Multiple sequence alignment - TraesCS2A01G547500

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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 TraesCS2A01G547500 chr2A 100.000 5088 0 0 1 5088 755701957 755707044 0.000000e+00 9396.0
1 TraesCS2A01G547500 chr2B 91.596 4510 254 54 506 4967 766231377 766235809 0.000000e+00 6113.0
2 TraesCS2A01G547500 chr2B 91.311 610 47 6 1 606 766229652 766230259 0.000000e+00 828.0
3 TraesCS2A01G547500 chr2B 80.800 125 19 5 4965 5086 325790002 325789880 5.420000e-15 93.5
4 TraesCS2A01G547500 chr2D 92.007 3941 225 44 672 4550 624302803 624306715 0.000000e+00 5450.0
5 TraesCS2A01G547500 chr2D 94.298 947 42 3 1115 2049 63545727 63544781 0.000000e+00 1439.0
6 TraesCS2A01G547500 chr2D 87.228 736 68 16 1 720 624302020 624302745 0.000000e+00 815.0
7 TraesCS2A01G547500 chr2D 93.351 376 20 3 4596 4967 624306713 624307087 7.450000e-153 551.0
8 TraesCS2A01G547500 chr3A 80.318 1321 214 30 1029 2335 568018341 568019629 0.000000e+00 957.0
9 TraesCS2A01G547500 chr3A 78.421 1330 226 43 1021 2333 567975865 567977150 0.000000e+00 809.0
10 TraesCS2A01G547500 chr3A 82.189 466 60 15 2607 3051 568096704 568097167 3.720000e-101 379.0
11 TraesCS2A01G547500 chr3D 80.530 1284 204 31 1066 2335 429786836 429788087 0.000000e+00 944.0
12 TraesCS2A01G547500 chr3D 79.085 1334 219 43 1015 2333 429724304 429725592 0.000000e+00 863.0
13 TraesCS2A01G547500 chr3D 77.267 849 154 22 3206 4048 429727212 429728027 3.590000e-126 462.0
14 TraesCS2A01G547500 chr3D 82.237 456 65 13 2609 3050 430051918 430052371 3.720000e-101 379.0
15 TraesCS2A01G547500 chr3D 81.498 454 64 15 2609 3051 429911127 429911571 6.270000e-94 355.0
16 TraesCS2A01G547500 chr3D 78.873 213 39 5 404 611 356886649 356886438 6.870000e-29 139.0
17 TraesCS2A01G547500 chr3B 79.875 1282 216 28 1066 2335 562273027 562274278 0.000000e+00 900.0
18 TraesCS2A01G547500 chr3B 79.277 1327 209 46 1027 2333 561970774 561972054 0.000000e+00 867.0
19 TraesCS2A01G547500 chr3B 79.501 1283 214 32 1067 2335 562401819 562403066 0.000000e+00 867.0
20 TraesCS2A01G547500 chr3B 76.950 859 159 25 3195 4048 561973748 561974572 2.160000e-123 453.0
21 TraesCS2A01G547500 chr3B 82.637 455 58 17 2611 3051 562403361 562403808 2.870000e-102 383.0
22 TraesCS2A01G547500 chr1A 82.692 104 15 3 4291 4393 534940878 534940777 7.020000e-14 89.8
23 TraesCS2A01G547500 chrUn 75.978 179 28 13 418 585 326586790 326586964 1.520000e-10 78.7
24 TraesCS2A01G547500 chr5D 75.978 179 28 13 418 585 528034051 528034225 1.520000e-10 78.7
25 TraesCS2A01G547500 chr5D 75.978 179 28 13 418 585 528054096 528054270 1.520000e-10 78.7
26 TraesCS2A01G547500 chr5B 90.000 50 4 1 42 90 682223682 682223633 4.250000e-06 63.9


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 TraesCS2A01G547500 chr2A 755701957 755707044 5087 False 9396.0 9396 100.0000 1 5088 1 chr2A.!!$F1 5087
1 TraesCS2A01G547500 chr2B 766229652 766235809 6157 False 3470.5 6113 91.4535 1 4967 2 chr2B.!!$F1 4966
2 TraesCS2A01G547500 chr2D 624302020 624307087 5067 False 2272.0 5450 90.8620 1 4967 3 chr2D.!!$F1 4966
3 TraesCS2A01G547500 chr2D 63544781 63545727 946 True 1439.0 1439 94.2980 1115 2049 1 chr2D.!!$R1 934
4 TraesCS2A01G547500 chr3A 568018341 568019629 1288 False 957.0 957 80.3180 1029 2335 1 chr3A.!!$F2 1306
5 TraesCS2A01G547500 chr3A 567975865 567977150 1285 False 809.0 809 78.4210 1021 2333 1 chr3A.!!$F1 1312
6 TraesCS2A01G547500 chr3D 429786836 429788087 1251 False 944.0 944 80.5300 1066 2335 1 chr3D.!!$F1 1269
7 TraesCS2A01G547500 chr3D 429724304 429728027 3723 False 662.5 863 78.1760 1015 4048 2 chr3D.!!$F4 3033
8 TraesCS2A01G547500 chr3B 562273027 562274278 1251 False 900.0 900 79.8750 1066 2335 1 chr3B.!!$F1 1269
9 TraesCS2A01G547500 chr3B 561970774 561974572 3798 False 660.0 867 78.1135 1027 4048 2 chr3B.!!$F2 3021
10 TraesCS2A01G547500 chr3B 562401819 562403808 1989 False 625.0 867 81.0690 1067 3051 2 chr3B.!!$F3 1984

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
654 1891 0.389296 TACGCGTGGAACCATGTCAG 60.389 55.0 24.59 8.64 35.52 3.51 F
951 2213 0.391528 TCACACATCCAGCCATGTCG 60.392 55.0 0.00 0.00 34.60 4.35 F
2423 3792 0.672401 TTTCTTCAGCTAACCGCCGG 60.672 55.0 0.00 0.00 40.39 6.13 F
2630 4791 0.037326 AGAACAAGATGAGCGGCGAA 60.037 50.0 12.98 0.00 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1651 2931 0.108804 CTGGCGTACGTCTTGGACAT 60.109 55.000 21.92 0.0 32.09 3.06 R
2458 4601 0.179108 AAGAAGCACGCCGGAGATAC 60.179 55.000 13.83 0.0 0.00 2.24 R
3276 5557 0.313672 CCTCGTGGAGATAGAGCAGC 59.686 60.000 0.00 0.0 34.57 5.25 R
4482 6778 1.752498 GATGGCATCATGCTTTGGTCA 59.248 47.619 22.23 0.0 44.28 4.02 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
37 38 7.013655 CCTCCCATATTTGATAGTTGAACTTGG 59.986 40.741 1.97 2.17 0.00 3.61
57 58 4.843728 TGGACTCTGATGGGTTGAAATAC 58.156 43.478 0.00 0.00 0.00 1.89
85 86 3.718434 TCCTCCTAATCATCCAAGCACAT 59.282 43.478 0.00 0.00 0.00 3.21
86 87 4.907269 TCCTCCTAATCATCCAAGCACATA 59.093 41.667 0.00 0.00 0.00 2.29
90 91 6.840527 TCCTAATCATCCAAGCACATATTGA 58.159 36.000 0.00 0.00 0.00 2.57
233 234 2.945008 CAGGCAAAGACAAGAGACAACA 59.055 45.455 0.00 0.00 0.00 3.33
433 439 9.246670 ACTTTTATGAAGAAATGACATCCATGA 57.753 29.630 0.00 0.00 35.24 3.07
444 450 5.051409 TGACATCCATGATATTCTTGGCA 57.949 39.130 0.00 0.00 40.40 4.92
458 464 9.977762 GATATTCTTGGCAAAAATGACAAAATC 57.022 29.630 9.01 0.00 36.23 2.17
464 470 3.421698 GCAAAAATGACAAAATCGACGCC 60.422 43.478 0.00 0.00 0.00 5.68
469 475 4.732285 ATGACAAAATCGACGCCATATC 57.268 40.909 0.00 0.00 0.00 1.63
502 509 6.012337 TGCTTGATGAATATTAAGGTCCCA 57.988 37.500 0.00 0.00 32.24 4.37
529 536 9.838339 ATTGTATTTCTTCACTAAGGATACCAG 57.162 33.333 0.00 0.00 34.58 4.00
530 537 8.603898 TGTATTTCTTCACTAAGGATACCAGA 57.396 34.615 0.00 0.00 34.58 3.86
547 1773 5.304686 ACCAGAGTGTCATTTCTTTACCA 57.695 39.130 0.00 0.00 0.00 3.25
631 1868 9.443323 TCTTAATCTTAAATTCATGGTTCACGA 57.557 29.630 0.00 0.00 0.00 4.35
634 1871 4.941263 TCTTAAATTCATGGTTCACGAGGG 59.059 41.667 0.00 0.00 0.00 4.30
653 1890 0.668096 GTACGCGTGGAACCATGTCA 60.668 55.000 24.59 0.00 35.52 3.58
654 1891 0.389296 TACGCGTGGAACCATGTCAG 60.389 55.000 24.59 8.64 35.52 3.51
655 1892 1.667830 CGCGTGGAACCATGTCAGT 60.668 57.895 13.55 0.00 35.52 3.41
656 1893 1.868997 GCGTGGAACCATGTCAGTG 59.131 57.895 13.55 0.00 35.52 3.66
660 1897 2.357637 CGTGGAACCATGTCAGTGTTTT 59.642 45.455 5.02 0.00 0.00 2.43
661 1898 3.548014 CGTGGAACCATGTCAGTGTTTTC 60.548 47.826 5.02 0.00 0.00 2.29
662 1899 2.616376 TGGAACCATGTCAGTGTTTTCG 59.384 45.455 0.00 0.00 0.00 3.46
663 1900 2.616842 GGAACCATGTCAGTGTTTTCGT 59.383 45.455 0.00 0.00 0.00 3.85
664 1901 3.548014 GGAACCATGTCAGTGTTTTCGTG 60.548 47.826 0.00 0.00 0.00 4.35
665 1902 2.912771 ACCATGTCAGTGTTTTCGTGA 58.087 42.857 0.00 0.00 0.00 4.35
666 1903 3.476552 ACCATGTCAGTGTTTTCGTGAT 58.523 40.909 0.00 0.00 0.00 3.06
667 1904 4.637276 ACCATGTCAGTGTTTTCGTGATA 58.363 39.130 0.00 0.00 0.00 2.15
668 1905 4.690748 ACCATGTCAGTGTTTTCGTGATAG 59.309 41.667 0.00 0.00 0.00 2.08
669 1906 4.093408 CCATGTCAGTGTTTTCGTGATAGG 59.907 45.833 0.00 0.00 0.00 2.57
670 1907 3.659786 TGTCAGTGTTTTCGTGATAGGG 58.340 45.455 0.00 0.00 0.00 3.53
685 1922 5.350914 CGTGATAGGGGTACTAATCTACTCG 59.649 48.000 0.00 0.00 34.79 4.18
700 1937 6.927294 ATCTACTCGAATCCAACCAAATTC 57.073 37.500 0.00 0.00 0.00 2.17
715 1952 7.549488 CCAACCAAATTCCTACTACTAGTCAAG 59.451 40.741 0.00 0.00 0.00 3.02
716 1953 6.641474 ACCAAATTCCTACTACTAGTCAAGC 58.359 40.000 0.00 0.00 0.00 4.01
717 1954 6.049790 CCAAATTCCTACTACTAGTCAAGCC 58.950 44.000 0.00 0.00 0.00 4.35
718 1955 5.873146 AATTCCTACTACTAGTCAAGCCC 57.127 43.478 0.00 0.00 0.00 5.19
719 1956 4.326600 TTCCTACTACTAGTCAAGCCCA 57.673 45.455 0.00 0.00 0.00 5.36
720 1957 3.629087 TCCTACTACTAGTCAAGCCCAC 58.371 50.000 0.00 0.00 0.00 4.61
721 1958 3.268856 TCCTACTACTAGTCAAGCCCACT 59.731 47.826 0.00 0.00 0.00 4.00
727 1964 2.124507 TAGTCAAGCCCACTGCCCAC 62.125 60.000 0.00 0.00 42.71 4.61
728 1965 4.641645 TCAAGCCCACTGCCCACG 62.642 66.667 0.00 0.00 42.71 4.94
781 2019 4.363990 CCACTCGGCGCACAGTCT 62.364 66.667 10.83 0.00 0.00 3.24
786 2040 2.202797 CGGCGCACAGTCTGCTAT 60.203 61.111 10.83 0.00 44.64 2.97
816 2070 2.353307 CGATGCCGCCATATACCTAACA 60.353 50.000 0.00 0.00 0.00 2.41
835 2089 4.147322 CGAACATGTGCGGTCGCC 62.147 66.667 19.05 5.05 41.09 5.54
850 2104 2.025727 GCCGGTCGGTCGACATAG 59.974 66.667 22.35 8.22 46.20 2.23
880 2134 1.154205 CGTAGCAGCCATTTCTCCCG 61.154 60.000 0.00 0.00 0.00 5.14
881 2135 1.153168 TAGCAGCCATTTCTCCCGC 60.153 57.895 0.00 0.00 0.00 6.13
931 2193 2.410939 CATCCAGTCACACTCACACAG 58.589 52.381 0.00 0.00 0.00 3.66
932 2194 1.485124 TCCAGTCACACTCACACAGT 58.515 50.000 0.00 0.00 34.67 3.55
933 2195 1.409064 TCCAGTCACACTCACACAGTC 59.591 52.381 0.00 0.00 30.26 3.51
934 2196 1.136891 CCAGTCACACTCACACAGTCA 59.863 52.381 0.00 0.00 30.26 3.41
935 2197 2.196749 CAGTCACACTCACACAGTCAC 58.803 52.381 0.00 0.00 30.26 3.67
936 2198 1.824852 AGTCACACTCACACAGTCACA 59.175 47.619 0.00 0.00 30.26 3.58
937 2199 1.927174 GTCACACTCACACAGTCACAC 59.073 52.381 0.00 0.00 30.26 3.82
938 2200 1.548269 TCACACTCACACAGTCACACA 59.452 47.619 0.00 0.00 30.26 3.72
939 2201 2.168313 TCACACTCACACAGTCACACAT 59.832 45.455 0.00 0.00 30.26 3.21
940 2202 2.541346 CACACTCACACAGTCACACATC 59.459 50.000 0.00 0.00 30.26 3.06
951 2213 0.391528 TCACACATCCAGCCATGTCG 60.392 55.000 0.00 0.00 34.60 4.35
956 2227 0.812811 CATCCAGCCATGTCGTGAGG 60.813 60.000 0.00 0.00 0.00 3.86
966 2237 3.134792 TCGTGAGGCCGAGAGAGC 61.135 66.667 0.00 0.00 32.18 4.09
967 2238 3.443925 CGTGAGGCCGAGAGAGCA 61.444 66.667 0.00 0.00 0.00 4.26
974 2245 2.898738 CCGAGAGAGCAGCCACAT 59.101 61.111 0.00 0.00 0.00 3.21
987 2258 1.105759 GCCACATTCCATCCAGAGGC 61.106 60.000 0.00 0.00 0.00 4.70
990 2261 1.228063 CATTCCATCCAGAGGCCGG 60.228 63.158 0.00 0.00 0.00 6.13
993 2264 3.089874 CCATCCAGAGGCCGGGAA 61.090 66.667 16.25 2.71 40.02 3.97
994 2265 2.507944 CATCCAGAGGCCGGGAAG 59.492 66.667 16.25 9.45 40.02 3.46
995 2266 2.041265 ATCCAGAGGCCGGGAAGT 59.959 61.111 16.25 0.43 40.02 3.01
1077 2354 4.770362 TCCCCCTCGATCGCCACA 62.770 66.667 11.09 0.00 0.00 4.17
1084 2361 1.416813 CTCGATCGCCACAGACAAGC 61.417 60.000 11.09 0.00 0.00 4.01
1250 2527 4.778143 GTGGGTCGCCAATCGCCT 62.778 66.667 0.00 0.00 38.27 5.52
1453 2730 1.202582 AGAGTCAAAGTGGATCGACGG 59.797 52.381 1.90 0.00 33.56 4.79
1651 2931 1.537889 TTCTTCCTCTTCCGGGGCA 60.538 57.895 0.00 0.00 0.00 5.36
2094 3395 2.099263 GACAGTGAGCCGTATGAAGCTA 59.901 50.000 0.00 0.00 40.11 3.32
2292 3593 1.245376 TGCAGGACGTGTACATCCGA 61.245 55.000 12.29 0.00 40.20 4.55
2350 3714 3.325135 AGGTTAGTAGCACTGCAACTCTT 59.675 43.478 3.30 0.00 0.00 2.85
2384 3751 8.472413 TGAATTTTTGCAAAATTTCCCATTTCA 58.528 25.926 34.37 22.78 37.41 2.69
2420 3789 2.029365 GTCGATTTCTTCAGCTAACCGC 59.971 50.000 0.00 0.00 39.57 5.68
2423 3792 0.672401 TTTCTTCAGCTAACCGCCGG 60.672 55.000 0.00 0.00 40.39 6.13
2451 4594 1.666553 GTGGTTGTGATCGCCGTCA 60.667 57.895 3.31 0.00 0.00 4.35
2483 4626 2.032681 GGCGTGCTTCTTCTGGGT 59.967 61.111 0.00 0.00 0.00 4.51
2563 4724 0.874390 GACAACGAGCTTCCATTGCA 59.126 50.000 0.00 0.00 0.00 4.08
2569 4730 1.001248 AGCTTCCATTGCAGGCCAT 59.999 52.632 5.01 0.00 0.00 4.40
2607 4768 1.511305 GACGATCAGCGGTTCTCCA 59.489 57.895 0.00 0.00 46.49 3.86
2609 4770 0.389948 ACGATCAGCGGTTCTCCAAC 60.390 55.000 0.00 0.00 46.49 3.77
2630 4791 0.037326 AGAACAAGATGAGCGGCGAA 60.037 50.000 12.98 0.00 0.00 4.70
2793 4996 9.678941 GTTATAGATCGATCACAACTTGTATCA 57.321 33.333 26.47 3.04 0.00 2.15
3077 5347 1.296392 CGGTGGTCTGCTCATTCCA 59.704 57.895 0.00 0.00 0.00 3.53
3243 5524 5.334569 GCGCAAGTTACTAAGATGGAAAACA 60.335 40.000 0.30 0.00 41.68 2.83
3367 5648 3.541242 TGGACAAAAACATGATCCCCT 57.459 42.857 0.00 0.00 0.00 4.79
3390 5671 4.508128 TCGGACTTCGGCATCGCC 62.508 66.667 0.00 0.00 46.75 5.54
3546 5827 1.915614 CTTGTGAGATGGCGGTGCAC 61.916 60.000 8.80 8.80 0.00 4.57
3601 5882 4.371624 TGGTGTGTTCTCCATGAAATCT 57.628 40.909 0.00 0.00 36.30 2.40
3789 6074 7.919313 AATATGCAATCATGTTGATCGTTTC 57.081 32.000 10.87 0.00 35.76 2.78
3842 6127 5.244851 AGAAGCACTGAACTACTTGATGAGA 59.755 40.000 0.00 0.00 0.00 3.27
3843 6128 5.674052 AGCACTGAACTACTTGATGAGAT 57.326 39.130 0.00 0.00 0.00 2.75
3852 6137 6.990908 ACTACTTGATGAGATGATGATGGA 57.009 37.500 0.00 0.00 0.00 3.41
3898 6183 1.331756 CGGAGATGCATACAAGTTGCC 59.668 52.381 0.00 0.00 39.39 4.52
4027 6312 1.215382 CATCGGAAGGAGCACGTCA 59.785 57.895 0.00 0.00 0.00 4.35
4072 6357 3.093717 AGTGAGTTGACCGTAACTGTG 57.906 47.619 0.00 0.00 40.78 3.66
4095 6380 2.951642 CGGATACTCGGTAGTTTGGGTA 59.048 50.000 0.00 0.00 37.15 3.69
4166 6451 9.585099 GCATACAAATCTAATTGTGAATTTCCA 57.415 29.630 3.10 0.00 43.13 3.53
4182 6467 7.867403 GTGAATTTCCAATCACATAGTTGTTGT 59.133 33.333 1.30 0.00 44.19 3.32
4381 6674 0.036105 ACGAAACGGATTGGGGGTAC 60.036 55.000 0.00 0.00 0.00 3.34
4464 6760 1.489481 ACTCCAGATTCGATGCCTGA 58.511 50.000 9.81 0.00 0.00 3.86
4465 6761 1.137872 ACTCCAGATTCGATGCCTGAC 59.862 52.381 9.81 0.00 0.00 3.51
4470 6766 3.494924 CCAGATTCGATGCCTGACCATTA 60.495 47.826 9.81 0.00 0.00 1.90
4482 6778 4.012374 CCTGACCATTAGTGCATCTGTTT 58.988 43.478 0.00 0.00 0.00 2.83
4563 6859 3.941483 CGTCCCTGAATACTTCTGCAATT 59.059 43.478 0.00 0.00 0.00 2.32
4593 6889 8.670521 TCTTCCATATATTCTAGAGAATGGCA 57.329 34.615 13.87 0.00 43.90 4.92
4665 6961 1.779092 CTCAGGTCATGGGGGATCATT 59.221 52.381 0.00 0.00 0.00 2.57
4836 7136 3.826729 GAGGGCTCAAACCTTGTATTGTT 59.173 43.478 0.00 0.00 38.79 2.83
4949 7249 6.610020 ACCTCACCAGCTATGTAATACACTAA 59.390 38.462 0.00 0.00 0.00 2.24
4963 7263 9.079833 TGTAATACACTAAACGAGCAAGATTAC 57.920 33.333 0.00 0.00 0.00 1.89
4964 7264 9.079833 GTAATACACTAAACGAGCAAGATTACA 57.920 33.333 0.00 0.00 0.00 2.41
4965 7265 5.840940 ACACTAAACGAGCAAGATTACAC 57.159 39.130 0.00 0.00 0.00 2.90
4966 7266 5.539048 ACACTAAACGAGCAAGATTACACT 58.461 37.500 0.00 0.00 0.00 3.55
4967 7267 6.684686 ACACTAAACGAGCAAGATTACACTA 58.315 36.000 0.00 0.00 0.00 2.74
4968 7268 6.585322 ACACTAAACGAGCAAGATTACACTAC 59.415 38.462 0.00 0.00 0.00 2.73
4969 7269 6.807230 CACTAAACGAGCAAGATTACACTACT 59.193 38.462 0.00 0.00 0.00 2.57
4970 7270 6.807230 ACTAAACGAGCAAGATTACACTACTG 59.193 38.462 0.00 0.00 0.00 2.74
4971 7271 4.111375 ACGAGCAAGATTACACTACTGG 57.889 45.455 0.00 0.00 0.00 4.00
4972 7272 3.762288 ACGAGCAAGATTACACTACTGGA 59.238 43.478 0.00 0.00 0.00 3.86
4973 7273 4.402793 ACGAGCAAGATTACACTACTGGAT 59.597 41.667 0.00 0.00 0.00 3.41
4974 7274 5.593095 ACGAGCAAGATTACACTACTGGATA 59.407 40.000 0.00 0.00 0.00 2.59
4975 7275 6.096423 ACGAGCAAGATTACACTACTGGATAA 59.904 38.462 0.00 0.00 0.00 1.75
4976 7276 6.638873 CGAGCAAGATTACACTACTGGATAAG 59.361 42.308 0.00 0.00 0.00 1.73
4977 7277 6.821388 AGCAAGATTACACTACTGGATAAGG 58.179 40.000 0.00 0.00 0.00 2.69
4978 7278 5.992217 GCAAGATTACACTACTGGATAAGGG 59.008 44.000 0.00 0.00 0.00 3.95
4979 7279 6.408206 GCAAGATTACACTACTGGATAAGGGT 60.408 42.308 0.00 0.00 32.98 4.34
4980 7280 7.565680 CAAGATTACACTACTGGATAAGGGTT 58.434 38.462 0.00 0.00 30.36 4.11
4981 7281 7.750947 AGATTACACTACTGGATAAGGGTTT 57.249 36.000 0.00 0.00 30.36 3.27
4982 7282 8.849543 AGATTACACTACTGGATAAGGGTTTA 57.150 34.615 0.00 0.00 30.36 2.01
4983 7283 8.702819 AGATTACACTACTGGATAAGGGTTTAC 58.297 37.037 0.00 0.00 30.36 2.01
4984 7284 7.795534 TTACACTACTGGATAAGGGTTTACA 57.204 36.000 0.00 0.00 30.36 2.41
4985 7285 6.295719 ACACTACTGGATAAGGGTTTACAG 57.704 41.667 0.00 0.00 0.00 2.74
4986 7286 5.189145 ACACTACTGGATAAGGGTTTACAGG 59.811 44.000 0.00 0.00 0.00 4.00
4987 7287 5.189145 CACTACTGGATAAGGGTTTACAGGT 59.811 44.000 0.00 0.00 0.00 4.00
4988 7288 4.569719 ACTGGATAAGGGTTTACAGGTG 57.430 45.455 0.00 0.00 0.00 4.00
4989 7289 4.172807 ACTGGATAAGGGTTTACAGGTGA 58.827 43.478 0.00 0.00 0.00 4.02
4990 7290 4.600111 ACTGGATAAGGGTTTACAGGTGAA 59.400 41.667 0.00 0.00 0.00 3.18
4991 7291 4.913784 TGGATAAGGGTTTACAGGTGAAC 58.086 43.478 0.00 0.00 0.00 3.18
4992 7292 4.263594 TGGATAAGGGTTTACAGGTGAACC 60.264 45.833 15.54 15.54 45.34 3.62
4998 7298 4.514781 GGTTTACAGGTGAACCCAAATC 57.485 45.455 13.49 0.00 41.69 2.17
4999 7299 3.892588 GGTTTACAGGTGAACCCAAATCA 59.107 43.478 13.49 0.00 41.69 2.57
5000 7300 4.022329 GGTTTACAGGTGAACCCAAATCAG 60.022 45.833 13.49 0.00 41.69 2.90
5001 7301 4.447138 TTACAGGTGAACCCAAATCAGT 57.553 40.909 0.00 0.00 36.42 3.41
5002 7302 2.586425 ACAGGTGAACCCAAATCAGTG 58.414 47.619 0.00 0.00 36.42 3.66
5003 7303 1.888512 CAGGTGAACCCAAATCAGTGG 59.111 52.381 0.00 0.00 38.51 4.00
5009 7309 4.023137 CCAAATCAGTGGGGGCAG 57.977 61.111 0.00 0.00 34.77 4.85
5010 7310 1.683365 CCAAATCAGTGGGGGCAGG 60.683 63.158 0.00 0.00 34.77 4.85
5011 7311 1.683365 CAAATCAGTGGGGGCAGGG 60.683 63.158 0.00 0.00 0.00 4.45
5012 7312 2.169810 AAATCAGTGGGGGCAGGGT 61.170 57.895 0.00 0.00 0.00 4.34
5013 7313 2.445492 AAATCAGTGGGGGCAGGGTG 62.445 60.000 0.00 0.00 0.00 4.61
5033 7333 2.438434 GCACCCGCCACAGCTATT 60.438 61.111 0.00 0.00 36.60 1.73
5034 7334 2.046285 GCACCCGCCACAGCTATTT 61.046 57.895 0.00 0.00 36.60 1.40
5035 7335 1.595093 GCACCCGCCACAGCTATTTT 61.595 55.000 0.00 0.00 36.60 1.82
5036 7336 0.887933 CACCCGCCACAGCTATTTTT 59.112 50.000 0.00 0.00 36.60 1.94
5037 7337 0.887933 ACCCGCCACAGCTATTTTTG 59.112 50.000 0.00 0.00 36.60 2.44
5038 7338 1.173043 CCCGCCACAGCTATTTTTGA 58.827 50.000 0.00 0.00 36.60 2.69
5039 7339 1.133025 CCCGCCACAGCTATTTTTGAG 59.867 52.381 0.00 0.00 36.60 3.02
5040 7340 2.083774 CCGCCACAGCTATTTTTGAGA 58.916 47.619 0.00 0.00 36.60 3.27
5041 7341 2.096496 CCGCCACAGCTATTTTTGAGAG 59.904 50.000 0.00 0.00 36.60 3.20
5042 7342 2.476854 CGCCACAGCTATTTTTGAGAGC 60.477 50.000 0.00 0.00 42.95 4.09
5043 7343 2.489329 GCCACAGCTATTTTTGAGAGCA 59.511 45.455 0.00 0.00 45.06 4.26
5044 7344 3.057315 GCCACAGCTATTTTTGAGAGCAA 60.057 43.478 0.00 0.00 45.06 3.91
5045 7345 4.559300 GCCACAGCTATTTTTGAGAGCAAA 60.559 41.667 0.00 0.00 45.06 3.68
5046 7346 4.919754 CCACAGCTATTTTTGAGAGCAAAC 59.080 41.667 0.00 0.00 45.06 2.93
5047 7347 5.507817 CCACAGCTATTTTTGAGAGCAAACA 60.508 40.000 0.00 0.00 45.06 2.83
5048 7348 5.628193 CACAGCTATTTTTGAGAGCAAACAG 59.372 40.000 0.00 0.00 45.06 3.16
5049 7349 5.300286 ACAGCTATTTTTGAGAGCAAACAGT 59.700 36.000 0.00 0.00 45.06 3.55
5050 7350 5.628193 CAGCTATTTTTGAGAGCAAACAGTG 59.372 40.000 0.00 0.00 45.06 3.66
5051 7351 4.919754 GCTATTTTTGAGAGCAAACAGTGG 59.080 41.667 0.00 0.00 43.27 4.00
5052 7352 2.869233 TTTTGAGAGCAAACAGTGGC 57.131 45.000 0.00 0.00 43.27 5.01
5053 7353 0.662619 TTTGAGAGCAAACAGTGGCG 59.337 50.000 0.00 0.00 38.99 5.69
5054 7354 1.165907 TTGAGAGCAAACAGTGGCGG 61.166 55.000 0.00 0.00 34.54 6.13
5055 7355 2.281761 AGAGCAAACAGTGGCGGG 60.282 61.111 0.00 0.00 34.54 6.13
5056 7356 2.594592 GAGCAAACAGTGGCGGGT 60.595 61.111 0.00 0.00 34.54 5.28
5057 7357 1.302192 GAGCAAACAGTGGCGGGTA 60.302 57.895 0.00 0.00 34.54 3.69
5058 7358 1.298859 GAGCAAACAGTGGCGGGTAG 61.299 60.000 0.00 0.00 34.54 3.18
5076 7376 2.733301 CAAAACATGCCCGCCACA 59.267 55.556 0.00 0.00 0.00 4.17
5077 7377 1.373246 CAAAACATGCCCGCCACAG 60.373 57.895 0.00 0.00 0.00 3.66
5078 7378 3.225069 AAAACATGCCCGCCACAGC 62.225 57.895 0.00 0.00 0.00 4.40
5079 7379 4.666253 AACATGCCCGCCACAGCT 62.666 61.111 0.00 0.00 36.60 4.24
5080 7380 2.762969 AAACATGCCCGCCACAGCTA 62.763 55.000 0.00 0.00 36.60 3.32
5081 7381 2.438254 CATGCCCGCCACAGCTAA 60.438 61.111 0.00 0.00 36.60 3.09
5082 7382 2.045708 CATGCCCGCCACAGCTAAA 61.046 57.895 0.00 0.00 36.60 1.85
5083 7383 1.076777 ATGCCCGCCACAGCTAAAT 60.077 52.632 0.00 0.00 36.60 1.40
5084 7384 1.386525 ATGCCCGCCACAGCTAAATG 61.387 55.000 0.00 0.00 36.60 2.32
5085 7385 2.774799 GCCCGCCACAGCTAAATGG 61.775 63.158 6.49 6.49 39.16 3.16
5086 7386 1.378514 CCCGCCACAGCTAAATGGT 60.379 57.895 11.40 0.00 38.34 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 4.636206 GTGGTATTTCAACCCATCAGAGTC 59.364 45.833 0.00 0.00 38.90 3.36
57 58 3.041211 TGGATGATTAGGAGGACAGTGG 58.959 50.000 0.00 0.00 0.00 4.00
85 86 4.994907 TTAGGCTAGTTGCGAGTCAATA 57.005 40.909 0.00 0.00 44.05 1.90
86 87 3.887621 TTAGGCTAGTTGCGAGTCAAT 57.112 42.857 0.00 0.00 44.05 2.57
90 91 7.498443 ACTAATTATTTAGGCTAGTTGCGAGT 58.502 34.615 8.77 0.00 44.05 4.18
233 234 2.708325 GTCTATGCTCCCTTTCATCCCT 59.292 50.000 0.00 0.00 0.00 4.20
275 277 6.553100 TGAAACCTTGTTCACCAAATTCCTAT 59.447 34.615 0.00 0.00 32.56 2.57
414 420 9.636789 AAGAATATCATGGATGTCATTTCTTCA 57.363 29.630 0.00 0.00 35.76 3.02
433 439 8.658609 CGATTTTGTCATTTTTGCCAAGAATAT 58.341 29.630 0.00 0.00 0.00 1.28
438 444 5.610124 CGTCGATTTTGTCATTTTTGCCAAG 60.610 40.000 0.00 0.00 0.00 3.61
444 450 3.971150 TGGCGTCGATTTTGTCATTTTT 58.029 36.364 0.00 0.00 0.00 1.94
476 483 8.224025 TGGGACCTTAATATTCATCAAGCAATA 58.776 33.333 0.00 0.00 0.00 1.90
481 488 8.917088 ACAATTGGGACCTTAATATTCATCAAG 58.083 33.333 10.83 0.00 0.00 3.02
529 536 7.703328 TGAAGTTTGGTAAAGAAATGACACTC 58.297 34.615 0.00 0.00 0.00 3.51
530 537 7.639113 TGAAGTTTGGTAAAGAAATGACACT 57.361 32.000 0.00 0.00 0.00 3.55
606 1833 9.708222 CTCGTGAACCATGAATTTAAGATTAAG 57.292 33.333 0.00 0.00 0.00 1.85
607 1834 8.673711 CCTCGTGAACCATGAATTTAAGATTAA 58.326 33.333 0.00 0.00 0.00 1.40
608 1835 7.282224 CCCTCGTGAACCATGAATTTAAGATTA 59.718 37.037 0.00 0.00 0.00 1.75
609 1836 6.095440 CCCTCGTGAACCATGAATTTAAGATT 59.905 38.462 0.00 0.00 0.00 2.40
610 1837 5.590259 CCCTCGTGAACCATGAATTTAAGAT 59.410 40.000 0.00 0.00 0.00 2.40
611 1838 4.941263 CCCTCGTGAACCATGAATTTAAGA 59.059 41.667 0.00 0.00 0.00 2.10
612 1839 4.700213 ACCCTCGTGAACCATGAATTTAAG 59.300 41.667 0.00 0.00 0.00 1.85
616 1843 2.879103 ACCCTCGTGAACCATGAATT 57.121 45.000 0.00 0.00 0.00 2.17
618 1845 1.067425 CGTACCCTCGTGAACCATGAA 60.067 52.381 0.00 0.00 0.00 2.57
620 1847 1.082117 GCGTACCCTCGTGAACCATG 61.082 60.000 0.00 0.00 0.00 3.66
621 1848 1.217244 GCGTACCCTCGTGAACCAT 59.783 57.895 0.00 0.00 0.00 3.55
623 1850 2.505557 CGCGTACCCTCGTGAACC 60.506 66.667 0.00 0.00 42.80 3.62
624 1851 2.256461 ACGCGTACCCTCGTGAAC 59.744 61.111 11.67 0.00 42.80 3.18
631 1868 2.288025 ATGGTTCCACGCGTACCCT 61.288 57.895 23.26 13.31 0.00 4.34
634 1871 0.668096 TGACATGGTTCCACGCGTAC 60.668 55.000 13.44 6.79 0.00 3.67
653 1890 3.836562 AGTACCCCTATCACGAAAACACT 59.163 43.478 0.00 0.00 0.00 3.55
654 1891 4.198028 AGTACCCCTATCACGAAAACAC 57.802 45.455 0.00 0.00 0.00 3.32
655 1892 5.999205 TTAGTACCCCTATCACGAAAACA 57.001 39.130 0.00 0.00 0.00 2.83
656 1893 6.814043 AGATTAGTACCCCTATCACGAAAAC 58.186 40.000 0.00 0.00 0.00 2.43
660 1897 6.445451 AGTAGATTAGTACCCCTATCACGA 57.555 41.667 0.00 0.00 0.00 4.35
661 1898 5.350914 CGAGTAGATTAGTACCCCTATCACG 59.649 48.000 0.00 0.00 0.00 4.35
662 1899 6.471146 TCGAGTAGATTAGTACCCCTATCAC 58.529 44.000 0.00 0.00 0.00 3.06
663 1900 6.692849 TCGAGTAGATTAGTACCCCTATCA 57.307 41.667 0.00 0.00 0.00 2.15
664 1901 7.282901 GGATTCGAGTAGATTAGTACCCCTATC 59.717 44.444 0.00 0.00 0.00 2.08
665 1902 7.118060 GGATTCGAGTAGATTAGTACCCCTAT 58.882 42.308 0.00 0.00 0.00 2.57
666 1903 6.044754 TGGATTCGAGTAGATTAGTACCCCTA 59.955 42.308 0.00 0.00 0.00 3.53
667 1904 5.163012 TGGATTCGAGTAGATTAGTACCCCT 60.163 44.000 0.00 0.00 0.00 4.79
668 1905 5.075493 TGGATTCGAGTAGATTAGTACCCC 58.925 45.833 0.00 0.00 0.00 4.95
669 1906 6.445475 GTTGGATTCGAGTAGATTAGTACCC 58.555 44.000 0.00 0.00 0.00 3.69
670 1907 6.040166 TGGTTGGATTCGAGTAGATTAGTACC 59.960 42.308 0.00 0.00 0.00 3.34
685 1922 8.265764 ACTAGTAGTAGGAATTTGGTTGGATTC 58.734 37.037 9.42 0.00 0.00 2.52
700 1937 3.381908 CAGTGGGCTTGACTAGTAGTAGG 59.618 52.174 1.88 0.00 0.00 3.18
717 1954 3.916392 GAGACGACGTGGGCAGTGG 62.916 68.421 4.58 0.00 0.00 4.00
718 1955 2.430921 GAGACGACGTGGGCAGTG 60.431 66.667 4.58 0.00 0.00 3.66
719 1956 4.039357 CGAGACGACGTGGGCAGT 62.039 66.667 4.58 0.00 0.00 4.40
727 1964 2.276994 GCAGAGAGCGAGACGACG 60.277 66.667 0.00 0.00 0.00 5.12
764 2002 4.363990 AGACTGTGCGCCGAGTGG 62.364 66.667 12.73 0.00 38.77 4.00
816 2070 2.452813 GCGACCGCACATGTTCGAT 61.453 57.895 19.59 0.64 41.49 3.59
835 2089 0.942252 TGATCTATGTCGACCGACCG 59.058 55.000 18.32 8.27 43.97 4.79
880 2134 4.218478 GCGCGTGGTGGTTATCGC 62.218 66.667 8.43 0.00 44.23 4.58
881 2135 3.560278 GGCGCGTGGTGGTTATCG 61.560 66.667 8.43 0.00 0.00 2.92
931 2193 1.089920 GACATGGCTGGATGTGTGAC 58.910 55.000 0.00 0.00 36.67 3.67
932 2194 0.391528 CGACATGGCTGGATGTGTGA 60.392 55.000 0.00 0.00 36.67 3.58
933 2195 0.674581 ACGACATGGCTGGATGTGTG 60.675 55.000 0.00 0.00 36.67 3.82
934 2196 0.674581 CACGACATGGCTGGATGTGT 60.675 55.000 0.00 0.00 36.67 3.72
935 2197 0.391528 TCACGACATGGCTGGATGTG 60.392 55.000 0.00 0.00 36.67 3.21
936 2198 0.107993 CTCACGACATGGCTGGATGT 60.108 55.000 0.00 0.00 39.34 3.06
937 2199 0.812811 CCTCACGACATGGCTGGATG 60.813 60.000 0.00 0.00 0.00 3.51
938 2200 1.524002 CCTCACGACATGGCTGGAT 59.476 57.895 0.00 0.00 0.00 3.41
939 2201 2.981302 CCTCACGACATGGCTGGA 59.019 61.111 0.00 0.00 0.00 3.86
940 2202 2.821366 GCCTCACGACATGGCTGG 60.821 66.667 0.00 0.00 43.05 4.85
951 2213 2.493973 CTGCTCTCTCGGCCTCAC 59.506 66.667 0.00 0.00 0.00 3.51
956 2227 2.866085 AATGTGGCTGCTCTCTCGGC 62.866 60.000 0.00 0.00 37.61 5.54
958 2229 0.809241 GGAATGTGGCTGCTCTCTCG 60.809 60.000 0.00 0.00 0.00 4.04
966 2237 1.676746 CTCTGGATGGAATGTGGCTG 58.323 55.000 0.00 0.00 0.00 4.85
967 2238 0.549950 CCTCTGGATGGAATGTGGCT 59.450 55.000 0.00 0.00 0.00 4.75
974 2245 3.089874 CCCGGCCTCTGGATGGAA 61.090 66.667 0.00 0.00 0.00 3.53
987 2258 2.746375 CCTCATCCCCACTTCCCGG 61.746 68.421 0.00 0.00 0.00 5.73
990 2261 2.597903 GCCCTCATCCCCACTTCC 59.402 66.667 0.00 0.00 0.00 3.46
1077 2354 1.867919 CGGTCTGGTCGAGCTTGTCT 61.868 60.000 16.64 0.00 37.99 3.41
1084 2361 4.477975 GGACGCGGTCTGGTCGAG 62.478 72.222 12.47 0.00 33.99 4.04
1250 2527 3.045142 GTCTGACGACCGGGTTCA 58.955 61.111 6.32 3.88 33.98 3.18
1535 2815 3.081311 TTCCTGGAGATGCCGCTCG 62.081 63.158 0.00 0.00 40.66 5.03
1620 2900 1.376466 GAAGAACTCTGGCAGCCCA 59.624 57.895 9.64 0.00 39.32 5.36
1651 2931 0.108804 CTGGCGTACGTCTTGGACAT 60.109 55.000 21.92 0.00 32.09 3.06
1732 3012 1.143073 GGGGTTGGATATGACCTGGAC 59.857 57.143 0.00 0.00 36.18 4.02
1735 3015 1.128200 TCGGGGTTGGATATGACCTG 58.872 55.000 0.00 0.00 36.18 4.00
1741 3021 1.038280 GTCTCGTCGGGGTTGGATAT 58.962 55.000 0.00 0.00 0.00 1.63
1743 3023 2.356780 GGTCTCGTCGGGGTTGGAT 61.357 63.158 0.00 0.00 0.00 3.41
2021 3322 2.910479 TCGTCCTGACACAGCCGT 60.910 61.111 0.00 0.00 0.00 5.68
2350 3714 4.909696 TTTGCAAAAATTCAGTCGAGGA 57.090 36.364 10.02 0.00 0.00 3.71
2384 3751 5.643777 AGAAATCGACATGGTTCTCGAATTT 59.356 36.000 9.79 10.27 41.96 1.82
2420 3789 1.014044 CAACCACGACATGACTCCGG 61.014 60.000 0.00 0.00 0.00 5.14
2423 3792 2.148916 TCACAACCACGACATGACTC 57.851 50.000 0.00 0.00 0.00 3.36
2451 4594 2.920645 CGCCGGAGATACTCGCCAT 61.921 63.158 5.05 0.00 35.99 4.40
2457 4600 1.038130 AGAAGCACGCCGGAGATACT 61.038 55.000 13.83 2.61 0.00 2.12
2458 4601 0.179108 AAGAAGCACGCCGGAGATAC 60.179 55.000 13.83 0.00 0.00 2.24
2563 4724 2.494471 GGGCGTTTAAGTTTTATGGCCT 59.506 45.455 3.32 0.00 39.64 5.19
2569 4730 1.878734 CCCGTGGGCGTTTAAGTTTTA 59.121 47.619 0.00 0.00 36.15 1.52
2607 4768 1.714794 CCGCTCATCTTGTTCTCGTT 58.285 50.000 0.00 0.00 0.00 3.85
2609 4770 1.746727 CGCCGCTCATCTTGTTCTCG 61.747 60.000 0.00 0.00 0.00 4.04
2793 4996 1.068474 GCGTGTAAGCACATCGTCTT 58.932 50.000 0.00 0.00 45.50 3.01
2811 5014 3.739209 GCCTTCCCTGCTCATTTTTATGC 60.739 47.826 0.00 0.00 0.00 3.14
2969 5239 2.473760 ATCCTCTCGTCGCCGTCAG 61.474 63.158 0.00 0.00 35.01 3.51
2970 5240 2.437895 ATCCTCTCGTCGCCGTCA 60.438 61.111 0.00 0.00 35.01 4.35
3077 5347 8.798859 ATTAACTCAAAATGTAGCATCAGAGT 57.201 30.769 0.00 0.00 36.73 3.24
3276 5557 0.313672 CCTCGTGGAGATAGAGCAGC 59.686 60.000 0.00 0.00 34.57 5.25
3353 5634 5.104109 TCCGAGATTTAGGGGATCATGTTTT 60.104 40.000 0.00 0.00 0.00 2.43
3367 5648 2.543031 CGATGCCGAAGTCCGAGATTTA 60.543 50.000 0.00 0.00 41.76 1.40
3390 5671 0.673644 GGTCACCACCGAACATCCTG 60.674 60.000 0.00 0.00 31.06 3.86
3510 5791 5.614308 TCACAAGTCAGCATATATCCTTGG 58.386 41.667 0.00 0.00 34.94 3.61
3546 5827 1.815421 GGTGACATGTAGCCGCTGG 60.815 63.158 2.16 0.00 0.00 4.85
3601 5882 5.675684 TGACACCAAAGCTGTAGATATCA 57.324 39.130 5.32 0.00 0.00 2.15
3714 5995 6.824704 TCACATGTGAGAATTAATCATGCTCA 59.175 34.615 24.56 9.04 44.55 4.26
3789 6074 4.619227 ACAACGTCCACGCCTGGG 62.619 66.667 1.63 0.00 44.43 4.45
3842 6127 3.708121 TCACAGCTACTGTCCATCATCAT 59.292 43.478 0.00 0.00 43.43 2.45
3843 6128 3.099141 TCACAGCTACTGTCCATCATCA 58.901 45.455 0.00 0.00 43.43 3.07
3898 6183 1.948834 TGCATGTCAACACACAAGAGG 59.051 47.619 0.00 0.00 34.48 3.69
4072 6357 2.223665 CCCAAACTACCGAGTATCCGTC 60.224 54.545 0.00 0.00 33.58 4.79
4095 6380 2.028130 CCGCTCCATCTCAACTAGTCT 58.972 52.381 0.00 0.00 0.00 3.24
4166 6451 7.817418 ACAACCTAACAACAACTATGTGATT 57.183 32.000 0.00 0.00 40.46 2.57
4381 6674 9.893305 AATTTTCTGTATTTCACTTTCTTACCG 57.107 29.630 0.00 0.00 0.00 4.02
4415 6708 8.315391 TGTTGTTTCACTTCTCTATGAGATTG 57.685 34.615 0.00 0.38 38.56 2.67
4427 6720 4.819630 TGGAGTACCATGTTGTTTCACTTC 59.180 41.667 0.00 0.00 41.77 3.01
4464 6760 3.758554 GGTCAAACAGATGCACTAATGGT 59.241 43.478 0.00 0.00 0.00 3.55
4465 6761 3.758023 TGGTCAAACAGATGCACTAATGG 59.242 43.478 0.00 0.00 0.00 3.16
4470 6766 2.035066 GCTTTGGTCAAACAGATGCACT 59.965 45.455 0.00 0.00 0.00 4.40
4482 6778 1.752498 GATGGCATCATGCTTTGGTCA 59.248 47.619 22.23 0.00 44.28 4.02
4593 6889 6.949352 AAAGTTCGCTCCATGAATATCATT 57.051 33.333 0.00 0.00 34.28 2.57
4599 6895 7.156876 TCAAAATAAAGTTCGCTCCATGAAT 57.843 32.000 0.00 0.00 0.00 2.57
4603 6899 5.476945 ACCTTCAAAATAAAGTTCGCTCCAT 59.523 36.000 0.00 0.00 0.00 3.41
4665 6961 1.416401 GAATTGTCCTCTATCGCCCCA 59.584 52.381 0.00 0.00 0.00 4.96
4836 7136 2.359214 CACCGAAGCTGTAGATAGCAGA 59.641 50.000 0.93 0.00 46.07 4.26
4949 7249 4.219944 TCCAGTAGTGTAATCTTGCTCGTT 59.780 41.667 0.00 0.00 0.00 3.85
4963 7263 5.189145 ACCTGTAAACCCTTATCCAGTAGTG 59.811 44.000 0.00 0.00 0.00 2.74
4964 7264 5.189145 CACCTGTAAACCCTTATCCAGTAGT 59.811 44.000 0.00 0.00 0.00 2.73
4965 7265 5.424252 TCACCTGTAAACCCTTATCCAGTAG 59.576 44.000 0.00 0.00 0.00 2.57
4966 7266 5.343715 TCACCTGTAAACCCTTATCCAGTA 58.656 41.667 0.00 0.00 0.00 2.74
4967 7267 4.172807 TCACCTGTAAACCCTTATCCAGT 58.827 43.478 0.00 0.00 0.00 4.00
4968 7268 4.837093 TCACCTGTAAACCCTTATCCAG 57.163 45.455 0.00 0.00 0.00 3.86
4969 7269 4.263594 GGTTCACCTGTAAACCCTTATCCA 60.264 45.833 0.00 0.00 39.23 3.41
4970 7270 4.267536 GGTTCACCTGTAAACCCTTATCC 58.732 47.826 0.00 0.00 39.23 2.59
4977 7277 3.892588 TGATTTGGGTTCACCTGTAAACC 59.107 43.478 0.00 0.00 43.48 3.27
4978 7278 4.583073 ACTGATTTGGGTTCACCTGTAAAC 59.417 41.667 0.00 0.00 41.11 2.01
4979 7279 4.582656 CACTGATTTGGGTTCACCTGTAAA 59.417 41.667 0.00 0.00 41.11 2.01
4980 7280 4.141287 CACTGATTTGGGTTCACCTGTAA 58.859 43.478 0.00 0.00 41.11 2.41
4981 7281 3.497763 CCACTGATTTGGGTTCACCTGTA 60.498 47.826 0.00 0.00 41.11 2.74
4982 7282 2.586425 CACTGATTTGGGTTCACCTGT 58.414 47.619 0.00 0.00 41.11 4.00
4983 7283 1.888512 CCACTGATTTGGGTTCACCTG 59.111 52.381 0.00 0.00 41.11 4.00
4984 7284 2.292828 CCACTGATTTGGGTTCACCT 57.707 50.000 0.00 0.00 41.11 4.00
4992 7292 1.683365 CCTGCCCCCACTGATTTGG 60.683 63.158 0.00 0.00 36.26 3.28
4993 7293 1.683365 CCCTGCCCCCACTGATTTG 60.683 63.158 0.00 0.00 0.00 2.32
4994 7294 2.169810 ACCCTGCCCCCACTGATTT 61.170 57.895 0.00 0.00 0.00 2.17
4995 7295 2.535317 ACCCTGCCCCCACTGATT 60.535 61.111 0.00 0.00 0.00 2.57
4996 7296 3.341629 CACCCTGCCCCCACTGAT 61.342 66.667 0.00 0.00 0.00 2.90
5016 7316 1.595093 AAAATAGCTGTGGCGGGTGC 61.595 55.000 0.00 0.00 44.37 5.01
5017 7317 0.887933 AAAAATAGCTGTGGCGGGTG 59.112 50.000 0.00 0.00 44.37 4.61
5018 7318 0.887933 CAAAAATAGCTGTGGCGGGT 59.112 50.000 0.00 0.00 44.37 5.28
5019 7319 1.133025 CTCAAAAATAGCTGTGGCGGG 59.867 52.381 0.00 0.00 44.37 6.13
5020 7320 2.083774 TCTCAAAAATAGCTGTGGCGG 58.916 47.619 0.00 0.00 44.37 6.13
5021 7321 2.476854 GCTCTCAAAAATAGCTGTGGCG 60.477 50.000 0.00 0.00 44.37 5.69
5022 7322 2.489329 TGCTCTCAAAAATAGCTGTGGC 59.511 45.455 0.00 0.00 37.16 5.01
5023 7323 4.771590 TTGCTCTCAAAAATAGCTGTGG 57.228 40.909 0.00 0.00 37.16 4.17
5024 7324 5.522456 TGTTTGCTCTCAAAAATAGCTGTG 58.478 37.500 0.00 0.00 43.12 3.66
5025 7325 5.300286 ACTGTTTGCTCTCAAAAATAGCTGT 59.700 36.000 0.00 0.00 43.12 4.40
5026 7326 5.628193 CACTGTTTGCTCTCAAAAATAGCTG 59.372 40.000 0.00 0.00 43.12 4.24
5027 7327 5.278660 CCACTGTTTGCTCTCAAAAATAGCT 60.279 40.000 0.00 0.00 43.12 3.32
5028 7328 4.919754 CCACTGTTTGCTCTCAAAAATAGC 59.080 41.667 0.00 0.00 43.12 2.97
5029 7329 4.919754 GCCACTGTTTGCTCTCAAAAATAG 59.080 41.667 0.00 0.00 43.12 1.73
5030 7330 4.556501 CGCCACTGTTTGCTCTCAAAAATA 60.557 41.667 0.00 0.00 43.12 1.40
5031 7331 3.721035 GCCACTGTTTGCTCTCAAAAAT 58.279 40.909 0.00 0.00 43.12 1.82
5032 7332 2.479389 CGCCACTGTTTGCTCTCAAAAA 60.479 45.455 0.00 0.00 43.12 1.94
5033 7333 1.065401 CGCCACTGTTTGCTCTCAAAA 59.935 47.619 0.00 0.00 43.12 2.44
5034 7334 0.662619 CGCCACTGTTTGCTCTCAAA 59.337 50.000 0.00 0.00 39.67 2.69
5035 7335 1.165907 CCGCCACTGTTTGCTCTCAA 61.166 55.000 0.00 0.00 0.00 3.02
5036 7336 1.597854 CCGCCACTGTTTGCTCTCA 60.598 57.895 0.00 0.00 0.00 3.27
5037 7337 2.328099 CCCGCCACTGTTTGCTCTC 61.328 63.158 0.00 0.00 0.00 3.20
5038 7338 1.764571 TACCCGCCACTGTTTGCTCT 61.765 55.000 0.00 0.00 0.00 4.09
5039 7339 1.298859 CTACCCGCCACTGTTTGCTC 61.299 60.000 0.00 0.00 0.00 4.26
5040 7340 1.302511 CTACCCGCCACTGTTTGCT 60.303 57.895 0.00 0.00 0.00 3.91
5041 7341 2.978018 GCTACCCGCCACTGTTTGC 61.978 63.158 0.00 0.00 0.00 3.68
5042 7342 1.169661 TTGCTACCCGCCACTGTTTG 61.170 55.000 0.00 0.00 38.05 2.93
5043 7343 0.466555 TTTGCTACCCGCCACTGTTT 60.467 50.000 0.00 0.00 38.05 2.83
5044 7344 0.466555 TTTTGCTACCCGCCACTGTT 60.467 50.000 0.00 0.00 38.05 3.16
5045 7345 1.149627 TTTTGCTACCCGCCACTGT 59.850 52.632 0.00 0.00 38.05 3.55
5046 7346 1.169661 TGTTTTGCTACCCGCCACTG 61.170 55.000 0.00 0.00 38.05 3.66
5047 7347 0.251165 ATGTTTTGCTACCCGCCACT 60.251 50.000 0.00 0.00 38.05 4.00
5048 7348 0.109319 CATGTTTTGCTACCCGCCAC 60.109 55.000 0.00 0.00 38.05 5.01
5049 7349 2.262183 CATGTTTTGCTACCCGCCA 58.738 52.632 0.00 0.00 38.05 5.69
5059 7359 1.373246 CTGTGGCGGGCATGTTTTG 60.373 57.895 7.75 0.00 0.00 2.44
5060 7360 3.050339 CTGTGGCGGGCATGTTTT 58.950 55.556 7.75 0.00 0.00 2.43
5061 7361 2.762969 TAGCTGTGGCGGGCATGTTT 62.763 55.000 7.75 0.00 44.37 2.83
5062 7362 2.762969 TTAGCTGTGGCGGGCATGTT 62.763 55.000 7.75 4.92 44.37 2.71
5063 7363 2.762969 TTTAGCTGTGGCGGGCATGT 62.763 55.000 7.75 0.00 44.37 3.21
5064 7364 1.386525 ATTTAGCTGTGGCGGGCATG 61.387 55.000 7.75 5.36 44.37 4.06
5065 7365 1.076777 ATTTAGCTGTGGCGGGCAT 60.077 52.632 7.75 0.00 44.37 4.40
5066 7366 2.045708 CATTTAGCTGTGGCGGGCA 61.046 57.895 0.00 0.00 44.37 5.36
5067 7367 2.774799 CCATTTAGCTGTGGCGGGC 61.775 63.158 0.00 0.00 44.37 6.13
5068 7368 1.378514 ACCATTTAGCTGTGGCGGG 60.379 57.895 12.83 2.73 44.37 6.13
5069 7369 1.802636 CACCATTTAGCTGTGGCGG 59.197 57.895 12.83 2.68 44.37 6.13


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

AutoCloner maintained by Alex Coulton.