Multiple sequence alignment - TraesCS7B01G254500

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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 TraesCS7B01G254500 chr7B 100.000 3073 0 0 1 3073 468955212 468952140 0.000000e+00 5675.0
1 TraesCS7B01G254500 chr7B 92.105 76 6 0 31 106 712251566 712251491 1.170000e-19 108.0
2 TraesCS7B01G254500 chr7B 89.412 85 8 1 155 239 712251491 712251408 4.190000e-19 106.0
3 TraesCS7B01G254500 chr3B 92.387 2732 168 16 1 2725 50786777 50784079 0.000000e+00 3856.0
4 TraesCS7B01G254500 chr3B 93.889 1440 76 5 1 1438 190892450 190891021 0.000000e+00 2161.0
5 TraesCS7B01G254500 chr3B 93.889 1440 76 5 1 1438 771435417 771436846 0.000000e+00 2161.0
6 TraesCS7B01G254500 chr4B 96.267 2170 68 7 1 2167 291662902 291665061 0.000000e+00 3546.0
7 TraesCS7B01G254500 chr4B 94.510 1439 70 3 1 1438 77014192 77012762 0.000000e+00 2211.0
8 TraesCS7B01G254500 chr4B 95.745 564 23 1 2164 2726 291665179 291665742 0.000000e+00 907.0
9 TraesCS7B01G254500 chr4B 94.755 572 29 1 1 572 77014815 77014245 0.000000e+00 889.0
10 TraesCS7B01G254500 chr4B 94.755 572 29 1 1 572 77015438 77014868 0.000000e+00 889.0
11 TraesCS7B01G254500 chr1B 93.290 1833 117 5 1 1830 544888573 544890402 0.000000e+00 2699.0
12 TraesCS7B01G254500 chr1B 93.798 516 29 1 2204 2716 544921368 544921883 0.000000e+00 773.0
13 TraesCS7B01G254500 chr1B 90.782 358 24 3 1816 2172 544921019 544921368 1.290000e-128 470.0
14 TraesCS7B01G254500 chr1B 96.377 138 5 0 2210 2347 235899566 235899703 8.570000e-56 228.0
15 TraesCS7B01G254500 chr2D 94.429 1113 51 5 1030 2141 26027335 26028437 0.000000e+00 1701.0
16 TraesCS7B01G254500 chr2D 88.171 820 88 8 247 1064 542372490 542371678 0.000000e+00 968.0
17 TraesCS7B01G254500 chr2D 94.434 521 26 3 2210 2729 26028456 26028974 0.000000e+00 798.0
18 TraesCS7B01G254500 chr2D 89.286 84 9 0 2647 2730 189523068 189522985 4.190000e-19 106.0
19 TraesCS7B01G254500 chr3A 93.886 1014 48 7 1131 2141 688931247 688930245 0.000000e+00 1517.0
20 TraesCS7B01G254500 chr7A 93.577 1012 53 6 1131 2140 615537952 615536951 0.000000e+00 1498.0
21 TraesCS7B01G254500 chr7A 91.594 1035 50 12 1131 2141 512541655 512542676 0.000000e+00 1395.0
22 TraesCS7B01G254500 chr7A 97.101 138 4 0 2210 2347 650322434 650322297 1.840000e-57 233.0
23 TraesCS7B01G254500 chr1A 93.577 1012 52 7 1131 2140 380401920 380402920 0.000000e+00 1496.0
24 TraesCS7B01G254500 chr1A 93.590 1014 48 10 1131 2141 504203962 504204961 0.000000e+00 1496.0
25 TraesCS7B01G254500 chr1A 93.491 1014 53 7 1131 2141 531838945 531837942 0.000000e+00 1495.0
26 TraesCS7B01G254500 chr1A 93.558 1009 48 11 1137 2141 11025214 11024219 0.000000e+00 1487.0
27 TraesCS7B01G254500 chr1A 96.377 138 5 0 2210 2347 11024200 11024063 8.570000e-56 228.0
28 TraesCS7B01G254500 chr1A 96.377 138 5 0 2210 2347 504204980 504205117 8.570000e-56 228.0
29 TraesCS7B01G254500 chr2A 93.478 1012 52 8 1132 2141 23797292 23798291 0.000000e+00 1491.0
30 TraesCS7B01G254500 chrUn 93.460 734 36 6 1410 2141 367646489 367647212 0.000000e+00 1079.0
31 TraesCS7B01G254500 chr5D 93.933 511 31 0 2207 2717 81782354 81781844 0.000000e+00 773.0
32 TraesCS7B01G254500 chr2B 92.308 78 6 0 2641 2718 365986595 365986672 9.010000e-21 111.0
33 TraesCS7B01G254500 chr7D 89.873 79 8 0 2647 2725 616747474 616747396 5.420000e-18 102.0
34 TraesCS7B01G254500 chr1D 86.517 89 9 3 2647 2733 83698730 83698643 9.070000e-16 95.3


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 TraesCS7B01G254500 chr7B 468952140 468955212 3072 True 5675.000000 5675 100.000000 1 3073 1 chr7B.!!$R1 3072
1 TraesCS7B01G254500 chr3B 50784079 50786777 2698 True 3856.000000 3856 92.387000 1 2725 1 chr3B.!!$R1 2724
2 TraesCS7B01G254500 chr3B 190891021 190892450 1429 True 2161.000000 2161 93.889000 1 1438 1 chr3B.!!$R2 1437
3 TraesCS7B01G254500 chr3B 771435417 771436846 1429 False 2161.000000 2161 93.889000 1 1438 1 chr3B.!!$F1 1437
4 TraesCS7B01G254500 chr4B 291662902 291665742 2840 False 2226.500000 3546 96.006000 1 2726 2 chr4B.!!$F1 2725
5 TraesCS7B01G254500 chr4B 77012762 77015438 2676 True 1329.666667 2211 94.673333 1 1438 3 chr4B.!!$R1 1437
6 TraesCS7B01G254500 chr1B 544888573 544890402 1829 False 2699.000000 2699 93.290000 1 1830 1 chr1B.!!$F2 1829
7 TraesCS7B01G254500 chr1B 544921019 544921883 864 False 621.500000 773 92.290000 1816 2716 2 chr1B.!!$F3 900
8 TraesCS7B01G254500 chr2D 26027335 26028974 1639 False 1249.500000 1701 94.431500 1030 2729 2 chr2D.!!$F1 1699
9 TraesCS7B01G254500 chr2D 542371678 542372490 812 True 968.000000 968 88.171000 247 1064 1 chr2D.!!$R2 817
10 TraesCS7B01G254500 chr3A 688930245 688931247 1002 True 1517.000000 1517 93.886000 1131 2141 1 chr3A.!!$R1 1010
11 TraesCS7B01G254500 chr7A 615536951 615537952 1001 True 1498.000000 1498 93.577000 1131 2140 1 chr7A.!!$R1 1009
12 TraesCS7B01G254500 chr7A 512541655 512542676 1021 False 1395.000000 1395 91.594000 1131 2141 1 chr7A.!!$F1 1010
13 TraesCS7B01G254500 chr1A 380401920 380402920 1000 False 1496.000000 1496 93.577000 1131 2140 1 chr1A.!!$F1 1009
14 TraesCS7B01G254500 chr1A 531837942 531838945 1003 True 1495.000000 1495 93.491000 1131 2141 1 chr1A.!!$R1 1010
15 TraesCS7B01G254500 chr1A 504203962 504205117 1155 False 862.000000 1496 94.983500 1131 2347 2 chr1A.!!$F2 1216
16 TraesCS7B01G254500 chr1A 11024063 11025214 1151 True 857.500000 1487 94.967500 1137 2347 2 chr1A.!!$R2 1210
17 TraesCS7B01G254500 chr2A 23797292 23798291 999 False 1491.000000 1491 93.478000 1132 2141 1 chr2A.!!$F1 1009
18 TraesCS7B01G254500 chrUn 367646489 367647212 723 False 1079.000000 1079 93.460000 1410 2141 1 chrUn.!!$F1 731
19 TraesCS7B01G254500 chr5D 81781844 81782354 510 True 773.000000 773 93.933000 2207 2717 1 chr5D.!!$R1 510

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
303 1553 1.843851 TCTTGGGGAGACGGCATATTT 59.156 47.619 0.00 0.00 0.0 1.40 F
1300 2553 1.527311 GTGTTTCGTGAGCTCTTCCAC 59.473 52.381 16.19 4.12 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1936 3216 0.807496 GCCACAGATGAGACAAAGGC 59.193 55.000 0.00 0.00 0.00 4.35 R
2863 4272 1.133976 AGGCCATCTGCAGTGTTATCC 60.134 52.381 14.67 8.74 43.89 2.59 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
93 95 2.930682 GCAAGTAGTAGTTGTAGCTGCC 59.069 50.000 17.12 0.00 31.33 4.85
143 145 4.060205 GGTTGACACACGTATTAAGTGGT 58.940 43.478 13.20 8.52 43.41 4.16
303 1553 1.843851 TCTTGGGGAGACGGCATATTT 59.156 47.619 0.00 0.00 0.00 1.40
308 1558 5.772393 TGGGGAGACGGCATATTTATATT 57.228 39.130 0.00 0.00 0.00 1.28
310 1560 6.177610 TGGGGAGACGGCATATTTATATTTC 58.822 40.000 0.00 0.00 0.00 2.17
649 1899 6.804677 TGCTTTTATTGTTCAAGAAGCAAGA 58.195 32.000 20.39 7.66 44.32 3.02
727 1978 9.617975 GCATATGTTTTAAAGATTAGGCATCTC 57.382 33.333 4.29 0.00 41.93 2.75
756 2008 2.919666 ACAAATCTGTTGCATACGCC 57.080 45.000 0.00 0.00 37.32 5.68
763 2016 5.835113 ATCTGTTGCATACGCCTTTAAAT 57.165 34.783 0.00 0.00 37.32 1.40
764 2017 6.935741 ATCTGTTGCATACGCCTTTAAATA 57.064 33.333 0.00 0.00 37.32 1.40
931 2184 2.688507 TCTTCTGTTGCTTCACGGATC 58.311 47.619 0.00 0.00 31.90 3.36
993 2246 8.719645 ATATACCTCAACTGAAGATCTAGCTT 57.280 34.615 0.00 0.00 0.00 3.74
1005 2258 6.263168 TGAAGATCTAGCTTGTGACGATGATA 59.737 38.462 0.00 0.00 0.00 2.15
1241 2494 5.787380 AGGCTTTGAAAATCCTGATTGAAC 58.213 37.500 0.00 0.00 29.54 3.18
1278 2531 3.685139 TGATTCTCAGACCAGGAACAC 57.315 47.619 0.00 0.00 0.00 3.32
1287 2540 1.597663 GACCAGGAACACTGTGTTTCG 59.402 52.381 25.35 18.47 46.06 3.46
1300 2553 1.527311 GTGTTTCGTGAGCTCTTCCAC 59.473 52.381 16.19 4.12 0.00 4.02
1455 2708 4.201990 CCATTTCTTTGCTAGCTGATGTCC 60.202 45.833 17.23 0.00 0.00 4.02
1456 2709 2.299993 TCTTTGCTAGCTGATGTCCG 57.700 50.000 17.23 0.00 0.00 4.79
1526 2779 9.196139 TCTTTTTGGGTTCTTCAATTTCTCTTA 57.804 29.630 0.00 0.00 0.00 2.10
1558 2834 7.539712 TCTTTTGCTGCTACACTGATTATAC 57.460 36.000 0.00 0.00 0.00 1.47
1570 2846 4.982916 CACTGATTATACGCCTGTTCTACC 59.017 45.833 0.00 0.00 0.00 3.18
1572 2848 4.220724 TGATTATACGCCTGTTCTACCCT 58.779 43.478 0.00 0.00 0.00 4.34
1586 2864 4.744795 TCTACCCTGATGCTCTTTCTTC 57.255 45.455 0.00 0.00 0.00 2.87
1653 2931 4.047822 CCGCTTGTTGTGCAAAATCTTTA 58.952 39.130 0.00 0.00 36.53 1.85
1970 3250 4.789123 GGCATTACCGTGGGGCGT 62.789 66.667 0.00 0.00 39.32 5.68
2034 3314 9.551734 TTGTGATGATAGATAAAGAGGTTGATG 57.448 33.333 0.00 0.00 0.00 3.07
2154 3436 6.554334 TTCTTGGTGCTTTTACTACATGTC 57.446 37.500 0.00 0.00 0.00 3.06
2188 3593 6.658849 ACTATGCTAACCCACATAAATGACA 58.341 36.000 0.00 0.00 0.00 3.58
2218 3623 3.006940 CGCTAATCCTTGTTGGCACTTA 58.993 45.455 0.00 0.00 35.57 2.24
2370 3776 4.986875 TGATGATACGCTACGACTCTAC 57.013 45.455 0.00 0.00 0.00 2.59
2433 3839 8.025270 TGAATTTGGAATCCATATTGCAGAAT 57.975 30.769 20.02 4.47 43.30 2.40
2441 3847 8.092687 GGAATCCATATTGCAGAATTATTTGCT 58.907 33.333 0.00 0.00 40.87 3.91
2484 3890 1.098050 AGCTTCCCAATGAACGATGC 58.902 50.000 0.00 0.00 0.00 3.91
2514 3920 4.939505 ACCTTCAGGCACAAGGCAAAGT 62.940 50.000 13.01 0.00 43.96 2.66
2559 3965 4.641396 TCATAAACCTTCAGTGTCACCTG 58.359 43.478 0.00 0.00 0.00 4.00
2560 3966 4.346709 TCATAAACCTTCAGTGTCACCTGA 59.653 41.667 0.00 0.39 39.65 3.86
2663 4072 9.915629 CTAACATCACTTTCTTACTCACTACTT 57.084 33.333 0.00 0.00 0.00 2.24
2719 4128 3.391049 GCAACCGGGTCATCTAGTATTC 58.609 50.000 6.32 0.00 0.00 1.75
2725 4134 6.113411 ACCGGGTCATCTAGTATTCAAAAAG 58.887 40.000 6.32 0.00 0.00 2.27
2726 4135 6.113411 CCGGGTCATCTAGTATTCAAAAAGT 58.887 40.000 0.00 0.00 0.00 2.66
2727 4136 6.598064 CCGGGTCATCTAGTATTCAAAAAGTT 59.402 38.462 0.00 0.00 0.00 2.66
2728 4137 7.767198 CCGGGTCATCTAGTATTCAAAAAGTTA 59.233 37.037 0.00 0.00 0.00 2.24
2729 4138 9.158233 CGGGTCATCTAGTATTCAAAAAGTTAA 57.842 33.333 0.00 0.00 0.00 2.01
2744 4153 9.184523 TCAAAAAGTTAAAATGAGAGAGAACCA 57.815 29.630 0.00 0.00 0.00 3.67
2745 4154 9.971922 CAAAAAGTTAAAATGAGAGAGAACCAT 57.028 29.630 0.00 0.00 0.00 3.55
2798 4207 7.865706 CCAATTAACACTATTGGCTCTAAGT 57.134 36.000 0.00 0.00 43.87 2.24
2799 4208 8.281212 CCAATTAACACTATTGGCTCTAAGTT 57.719 34.615 0.00 0.00 43.87 2.66
2800 4209 8.184192 CCAATTAACACTATTGGCTCTAAGTTG 58.816 37.037 0.00 0.00 43.87 3.16
2801 4210 8.946085 CAATTAACACTATTGGCTCTAAGTTGA 58.054 33.333 0.00 0.00 31.00 3.18
2802 4211 7.900782 TTAACACTATTGGCTCTAAGTTGAC 57.099 36.000 0.00 0.00 0.00 3.18
2803 4212 5.746990 ACACTATTGGCTCTAAGTTGACT 57.253 39.130 0.00 0.00 0.00 3.41
2804 4213 5.482908 ACACTATTGGCTCTAAGTTGACTG 58.517 41.667 0.00 0.00 0.00 3.51
2805 4214 4.872691 CACTATTGGCTCTAAGTTGACTGG 59.127 45.833 0.00 0.00 0.00 4.00
2806 4215 4.777896 ACTATTGGCTCTAAGTTGACTGGA 59.222 41.667 0.00 0.00 0.00 3.86
2807 4216 4.851639 ATTGGCTCTAAGTTGACTGGAT 57.148 40.909 0.00 0.00 0.00 3.41
2808 4217 5.957771 ATTGGCTCTAAGTTGACTGGATA 57.042 39.130 0.00 0.00 0.00 2.59
2809 4218 4.737855 TGGCTCTAAGTTGACTGGATAC 57.262 45.455 0.00 0.00 0.00 2.24
2830 4239 9.403583 GGATACAAAATCTAGGATGTTAAACCA 57.596 33.333 0.00 0.00 0.00 3.67
2833 4242 8.650143 ACAAAATCTAGGATGTTAAACCATGT 57.350 30.769 0.00 0.00 0.00 3.21
2834 4243 9.088987 ACAAAATCTAGGATGTTAAACCATGTT 57.911 29.630 0.00 0.00 0.00 2.71
2835 4244 9.573133 CAAAATCTAGGATGTTAAACCATGTTC 57.427 33.333 0.00 0.00 0.00 3.18
2836 4245 8.877864 AAATCTAGGATGTTAAACCATGTTCA 57.122 30.769 0.00 0.00 0.00 3.18
2837 4246 9.479549 AAATCTAGGATGTTAAACCATGTTCAT 57.520 29.630 0.00 0.00 0.00 2.57
2838 4247 7.864108 TCTAGGATGTTAAACCATGTTCATG 57.136 36.000 5.88 5.88 0.00 3.07
2839 4248 5.920193 AGGATGTTAAACCATGTTCATGG 57.080 39.130 24.78 24.78 46.92 3.66
2840 4249 5.579047 AGGATGTTAAACCATGTTCATGGA 58.421 37.500 30.73 13.18 44.39 3.41
2841 4250 6.197168 AGGATGTTAAACCATGTTCATGGAT 58.803 36.000 30.73 20.31 44.39 3.41
2842 4251 6.097270 AGGATGTTAAACCATGTTCATGGATG 59.903 38.462 30.73 11.15 44.39 3.51
2843 4252 5.657826 TGTTAAACCATGTTCATGGATGG 57.342 39.130 30.73 12.45 44.39 3.51
2844 4253 5.328565 TGTTAAACCATGTTCATGGATGGA 58.671 37.500 30.73 13.45 44.39 3.41
2845 4254 5.957168 TGTTAAACCATGTTCATGGATGGAT 59.043 36.000 30.73 16.70 44.39 3.41
2846 4255 7.122048 TGTTAAACCATGTTCATGGATGGATA 58.878 34.615 30.73 15.94 44.39 2.59
2847 4256 7.617329 TGTTAAACCATGTTCATGGATGGATAA 59.383 33.333 30.73 19.33 44.39 1.75
2848 4257 8.641541 GTTAAACCATGTTCATGGATGGATAAT 58.358 33.333 30.73 11.32 44.39 1.28
2849 4258 6.659745 AACCATGTTCATGGATGGATAATG 57.340 37.500 30.73 7.55 44.39 1.90
2850 4259 5.708544 ACCATGTTCATGGATGGATAATGT 58.291 37.500 30.73 8.23 44.39 2.71
2851 4260 5.537295 ACCATGTTCATGGATGGATAATGTG 59.463 40.000 30.73 6.96 44.39 3.21
2852 4261 5.466819 CATGTTCATGGATGGATAATGTGC 58.533 41.667 5.02 0.00 0.00 4.57
2853 4262 4.795469 TGTTCATGGATGGATAATGTGCT 58.205 39.130 0.00 0.00 0.00 4.40
2854 4263 4.823442 TGTTCATGGATGGATAATGTGCTC 59.177 41.667 0.00 0.00 0.00 4.26
2855 4264 3.667360 TCATGGATGGATAATGTGCTCG 58.333 45.455 0.00 0.00 0.00 5.03
2856 4265 3.071457 TCATGGATGGATAATGTGCTCGT 59.929 43.478 0.00 0.00 0.00 4.18
2857 4266 3.558931 TGGATGGATAATGTGCTCGTT 57.441 42.857 0.00 0.00 0.00 3.85
2858 4267 3.884895 TGGATGGATAATGTGCTCGTTT 58.115 40.909 0.00 0.00 0.00 3.60
2859 4268 4.269183 TGGATGGATAATGTGCTCGTTTT 58.731 39.130 0.00 0.00 0.00 2.43
2860 4269 5.432645 TGGATGGATAATGTGCTCGTTTTA 58.567 37.500 0.00 0.00 0.00 1.52
2861 4270 5.527214 TGGATGGATAATGTGCTCGTTTTAG 59.473 40.000 0.00 0.00 0.00 1.85
2862 4271 5.049405 GGATGGATAATGTGCTCGTTTTAGG 60.049 44.000 0.00 0.00 0.00 2.69
2863 4272 4.196193 TGGATAATGTGCTCGTTTTAGGG 58.804 43.478 0.00 0.00 0.00 3.53
2864 4273 3.564225 GGATAATGTGCTCGTTTTAGGGG 59.436 47.826 0.00 0.00 0.00 4.79
2865 4274 2.871096 AATGTGCTCGTTTTAGGGGA 57.129 45.000 0.00 0.00 0.00 4.81
2866 4275 3.366052 AATGTGCTCGTTTTAGGGGAT 57.634 42.857 0.00 0.00 0.00 3.85
2867 4276 4.497291 AATGTGCTCGTTTTAGGGGATA 57.503 40.909 0.00 0.00 0.00 2.59
2868 4277 3.985019 TGTGCTCGTTTTAGGGGATAA 57.015 42.857 0.00 0.00 0.00 1.75
2869 4278 3.602483 TGTGCTCGTTTTAGGGGATAAC 58.398 45.455 0.00 0.00 0.00 1.89
2870 4279 3.008157 TGTGCTCGTTTTAGGGGATAACA 59.992 43.478 0.00 0.00 0.00 2.41
2871 4280 3.373130 GTGCTCGTTTTAGGGGATAACAC 59.627 47.826 0.00 0.00 0.00 3.32
2872 4281 3.262405 TGCTCGTTTTAGGGGATAACACT 59.738 43.478 0.00 0.00 0.00 3.55
2873 4282 3.621715 GCTCGTTTTAGGGGATAACACTG 59.378 47.826 0.00 0.00 0.00 3.66
2874 4283 3.602483 TCGTTTTAGGGGATAACACTGC 58.398 45.455 0.00 0.00 0.00 4.40
2875 4284 3.008157 TCGTTTTAGGGGATAACACTGCA 59.992 43.478 0.00 0.00 0.00 4.41
2876 4285 3.374058 CGTTTTAGGGGATAACACTGCAG 59.626 47.826 13.48 13.48 0.00 4.41
2877 4286 4.585879 GTTTTAGGGGATAACACTGCAGA 58.414 43.478 23.35 0.00 0.00 4.26
2878 4287 5.193679 GTTTTAGGGGATAACACTGCAGAT 58.806 41.667 23.35 2.34 0.00 2.90
2879 4288 4.422073 TTAGGGGATAACACTGCAGATG 57.578 45.455 23.35 16.93 0.00 2.90
2880 4289 1.492176 AGGGGATAACACTGCAGATGG 59.508 52.381 23.35 11.87 0.00 3.51
2881 4290 1.312815 GGGATAACACTGCAGATGGC 58.687 55.000 23.35 4.17 45.13 4.40
2882 4291 1.312815 GGATAACACTGCAGATGGCC 58.687 55.000 23.35 9.83 43.89 5.36
2883 4292 1.133976 GGATAACACTGCAGATGGCCT 60.134 52.381 23.35 6.84 43.89 5.19
2884 4293 2.104792 GGATAACACTGCAGATGGCCTA 59.895 50.000 23.35 8.64 43.89 3.93
2885 4294 3.433598 GGATAACACTGCAGATGGCCTAA 60.434 47.826 23.35 0.00 43.89 2.69
2886 4295 2.584835 AACACTGCAGATGGCCTAAA 57.415 45.000 23.35 0.00 43.89 1.85
2887 4296 2.584835 ACACTGCAGATGGCCTAAAA 57.415 45.000 23.35 0.00 43.89 1.52
2888 4297 3.091633 ACACTGCAGATGGCCTAAAAT 57.908 42.857 23.35 0.00 43.89 1.82
2889 4298 2.756760 ACACTGCAGATGGCCTAAAATG 59.243 45.455 23.35 5.83 43.89 2.32
2890 4299 1.753073 ACTGCAGATGGCCTAAAATGC 59.247 47.619 23.35 8.15 43.89 3.56
2891 4300 1.752498 CTGCAGATGGCCTAAAATGCA 59.248 47.619 8.42 16.79 43.89 3.96
2892 4301 1.477700 TGCAGATGGCCTAAAATGCAC 59.522 47.619 14.72 0.00 43.89 4.57
2893 4302 1.753073 GCAGATGGCCTAAAATGCACT 59.247 47.619 3.32 0.00 36.11 4.40
2894 4303 2.951642 GCAGATGGCCTAAAATGCACTA 59.048 45.455 3.32 0.00 36.11 2.74
2895 4304 3.381272 GCAGATGGCCTAAAATGCACTAA 59.619 43.478 3.32 0.00 36.11 2.24
2896 4305 4.142182 GCAGATGGCCTAAAATGCACTAAA 60.142 41.667 3.32 0.00 36.11 1.85
2897 4306 5.452356 GCAGATGGCCTAAAATGCACTAAAT 60.452 40.000 3.32 0.00 36.11 1.40
2898 4307 6.576185 CAGATGGCCTAAAATGCACTAAATT 58.424 36.000 3.32 0.00 0.00 1.82
2899 4308 6.477688 CAGATGGCCTAAAATGCACTAAATTG 59.522 38.462 3.32 0.00 0.00 2.32
2900 4309 5.991933 TGGCCTAAAATGCACTAAATTGA 57.008 34.783 3.32 0.00 0.00 2.57
2901 4310 6.543430 TGGCCTAAAATGCACTAAATTGAT 57.457 33.333 3.32 0.00 0.00 2.57
2902 4311 7.652524 TGGCCTAAAATGCACTAAATTGATA 57.347 32.000 3.32 0.00 0.00 2.15
2903 4312 8.072321 TGGCCTAAAATGCACTAAATTGATAA 57.928 30.769 3.32 0.00 0.00 1.75
2904 4313 8.703743 TGGCCTAAAATGCACTAAATTGATAAT 58.296 29.630 3.32 0.00 0.00 1.28
2919 4328 8.837099 AAATTGATAATATTGACAAGACCCCA 57.163 30.769 0.00 0.00 0.00 4.96
2920 4329 8.837099 AATTGATAATATTGACAAGACCCCAA 57.163 30.769 0.00 0.00 0.00 4.12
2921 4330 9.438163 AATTGATAATATTGACAAGACCCCAAT 57.562 29.630 0.00 0.00 35.09 3.16
2922 4331 7.822161 TGATAATATTGACAAGACCCCAATG 57.178 36.000 0.00 0.00 33.21 2.82
2923 4332 6.777091 TGATAATATTGACAAGACCCCAATGG 59.223 38.462 0.00 0.00 41.37 3.16
2947 4356 8.753133 TGGTACAAATTTGTGGCATATATTTCA 58.247 29.630 29.72 12.22 42.31 2.69
2948 4357 9.762933 GGTACAAATTTGTGGCATATATTTCAT 57.237 29.630 29.72 3.42 42.31 2.57
2951 4360 9.887629 ACAAATTTGTGGCATATATTTCATTGA 57.112 25.926 22.71 0.00 40.49 2.57
2971 4380 8.849168 TCATTGAATATTTGTATACTGCCAAGG 58.151 33.333 4.17 1.91 0.00 3.61
2972 4381 8.849168 CATTGAATATTTGTATACTGCCAAGGA 58.151 33.333 4.17 0.00 0.00 3.36
2973 4382 8.450578 TTGAATATTTGTATACTGCCAAGGAG 57.549 34.615 4.17 0.00 0.00 3.69
2974 4383 7.801104 TGAATATTTGTATACTGCCAAGGAGA 58.199 34.615 4.17 0.00 0.00 3.71
2975 4384 8.271458 TGAATATTTGTATACTGCCAAGGAGAA 58.729 33.333 4.17 0.00 0.00 2.87
2976 4385 9.289782 GAATATTTGTATACTGCCAAGGAGAAT 57.710 33.333 4.17 0.00 0.00 2.40
2977 4386 6.949352 ATTTGTATACTGCCAAGGAGAATG 57.051 37.500 4.17 0.00 0.00 2.67
2978 4387 5.692115 TTGTATACTGCCAAGGAGAATGA 57.308 39.130 4.17 0.00 0.00 2.57
2979 4388 5.692115 TGTATACTGCCAAGGAGAATGAA 57.308 39.130 4.17 0.00 0.00 2.57
2980 4389 6.061022 TGTATACTGCCAAGGAGAATGAAA 57.939 37.500 4.17 0.00 0.00 2.69
2981 4390 6.662755 TGTATACTGCCAAGGAGAATGAAAT 58.337 36.000 4.17 0.00 0.00 2.17
2982 4391 7.801104 TGTATACTGCCAAGGAGAATGAAATA 58.199 34.615 4.17 0.00 0.00 1.40
2983 4392 8.271458 TGTATACTGCCAAGGAGAATGAAATAA 58.729 33.333 4.17 0.00 0.00 1.40
2984 4393 9.289782 GTATACTGCCAAGGAGAATGAAATAAT 57.710 33.333 0.00 0.00 0.00 1.28
2985 4394 8.773033 ATACTGCCAAGGAGAATGAAATAATT 57.227 30.769 0.00 0.00 0.00 1.40
2986 4395 6.870769 ACTGCCAAGGAGAATGAAATAATTG 58.129 36.000 0.00 0.00 0.00 2.32
2987 4396 5.663456 TGCCAAGGAGAATGAAATAATTGC 58.337 37.500 0.00 0.00 0.00 3.56
2988 4397 5.052481 GCCAAGGAGAATGAAATAATTGCC 58.948 41.667 0.00 0.00 0.00 4.52
2989 4398 5.395546 GCCAAGGAGAATGAAATAATTGCCA 60.396 40.000 0.00 0.00 0.00 4.92
2990 4399 6.642430 CCAAGGAGAATGAAATAATTGCCAA 58.358 36.000 0.00 0.00 0.00 4.52
2991 4400 7.104939 CCAAGGAGAATGAAATAATTGCCAAA 58.895 34.615 0.00 0.00 0.00 3.28
2992 4401 7.064966 CCAAGGAGAATGAAATAATTGCCAAAC 59.935 37.037 0.00 0.00 0.00 2.93
2993 4402 7.486407 AGGAGAATGAAATAATTGCCAAACT 57.514 32.000 0.00 0.00 0.00 2.66
2994 4403 7.550712 AGGAGAATGAAATAATTGCCAAACTC 58.449 34.615 0.00 0.00 0.00 3.01
2995 4404 7.398332 AGGAGAATGAAATAATTGCCAAACTCT 59.602 33.333 0.00 0.00 0.00 3.24
2996 4405 8.686334 GGAGAATGAAATAATTGCCAAACTCTA 58.314 33.333 0.00 0.00 0.00 2.43
3005 4414 8.995027 ATAATTGCCAAACTCTATATTGTGGA 57.005 30.769 0.00 0.00 0.00 4.02
3006 4415 7.716799 AATTGCCAAACTCTATATTGTGGAA 57.283 32.000 0.00 0.00 0.00 3.53
3007 4416 6.757897 TTGCCAAACTCTATATTGTGGAAG 57.242 37.500 0.00 0.00 0.00 3.46
3008 4417 4.640201 TGCCAAACTCTATATTGTGGAAGC 59.360 41.667 0.00 0.00 0.00 3.86
3009 4418 4.884164 GCCAAACTCTATATTGTGGAAGCT 59.116 41.667 0.00 0.00 0.00 3.74
3010 4419 6.055588 GCCAAACTCTATATTGTGGAAGCTA 58.944 40.000 0.00 0.00 0.00 3.32
3011 4420 6.017852 GCCAAACTCTATATTGTGGAAGCTAC 60.018 42.308 0.00 0.00 0.00 3.58
3012 4421 6.201044 CCAAACTCTATATTGTGGAAGCTACG 59.799 42.308 0.00 0.00 0.00 3.51
3013 4422 4.872664 ACTCTATATTGTGGAAGCTACGC 58.127 43.478 0.00 0.00 0.00 4.42
3014 4423 3.897325 TCTATATTGTGGAAGCTACGCG 58.103 45.455 3.53 3.53 0.00 6.01
3015 4424 2.596904 ATATTGTGGAAGCTACGCGT 57.403 45.000 19.17 19.17 0.00 6.01
3016 4425 2.373540 TATTGTGGAAGCTACGCGTT 57.626 45.000 20.78 0.00 0.00 4.84
3017 4426 0.796312 ATTGTGGAAGCTACGCGTTG 59.204 50.000 20.78 18.31 0.00 4.10
3018 4427 1.837538 TTGTGGAAGCTACGCGTTGC 61.838 55.000 33.20 33.20 0.00 4.17
3019 4428 2.029815 TGGAAGCTACGCGTTGCA 59.970 55.556 38.69 21.76 33.84 4.08
3020 4429 2.314647 TGGAAGCTACGCGTTGCAC 61.315 57.895 38.69 30.94 33.84 4.57
3021 4430 2.027625 GGAAGCTACGCGTTGCACT 61.028 57.895 38.69 28.14 33.84 4.40
3022 4431 1.566018 GGAAGCTACGCGTTGCACTT 61.566 55.000 38.69 28.14 33.84 3.16
3023 4432 0.234884 GAAGCTACGCGTTGCACTTT 59.765 50.000 38.69 27.50 33.84 2.66
3024 4433 0.661020 AAGCTACGCGTTGCACTTTT 59.339 45.000 38.69 25.13 33.84 2.27
3025 4434 0.661020 AGCTACGCGTTGCACTTTTT 59.339 45.000 38.69 20.23 33.84 1.94
3043 4452 4.817318 TTTTTGAAGTGTTGGGAAGCTT 57.183 36.364 0.00 0.00 0.00 3.74
3044 4453 3.799281 TTTGAAGTGTTGGGAAGCTTG 57.201 42.857 2.10 0.00 0.00 4.01
3045 4454 2.435372 TGAAGTGTTGGGAAGCTTGT 57.565 45.000 2.10 0.00 0.00 3.16
3046 4455 2.023673 TGAAGTGTTGGGAAGCTTGTG 58.976 47.619 2.10 0.00 0.00 3.33
3047 4456 2.297701 GAAGTGTTGGGAAGCTTGTGA 58.702 47.619 2.10 0.00 0.00 3.58
3048 4457 2.435372 AGTGTTGGGAAGCTTGTGAA 57.565 45.000 2.10 0.00 0.00 3.18
3049 4458 2.949447 AGTGTTGGGAAGCTTGTGAAT 58.051 42.857 2.10 0.00 0.00 2.57
3050 4459 4.098914 AGTGTTGGGAAGCTTGTGAATA 57.901 40.909 2.10 0.00 0.00 1.75
3051 4460 4.469657 AGTGTTGGGAAGCTTGTGAATAA 58.530 39.130 2.10 0.00 0.00 1.40
3052 4461 4.892934 AGTGTTGGGAAGCTTGTGAATAAA 59.107 37.500 2.10 0.00 0.00 1.40
3053 4462 5.539955 AGTGTTGGGAAGCTTGTGAATAAAT 59.460 36.000 2.10 0.00 0.00 1.40
3054 4463 6.719370 AGTGTTGGGAAGCTTGTGAATAAATA 59.281 34.615 2.10 0.00 0.00 1.40
3055 4464 7.232534 AGTGTTGGGAAGCTTGTGAATAAATAA 59.767 33.333 2.10 0.00 0.00 1.40
3056 4465 7.542130 GTGTTGGGAAGCTTGTGAATAAATAAG 59.458 37.037 2.10 0.00 0.00 1.73
3057 4466 7.232534 TGTTGGGAAGCTTGTGAATAAATAAGT 59.767 33.333 2.10 0.00 0.00 2.24
3058 4467 7.775053 TGGGAAGCTTGTGAATAAATAAGTT 57.225 32.000 2.10 0.00 0.00 2.66
3059 4468 8.189119 TGGGAAGCTTGTGAATAAATAAGTTT 57.811 30.769 2.10 0.00 0.00 2.66
3060 4469 9.303116 TGGGAAGCTTGTGAATAAATAAGTTTA 57.697 29.630 2.10 0.00 34.50 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 95 6.349611 GGCTGTAGGCACAATATTCATAATGG 60.350 42.308 0.01 0.00 44.01 3.16
254 257 7.432148 TCTAAAGAGGGACATATAAGCACAA 57.568 36.000 0.00 0.00 0.00 3.33
264 267 6.100424 CCCAAGAACTATCTAAAGAGGGACAT 59.900 42.308 0.00 0.00 33.77 3.06
536 1786 5.295950 CAATTAACAAGCACCAACCATTGA 58.704 37.500 0.00 0.00 0.00 2.57
683 1933 7.389232 ACATATGCAGCAGATTTGTAGCTATA 58.611 34.615 0.00 0.00 36.73 1.31
727 1978 3.248602 GCAACAGATTTGTAGCTATCCCG 59.751 47.826 0.00 0.00 36.23 5.14
764 2017 8.260114 CCAATTGGTAAAATTTTCTCTGCCTAT 58.740 33.333 16.90 3.78 0.00 2.57
799 2052 6.394025 AATAACGTAGCAAACCAAAAAGGA 57.606 33.333 0.00 0.00 41.22 3.36
931 2184 0.583438 CAGACACAACGTGCAGGAAG 59.417 55.000 14.38 7.32 36.98 3.46
993 2246 6.971726 AACCTTAGGTATATCATCGTCACA 57.028 37.500 3.55 0.00 33.12 3.58
1241 2494 7.720442 TGAGAATCAGTAGTACCATCTTCATG 58.280 38.462 0.00 0.00 42.56 3.07
1278 2531 1.795286 GGAAGAGCTCACGAAACACAG 59.205 52.381 17.77 0.00 0.00 3.66
1287 2540 2.777832 AATGGAGTGGAAGAGCTCAC 57.222 50.000 17.77 9.41 33.66 3.51
1455 2708 4.929808 AGCTGTATGAACCAAAAGACTACG 59.070 41.667 0.00 0.00 0.00 3.51
1456 2709 6.803154 AAGCTGTATGAACCAAAAGACTAC 57.197 37.500 0.00 0.00 0.00 2.73
1526 2779 1.002857 AGCAGCAAAAGATAGGGGGT 58.997 50.000 0.00 0.00 0.00 4.95
1558 2834 0.811616 GCATCAGGGTAGAACAGGCG 60.812 60.000 0.00 0.00 0.00 5.52
1570 2846 3.065510 CAGCATGAAGAAAGAGCATCAGG 59.934 47.826 0.00 0.00 39.69 3.86
1572 2848 3.014623 CCAGCATGAAGAAAGAGCATCA 58.985 45.455 0.00 0.00 39.69 3.07
1586 2864 1.575244 CGTGACATAGGACCAGCATG 58.425 55.000 0.00 0.00 0.00 4.06
1632 2910 4.148696 CCTAAAGATTTTGCACAACAAGCG 59.851 41.667 0.00 0.00 40.06 4.68
1653 2931 6.322201 CAGCAGGGAATGATTTACAATAACCT 59.678 38.462 0.00 0.00 0.00 3.50
1936 3216 0.807496 GCCACAGATGAGACAAAGGC 59.193 55.000 0.00 0.00 0.00 4.35
1970 3250 1.836391 CCCATTATGAGTCGCCCCA 59.164 57.895 0.00 0.00 0.00 4.96
2069 3350 7.225145 CCAAGAAGCACTCATTTTTCAATTCAA 59.775 33.333 0.00 0.00 0.00 2.69
2154 3436 6.492429 TGTGGGTTAGCATAGTATACTACTGG 59.508 42.308 14.82 8.82 39.81 4.00
2188 3593 2.290323 ACAAGGATTAGCGCAGGACTTT 60.290 45.455 11.47 0.00 0.00 2.66
2370 3776 4.409247 AGGGTTTATAGTGCCTGGACTTAG 59.591 45.833 0.00 0.00 0.00 2.18
2514 3920 2.199117 GTCCTCATAGGCGGACACA 58.801 57.895 11.52 0.00 46.98 3.72
2559 3965 3.059352 AGTCTGGTACACAAGGCATTC 57.941 47.619 0.00 0.00 0.00 2.67
2560 3966 3.508845 AAGTCTGGTACACAAGGCATT 57.491 42.857 0.00 0.00 0.00 3.56
2663 4072 6.313905 GCAAGAAGCTAGTTAGAAGCAATGTA 59.686 38.462 0.00 0.00 42.62 2.29
2719 4128 9.971922 ATGGTTCTCTCTCATTTTAACTTTTTG 57.028 29.630 0.00 0.00 0.00 2.44
2775 4184 8.946085 TCAACTTAGAGCCAATAGTGTTAATTG 58.054 33.333 0.00 0.00 34.71 2.32
2776 4185 8.947115 GTCAACTTAGAGCCAATAGTGTTAATT 58.053 33.333 0.00 0.00 0.00 1.40
2777 4186 8.322091 AGTCAACTTAGAGCCAATAGTGTTAAT 58.678 33.333 0.00 0.00 0.00 1.40
2778 4187 7.602644 CAGTCAACTTAGAGCCAATAGTGTTAA 59.397 37.037 0.00 0.00 0.00 2.01
2779 4188 7.097192 CAGTCAACTTAGAGCCAATAGTGTTA 58.903 38.462 0.00 0.00 0.00 2.41
2780 4189 5.934625 CAGTCAACTTAGAGCCAATAGTGTT 59.065 40.000 0.00 0.00 0.00 3.32
2781 4190 5.482908 CAGTCAACTTAGAGCCAATAGTGT 58.517 41.667 0.00 0.00 0.00 3.55
2782 4191 4.872691 CCAGTCAACTTAGAGCCAATAGTG 59.127 45.833 0.00 0.00 0.00 2.74
2783 4192 4.777896 TCCAGTCAACTTAGAGCCAATAGT 59.222 41.667 0.00 0.00 0.00 2.12
2784 4193 5.344743 TCCAGTCAACTTAGAGCCAATAG 57.655 43.478 0.00 0.00 0.00 1.73
2785 4194 5.957771 ATCCAGTCAACTTAGAGCCAATA 57.042 39.130 0.00 0.00 0.00 1.90
2786 4195 4.851639 ATCCAGTCAACTTAGAGCCAAT 57.148 40.909 0.00 0.00 0.00 3.16
2787 4196 4.530553 TGTATCCAGTCAACTTAGAGCCAA 59.469 41.667 0.00 0.00 0.00 4.52
2788 4197 4.093743 TGTATCCAGTCAACTTAGAGCCA 58.906 43.478 0.00 0.00 0.00 4.75
2789 4198 4.737855 TGTATCCAGTCAACTTAGAGCC 57.262 45.455 0.00 0.00 0.00 4.70
2790 4199 7.550906 AGATTTTGTATCCAGTCAACTTAGAGC 59.449 37.037 0.00 0.00 0.00 4.09
2793 4202 9.319143 CCTAGATTTTGTATCCAGTCAACTTAG 57.681 37.037 0.00 0.00 0.00 2.18
2794 4203 9.042450 TCCTAGATTTTGTATCCAGTCAACTTA 57.958 33.333 0.00 0.00 0.00 2.24
2795 4204 7.918076 TCCTAGATTTTGTATCCAGTCAACTT 58.082 34.615 0.00 0.00 0.00 2.66
2796 4205 7.496346 TCCTAGATTTTGTATCCAGTCAACT 57.504 36.000 0.00 0.00 0.00 3.16
2797 4206 7.770897 ACATCCTAGATTTTGTATCCAGTCAAC 59.229 37.037 0.00 0.00 0.00 3.18
2798 4207 7.861629 ACATCCTAGATTTTGTATCCAGTCAA 58.138 34.615 0.00 0.00 0.00 3.18
2799 4208 7.437713 ACATCCTAGATTTTGTATCCAGTCA 57.562 36.000 0.00 0.00 0.00 3.41
2800 4209 9.832445 TTAACATCCTAGATTTTGTATCCAGTC 57.168 33.333 0.00 0.00 0.00 3.51
2803 4212 9.403583 GGTTTAACATCCTAGATTTTGTATCCA 57.596 33.333 0.00 0.00 0.00 3.41
2804 4213 9.403583 TGGTTTAACATCCTAGATTTTGTATCC 57.596 33.333 0.00 0.00 0.00 2.59
2807 4216 9.747898 ACATGGTTTAACATCCTAGATTTTGTA 57.252 29.630 0.00 0.00 0.00 2.41
2808 4217 8.650143 ACATGGTTTAACATCCTAGATTTTGT 57.350 30.769 0.00 0.00 0.00 2.83
2809 4218 9.573133 GAACATGGTTTAACATCCTAGATTTTG 57.427 33.333 0.00 0.00 0.00 2.44
2810 4219 9.308000 TGAACATGGTTTAACATCCTAGATTTT 57.692 29.630 0.00 0.00 0.00 1.82
2811 4220 8.877864 TGAACATGGTTTAACATCCTAGATTT 57.122 30.769 0.00 0.00 0.00 2.17
2812 4221 8.906867 CATGAACATGGTTTAACATCCTAGATT 58.093 33.333 6.87 0.00 35.24 2.40
2813 4222 8.455903 CATGAACATGGTTTAACATCCTAGAT 57.544 34.615 6.87 0.00 35.24 1.98
2814 4223 7.864108 CATGAACATGGTTTAACATCCTAGA 57.136 36.000 6.87 0.00 35.24 2.43
2829 4238 5.243060 AGCACATTATCCATCCATGAACATG 59.757 40.000 7.70 7.70 38.51 3.21
2830 4239 5.391256 AGCACATTATCCATCCATGAACAT 58.609 37.500 0.00 0.00 0.00 2.71
2831 4240 4.795469 AGCACATTATCCATCCATGAACA 58.205 39.130 0.00 0.00 0.00 3.18
2832 4241 4.083643 CGAGCACATTATCCATCCATGAAC 60.084 45.833 0.00 0.00 0.00 3.18
2833 4242 4.067192 CGAGCACATTATCCATCCATGAA 58.933 43.478 0.00 0.00 0.00 2.57
2834 4243 3.071457 ACGAGCACATTATCCATCCATGA 59.929 43.478 0.00 0.00 0.00 3.07
2835 4244 3.405831 ACGAGCACATTATCCATCCATG 58.594 45.455 0.00 0.00 0.00 3.66
2836 4245 3.777106 ACGAGCACATTATCCATCCAT 57.223 42.857 0.00 0.00 0.00 3.41
2837 4246 3.558931 AACGAGCACATTATCCATCCA 57.441 42.857 0.00 0.00 0.00 3.41
2838 4247 4.900635 AAAACGAGCACATTATCCATCC 57.099 40.909 0.00 0.00 0.00 3.51
2839 4248 5.049405 CCCTAAAACGAGCACATTATCCATC 60.049 44.000 0.00 0.00 0.00 3.51
2840 4249 4.821805 CCCTAAAACGAGCACATTATCCAT 59.178 41.667 0.00 0.00 0.00 3.41
2841 4250 4.196193 CCCTAAAACGAGCACATTATCCA 58.804 43.478 0.00 0.00 0.00 3.41
2842 4251 3.564225 CCCCTAAAACGAGCACATTATCC 59.436 47.826 0.00 0.00 0.00 2.59
2843 4252 4.448210 TCCCCTAAAACGAGCACATTATC 58.552 43.478 0.00 0.00 0.00 1.75
2844 4253 4.497291 TCCCCTAAAACGAGCACATTAT 57.503 40.909 0.00 0.00 0.00 1.28
2845 4254 3.985019 TCCCCTAAAACGAGCACATTA 57.015 42.857 0.00 0.00 0.00 1.90
2846 4255 2.871096 TCCCCTAAAACGAGCACATT 57.129 45.000 0.00 0.00 0.00 2.71
2847 4256 4.196971 GTTATCCCCTAAAACGAGCACAT 58.803 43.478 0.00 0.00 0.00 3.21
2848 4257 3.008157 TGTTATCCCCTAAAACGAGCACA 59.992 43.478 0.00 0.00 0.00 4.57
2849 4258 3.373130 GTGTTATCCCCTAAAACGAGCAC 59.627 47.826 0.00 0.00 0.00 4.40
2850 4259 3.262405 AGTGTTATCCCCTAAAACGAGCA 59.738 43.478 0.00 0.00 33.41 4.26
2851 4260 3.621715 CAGTGTTATCCCCTAAAACGAGC 59.378 47.826 0.00 0.00 33.41 5.03
2852 4261 3.621715 GCAGTGTTATCCCCTAAAACGAG 59.378 47.826 0.00 0.00 33.41 4.18
2853 4262 3.008157 TGCAGTGTTATCCCCTAAAACGA 59.992 43.478 0.00 0.00 33.41 3.85
2854 4263 3.340034 TGCAGTGTTATCCCCTAAAACG 58.660 45.455 0.00 0.00 33.41 3.60
2855 4264 4.585879 TCTGCAGTGTTATCCCCTAAAAC 58.414 43.478 14.67 0.00 0.00 2.43
2856 4265 4.919774 TCTGCAGTGTTATCCCCTAAAA 57.080 40.909 14.67 0.00 0.00 1.52
2857 4266 4.385199 CCATCTGCAGTGTTATCCCCTAAA 60.385 45.833 14.67 0.00 0.00 1.85
2858 4267 3.136443 CCATCTGCAGTGTTATCCCCTAA 59.864 47.826 14.67 0.00 0.00 2.69
2859 4268 2.705658 CCATCTGCAGTGTTATCCCCTA 59.294 50.000 14.67 0.00 0.00 3.53
2860 4269 1.492176 CCATCTGCAGTGTTATCCCCT 59.508 52.381 14.67 0.00 0.00 4.79
2861 4270 1.972872 CCATCTGCAGTGTTATCCCC 58.027 55.000 14.67 0.00 0.00 4.81
2862 4271 1.312815 GCCATCTGCAGTGTTATCCC 58.687 55.000 14.67 0.00 40.77 3.85
2863 4272 1.133976 AGGCCATCTGCAGTGTTATCC 60.134 52.381 14.67 8.74 43.89 2.59
2864 4273 2.338577 AGGCCATCTGCAGTGTTATC 57.661 50.000 14.67 0.85 43.89 1.75
2865 4274 3.931907 TTAGGCCATCTGCAGTGTTAT 57.068 42.857 14.67 0.00 43.89 1.89
2866 4275 3.712016 TTTAGGCCATCTGCAGTGTTA 57.288 42.857 14.67 0.00 43.89 2.41
2867 4276 2.584835 TTTAGGCCATCTGCAGTGTT 57.415 45.000 14.67 0.00 43.89 3.32
2868 4277 2.584835 TTTTAGGCCATCTGCAGTGT 57.415 45.000 14.67 0.58 43.89 3.55
2869 4278 2.480759 GCATTTTAGGCCATCTGCAGTG 60.481 50.000 14.67 11.14 43.89 3.66
2870 4279 1.753073 GCATTTTAGGCCATCTGCAGT 59.247 47.619 14.67 0.00 43.89 4.40
2871 4280 1.752498 TGCATTTTAGGCCATCTGCAG 59.248 47.619 7.63 7.63 43.89 4.41
2872 4281 1.477700 GTGCATTTTAGGCCATCTGCA 59.522 47.619 5.01 9.97 43.89 4.41
2873 4282 1.753073 AGTGCATTTTAGGCCATCTGC 59.247 47.619 5.01 7.19 40.16 4.26
2874 4283 5.581126 TTTAGTGCATTTTAGGCCATCTG 57.419 39.130 5.01 0.00 0.00 2.90
2875 4284 6.380846 TCAATTTAGTGCATTTTAGGCCATCT 59.619 34.615 5.01 0.00 0.00 2.90
2876 4285 6.572519 TCAATTTAGTGCATTTTAGGCCATC 58.427 36.000 5.01 0.00 0.00 3.51
2877 4286 6.543430 TCAATTTAGTGCATTTTAGGCCAT 57.457 33.333 5.01 0.00 0.00 4.40
2878 4287 5.991933 TCAATTTAGTGCATTTTAGGCCA 57.008 34.783 5.01 0.00 0.00 5.36
2893 4302 9.928618 TGGGGTCTTGTCAATATTATCAATTTA 57.071 29.630 5.38 0.00 0.00 1.40
2894 4303 8.837099 TGGGGTCTTGTCAATATTATCAATTT 57.163 30.769 5.38 0.00 0.00 1.82
2895 4304 8.837099 TTGGGGTCTTGTCAATATTATCAATT 57.163 30.769 5.38 0.00 0.00 2.32
2896 4305 8.863086 CATTGGGGTCTTGTCAATATTATCAAT 58.137 33.333 5.38 0.00 30.89 2.57
2897 4306 7.287466 CCATTGGGGTCTTGTCAATATTATCAA 59.713 37.037 0.00 0.00 30.89 2.57
2898 4307 6.777091 CCATTGGGGTCTTGTCAATATTATCA 59.223 38.462 0.00 0.00 30.89 2.15
2899 4308 7.219484 CCATTGGGGTCTTGTCAATATTATC 57.781 40.000 0.00 0.00 30.89 1.75
2915 4324 3.867984 GCCACAAATTTGTACCATTGGGG 60.868 47.826 22.87 17.29 46.77 4.96
2916 4325 3.244353 TGCCACAAATTTGTACCATTGGG 60.244 43.478 22.87 17.95 39.91 4.12
2917 4326 4.000331 TGCCACAAATTTGTACCATTGG 58.000 40.909 22.87 18.64 39.91 3.16
2918 4327 9.545105 AATATATGCCACAAATTTGTACCATTG 57.455 29.630 27.07 15.33 39.91 2.82
2920 4329 9.762933 GAAATATATGCCACAAATTTGTACCAT 57.237 29.630 26.01 26.01 39.91 3.55
2921 4330 8.753133 TGAAATATATGCCACAAATTTGTACCA 58.247 29.630 22.87 20.75 39.91 3.25
2922 4331 9.762933 ATGAAATATATGCCACAAATTTGTACC 57.237 29.630 22.87 16.30 39.91 3.34
2925 4334 9.887629 TCAATGAAATATATGCCACAAATTTGT 57.112 25.926 18.13 18.13 43.36 2.83
2945 4354 8.849168 CCTTGGCAGTATACAAATATTCAATGA 58.151 33.333 5.50 0.00 0.00 2.57
2946 4355 8.849168 TCCTTGGCAGTATACAAATATTCAATG 58.151 33.333 5.50 0.00 0.00 2.82
2947 4356 8.995027 TCCTTGGCAGTATACAAATATTCAAT 57.005 30.769 5.50 0.00 0.00 2.57
2948 4357 8.271458 TCTCCTTGGCAGTATACAAATATTCAA 58.729 33.333 5.50 0.00 0.00 2.69
2949 4358 7.801104 TCTCCTTGGCAGTATACAAATATTCA 58.199 34.615 5.50 0.00 0.00 2.57
2950 4359 8.677148 TTCTCCTTGGCAGTATACAAATATTC 57.323 34.615 5.50 0.00 0.00 1.75
2951 4360 9.071276 CATTCTCCTTGGCAGTATACAAATATT 57.929 33.333 5.50 0.00 0.00 1.28
2952 4361 8.439971 TCATTCTCCTTGGCAGTATACAAATAT 58.560 33.333 5.50 0.00 0.00 1.28
2953 4362 7.801104 TCATTCTCCTTGGCAGTATACAAATA 58.199 34.615 5.50 0.00 0.00 1.40
2954 4363 6.662755 TCATTCTCCTTGGCAGTATACAAAT 58.337 36.000 5.50 0.00 0.00 2.32
2955 4364 6.061022 TCATTCTCCTTGGCAGTATACAAA 57.939 37.500 5.50 0.00 0.00 2.83
2956 4365 5.692115 TCATTCTCCTTGGCAGTATACAA 57.308 39.130 5.50 0.00 0.00 2.41
2957 4366 5.692115 TTCATTCTCCTTGGCAGTATACA 57.308 39.130 5.50 0.00 0.00 2.29
2958 4367 8.677148 TTATTTCATTCTCCTTGGCAGTATAC 57.323 34.615 0.00 0.00 0.00 1.47
2959 4368 9.866655 AATTATTTCATTCTCCTTGGCAGTATA 57.133 29.630 0.00 0.00 0.00 1.47
2960 4369 8.636213 CAATTATTTCATTCTCCTTGGCAGTAT 58.364 33.333 0.00 0.00 0.00 2.12
2961 4370 7.416664 GCAATTATTTCATTCTCCTTGGCAGTA 60.417 37.037 0.00 0.00 0.00 2.74
2962 4371 6.628844 GCAATTATTTCATTCTCCTTGGCAGT 60.629 38.462 0.00 0.00 0.00 4.40
2963 4372 5.751990 GCAATTATTTCATTCTCCTTGGCAG 59.248 40.000 0.00 0.00 0.00 4.85
2964 4373 5.395546 GGCAATTATTTCATTCTCCTTGGCA 60.396 40.000 0.00 0.00 37.71 4.92
2965 4374 5.052481 GGCAATTATTTCATTCTCCTTGGC 58.948 41.667 0.00 0.00 0.00 4.52
2966 4375 6.224665 TGGCAATTATTTCATTCTCCTTGG 57.775 37.500 0.00 0.00 0.00 3.61
2967 4376 7.820872 AGTTTGGCAATTATTTCATTCTCCTTG 59.179 33.333 0.00 0.00 0.00 3.61
2968 4377 7.910584 AGTTTGGCAATTATTTCATTCTCCTT 58.089 30.769 0.00 0.00 0.00 3.36
2969 4378 7.398332 AGAGTTTGGCAATTATTTCATTCTCCT 59.602 33.333 0.00 0.00 0.00 3.69
2970 4379 7.550712 AGAGTTTGGCAATTATTTCATTCTCC 58.449 34.615 0.00 0.00 0.00 3.71
2979 4388 9.420118 TCCACAATATAGAGTTTGGCAATTATT 57.580 29.630 0.00 0.00 0.00 1.40
2980 4389 8.995027 TCCACAATATAGAGTTTGGCAATTAT 57.005 30.769 0.00 0.49 0.00 1.28
2981 4390 8.815565 TTCCACAATATAGAGTTTGGCAATTA 57.184 30.769 0.00 0.00 0.00 1.40
2982 4391 7.631377 GCTTCCACAATATAGAGTTTGGCAATT 60.631 37.037 0.00 0.00 0.00 2.32
2983 4392 6.183360 GCTTCCACAATATAGAGTTTGGCAAT 60.183 38.462 0.00 0.00 0.00 3.56
2984 4393 5.125417 GCTTCCACAATATAGAGTTTGGCAA 59.875 40.000 0.00 0.00 0.00 4.52
2985 4394 4.640201 GCTTCCACAATATAGAGTTTGGCA 59.360 41.667 0.00 0.00 0.00 4.92
2986 4395 4.884164 AGCTTCCACAATATAGAGTTTGGC 59.116 41.667 0.00 0.00 0.00 4.52
2987 4396 6.201044 CGTAGCTTCCACAATATAGAGTTTGG 59.799 42.308 0.00 0.00 0.00 3.28
2988 4397 7.166628 CGTAGCTTCCACAATATAGAGTTTG 57.833 40.000 0.00 0.00 0.00 2.93
3022 4431 4.020662 ACAAGCTTCCCAACACTTCAAAAA 60.021 37.500 0.00 0.00 0.00 1.94
3023 4432 3.513515 ACAAGCTTCCCAACACTTCAAAA 59.486 39.130 0.00 0.00 0.00 2.44
3024 4433 3.096092 ACAAGCTTCCCAACACTTCAAA 58.904 40.909 0.00 0.00 0.00 2.69
3025 4434 2.426738 CACAAGCTTCCCAACACTTCAA 59.573 45.455 0.00 0.00 0.00 2.69
3026 4435 2.023673 CACAAGCTTCCCAACACTTCA 58.976 47.619 0.00 0.00 0.00 3.02
3027 4436 2.297701 TCACAAGCTTCCCAACACTTC 58.702 47.619 0.00 0.00 0.00 3.01
3028 4437 2.435372 TCACAAGCTTCCCAACACTT 57.565 45.000 0.00 0.00 0.00 3.16
3029 4438 2.435372 TTCACAAGCTTCCCAACACT 57.565 45.000 0.00 0.00 0.00 3.55
3030 4439 4.846779 TTATTCACAAGCTTCCCAACAC 57.153 40.909 0.00 0.00 0.00 3.32
3031 4440 7.232534 ACTTATTTATTCACAAGCTTCCCAACA 59.767 33.333 0.00 0.00 0.00 3.33
3032 4441 7.602753 ACTTATTTATTCACAAGCTTCCCAAC 58.397 34.615 0.00 0.00 0.00 3.77
3033 4442 7.775053 ACTTATTTATTCACAAGCTTCCCAA 57.225 32.000 0.00 0.00 0.00 4.12
3034 4443 7.775053 AACTTATTTATTCACAAGCTTCCCA 57.225 32.000 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.