036 1.960000e-47 200.0
26 TraesCS3D01G065100 chr3B 85.271 129 10 5 944 1067 47743105 47742981 1.210000e-24 124.0
27 TraesCS3D01G065100 chr3B 85.271 129 10 5 944 1067 47810861 47810737 1.210000e-24 124.0
28 TraesCS3D01G065100 chr3B 85.271 129 10 5 944 1067 47864750 47864626 1.210000e-24 124.0
29 TraesCS3D01G065100 chr3B 85.271 129 10 5 944 1067 48080328 48080204 1.210000e-24 124.0
30 TraesCS3D01G065100 chr3B 77.828 221 31 10 2423 2639 402463020 402462814 1.570000e-23 121.0
31 TraesCS3D01G065100 chr3B 80.000 145 11 4 545 671 47744986 47744842 1.230000e-14 91.6
32 TraesCS3D01G065100 chr3B 80.000 145 11 3 545 671 47812742 47812598 1.230000e-14 91.6
33 TraesCS3D01G065100 chr3B 100.000 34 0 0 894 927 49151863 49151896 2.680000e-06 63.9
34 TraesCS3D01G065100 chr3A 89.521 1231 70 22 1084 2280 38281693 38280488 0.000000e+00 1504.0
35 TraesCS3D01G065100 chr3A 90.877 1140 75 18 1092 2216 38300502 38301627 0.000000e+00 1502.0
36 TraesCS3D01G065100 chr3A 88.306 496 30 8 154 647 38299508 38299977 1.290000e-158 569.0
37 TraesCS3D01G065100 chr3A 85.350 314 31 9 294 604 38282695 38282394 8.660000e-81 311.0
38 TraesCS3D01G065100 chr3A 83.938 193 17 8 838 1028 38282077 38281897 4.270000e-39 172.0
39 TraesCS3D01G065100 chr3A 96.190 105 1 1 1 102 38299402 38299506 5.520000e-38 169.0
40 TraesCS3D01G065100 chr3A 89.535 86 8 1 2490 2574 712468350 712468265 1.220000e-19 108.0
41 TraesCS3D01G065100 chr2A 93.758 737 41 3 2423 3154 574226811 574227547 0.000000e+00 1101.0
42 TraesCS3D01G065100 chr2A 89.143 175 18 1 2376 2550 670444129 670443956 1.940000e-52 217.0
43 TraesCS3D01G065100 chr2A 96.364 55 2 0 2380 2434 574226751 574226805 1.230000e-14 91.6
44 TraesCS3D01G065100 chr1B 90.488 799 44 8 2376 3155 294608723 294607938 0.000000e+00 1026.0
45 TraesCS3D01G065100 chr1B 94.545 55 3 0 2380 2434 419943169 419943115 5.720000e-13 86.1
46 TraesCS3D01G065100 chr4D 81.844 1052 142 30 1158 2201 481415666 481414656 0.000000e+00 839.0
47 TraesCS3D01G065100 chr5A 81.602 1049 148 29 1159 2201 661242329 661243338 0.000000e+00 826.0
48 TraesCS3D01G065100 chr6B 89.213 686 38 15 3 685 131691565 131692217 0.000000e+00 824.0
49 TraesCS3D01G065100 chr6B 88.148 270 13 2 2099 2349 131719616 131719885 1.450000e-78 303.0
50 TraesCS3D01G065100 chr6B 79.470 302 30 9 2376 2657 683956462 683956173 5.480000e-43 185.0
51 TraesCS3D01G065100 chr6B 79.524 210 24 8 820 1025 131693380 131693574 7.240000e-27 132.0
52 TraesCS3D01G065100 chr6B 81.481 135 16 5 2217 2349 131699320 131699447 5.680000e-18 102.0
53 TraesCS3D01G065100 chr5D 92.628 529 33 2 2635 3159 451541465 451540939 0.000000e+00 756.0
54 TraesCS3D01G065100 chr5D 82.470 251 8 6 2374 2605 451541695 451541462 1.520000e-43 187.0
55 TraesCS3D01G065100 chr5D 74.107 224 41 8 2933 3156 554886316 554886110 3.440000e-10 76.8
56 TraesCS3D01G065100 chr2B 91.391 151 13 0 2400 2550 621034517 621034367 1.170000e-49 207.0
57 TraesCS3D01G065100 chr2B 80.405 296 33 6 2385 2657 185560791 185560498 5.440000e-48 202.0
58 TraesCS3D01G065100 chr2D 89.683 126 13 0 2423 2548 524945190 524945065 9.230000e-36 161.0
59 TraesCS3D01G065100 chr6D 73.529 238 45 8 2920 3156 27489387 27489167 1.240000e-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 TraesCS3D01G065100 chr3D 28590098 28593313 3215 True 5939.000000 5939 100.000000 1 3216 1 chr3D.!!$R1 3215
1 TraesCS3D01G065100 chr3D 28943694 28945706 2012 False 1105.000000 1755 86.042500 319 2349 2 chr3D.!!$F2 2030
2 TraesCS3D01G065100 chr3D 28546763 28548914 2151 True 712.666667 1546 88.583667 294 2219 3 chr3D.!!$R4 1925
3 TraesCS3D01G065100 chr3D 28857393 28857903 510 True 645.000000 645 89.595000 1708 2219 1 chr3D.!!$R2 511
4 TraesCS3D01G065100 chr3D 28864187 28869128 4941 True 287.775000 645 87.938750 294 1713 4 chr3D.!!$R5 1419
5 TraesCS3D01G065100 chr3B 191191912 191192716 804 False 1138.000000 1138 92.671000 2376 3157 1 chr3B.!!$F2 781
6 TraesCS3D01G065100 chr3B 47475914 47476690 776 True 1003.000000 1003 90.051000 1438 2214 1 chr3B.!!$R1 776
7 TraesCS3D01G065100 chr3B 49151241 49153311 2070 False 698.300000 1735 92.127333 294 2349 3 chr3B.!!$F3 2055
8 TraesCS3D01G065100 chr3B 148485862 148486582 720 False 656.000000 656 83.378000 2423 3155 1 chr3B.!!$F1 732
9 TraesCS3D01G065100 chr3B 48078612 48080328 1716 True 530.333333 918 88.549333 944 2218 3 chr3B.!!$R7 1274
10 TraesCS3D01G065100 chr3B 47741416 47744986 3570 True 423.650000 952 86.404750 545 2218 4 chr3B.!!$R4 1673
11 TraesCS3D01G065100 chr3B 47809178 47812742 3564 True 376.200000 913 85.267333 545 2218 3 chr3B.!!$R5 1673
12 TraesCS3D01G065100 chr3B 47864105 47864750 645 True 339.500000 555 87.612500 944 1538 2 chr3B.!!$R6 594
13 TraesCS3D01G065100 chr3B 47543036 47543847 811 True 232.500000 265 84.959000 294 1018 2 chr3B.!!$R3 724
14 TraesCS3D01G065100 chr3A 38299402 38301627 2225 False 746.666667 1502 91.791000 1 2216 3 chr3A.!!$F1 2215
15 TraesCS3D01G065100 chr3A 38280488 38282695 2207 True 662.333333 1504 86.269667 294 2280 3 chr3A.!!$R2 1986
16 TraesCS3D01G065100 chr2A 574226751 574227547 796 False 596.300000 1101 95.061000 2380 3154 2 chr2A.!!$F1 774
17 TraesCS3D01G065100 chr1B 294607938 294608723 785 True 1026.000000 1026 90.488000 2376 3155 1 chr1B.!!$R1 779
18 TraesCS3D01G065100 chr4D 481414656 481415666 1010 True 839.000000 839 81.844000 1158 2201 1 chr4D.!!$R1 1043
19 TraesCS3D01G065100 chr5A 661242329 661243338 1009 False 826.000000 826 81.602000 1159 2201 1 chr5A.!!$F1 1042
20 TraesCS3D01G065100 chr6B 131691565 131693574 2009 False 478.000000 824 84.368500 3 1025 2 chr6B.!!$F3 1022
21 TraesCS3D01G065100 chr5D 451540939 451541695 756 True 471.500000 756 87.549000 2374 3159 2 chr5D.!!$R2 785

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
931 5093 0.897863 TACAGCCCAACCAACCATGC 60.898 55.0 0.0 0.0 0.0 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2288 9206 0.034059 ATCCATCCGAGATCCAACGC 59.966 55.0 0.0 0.0 0.0 4.84 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
136 140 1.743958 GCTTGGTGAGAGACGTAGCTA 59.256 52.381 0.00 0.00 31.97 3.32
137 141 2.359531 GCTTGGTGAGAGACGTAGCTAT 59.640 50.000 0.00 0.00 31.97 2.97
138 142 3.549221 GCTTGGTGAGAGACGTAGCTATC 60.549 52.174 0.00 0.00 31.97 2.08
139 143 3.277142 TGGTGAGAGACGTAGCTATCA 57.723 47.619 0.00 0.00 34.06 2.15
140 144 3.821748 TGGTGAGAGACGTAGCTATCAT 58.178 45.455 5.07 0.00 38.27 2.45
142 146 4.276183 TGGTGAGAGACGTAGCTATCATTC 59.724 45.833 5.07 2.84 38.27 2.67
144 148 3.498777 TGAGAGACGTAGCTATCATTCCG 59.501 47.826 0.00 0.00 31.71 4.30
145 149 3.478509 AGAGACGTAGCTATCATTCCGT 58.521 45.455 4.69 4.69 0.00 4.69
146 150 3.499157 AGAGACGTAGCTATCATTCCGTC 59.501 47.826 19.13 19.13 43.52 4.79
147 151 3.900388 GACGTAGCTATCATTCCGTCT 57.100 47.619 19.35 0.00 40.91 4.18
148 152 3.556513 GACGTAGCTATCATTCCGTCTG 58.443 50.000 19.35 0.00 40.91 3.51
149 153 2.293677 ACGTAGCTATCATTCCGTCTGG 59.706 50.000 0.00 0.00 0.00 3.86
150 154 2.678324 GTAGCTATCATTCCGTCTGGC 58.322 52.381 0.00 0.00 34.14 4.85
151 155 1.123077 AGCTATCATTCCGTCTGGCA 58.877 50.000 0.00 0.00 34.14 4.92
152 156 1.696336 AGCTATCATTCCGTCTGGCAT 59.304 47.619 0.00 0.00 34.14 4.40
153 157 2.105477 AGCTATCATTCCGTCTGGCATT 59.895 45.455 0.00 0.00 34.14 3.56
154 158 2.225019 GCTATCATTCCGTCTGGCATTG 59.775 50.000 0.00 0.00 34.14 2.82
155 159 1.683943 ATCATTCCGTCTGGCATTGG 58.316 50.000 0.00 0.00 34.14 3.16
241 245 6.373495 ACAGAAAGTTTCGGTTCAGTTTACTT 59.627 34.615 14.64 0.00 34.38 2.24
249 253 8.981647 GTTTCGGTTCAGTTTACTTACAAGATA 58.018 33.333 0.00 0.00 0.00 1.98
356 360 2.164422 GCAAAACAGATGCCTAGAACCC 59.836 50.000 0.00 0.00 37.85 4.11
360 364 1.051812 CAGATGCCTAGAACCCGGAT 58.948 55.000 0.73 0.00 0.00 4.18
504 522 1.135199 GGAGCCAACATAAGACGACGA 60.135 52.381 0.00 0.00 0.00 4.20
505 523 2.481449 GGAGCCAACATAAGACGACGAT 60.481 50.000 0.00 0.00 0.00 3.73
530 548 2.833582 ATCATCGTCCGCCCGACT 60.834 61.111 0.00 0.00 40.08 4.18
531 549 1.512996 GATCATCGTCCGCCCGACTA 61.513 60.000 0.00 0.00 40.08 2.59
693 1745 4.223144 TCCCCTTTTCTTTTTCTTGAGGG 58.777 43.478 0.00 0.00 41.60 4.30
696 1748 4.040829 CCCTTTTCTTTTTCTTGAGGGCAT 59.959 41.667 0.00 0.00 36.28 4.40
700 2370 2.964464 TCTTTTTCTTGAGGGCATGCAA 59.036 40.909 21.36 3.83 0.00 4.08
719 2568 3.431346 GCAATCTGGTGTCTATGCTCTGA 60.431 47.826 0.00 0.00 0.00 3.27
720 2569 4.763073 CAATCTGGTGTCTATGCTCTGAA 58.237 43.478 0.00 0.00 0.00 3.02
721 2570 4.669206 ATCTGGTGTCTATGCTCTGAAG 57.331 45.455 0.00 0.00 0.00 3.02
737 3386 3.811497 TCTGAAGTCTGAACAACATGCAG 59.189 43.478 0.00 0.00 0.00 4.41
801 3450 1.227002 GTCGCATCTCCGGAACCTC 60.227 63.158 5.23 0.00 0.00 3.85
865 3650 2.546778 GCCGTTGTCAGGAATCGAATA 58.453 47.619 0.00 0.00 0.00 1.75
874 3664 3.386726 TCAGGAATCGAATACCATCCGTT 59.613 43.478 0.00 0.00 35.31 4.44
875 3665 4.127171 CAGGAATCGAATACCATCCGTTT 58.873 43.478 0.00 0.00 35.31 3.60
876 3666 4.574828 CAGGAATCGAATACCATCCGTTTT 59.425 41.667 0.00 0.00 35.31 2.43
877 3667 4.574828 AGGAATCGAATACCATCCGTTTTG 59.425 41.667 0.00 0.00 35.31 2.44
878 3668 3.963383 ATCGAATACCATCCGTTTTGC 57.037 42.857 0.00 0.00 0.00 3.68
879 3669 2.701107 TCGAATACCATCCGTTTTGCA 58.299 42.857 0.00 0.00 0.00 4.08
880 3670 2.417239 TCGAATACCATCCGTTTTGCAC 59.583 45.455 0.00 0.00 0.00 4.57
929 5091 1.427368 TCTTACAGCCCAACCAACCAT 59.573 47.619 0.00 0.00 0.00 3.55
930 5092 1.545582 CTTACAGCCCAACCAACCATG 59.454 52.381 0.00 0.00 0.00 3.66
931 5093 0.897863 TACAGCCCAACCAACCATGC 60.898 55.000 0.00 0.00 0.00 4.06
932 5094 2.200930 AGCCCAACCAACCATGCA 59.799 55.556 0.00 0.00 0.00 3.96
933 5095 1.459158 AGCCCAACCAACCATGCAA 60.459 52.632 0.00 0.00 0.00 4.08
934 5096 1.004679 GCCCAACCAACCATGCAAG 60.005 57.895 0.00 0.00 0.00 4.01
935 5097 1.004679 CCCAACCAACCATGCAAGC 60.005 57.895 0.00 0.00 0.00 4.01
936 5098 1.747145 CCAACCAACCATGCAAGCA 59.253 52.632 0.00 0.00 0.00 3.91
1028 5196 2.636893 ACTCTTCAGATGCTCACAGGTT 59.363 45.455 0.00 0.00 0.00 3.50
1044 5250 1.735559 GTTCGTACGGTGCCCACTC 60.736 63.158 16.52 0.00 0.00 3.51
1049 5255 1.229082 TACGGTGCCCACTCCTTCT 60.229 57.895 0.00 0.00 0.00 2.85
1050 5256 1.255667 TACGGTGCCCACTCCTTCTC 61.256 60.000 0.00 0.00 0.00 2.87
1051 5257 2.671682 GGTGCCCACTCCTTCTCC 59.328 66.667 0.00 0.00 0.00 3.71
1053 5259 1.566298 GGTGCCCACTCCTTCTCCAT 61.566 60.000 0.00 0.00 0.00 3.41
1054 5260 0.107459 GTGCCCACTCCTTCTCCATC 60.107 60.000 0.00 0.00 0.00 3.51
1055 5261 0.252881 TGCCCACTCCTTCTCCATCT 60.253 55.000 0.00 0.00 0.00 2.90
1056 5262 0.915364 GCCCACTCCTTCTCCATCTT 59.085 55.000 0.00 0.00 0.00 2.40
1057 5263 1.134250 GCCCACTCCTTCTCCATCTTC 60.134 57.143 0.00 0.00 0.00 2.87
1058 5264 1.137872 CCCACTCCTTCTCCATCTTCG 59.862 57.143 0.00 0.00 0.00 3.79
1059 5265 1.827969 CCACTCCTTCTCCATCTTCGT 59.172 52.381 0.00 0.00 0.00 3.85
1060 5266 3.024547 CCACTCCTTCTCCATCTTCGTA 58.975 50.000 0.00 0.00 0.00 3.43
1078 5284 3.256879 TCGTATGCTCCATCTTCTCCATC 59.743 47.826 0.00 0.00 0.00 3.51
1082 5417 3.382278 TGCTCCATCTTCTCCATCTTCT 58.618 45.455 0.00 0.00 0.00 2.85
1090 5737 5.350504 TCTTCTCCATCTTCTCCACATTC 57.649 43.478 0.00 0.00 0.00 2.67
1120 5776 7.143514 TCACACGTACTACAACATATACACA 57.856 36.000 0.00 0.00 0.00 3.72
1474 7962 1.528292 CTCCGATCCCCTCATCCGTC 61.528 65.000 0.00 0.00 0.00 4.79
1555 8434 2.351276 GGGTGCAAGATGGTCGGT 59.649 61.111 0.00 0.00 0.00 4.69
1616 8495 1.134901 GTCGTCGATGAGCACGAGT 59.865 57.895 7.79 0.00 45.30 4.18
1775 8660 1.977544 AACGGCGAGCAGTCCTACT 60.978 57.895 16.62 0.00 0.00 2.57
1891 8776 3.644399 GAAGAGGGACACGGCGGTC 62.644 68.421 13.24 15.44 37.06 4.79
2005 8890 1.696097 GCCACCATCACCCCTACGAT 61.696 60.000 0.00 0.00 0.00 3.73
2038 8923 1.709147 CCATGCGCCTGTACAAGAGC 61.709 60.000 12.69 12.69 0.00 4.09
2056 8941 4.260609 ATGCGCGCCATGAGGGAT 62.261 61.111 30.77 9.84 40.01 3.85
2058 8943 4.916293 GCGCGCCATGAGGGATCA 62.916 66.667 23.24 0.00 40.01 2.92
2095 8992 3.443099 GACGATGATGATGAGTCCACA 57.557 47.619 0.00 0.00 0.00 4.17
2169 9066 2.279120 GCTCCTCGCGATGTCCAG 60.279 66.667 10.36 1.35 0.00 3.86
2194 9091 0.690762 ACTACCGATGTTGGTGCCTT 59.309 50.000 2.05 0.00 43.68 4.35
2232 9147 2.893637 CTGACGGATTCGAATCTTGGT 58.106 47.619 31.32 25.85 40.11 3.67
2273 9190 7.222872 GTGGTGATGATGAAAGATAGGAGAAT 58.777 38.462 0.00 0.00 0.00 2.40
2285 9203 9.220767 GAAAGATAGGAGAATATAAAATGCCGT 57.779 33.333 0.00 0.00 0.00 5.68
2286 9204 8.553459 AAGATAGGAGAATATAAAATGCCGTG 57.447 34.615 0.00 0.00 0.00 4.94
2287 9205 7.680730 AGATAGGAGAATATAAAATGCCGTGT 58.319 34.615 0.00 0.00 0.00 4.49
2288 9206 7.604164 AGATAGGAGAATATAAAATGCCGTGTG 59.396 37.037 0.00 0.00 0.00 3.82
2289 9207 4.275936 AGGAGAATATAAAATGCCGTGTGC 59.724 41.667 0.00 0.00 41.77 4.57
2290 9208 4.209452 AGAATATAAAATGCCGTGTGCG 57.791 40.909 0.00 0.00 45.60 5.34
2291 9209 3.625764 AGAATATAAAATGCCGTGTGCGT 59.374 39.130 0.00 0.00 45.60 5.24
2296 9214 2.359850 ATGCCGTGTGCGTTGGAT 60.360 55.556 0.00 0.00 45.60 3.41
2297 9215 2.398554 ATGCCGTGTGCGTTGGATC 61.399 57.895 0.00 0.00 45.60 3.36
2349 9267 2.409975 ACGTGTGGTGGTCGAATAAAG 58.590 47.619 0.00 0.00 0.00 1.85
2350 9268 2.224113 ACGTGTGGTGGTCGAATAAAGT 60.224 45.455 0.00 0.00 0.00 2.66
2351 9269 2.803956 CGTGTGGTGGTCGAATAAAGTT 59.196 45.455 0.00 0.00 0.00 2.66
2352 9270 3.363575 CGTGTGGTGGTCGAATAAAGTTG 60.364 47.826 0.00 0.00 0.00 3.16
2353 9271 2.550606 TGTGGTGGTCGAATAAAGTTGC 59.449 45.455 0.00 0.00 0.00 4.17
2354 9272 2.095415 GTGGTGGTCGAATAAAGTTGCC 60.095 50.000 0.00 0.00 0.00 4.52
2355 9273 2.224670 TGGTGGTCGAATAAAGTTGCCT 60.225 45.455 0.00 0.00 0.00 4.75
2356 9274 2.161609 GGTGGTCGAATAAAGTTGCCTG 59.838 50.000 0.00 0.00 0.00 4.85
2357 9275 3.071479 GTGGTCGAATAAAGTTGCCTGA 58.929 45.455 0.00 0.00 0.00 3.86
2358 9276 3.071479 TGGTCGAATAAAGTTGCCTGAC 58.929 45.455 0.00 0.00 0.00 3.51
2359 9277 3.244422 TGGTCGAATAAAGTTGCCTGACT 60.244 43.478 0.00 0.00 0.00 3.41
2360 9278 3.751698 GGTCGAATAAAGTTGCCTGACTT 59.248 43.478 0.00 0.00 41.44 3.01
2362 9280 5.383130 GTCGAATAAAGTTGCCTGACTTTC 58.617 41.667 11.68 1.00 44.30 2.62
2363 9281 5.049680 GTCGAATAAAGTTGCCTGACTTTCA 60.050 40.000 11.68 2.88 44.30 2.69
2364 9282 5.529430 TCGAATAAAGTTGCCTGACTTTCAA 59.471 36.000 11.68 0.00 44.30 2.69
2365 9283 6.038825 TCGAATAAAGTTGCCTGACTTTCAAA 59.961 34.615 11.68 0.00 44.30 2.69
2366 9284 6.863126 CGAATAAAGTTGCCTGACTTTCAAAT 59.137 34.615 11.68 1.24 44.30 2.32
2367 9285 7.148918 CGAATAAAGTTGCCTGACTTTCAAATG 60.149 37.037 11.68 0.50 44.30 2.32
2368 9286 5.343307 AAAGTTGCCTGACTTTCAAATGT 57.657 34.783 4.65 0.00 44.30 2.71
2369 9287 5.343307 AAGTTGCCTGACTTTCAAATGTT 57.657 34.783 0.00 0.00 36.49 2.71
2370 9288 4.685924 AGTTGCCTGACTTTCAAATGTTG 58.314 39.130 0.00 0.00 0.00 3.33
2371 9289 3.731652 TGCCTGACTTTCAAATGTTGG 57.268 42.857 0.00 0.00 0.00 3.77
2372 9290 3.030291 TGCCTGACTTTCAAATGTTGGT 58.970 40.909 0.00 0.00 0.00 3.67
2373 9291 3.068024 TGCCTGACTTTCAAATGTTGGTC 59.932 43.478 0.00 0.00 0.00 4.02
2374 9292 3.068024 GCCTGACTTTCAAATGTTGGTCA 59.932 43.478 0.00 0.00 33.56 4.02
2574 9510 7.200455 AGTTGTACTGTTGAGGCAATAAAAAC 58.800 34.615 0.00 0.00 0.00 2.43
2575 9511 5.753744 TGTACTGTTGAGGCAATAAAAACG 58.246 37.500 0.00 0.00 0.00 3.60
2580 9516 6.983890 ACTGTTGAGGCAATAAAAACGAAATT 59.016 30.769 0.00 0.00 0.00 1.82
2581 9517 8.138712 ACTGTTGAGGCAATAAAAACGAAATTA 58.861 29.630 0.00 0.00 0.00 1.40
2582 9518 8.514136 TGTTGAGGCAATAAAAACGAAATTAG 57.486 30.769 0.00 0.00 0.00 1.73
2583 9519 7.115663 TGTTGAGGCAATAAAAACGAAATTAGC 59.884 33.333 0.00 0.00 0.00 3.09
2667 9605 9.815936 GCAATTATCAAGAAAAGACCAAAATTG 57.184 29.630 0.00 0.00 35.02 2.32
2686 9624 9.009327 CAAAATTGGCATGTAAGAGTAAATACG 57.991 33.333 0.00 0.00 0.00 3.06
2893 9839 1.283736 ACGTATCGTTCATTTCCGCC 58.716 50.000 0.00 0.00 36.35 6.13
3086 10056 2.404923 TTCGGTGACAGTCCAAACAA 57.595 45.000 0.00 0.00 0.00 2.83
3159 10129 3.635591 CAATCCAAACAGCCCCTAGATT 58.364 45.455 0.00 0.00 0.00 2.40
3160 10130 4.026052 CAATCCAAACAGCCCCTAGATTT 58.974 43.478 0.00 0.00 0.00 2.17
3161 10131 3.825908 TCCAAACAGCCCCTAGATTTT 57.174 42.857 0.00 0.00 0.00 1.82
3162 10132 3.430453 TCCAAACAGCCCCTAGATTTTG 58.570 45.455 0.00 0.00 0.00 2.44
3163 10133 3.165071 CCAAACAGCCCCTAGATTTTGT 58.835 45.455 0.00 0.00 0.00 2.83
3164 10134 3.578282 CCAAACAGCCCCTAGATTTTGTT 59.422 43.478 0.00 0.00 0.00 2.83
3165 10135 4.040339 CCAAACAGCCCCTAGATTTTGTTT 59.960 41.667 0.00 0.73 38.77 2.83
3166 10136 4.871933 AACAGCCCCTAGATTTTGTTTG 57.128 40.909 0.00 0.00 0.00 2.93
3167 10137 3.165071 ACAGCCCCTAGATTTTGTTTGG 58.835 45.455 0.00 0.00 0.00 3.28
3168 10138 2.497273 CAGCCCCTAGATTTTGTTTGGG 59.503 50.000 0.00 0.00 34.58 4.12
3169 10139 2.381961 AGCCCCTAGATTTTGTTTGGGA 59.618 45.455 0.00 0.00 36.90 4.37
3170 10140 3.169908 GCCCCTAGATTTTGTTTGGGAA 58.830 45.455 0.00 0.00 36.90 3.97
3171 10141 3.056107 GCCCCTAGATTTTGTTTGGGAAC 60.056 47.826 0.00 0.00 36.90 3.62
3172 10142 4.156477 CCCCTAGATTTTGTTTGGGAACA 58.844 43.478 0.00 0.00 43.73 3.18
3173 10143 4.220602 CCCCTAGATTTTGTTTGGGAACAG 59.779 45.833 0.00 0.00 45.80 3.16
3174 10144 4.220602 CCCTAGATTTTGTTTGGGAACAGG 59.779 45.833 0.00 0.00 45.80 4.00
3175 10145 3.751479 AGATTTTGTTTGGGAACAGGC 57.249 42.857 0.00 0.00 45.80 4.85
3176 10146 3.308401 AGATTTTGTTTGGGAACAGGCT 58.692 40.909 0.00 0.00 45.80 4.58
3177 10147 2.977772 TTTTGTTTGGGAACAGGCTG 57.022 45.000 14.16 14.16 45.80 4.85
3178 10148 0.463620 TTTGTTTGGGAACAGGCTGC 59.536 50.000 15.89 0.00 45.80 5.25
3179 10149 1.398958 TTGTTTGGGAACAGGCTGCC 61.399 55.000 15.89 11.65 45.80 4.85
3180 10150 2.597217 TTTGGGAACAGGCTGCCG 60.597 61.111 15.89 10.87 44.54 5.69
3181 10151 3.126703 TTTGGGAACAGGCTGCCGA 62.127 57.895 15.89 4.85 44.54 5.54
3182 10152 3.842925 TTGGGAACAGGCTGCCGAC 62.843 63.158 15.89 3.58 44.54 4.79
3208 10178 4.214327 GGAGGCGAGGGAAGCGAG 62.214 72.222 0.00 0.00 35.00 5.03
3209 10179 4.214327 GAGGCGAGGGAAGCGAGG 62.214 72.222 0.00 0.00 35.00 4.63
3211 10181 3.145551 GGCGAGGGAAGCGAGGTA 61.146 66.667 0.00 0.00 35.00 3.08
3212 10182 2.499827 GGCGAGGGAAGCGAGGTAT 61.500 63.158 0.00 0.00 35.00 2.73
3213 10183 1.300233 GCGAGGGAAGCGAGGTATG 60.300 63.158 0.00 0.00 0.00 2.39
3214 10184 1.364171 CGAGGGAAGCGAGGTATGG 59.636 63.158 0.00 0.00 0.00 2.74
3215 10185 1.749033 GAGGGAAGCGAGGTATGGG 59.251 63.158 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.520451 AGTAAACCCCAAAGATAAAACTGAC 57.480 36.000 0.00 0.00 0.00 3.51
109 113 6.127980 GCTACGTCTCTCACCAAGCATATATA 60.128 42.308 0.00 0.00 32.01 0.86
110 114 5.336055 GCTACGTCTCTCACCAAGCATATAT 60.336 44.000 0.00 0.00 32.01 0.86
111 115 4.023107 GCTACGTCTCTCACCAAGCATATA 60.023 45.833 0.00 0.00 32.01 0.86
112 116 3.243569 GCTACGTCTCTCACCAAGCATAT 60.244 47.826 0.00 0.00 32.01 1.78
136 140 1.064463 ACCAATGCCAGACGGAATGAT 60.064 47.619 0.00 0.00 26.98 2.45
137 141 0.327924 ACCAATGCCAGACGGAATGA 59.672 50.000 0.00 0.00 26.98 2.57
138 142 0.452987 CACCAATGCCAGACGGAATG 59.547 55.000 0.00 0.00 26.98 2.67
139 143 0.680921 CCACCAATGCCAGACGGAAT 60.681 55.000 0.00 0.00 27.70 3.01
140 144 1.303236 CCACCAATGCCAGACGGAA 60.303 57.895 0.00 0.00 0.00 4.30
142 146 1.024579 GTACCACCAATGCCAGACGG 61.025 60.000 0.00 0.00 0.00 4.79
144 148 1.271379 ACAGTACCACCAATGCCAGAC 60.271 52.381 0.00 0.00 0.00 3.51
145 149 1.003118 GACAGTACCACCAATGCCAGA 59.997 52.381 0.00 0.00 0.00 3.86
146 150 1.003580 AGACAGTACCACCAATGCCAG 59.996 52.381 0.00 0.00 0.00 4.85
147 151 1.064003 AGACAGTACCACCAATGCCA 58.936 50.000 0.00 0.00 0.00 4.92
148 152 1.453155 CAGACAGTACCACCAATGCC 58.547 55.000 0.00 0.00 0.00 4.40
149 153 1.453155 CCAGACAGTACCACCAATGC 58.547 55.000 0.00 0.00 0.00 3.56
150 154 1.003580 AGCCAGACAGTACCACCAATG 59.996 52.381 0.00 0.00 0.00 2.82
151 155 1.362224 AGCCAGACAGTACCACCAAT 58.638 50.000 0.00 0.00 0.00 3.16
152 156 2.018355 TAGCCAGACAGTACCACCAA 57.982 50.000 0.00 0.00 0.00 3.67
153 157 1.831106 CATAGCCAGACAGTACCACCA 59.169 52.381 0.00 0.00 0.00 4.17
154 158 1.831736 ACATAGCCAGACAGTACCACC 59.168 52.381 0.00 0.00 0.00 4.61
155 159 3.611766 AACATAGCCAGACAGTACCAC 57.388 47.619 0.00 0.00 0.00 4.16
241 245 9.109393 GAGAAACCATGCATTTACTATCTTGTA 57.891 33.333 0.00 0.00 0.00 2.41
249 253 6.435277 ACTTCATGAGAAACCATGCATTTACT 59.565 34.615 0.00 0.00 42.63 2.24
301 305 9.520204 GTGATTGAAAATACATGTGGAAATAGG 57.480 33.333 9.11 0.00 0.00 2.57
323 327 1.884579 CTGTTTTGCTGCCTCTGTGAT 59.115 47.619 0.00 0.00 0.00 3.06
349 353 2.840640 TTCTCCTGATCCGGGTTCTA 57.159 50.000 0.00 0.00 0.00 2.10
356 360 4.280425 TCTTCATCTCATTCTCCTGATCCG 59.720 45.833 0.00 0.00 0.00 4.18
360 364 6.159299 GATGTCTTCATCTCATTCTCCTGA 57.841 41.667 1.58 0.00 44.86 3.86
413 428 1.810412 GCGTGGATATCCTGGGAACAC 60.810 57.143 22.35 9.38 36.82 3.32
585 604 4.668812 AGATGAGATTGGATTGGGATTCCT 59.331 41.667 2.01 0.00 34.17 3.36
693 1745 2.287427 GCATAGACACCAGATTGCATGC 60.287 50.000 11.82 11.82 0.00 4.06
696 1748 2.502947 AGAGCATAGACACCAGATTGCA 59.497 45.455 0.00 0.00 32.66 4.08
700 2370 4.029520 ACTTCAGAGCATAGACACCAGAT 58.970 43.478 0.00 0.00 0.00 2.90
719 2568 4.077300 TCTCTGCATGTTGTTCAGACTT 57.923 40.909 0.00 0.00 33.72 3.01
720 2569 3.758755 TCTCTGCATGTTGTTCAGACT 57.241 42.857 0.00 0.00 33.72 3.24
721 2570 3.061831 CGATCTCTGCATGTTGTTCAGAC 59.938 47.826 0.00 0.00 33.72 3.51
782 3431 2.202892 GGTTCCGGAGATGCGACC 60.203 66.667 3.34 4.32 0.00 4.79
783 3432 1.227002 GAGGTTCCGGAGATGCGAC 60.227 63.158 3.34 0.00 0.00 5.19
801 3450 4.574527 GCAGTAGCAGTATATTCATGCG 57.425 45.455 0.00 0.00 44.64 4.73
826 3527 0.108804 CGCCAACGGAGAGCTTCTTA 60.109 55.000 0.00 0.00 34.97 2.10
849 3633 4.703897 GGATGGTATTCGATTCCTGACAA 58.296 43.478 0.00 0.00 0.00 3.18
865 3650 1.537990 GCAAAGTGCAAAACGGATGGT 60.538 47.619 0.00 0.00 44.26 3.55
877 3667 4.972440 GCTATTTATGTAGCTGCAAAGTGC 59.028 41.667 9.07 5.45 42.93 4.40
878 3668 5.514279 GGCTATTTATGTAGCTGCAAAGTG 58.486 41.667 9.07 0.00 45.03 3.16
879 3669 4.273480 CGGCTATTTATGTAGCTGCAAAGT 59.727 41.667 9.07 4.56 44.47 2.66
880 3670 4.776743 CGGCTATTTATGTAGCTGCAAAG 58.223 43.478 9.07 3.15 44.47 2.77
929 5091 0.886043 AGTCATCGTGCTTGCTTGCA 60.886 50.000 0.27 0.27 41.05 4.08
930 5092 1.078709 TAGTCATCGTGCTTGCTTGC 58.921 50.000 0.00 0.00 0.00 4.01
931 5093 2.093310 CAGTAGTCATCGTGCTTGCTTG 59.907 50.000 0.00 0.00 0.00 4.01
932 5094 2.289072 ACAGTAGTCATCGTGCTTGCTT 60.289 45.455 0.00 0.00 0.00 3.91
933 5095 1.273606 ACAGTAGTCATCGTGCTTGCT 59.726 47.619 0.00 0.00 0.00 3.91
934 5096 1.714794 ACAGTAGTCATCGTGCTTGC 58.285 50.000 0.00 0.00 0.00 4.01
935 5097 3.665323 GCAAACAGTAGTCATCGTGCTTG 60.665 47.826 0.00 0.00 0.00 4.01
936 5098 2.480419 GCAAACAGTAGTCATCGTGCTT 59.520 45.455 0.00 0.00 0.00 3.91
942 5104 0.370273 CGCGGCAAACAGTAGTCATC 59.630 55.000 0.00 0.00 0.00 2.92
944 5106 0.942410 GACGCGGCAAACAGTAGTCA 60.942 55.000 7.34 0.00 0.00 3.41
1044 5250 3.553922 GGAGCATACGAAGATGGAGAAGG 60.554 52.174 0.00 0.00 0.00 3.46
1049 5255 3.234353 AGATGGAGCATACGAAGATGGA 58.766 45.455 0.00 0.00 0.00 3.41
1050 5256 3.674528 AGATGGAGCATACGAAGATGG 57.325 47.619 0.00 0.00 0.00 3.51
1051 5257 4.880759 AGAAGATGGAGCATACGAAGATG 58.119 43.478 0.00 0.00 0.00 2.90
1053 5259 3.319405 GGAGAAGATGGAGCATACGAAGA 59.681 47.826 0.00 0.00 0.00 2.87
1054 5260 3.068732 TGGAGAAGATGGAGCATACGAAG 59.931 47.826 0.00 0.00 0.00 3.79
1055 5261 3.031013 TGGAGAAGATGGAGCATACGAA 58.969 45.455 0.00 0.00 0.00 3.85
1056 5262 2.666317 TGGAGAAGATGGAGCATACGA 58.334 47.619 0.00 0.00 0.00 3.43
1057 5263 3.257873 AGATGGAGAAGATGGAGCATACG 59.742 47.826 0.00 0.00 0.00 3.06
1058 5264 4.888326 AGATGGAGAAGATGGAGCATAC 57.112 45.455 0.00 0.00 0.00 2.39
1059 5265 5.153675 AGAAGATGGAGAAGATGGAGCATA 58.846 41.667 0.00 0.00 0.00 3.14
1060 5266 3.975312 AGAAGATGGAGAAGATGGAGCAT 59.025 43.478 0.00 0.00 0.00 3.79
1078 5284 2.932614 GTGATCGTGGAATGTGGAGAAG 59.067 50.000 0.00 0.00 0.00 2.85
1082 5417 1.671556 CGTGTGATCGTGGAATGTGGA 60.672 52.381 0.00 0.00 0.00 4.02
1090 5737 2.905959 TGTAGTACGTGTGATCGTGG 57.094 50.000 0.00 0.00 43.93 4.94
1120 5776 3.999663 CTCCTCGTCAGCAAGAAGAAAAT 59.000 43.478 0.00 0.00 34.30 1.82
1775 8660 1.138568 CGGGAGGAGTAGGAGTAGGA 58.861 60.000 0.00 0.00 0.00 2.94
1891 8776 1.592669 CTTCATCAGCGGCGGGTAG 60.593 63.158 9.78 0.00 0.00 3.18
2080 8977 1.278537 TGGCTGTGGACTCATCATCA 58.721 50.000 0.00 0.00 0.00 3.07
2169 9066 1.520787 CAACATCGGTAGTCGGGCC 60.521 63.158 0.00 0.00 39.77 5.80
2194 9091 4.470170 CATCGCCGGTCGTCGTCA 62.470 66.667 16.00 0.00 39.67 4.35
2219 9116 0.451783 GCGCCAACCAAGATTCGAAT 59.548 50.000 11.20 11.20 0.00 3.34
2220 9117 0.605319 AGCGCCAACCAAGATTCGAA 60.605 50.000 2.29 0.00 0.00 3.71
2232 9147 0.671251 CCACCAAGTAAAAGCGCCAA 59.329 50.000 2.29 0.00 0.00 4.52
2273 9190 2.159503 CCAACGCACACGGCATTTTATA 60.160 45.455 0.00 0.00 46.04 0.98
2285 9203 0.460109 CATCCGAGATCCAACGCACA 60.460 55.000 0.00 0.00 0.00 4.57
2286 9204 1.154205 CCATCCGAGATCCAACGCAC 61.154 60.000 0.00 0.00 0.00 5.34
2287 9205 1.143838 CCATCCGAGATCCAACGCA 59.856 57.895 0.00 0.00 0.00 5.24
2288 9206 0.034059 ATCCATCCGAGATCCAACGC 59.966 55.000 0.00 0.00 0.00 4.84
2289 9207 2.672478 GCTATCCATCCGAGATCCAACG 60.672 54.545 0.00 0.00 0.00 4.10
2290 9208 2.564947 AGCTATCCATCCGAGATCCAAC 59.435 50.000 0.00 0.00 0.00 3.77
2291 9209 2.564504 CAGCTATCCATCCGAGATCCAA 59.435 50.000 0.00 0.00 0.00 3.53
2292 9210 2.174360 CAGCTATCCATCCGAGATCCA 58.826 52.381 0.00 0.00 0.00 3.41
2293 9211 1.134848 GCAGCTATCCATCCGAGATCC 60.135 57.143 0.00 0.00 0.00 3.36
2294 9212 1.134848 GGCAGCTATCCATCCGAGATC 60.135 57.143 0.00 0.00 0.00 2.75
2295 9213 0.901124 GGCAGCTATCCATCCGAGAT 59.099 55.000 0.00 0.00 0.00 2.75
2296 9214 1.527433 CGGCAGCTATCCATCCGAGA 61.527 60.000 5.21 0.00 42.43 4.04
2297 9215 1.080230 CGGCAGCTATCCATCCGAG 60.080 63.158 5.21 0.00 42.43 4.63
2349 9267 3.803778 CCAACATTTGAAAGTCAGGCAAC 59.196 43.478 0.00 0.00 0.00 4.17
2350 9268 3.450457 ACCAACATTTGAAAGTCAGGCAA 59.550 39.130 0.00 0.00 0.00 4.52
2351 9269 3.030291 ACCAACATTTGAAAGTCAGGCA 58.970 40.909 0.00 0.00 0.00 4.75
2352 9270 3.068024 TGACCAACATTTGAAAGTCAGGC 59.932 43.478 0.00 0.00 31.10 4.85
2353 9271 4.916983 TGACCAACATTTGAAAGTCAGG 57.083 40.909 0.00 0.00 31.10 3.86
2354 9272 7.086376 CCTAATGACCAACATTTGAAAGTCAG 58.914 38.462 0.00 0.00 45.60 3.51
2355 9273 6.015519 CCCTAATGACCAACATTTGAAAGTCA 60.016 38.462 0.00 0.44 45.60 3.41
2356 9274 6.389906 CCCTAATGACCAACATTTGAAAGTC 58.610 40.000 0.00 0.00 45.60 3.01
2357 9275 5.245977 CCCCTAATGACCAACATTTGAAAGT 59.754 40.000 0.00 0.00 45.60 2.66
2358 9276 5.337491 CCCCCTAATGACCAACATTTGAAAG 60.337 44.000 0.00 0.00 45.60 2.62
2359 9277 4.530161 CCCCCTAATGACCAACATTTGAAA 59.470 41.667 0.00 0.00 45.60 2.69
2360 9278 4.093011 CCCCCTAATGACCAACATTTGAA 58.907 43.478 0.00 0.00 45.60 2.69
2361 9279 3.707316 CCCCCTAATGACCAACATTTGA 58.293 45.455 0.00 0.00 45.60 2.69
2362 9280 2.168313 GCCCCCTAATGACCAACATTTG 59.832 50.000 0.00 0.00 45.60 2.32
2363 9281 2.044353 AGCCCCCTAATGACCAACATTT 59.956 45.455 0.00 0.00 45.60 2.32
2365 9283 1.063717 CAGCCCCCTAATGACCAACAT 60.064 52.381 0.00 0.00 41.45 2.71
2366 9284 0.331278 CAGCCCCCTAATGACCAACA 59.669 55.000 0.00 0.00 0.00 3.33
2367 9285 0.331616 ACAGCCCCCTAATGACCAAC 59.668 55.000 0.00 0.00 0.00 3.77
2368 9286 1.080638 AACAGCCCCCTAATGACCAA 58.919 50.000 0.00 0.00 0.00 3.67
2369 9287 1.080638 AAACAGCCCCCTAATGACCA 58.919 50.000 0.00 0.00 0.00 4.02
2370 9288 1.474330 CAAACAGCCCCCTAATGACC 58.526 55.000 0.00 0.00 0.00 4.02
2371 9289 1.272480 ACCAAACAGCCCCCTAATGAC 60.272 52.381 0.00 0.00 0.00 3.06
2372 9290 1.080638 ACCAAACAGCCCCCTAATGA 58.919 50.000 0.00 0.00 0.00 2.57
2373 9291 1.937191 AACCAAACAGCCCCCTAATG 58.063 50.000 0.00 0.00 0.00 1.90
2374 9292 2.256306 CAAACCAAACAGCCCCCTAAT 58.744 47.619 0.00 0.00 0.00 1.73
2556 9492 7.406799 AATTTCGTTTTTATTGCCTCAACAG 57.593 32.000 0.00 0.00 0.00 3.16
2667 9605 5.400485 CCGTACGTATTTACTCTTACATGCC 59.600 44.000 15.21 0.00 0.00 4.40
2893 9839 6.129062 GCGAATAGTCAACGGATTAATCAGAG 60.129 42.308 20.50 12.71 0.00 3.35
3086 10056 1.156736 CGCCCGTGAGAATTGAAAGT 58.843 50.000 0.00 0.00 0.00 2.66
3127 10097 1.395045 TTTGGATTGCCACCAACGCA 61.395 50.000 0.00 0.00 45.94 5.24
3159 10129 0.463620 GCAGCCTGTTCCCAAACAAA 59.536 50.000 0.00 0.00 44.53 2.83
3160 10130 1.398958 GGCAGCCTGTTCCCAAACAA 61.399 55.000 3.29 0.00 44.53 2.83
3161 10131 1.832167 GGCAGCCTGTTCCCAAACA 60.832 57.895 3.29 0.00 43.06 2.83
3162 10132 2.919494 CGGCAGCCTGTTCCCAAAC 61.919 63.158 10.54 0.00 35.85 2.93
3163 10133 2.597217 CGGCAGCCTGTTCCCAAA 60.597 61.111 10.54 0.00 0.00 3.28
3164 10134 3.565214 TCGGCAGCCTGTTCCCAA 61.565 61.111 10.54 0.00 0.00 4.12
3165 10135 4.329545 GTCGGCAGCCTGTTCCCA 62.330 66.667 10.54 0.00 0.00 4.37
3191 10161 4.214327 CTCGCTTCCCTCGCCTCC 62.214 72.222 0.00 0.00 0.00 4.30
3192 10162 4.214327 CCTCGCTTCCCTCGCCTC 62.214 72.222 0.00 0.00 0.00 4.70
3193 10163 2.930777 ATACCTCGCTTCCCTCGCCT 62.931 60.000 0.00 0.00 0.00 5.52
3194 10164 2.499827 ATACCTCGCTTCCCTCGCC 61.500 63.158 0.00 0.00 0.00 5.54
3195 10165 1.300233 CATACCTCGCTTCCCTCGC 60.300 63.158 0.00 0.00 0.00 5.03
3196 10166 1.364171 CCATACCTCGCTTCCCTCG 59.636 63.158 0.00 0.00 0.00 4.63
3197 10167 1.749033 CCCATACCTCGCTTCCCTC 59.251 63.158 0.00 0.00 0.00 4.30
3198 10168 3.971894 CCCATACCTCGCTTCCCT 58.028 61.111 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.