Multiple sequence alignment - TraesCS7A01G451200

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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 TraesCS7A01G451200 chr7A 100.000 3379 0 0 1 3379 644528411 644525033 0.000000e+00 6240.0
1 TraesCS7A01G451200 chr7A 86.239 763 88 9 1421 2175 90481088 90480335 0.000000e+00 811.0
2 TraesCS7A01G451200 chr7A 100.000 35 0 0 393 427 507237027 507236993 7.830000e-07 65.8
3 TraesCS7A01G451200 chr7A 96.970 33 1 0 3172 3204 97252195 97252227 4.710000e-04 56.5
4 TraesCS7A01G451200 chr7A 100.000 28 0 0 2235 2262 90479812 90479785 6.000000e-03 52.8
5 TraesCS7A01G451200 chr7D 92.799 2222 99 18 894 3091 560287202 560285018 0.000000e+00 3160.0
6 TraesCS7A01G451200 chr7D 88.344 489 51 5 408 892 560287883 560287397 1.750000e-162 582.0
7 TraesCS7A01G451200 chr7D 90.756 119 9 2 3261 3379 560284872 560284756 1.260000e-34 158.0
8 TraesCS7A01G451200 chr7B 90.468 2287 158 32 1 2262 608302668 608300417 0.000000e+00 2961.0
9 TraesCS7A01G451200 chr7B 87.270 762 76 10 1422 2176 40287313 40286566 0.000000e+00 850.0
10 TraesCS7A01G451200 chr7B 89.455 275 15 9 2268 2535 608300335 608300068 5.400000e-88 335.0
11 TraesCS7A01G451200 chr7B 91.388 209 16 2 2500 2706 608299978 608299770 5.520000e-73 285.0
12 TraesCS7A01G451200 chr7B 90.909 209 18 1 2883 3091 608299567 608299360 2.570000e-71 279.0
13 TraesCS7A01G451200 chr7B 89.000 100 10 1 2788 2887 608299769 608299671 4.580000e-24 122.0
14 TraesCS7A01G451200 chr7B 91.837 49 2 1 3177 3223 524905682 524905730 2.180000e-07 67.6
15 TraesCS7A01G451200 chr7B 89.362 47 5 0 398 444 39631665 39631711 3.640000e-05 60.2
16 TraesCS7A01G451200 chr7B 92.683 41 2 1 3172 3212 116491347 116491308 1.310000e-04 58.4
17 TraesCS7A01G451200 chr3D 87.902 777 81 7 1403 2171 5862557 5863328 0.000000e+00 902.0
18 TraesCS7A01G451200 chr3D 82.682 768 109 15 1419 2176 5813300 5812547 0.000000e+00 660.0
19 TraesCS7A01G451200 chr3D 82.500 240 30 11 1071 1304 5862008 5862241 2.060000e-47 200.0
20 TraesCS7A01G451200 chr3D 86.792 53 7 0 392 444 438467484 438467432 3.640000e-05 60.2
21 TraesCS7A01G451200 chrUn 87.516 777 81 10 1414 2179 40584289 40583518 0.000000e+00 883.0
22 TraesCS7A01G451200 chrUn 78.624 407 56 20 922 1318 32300149 32299764 1.210000e-59 241.0
23 TraesCS7A01G451200 chrUn 82.397 267 40 6 1053 1318 267482427 267482687 3.390000e-55 226.0
24 TraesCS7A01G451200 chrUn 76.738 374 61 20 919 1285 35514556 35514910 5.760000e-43 185.0
25 TraesCS7A01G451200 chrUn 77.381 252 43 11 2420 2660 32298293 32298045 1.640000e-28 137.0
26 TraesCS7A01G451200 chrUn 77.381 252 43 11 2420 2660 267484158 267484406 1.640000e-28 137.0
27 TraesCS7A01G451200 chrUn 84.444 90 13 1 2805 2894 35839676 35839588 1.670000e-13 87.9
28 TraesCS7A01G451200 chrUn 86.364 66 9 0 2818 2883 36479178 36479243 4.680000e-09 73.1
29 TraesCS7A01G451200 chr3B 88.032 752 77 7 1431 2171 11660046 11659297 0.000000e+00 878.0
30 TraesCS7A01G451200 chr3B 82.305 243 25 15 1071 1304 11660460 11660227 9.570000e-46 195.0
31 TraesCS7A01G451200 chr3B 88.889 108 5 4 692 797 659457327 659457429 3.540000e-25 126.0
32 TraesCS7A01G451200 chr3B 84.167 120 12 4 692 810 448682894 448683007 3.560000e-20 110.0
33 TraesCS7A01G451200 chr3B 86.364 66 9 0 2818 2883 11956757 11956692 4.680000e-09 73.1
34 TraesCS7A01G451200 chr3A 87.291 716 79 7 1425 2131 15303573 15302861 0.000000e+00 808.0
35 TraesCS7A01G451200 chr3A 78.624 407 56 20 922 1318 12175262 12174877 1.210000e-59 241.0
36 TraesCS7A01G451200 chr3A 77.381 252 43 11 2420 2660 12173406 12173158 1.640000e-28 137.0
37 TraesCS7A01G451200 chr3A 86.667 75 10 0 2820 2894 15433852 15433926 2.160000e-12 84.2
38 TraesCS7A01G451200 chr3A 74.731 186 42 5 137 320 608683600 608683782 1.010000e-10 78.7
39 TraesCS7A01G451200 chr3A 94.444 36 1 1 3174 3209 203663482 203663516 2.000000e-03 54.7
40 TraesCS7A01G451200 chr1D 81.633 245 32 6 1071 1315 394274444 394274675 1.240000e-44 191.0
41 TraesCS7A01G451200 chr5B 86.916 107 9 2 692 797 655662653 655662755 7.660000e-22 115.0
42 TraesCS7A01G451200 chr5B 100.000 32 0 0 3178 3209 139412990 139412959 3.640000e-05 60.2
43 TraesCS7A01G451200 chr4B 85.981 107 9 3 692 797 525559249 525559148 3.560000e-20 110.0
44 TraesCS7A01G451200 chr2A 95.556 45 2 0 653 697 518329816 518329772 4.680000e-09 73.1
45 TraesCS7A01G451200 chr4A 92.000 50 3 1 3173 3221 624289890 624289939 6.050000e-08 69.4
46 TraesCS7A01G451200 chr4A 96.970 33 0 1 3177 3209 24215366 24215397 2.000000e-03 54.7
47 TraesCS7A01G451200 chr5A 80.000 90 14 4 3176 3263 59700885 59700798 2.810000e-06 63.9
48 TraesCS7A01G451200 chr6A 89.130 46 5 0 3177 3222 37448907 37448862 1.310000e-04 58.4


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 TraesCS7A01G451200 chr7A 644525033 644528411 3378 True 6240.0 6240 100.0000 1 3379 1 chr7A.!!$R2 3378
1 TraesCS7A01G451200 chr7A 90479785 90481088 1303 True 431.9 811 93.1195 1421 2262 2 chr7A.!!$R3 841
2 TraesCS7A01G451200 chr7D 560284756 560287883 3127 True 1300.0 3160 90.6330 408 3379 3 chr7D.!!$R1 2971
3 TraesCS7A01G451200 chr7B 40286566 40287313 747 True 850.0 850 87.2700 1422 2176 1 chr7B.!!$R1 754
4 TraesCS7A01G451200 chr7B 608299360 608302668 3308 True 796.4 2961 90.2440 1 3091 5 chr7B.!!$R3 3090
5 TraesCS7A01G451200 chr3D 5812547 5813300 753 True 660.0 660 82.6820 1419 2176 1 chr3D.!!$R1 757
6 TraesCS7A01G451200 chr3D 5862008 5863328 1320 False 551.0 902 85.2010 1071 2171 2 chr3D.!!$F1 1100
7 TraesCS7A01G451200 chrUn 40583518 40584289 771 True 883.0 883 87.5160 1414 2179 1 chrUn.!!$R2 765
8 TraesCS7A01G451200 chr3B 11659297 11660460 1163 True 536.5 878 85.1685 1071 2171 2 chr3B.!!$R2 1100
9 TraesCS7A01G451200 chr3A 15302861 15303573 712 True 808.0 808 87.2910 1425 2131 1 chr3A.!!$R1 706

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
244 245 0.108041 ACCGGAACAACAACTGTCGT 60.108 50.0 9.46 0.0 37.23 4.34 F
246 247 0.228742 CGGAACAACAACTGTCGTCG 59.771 55.0 0.00 0.0 37.23 5.12 F
313 314 0.248907 CGCGGACGAACATAGACCAT 60.249 55.0 0.00 0.0 43.93 3.55 F
381 382 0.395311 TCGCCGGAGACATACCTTCT 60.395 55.0 5.05 0.0 0.00 2.85 F
1089 1302 0.480252 AATAGCAATGGAGGGAGGGC 59.520 55.0 0.00 0.0 0.00 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1112 1325 1.270826 TCTGACTTCACTTCCTCTGCG 59.729 52.381 0.00 0.00 0.00 5.18 R
2176 2652 2.203070 GAAGATCGTGGGCCGCAT 60.203 61.111 18.64 9.69 36.19 4.73 R
2266 3285 7.601073 TGCACTCACTCAATCAAATAAGTAG 57.399 36.000 0.00 0.00 0.00 2.57 R
2323 3347 5.499004 TGCAGGTTCAGATAATATACCCC 57.501 43.478 0.00 0.00 0.00 4.95 R
2725 3920 0.035439 AGTGGGGTATGGCAAGTTCG 60.035 55.000 0.00 0.00 0.00 3.95 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 0.109272 TGTCGGCAGAAGCTTCTACG 60.109 55.000 31.26 31.26 41.70 3.51
32 33 0.802607 GTCGGCAGAAGCTTCTACGG 60.803 60.000 33.69 28.59 41.70 4.02
35 36 0.246635 GGCAGAAGCTTCTACGGTGA 59.753 55.000 28.02 0.00 41.70 4.02
36 37 1.134670 GGCAGAAGCTTCTACGGTGAT 60.135 52.381 28.02 1.39 41.70 3.06
37 38 2.197577 GCAGAAGCTTCTACGGTGATC 58.802 52.381 28.02 6.95 35.34 2.92
38 39 2.815478 CAGAAGCTTCTACGGTGATCC 58.185 52.381 28.02 0.00 35.34 3.36
39 40 2.428890 CAGAAGCTTCTACGGTGATCCT 59.571 50.000 28.02 0.00 35.34 3.24
40 41 2.428890 AGAAGCTTCTACGGTGATCCTG 59.571 50.000 27.47 0.00 35.34 3.86
41 42 1.115467 AGCTTCTACGGTGATCCTGG 58.885 55.000 0.00 0.00 0.00 4.45
42 43 1.112113 GCTTCTACGGTGATCCTGGA 58.888 55.000 0.00 0.00 0.00 3.86
43 44 1.202428 GCTTCTACGGTGATCCTGGAC 60.202 57.143 0.00 0.00 0.00 4.02
44 45 1.409427 CTTCTACGGTGATCCTGGACC 59.591 57.143 0.00 0.00 0.00 4.46
62 63 3.731728 GGTCCTCAGCCCATGCCA 61.732 66.667 0.00 0.00 38.69 4.92
64 65 1.076485 GTCCTCAGCCCATGCCAAT 60.076 57.895 0.00 0.00 38.69 3.16
69 70 2.831742 AGCCCATGCCAATGCGAG 60.832 61.111 0.00 0.00 41.78 5.03
76 77 4.778143 GCCAATGCGAGGTCCGGT 62.778 66.667 0.00 0.00 39.04 5.28
82 83 4.373116 GCGAGGTCCGGTTCTGCA 62.373 66.667 0.00 0.00 39.04 4.41
94 95 0.398318 GTTCTGCAAGGACCCAGTCT 59.602 55.000 0.00 0.00 36.01 3.24
98 99 2.046892 CAAGGACCCAGTCTGGCG 60.047 66.667 13.99 9.38 35.79 5.69
119 120 1.689813 TGGCGAACAACTACAAGGAGA 59.310 47.619 0.00 0.00 0.00 3.71
125 126 3.027974 ACAACTACAAGGAGACGAAGC 57.972 47.619 0.00 0.00 0.00 3.86
126 127 2.288886 ACAACTACAAGGAGACGAAGCC 60.289 50.000 0.00 0.00 0.00 4.35
135 136 3.554692 GACGAAGCCGCACCATCG 61.555 66.667 0.00 0.00 39.95 3.84
138 139 2.434185 GAAGCCGCACCATCGTCA 60.434 61.111 0.00 0.00 0.00 4.35
154 155 2.159043 TCGTCATTGCCCTTCTCTCATC 60.159 50.000 0.00 0.00 0.00 2.92
156 157 1.139654 TCATTGCCCTTCTCTCATCGG 59.860 52.381 0.00 0.00 0.00 4.18
158 159 0.826715 TTGCCCTTCTCTCATCGGAG 59.173 55.000 0.00 0.00 42.80 4.63
161 162 1.361993 CCTTCTCTCATCGGAGCCG 59.638 63.158 1.74 1.74 41.13 5.52
202 203 6.281405 AGTAGAAATCAAGAAGTTGTCGTGT 58.719 36.000 0.00 0.00 37.08 4.49
203 204 5.659048 AGAAATCAAGAAGTTGTCGTGTC 57.341 39.130 0.00 0.00 37.08 3.67
229 230 4.974721 AAAGGGCCAGCACACCGG 62.975 66.667 6.18 0.00 0.00 5.28
244 245 0.108041 ACCGGAACAACAACTGTCGT 60.108 50.000 9.46 0.00 37.23 4.34
246 247 0.228742 CGGAACAACAACTGTCGTCG 59.771 55.000 0.00 0.00 37.23 5.12
248 249 1.283736 GAACAACAACTGTCGTCGGT 58.716 50.000 0.00 0.00 37.23 4.69
259 260 1.050767 GTCGTCGGTGAAGAGAAACG 58.949 55.000 0.00 0.00 0.00 3.60
262 263 2.290367 TCGTCGGTGAAGAGAAACGTAA 59.710 45.455 0.00 0.00 0.00 3.18
300 301 0.430858 GTAAACACACGTACGCGGAC 59.569 55.000 16.72 12.68 43.45 4.79
302 303 2.660553 AAACACACGTACGCGGACGA 62.661 55.000 46.78 9.78 45.82 4.20
306 307 1.798725 CACGTACGCGGACGAACAT 60.799 57.895 46.78 24.87 45.82 2.71
313 314 0.248907 CGCGGACGAACATAGACCAT 60.249 55.000 0.00 0.00 43.93 3.55
326 327 8.405531 CGAACATAGACCATATCCAAACAAATT 58.594 33.333 0.00 0.00 0.00 1.82
343 344 9.782028 CAAACAAATTCATCAAAGACAAATACG 57.218 29.630 0.00 0.00 0.00 3.06
348 349 3.930229 TCATCAAAGACAAATACGGACCG 59.070 43.478 13.61 13.61 0.00 4.79
350 351 3.581755 TCAAAGACAAATACGGACCGAG 58.418 45.455 23.38 7.17 0.00 4.63
374 375 1.360551 CGAGATTCGCCGGAGACAT 59.639 57.895 7.66 4.96 31.14 3.06
381 382 0.395311 TCGCCGGAGACATACCTTCT 60.395 55.000 5.05 0.00 0.00 2.85
445 446 8.557450 AGGGCTAGATGAAAAGAACCTTATTTA 58.443 33.333 0.00 0.00 0.00 1.40
474 475 1.098712 AAACCGTTGCTTCGCCTTCA 61.099 50.000 0.00 0.00 0.00 3.02
475 476 1.098712 AACCGTTGCTTCGCCTTCAA 61.099 50.000 0.00 0.00 0.00 2.69
522 523 6.401688 CCGAACGCATTAAGAACATTTAGTGA 60.402 38.462 0.00 0.00 0.00 3.41
553 554 3.892284 TGGCTTTACTTCACTCCAACAA 58.108 40.909 0.00 0.00 0.00 2.83
557 558 4.574828 GCTTTACTTCACTCCAACAACTCA 59.425 41.667 0.00 0.00 0.00 3.41
562 563 2.849942 TCACTCCAACAACTCATGTGG 58.150 47.619 0.00 0.00 42.99 4.17
580 585 0.811281 GGTGTGCCCTTTGTATCTGC 59.189 55.000 0.00 0.00 0.00 4.26
662 667 5.779241 ATGACAAAATCTTACTCCCTCCA 57.221 39.130 0.00 0.00 0.00 3.86
684 690 8.818141 TCCATCTCACAATATAAGATCGTTTC 57.182 34.615 0.00 0.00 0.00 2.78
797 807 2.233431 GCAACCCATGGCATTCAACTAA 59.767 45.455 6.09 0.00 0.00 2.24
823 835 4.265073 AGCATAAGACCAAATCTCACACC 58.735 43.478 0.00 0.00 36.27 4.16
849 861 7.149351 CGTCAGTTTCGTAAAGCAACAATAAAG 60.149 37.037 0.00 0.00 0.00 1.85
879 891 8.931385 AAATTATCGCAAATAAAAGTCTGCAT 57.069 26.923 0.00 0.00 34.39 3.96
883 895 5.393124 TCGCAAATAAAAGTCTGCATTGAG 58.607 37.500 0.00 0.00 34.39 3.02
904 1109 7.558161 TGAGCATTCAAATCGAATAATCACT 57.442 32.000 0.00 0.00 42.70 3.41
905 1110 7.412063 TGAGCATTCAAATCGAATAATCACTG 58.588 34.615 0.00 0.00 42.70 3.66
906 1111 7.280652 TGAGCATTCAAATCGAATAATCACTGA 59.719 33.333 0.00 0.00 42.70 3.41
907 1112 7.637229 AGCATTCAAATCGAATAATCACTGAG 58.363 34.615 0.00 0.00 42.70 3.35
908 1113 6.359087 GCATTCAAATCGAATAATCACTGAGC 59.641 38.462 0.00 0.00 42.70 4.26
931 1136 4.634004 CCTGCACGGACTCAAATTATTGTA 59.366 41.667 0.00 0.00 34.64 2.41
936 1141 4.634443 ACGGACTCAAATTATTGTACCAGC 59.366 41.667 0.00 0.00 37.79 4.85
947 1153 9.528489 AAATTATTGTACCAGCTTCTTTCCTTA 57.472 29.630 0.00 0.00 0.00 2.69
1046 1255 4.960938 TCCTCCATTATTTCACCATCGAG 58.039 43.478 0.00 0.00 0.00 4.04
1047 1256 3.499918 CCTCCATTATTTCACCATCGAGC 59.500 47.826 0.00 0.00 0.00 5.03
1048 1257 4.129380 CTCCATTATTTCACCATCGAGCA 58.871 43.478 0.00 0.00 0.00 4.26
1049 1258 3.876914 TCCATTATTTCACCATCGAGCAC 59.123 43.478 0.00 0.00 0.00 4.40
1089 1302 0.480252 AATAGCAATGGAGGGAGGGC 59.520 55.000 0.00 0.00 0.00 5.19
1343 1612 2.628178 CCCAGAGAGCGACCACATATTA 59.372 50.000 0.00 0.00 0.00 0.98
2090 2551 0.529773 GCTCACCGTCCGCATTGATA 60.530 55.000 0.00 0.00 0.00 2.15
2176 2652 4.524714 GCTAGGAGGATGCAGTGAAGTATA 59.475 45.833 0.00 0.00 0.00 1.47
2262 3205 5.556915 AGTAATGCAGCTACTGGTTTGTAA 58.443 37.500 9.81 0.00 31.21 2.41
2263 3206 5.643777 AGTAATGCAGCTACTGGTTTGTAAG 59.356 40.000 9.81 0.00 31.21 2.34
2266 3285 4.312443 TGCAGCTACTGGTTTGTAAGTAC 58.688 43.478 0.00 0.00 31.21 2.73
2323 3347 5.186198 AGTTAATTTGGAGATCCTGAACCG 58.814 41.667 0.00 0.00 36.82 4.44
2325 3349 0.618458 TTTGGAGATCCTGAACCGGG 59.382 55.000 6.32 0.00 36.82 5.73
2335 3359 5.661759 AGATCCTGAACCGGGGTATATTATC 59.338 44.000 6.32 0.00 0.00 1.75
2337 3361 4.775780 TCCTGAACCGGGGTATATTATCTG 59.224 45.833 6.32 0.00 0.00 2.90
2367 3398 7.484140 TGCATTAGAGTATGTAGAGTGAAGTG 58.516 38.462 0.00 0.00 0.00 3.16
2435 3477 3.897239 TCAGGTTGTTCATGTTCAGGTT 58.103 40.909 0.00 0.00 0.00 3.50
2436 3478 3.882888 TCAGGTTGTTCATGTTCAGGTTC 59.117 43.478 0.00 0.00 0.00 3.62
2437 3479 3.885297 CAGGTTGTTCATGTTCAGGTTCT 59.115 43.478 0.00 0.00 0.00 3.01
2438 3480 4.339247 CAGGTTGTTCATGTTCAGGTTCTT 59.661 41.667 0.00 0.00 0.00 2.52
2439 3481 4.956075 AGGTTGTTCATGTTCAGGTTCTTT 59.044 37.500 0.00 0.00 0.00 2.52
2455 3497 4.287720 GTTCTTTAGGGTTTTGTTCGCAG 58.712 43.478 0.00 0.00 0.00 5.18
2600 3795 1.074405 AGCTGGACCTGATGCTCAAAA 59.926 47.619 1.91 0.00 0.00 2.44
2664 3859 9.233232 GACTCACATTTCGAAGTGTTTTATTTT 57.767 29.630 22.08 4.46 37.07 1.82
2707 3902 2.053627 CAAATTGTGCGTGGAAAGCTC 58.946 47.619 0.00 0.00 43.59 4.09
2725 3920 6.434018 AAGCTCATAAGAGAAAGCAATCAC 57.566 37.500 0.00 0.00 44.98 3.06
2726 3921 4.569966 AGCTCATAAGAGAAAGCAATCACG 59.430 41.667 0.00 0.00 44.98 4.35
2732 3927 4.739046 AGAGAAAGCAATCACGAACTTG 57.261 40.909 0.00 0.00 0.00 3.16
2743 3938 0.322187 ACGAACTTGCCATACCCCAC 60.322 55.000 0.00 0.00 0.00 4.61
2746 3941 2.092323 GAACTTGCCATACCCCACTTC 58.908 52.381 0.00 0.00 0.00 3.01
2751 3946 1.209621 GCCATACCCCACTTCACCTA 58.790 55.000 0.00 0.00 0.00 3.08
2758 3953 1.003233 CCCCACTTCACCTACCTTGTC 59.997 57.143 0.00 0.00 0.00 3.18
2762 3957 1.270147 ACTTCACCTACCTTGTCGTGC 60.270 52.381 0.00 0.00 0.00 5.34
2776 3971 5.753438 CCTTGTCGTGCTTGCTTTATCTATA 59.247 40.000 0.00 0.00 0.00 1.31
2811 4006 2.223618 TGCCTTTTTCGGTAAGTTGTGC 60.224 45.455 0.00 0.00 0.00 4.57
2815 4010 1.654317 TTTCGGTAAGTTGTGCGTGT 58.346 45.000 0.00 0.00 0.00 4.49
2828 4023 1.871039 GTGCGTGTCTGTGTACCAAAT 59.129 47.619 0.00 0.00 0.00 2.32
2832 4027 3.615592 GCGTGTCTGTGTACCAAATAGGA 60.616 47.826 0.00 0.00 41.22 2.94
2837 4032 5.305902 TGTCTGTGTACCAAATAGGAGACAA 59.694 40.000 0.00 0.00 40.98 3.18
2840 4035 6.042781 TCTGTGTACCAAATAGGAGACAAAGT 59.957 38.462 0.00 0.00 40.27 2.66
2854 4049 6.070309 AGGAGACAAAGTATCATGCTTCTTCT 60.070 38.462 0.00 0.00 0.00 2.85
2928 4231 5.163622 CTGAACCAGATCAACAACAGTTGTT 60.164 40.000 23.58 23.58 43.34 2.83
2955 4258 8.576442 TCGATCATAATGTCAGATACAAGCTTA 58.424 33.333 0.00 0.00 42.70 3.09
2963 4266 9.672673 AATGTCAGATACAAGCTTATACTGTTT 57.327 29.630 0.00 0.00 42.70 2.83
2973 4276 9.816354 ACAAGCTTATACTGTTTTGAATGTTTT 57.184 25.926 0.00 0.00 0.00 2.43
3151 4515 5.865552 GCATCTTGATGCAAGTTTGTTGTAT 59.134 36.000 25.23 0.00 46.25 2.29
3160 4524 9.869844 GATGCAAGTTTGTTGTATATACATCTC 57.130 33.333 16.16 10.36 35.89 2.75
3187 4551 9.444600 TGAACATAACTAAAATGTACTTCCTCC 57.555 33.333 0.00 0.00 36.56 4.30
3188 4552 8.488651 AACATAACTAAAATGTACTTCCTCCG 57.511 34.615 0.00 0.00 36.56 4.63
3189 4553 7.618137 ACATAACTAAAATGTACTTCCTCCGT 58.382 34.615 0.00 0.00 35.82 4.69
3190 4554 7.763071 ACATAACTAAAATGTACTTCCTCCGTC 59.237 37.037 0.00 0.00 35.82 4.79
3191 4555 5.997384 ACTAAAATGTACTTCCTCCGTCT 57.003 39.130 0.00 0.00 0.00 4.18
3192 4556 5.963594 ACTAAAATGTACTTCCTCCGTCTC 58.036 41.667 0.00 0.00 0.00 3.36
3193 4557 4.884668 AAAATGTACTTCCTCCGTCTCA 57.115 40.909 0.00 0.00 0.00 3.27
3194 4558 5.422214 AAAATGTACTTCCTCCGTCTCAT 57.578 39.130 0.00 0.00 0.00 2.90
3195 4559 6.540438 AAAATGTACTTCCTCCGTCTCATA 57.460 37.500 0.00 0.00 0.00 2.15
3196 4560 6.540438 AAATGTACTTCCTCCGTCTCATAA 57.460 37.500 0.00 0.00 0.00 1.90
3197 4561 6.732896 AATGTACTTCCTCCGTCTCATAAT 57.267 37.500 0.00 0.00 0.00 1.28
3198 4562 7.834881 AATGTACTTCCTCCGTCTCATAATA 57.165 36.000 0.00 0.00 0.00 0.98
3199 4563 8.423906 AATGTACTTCCTCCGTCTCATAATAT 57.576 34.615 0.00 0.00 0.00 1.28
3200 4564 9.529823 AATGTACTTCCTCCGTCTCATAATATA 57.470 33.333 0.00 0.00 0.00 0.86
3201 4565 8.929260 TGTACTTCCTCCGTCTCATAATATAA 57.071 34.615 0.00 0.00 0.00 0.98
3202 4566 9.011095 TGTACTTCCTCCGTCTCATAATATAAG 57.989 37.037 0.00 0.00 0.00 1.73
3203 4567 9.228949 GTACTTCCTCCGTCTCATAATATAAGA 57.771 37.037 0.00 0.00 0.00 2.10
3204 4568 8.113173 ACTTCCTCCGTCTCATAATATAAGAC 57.887 38.462 0.00 0.00 36.82 3.01
3205 4569 7.945664 ACTTCCTCCGTCTCATAATATAAGACT 59.054 37.037 2.40 0.00 37.79 3.24
3206 4570 7.689446 TCCTCCGTCTCATAATATAAGACTG 57.311 40.000 2.40 0.00 37.79 3.51
3207 4571 7.232188 TCCTCCGTCTCATAATATAAGACTGT 58.768 38.462 2.40 0.00 37.79 3.55
3208 4572 7.724506 TCCTCCGTCTCATAATATAAGACTGTT 59.275 37.037 2.40 0.00 37.79 3.16
3209 4573 8.024285 CCTCCGTCTCATAATATAAGACTGTTC 58.976 40.741 2.40 0.00 37.79 3.18
3210 4574 8.693120 TCCGTCTCATAATATAAGACTGTTCT 57.307 34.615 2.40 0.00 37.79 3.01
3211 4575 9.132923 TCCGTCTCATAATATAAGACTGTTCTT 57.867 33.333 2.40 0.00 44.70 2.52
3212 4576 9.186323 CCGTCTCATAATATAAGACTGTTCTTG 57.814 37.037 2.40 0.00 42.41 3.02
3213 4577 9.952188 CGTCTCATAATATAAGACTGTTCTTGA 57.048 33.333 2.40 0.00 42.41 3.02
3222 4586 7.768807 ATAAGACTGTTCTTGACACTACTCT 57.231 36.000 0.00 0.00 42.41 3.24
3223 4587 8.865420 ATAAGACTGTTCTTGACACTACTCTA 57.135 34.615 0.00 0.00 42.41 2.43
3224 4588 6.811253 AGACTGTTCTTGACACTACTCTAG 57.189 41.667 0.00 0.00 33.82 2.43
3225 4589 6.300703 AGACTGTTCTTGACACTACTCTAGT 58.699 40.000 0.00 0.00 40.28 2.57
3250 4614 8.763049 TGTCAAGAACACTCTTATGTTATGAG 57.237 34.615 6.78 0.00 42.89 2.90
3251 4615 8.585018 TGTCAAGAACACTCTTATGTTATGAGA 58.415 33.333 6.78 4.29 42.89 3.27
3252 4616 8.865001 GTCAAGAACACTCTTATGTTATGAGAC 58.135 37.037 6.78 5.59 42.89 3.36
3253 4617 7.755373 TCAAGAACACTCTTATGTTATGAGACG 59.245 37.037 0.00 0.00 42.89 4.18
3254 4618 6.565234 AGAACACTCTTATGTTATGAGACGG 58.435 40.000 0.00 0.00 42.89 4.79
3255 4619 6.377429 AGAACACTCTTATGTTATGAGACGGA 59.623 38.462 0.00 0.00 42.89 4.69
3256 4620 6.716934 ACACTCTTATGTTATGAGACGGAT 57.283 37.500 0.00 0.00 34.90 4.18
3257 4621 6.507900 ACACTCTTATGTTATGAGACGGATG 58.492 40.000 0.00 0.00 34.90 3.51
3258 4622 5.923114 CACTCTTATGTTATGAGACGGATGG 59.077 44.000 0.00 0.00 34.90 3.51
3259 4623 5.833667 ACTCTTATGTTATGAGACGGATGGA 59.166 40.000 0.00 0.00 34.90 3.41
3260 4624 6.015856 ACTCTTATGTTATGAGACGGATGGAG 60.016 42.308 0.00 0.00 34.90 3.86
3261 4625 5.833667 TCTTATGTTATGAGACGGATGGAGT 59.166 40.000 0.00 0.00 0.00 3.85
3262 4626 7.002276 TCTTATGTTATGAGACGGATGGAGTA 58.998 38.462 0.00 0.00 0.00 2.59
3263 4627 7.670140 TCTTATGTTATGAGACGGATGGAGTAT 59.330 37.037 0.00 0.00 0.00 2.12
3267 4631 6.323996 TGTTATGAGACGGATGGAGTATCTTT 59.676 38.462 0.00 0.00 36.03 2.52
3280 4644 4.868734 GGAGTATCTTTCAGGTACCAAACG 59.131 45.833 15.94 5.97 33.73 3.60
3282 4646 5.476614 AGTATCTTTCAGGTACCAAACGAC 58.523 41.667 15.94 1.60 0.00 4.34
3288 4652 2.171027 TCAGGTACCAAACGACACCTTT 59.829 45.455 15.94 0.00 39.40 3.11
3329 4693 1.340889 TGCACTTGGGCTCACAAATTC 59.659 47.619 0.00 0.00 34.04 2.17
3357 4721 0.673985 GGTTTCAACCTCCAACCTGC 59.326 55.000 1.08 0.00 45.75 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 0.246635 TAGAAGCTTCTGCCGACACC 59.753 55.000 34.26 2.77 40.80 4.16
19 20 2.428890 CAGGATCACCGTAGAAGCTTCT 59.571 50.000 30.63 30.63 41.83 2.85
31 32 2.901042 GACCGGTCCAGGATCACC 59.099 66.667 24.75 0.00 34.73 4.02
41 42 3.083997 ATGGGCTGAGGACCGGTC 61.084 66.667 27.04 27.04 45.75 4.79
42 43 3.402681 CATGGGCTGAGGACCGGT 61.403 66.667 6.92 6.92 45.75 5.28
43 44 4.864334 GCATGGGCTGAGGACCGG 62.864 72.222 0.00 0.00 45.75 5.28
44 45 4.864334 GGCATGGGCTGAGGACCG 62.864 72.222 0.00 0.00 45.75 4.79
52 53 2.831742 CTCGCATTGGCATGGGCT 60.832 61.111 0.00 0.00 41.99 5.19
56 57 2.827051 CGGACCTCGCATTGGCATG 61.827 63.158 0.00 0.00 41.24 4.06
62 63 1.079127 CAGAACCGGACCTCGCATT 60.079 57.895 9.46 0.00 37.59 3.56
64 65 4.373116 GCAGAACCGGACCTCGCA 62.373 66.667 9.46 0.00 37.59 5.10
69 70 1.671379 GTCCTTGCAGAACCGGACC 60.671 63.158 9.46 0.00 39.96 4.46
76 77 0.397941 CAGACTGGGTCCTTGCAGAA 59.602 55.000 0.00 0.00 32.18 3.02
82 83 2.526873 ACGCCAGACTGGGTCCTT 60.527 61.111 23.09 0.00 38.19 3.36
92 93 2.089887 TAGTTGTTCGCCACGCCAGA 62.090 55.000 0.00 0.00 0.00 3.86
94 95 1.957186 GTAGTTGTTCGCCACGCCA 60.957 57.895 0.00 0.00 0.00 5.69
98 99 1.798813 CTCCTTGTAGTTGTTCGCCAC 59.201 52.381 0.00 0.00 0.00 5.01
103 104 3.429207 GCTTCGTCTCCTTGTAGTTGTTC 59.571 47.826 0.00 0.00 0.00 3.18
119 120 4.373116 ACGATGGTGCGGCTTCGT 62.373 61.111 12.51 12.51 39.77 3.85
125 126 2.404789 GCAATGACGATGGTGCGG 59.595 61.111 0.00 0.00 35.12 5.69
126 127 2.404789 GGCAATGACGATGGTGCG 59.595 61.111 0.00 0.00 37.89 5.34
135 136 2.208431 CGATGAGAGAAGGGCAATGAC 58.792 52.381 0.00 0.00 0.00 3.06
138 139 1.415659 CTCCGATGAGAGAAGGGCAAT 59.584 52.381 0.00 0.00 41.42 3.56
156 157 1.744320 AACAAAGTTTGCCCCGGCTC 61.744 55.000 15.59 0.00 42.51 4.70
158 159 0.606096 ATAACAAAGTTTGCCCCGGC 59.394 50.000 15.59 0.00 42.35 6.13
161 162 7.457024 TTTCTACTATAACAAAGTTTGCCCC 57.543 36.000 15.59 0.00 0.00 5.80
229 230 1.005347 CACCGACGACAGTTGTTGTTC 60.005 52.381 6.60 0.80 42.42 3.18
244 245 4.873817 TGATTTACGTTTCTCTTCACCGA 58.126 39.130 0.00 0.00 0.00 4.69
246 247 6.128526 CCTTCTGATTTACGTTTCTCTTCACC 60.129 42.308 0.00 0.00 0.00 4.02
248 249 6.755206 TCCTTCTGATTTACGTTTCTCTTCA 58.245 36.000 0.00 0.00 0.00 3.02
259 260 8.506168 TTACACATTGGATCCTTCTGATTTAC 57.494 34.615 14.23 0.00 32.41 2.01
262 263 6.947733 TGTTTACACATTGGATCCTTCTGATT 59.052 34.615 14.23 3.43 32.41 2.57
290 291 0.026674 TCTATGTTCGTCCGCGTACG 59.973 55.000 18.75 18.75 40.51 3.67
300 301 6.918892 TTGTTTGGATATGGTCTATGTTCG 57.081 37.500 0.00 0.00 0.00 3.95
302 303 9.253832 TGAATTTGTTTGGATATGGTCTATGTT 57.746 29.630 0.00 0.00 0.00 2.71
306 307 9.473007 TTGATGAATTTGTTTGGATATGGTCTA 57.527 29.630 0.00 0.00 0.00 2.59
326 327 3.930229 CGGTCCGTATTTGTCTTTGATGA 59.070 43.478 2.08 0.00 0.00 2.92
341 342 3.606065 CTCGCGAAACTCGGTCCGT 62.606 63.158 11.33 0.00 40.84 4.69
343 344 0.458025 AATCTCGCGAAACTCGGTCC 60.458 55.000 11.33 0.00 40.84 4.46
371 372 2.700897 CGAAGGATGGGAGAAGGTATGT 59.299 50.000 0.00 0.00 0.00 2.29
374 375 2.840640 TCGAAGGATGGGAGAAGGTA 57.159 50.000 0.00 0.00 0.00 3.08
383 384 5.445761 GCATCTAGCATCATCGAAGGATGG 61.446 50.000 23.67 12.65 45.56 3.51
386 387 3.309961 GCATCTAGCATCATCGAAGGA 57.690 47.619 0.00 0.00 44.79 3.36
445 446 5.032220 CGAAGCAACGGTTTTCTAAAAGTT 58.968 37.500 0.00 0.00 0.00 2.66
474 475 0.958822 GGGTGCGAGGATTTGTTGTT 59.041 50.000 0.00 0.00 0.00 2.83
475 476 0.893727 GGGGTGCGAGGATTTGTTGT 60.894 55.000 0.00 0.00 0.00 3.32
500 501 6.430000 ACCTCACTAAATGTTCTTAATGCGTT 59.570 34.615 0.00 0.00 0.00 4.84
522 523 5.598417 AGTGAAGTAAAGCCAAAATCAACCT 59.402 36.000 0.00 0.00 0.00 3.50
553 554 0.185901 AAAGGGCACACCACATGAGT 59.814 50.000 0.00 0.00 43.89 3.41
557 558 2.041620 AGATACAAAGGGCACACCACAT 59.958 45.455 0.00 0.00 43.89 3.21
562 563 1.826385 AGCAGATACAAAGGGCACAC 58.174 50.000 0.00 0.00 0.00 3.82
797 807 7.067494 GGTGTGAGATTTGGTCTTATGCTAAAT 59.933 37.037 0.00 0.00 37.29 1.40
823 835 3.579147 TGTTGCTTTACGAAACTGACG 57.421 42.857 0.00 0.00 31.94 4.35
862 874 5.446031 GCTCAATGCAGACTTTTATTTGC 57.554 39.130 0.00 0.00 42.31 3.68
878 890 8.627403 AGTGATTATTCGATTTGAATGCTCAAT 58.373 29.630 9.08 7.91 46.72 2.57
879 891 7.911727 CAGTGATTATTCGATTTGAATGCTCAA 59.088 33.333 9.08 0.00 46.72 3.02
883 895 6.359087 GCTCAGTGATTATTCGATTTGAATGC 59.641 38.462 9.08 0.00 46.72 3.56
892 1097 2.168313 TGCAGGCTCAGTGATTATTCGA 59.832 45.455 0.00 0.00 0.00 3.71
904 1109 2.038814 TTTGAGTCCGTGCAGGCTCA 62.039 55.000 6.18 6.18 45.08 4.26
905 1110 0.674895 ATTTGAGTCCGTGCAGGCTC 60.675 55.000 0.00 0.20 40.92 4.70
906 1111 0.250901 AATTTGAGTCCGTGCAGGCT 60.251 50.000 0.00 0.00 40.77 4.58
907 1112 1.448985 TAATTTGAGTCCGTGCAGGC 58.551 50.000 0.00 0.00 40.77 4.85
908 1113 3.440173 ACAATAATTTGAGTCCGTGCAGG 59.560 43.478 0.00 0.00 37.71 4.85
931 1136 3.333680 TCCCAATAAGGAAAGAAGCTGGT 59.666 43.478 0.00 0.00 41.22 4.00
947 1153 1.454479 CCGGCAGAGCATTCCCAAT 60.454 57.895 0.00 0.00 0.00 3.16
1089 1302 2.818714 CCTCTTGCCGCTGCTCTG 60.819 66.667 0.70 0.00 38.71 3.35
1112 1325 1.270826 TCTGACTTCACTTCCTCTGCG 59.729 52.381 0.00 0.00 0.00 5.18
2176 2652 2.203070 GAAGATCGTGGGCCGCAT 60.203 61.111 18.64 9.69 36.19 4.73
2262 3205 9.862371 CACTCACTCAATCAAATAAGTAGTACT 57.138 33.333 0.00 0.00 0.00 2.73
2263 3206 8.596380 GCACTCACTCAATCAAATAAGTAGTAC 58.404 37.037 0.00 0.00 0.00 2.73
2266 3285 7.601073 TGCACTCACTCAATCAAATAAGTAG 57.399 36.000 0.00 0.00 0.00 2.57
2323 3347 5.499004 TGCAGGTTCAGATAATATACCCC 57.501 43.478 0.00 0.00 0.00 4.95
2325 3349 9.593134 CTCTAATGCAGGTTCAGATAATATACC 57.407 37.037 0.00 0.00 0.00 2.73
2335 3359 7.043961 TCTACATACTCTAATGCAGGTTCAG 57.956 40.000 0.00 0.00 0.00 3.02
2337 3361 6.920758 CACTCTACATACTCTAATGCAGGTTC 59.079 42.308 0.00 0.00 0.00 3.62
2435 3477 2.882137 CCTGCGAACAAAACCCTAAAGA 59.118 45.455 0.00 0.00 0.00 2.52
2436 3478 2.882137 TCCTGCGAACAAAACCCTAAAG 59.118 45.455 0.00 0.00 0.00 1.85
2437 3479 2.933573 TCCTGCGAACAAAACCCTAAA 58.066 42.857 0.00 0.00 0.00 1.85
2438 3480 2.642154 TCCTGCGAACAAAACCCTAA 57.358 45.000 0.00 0.00 0.00 2.69
2439 3481 2.642154 TTCCTGCGAACAAAACCCTA 57.358 45.000 0.00 0.00 0.00 3.53
2455 3497 7.662604 AAATGATTTGCAGAAGTTCATTTCC 57.337 32.000 10.09 0.00 40.96 3.13
2563 3758 1.345415 AGCTTGCTCACCCAAAAATGG 59.655 47.619 0.00 0.00 0.00 3.16
2564 3759 2.409975 CAGCTTGCTCACCCAAAAATG 58.590 47.619 0.00 0.00 0.00 2.32
2565 3760 1.345415 CCAGCTTGCTCACCCAAAAAT 59.655 47.619 0.00 0.00 0.00 1.82
2566 3761 0.752054 CCAGCTTGCTCACCCAAAAA 59.248 50.000 0.00 0.00 0.00 1.94
2567 3762 0.106268 TCCAGCTTGCTCACCCAAAA 60.106 50.000 0.00 0.00 0.00 2.44
2568 3763 0.823356 GTCCAGCTTGCTCACCCAAA 60.823 55.000 0.00 0.00 0.00 3.28
2569 3764 1.228245 GTCCAGCTTGCTCACCCAA 60.228 57.895 0.00 0.00 0.00 4.12
2570 3765 2.431683 GTCCAGCTTGCTCACCCA 59.568 61.111 0.00 0.00 0.00 4.51
2571 3766 2.360475 GGTCCAGCTTGCTCACCC 60.360 66.667 8.41 0.00 0.00 4.61
2600 3795 7.148018 CCATACTTGGTTTAAGCATGAATGTCT 60.148 37.037 15.20 0.00 40.97 3.41
2664 3859 4.721132 ACTTGACGTCCCATTAAAAGGAA 58.279 39.130 14.12 0.00 32.81 3.36
2690 3885 1.538047 ATGAGCTTTCCACGCACAAT 58.462 45.000 0.00 0.00 32.06 2.71
2707 3902 6.414408 AGTTCGTGATTGCTTTCTCTTATG 57.586 37.500 0.00 0.00 0.00 1.90
2725 3920 0.035439 AGTGGGGTATGGCAAGTTCG 60.035 55.000 0.00 0.00 0.00 3.95
2726 3921 2.092323 GAAGTGGGGTATGGCAAGTTC 58.908 52.381 0.00 0.00 0.00 3.01
2732 3927 1.134189 GTAGGTGAAGTGGGGTATGGC 60.134 57.143 0.00 0.00 0.00 4.40
2743 3938 1.000955 AGCACGACAAGGTAGGTGAAG 59.999 52.381 0.00 0.00 32.23 3.02
2746 3941 1.148310 CAAGCACGACAAGGTAGGTG 58.852 55.000 0.00 0.00 0.00 4.00
2751 3946 1.961793 TAAAGCAAGCACGACAAGGT 58.038 45.000 0.00 0.00 0.00 3.50
2776 3971 2.750237 GGCATTCCGTCCCGCTTT 60.750 61.111 0.00 0.00 0.00 3.51
2780 3975 0.170339 GAAAAAGGCATTCCGTCCCG 59.830 55.000 0.00 0.00 37.47 5.14
2783 3978 0.879090 ACCGAAAAAGGCATTCCGTC 59.121 50.000 0.00 0.00 37.47 4.79
2784 3979 2.188062 TACCGAAAAAGGCATTCCGT 57.812 45.000 0.00 0.00 37.47 4.69
2787 3982 4.679654 CACAACTTACCGAAAAAGGCATTC 59.320 41.667 0.00 0.00 33.69 2.67
2788 3983 4.616953 CACAACTTACCGAAAAAGGCATT 58.383 39.130 0.00 0.00 33.69 3.56
2790 3985 2.223618 GCACAACTTACCGAAAAAGGCA 60.224 45.455 0.00 0.00 33.69 4.75
2811 4006 4.082408 TCTCCTATTTGGTACACAGACACG 60.082 45.833 0.00 0.00 39.29 4.49
2815 4010 6.042781 ACTTTGTCTCCTATTTGGTACACAGA 59.957 38.462 11.92 0.00 39.29 3.41
2828 4023 6.798427 AGAAGCATGATACTTTGTCTCCTA 57.202 37.500 0.00 0.00 0.00 2.94
2832 4027 9.160496 CTTTAGAAGAAGCATGATACTTTGTCT 57.840 33.333 0.00 0.79 0.00 3.41
2837 4032 9.289782 ACAAACTTTAGAAGAAGCATGATACTT 57.710 29.630 0.00 0.00 0.00 2.24
2928 4231 7.436933 AGCTTGTATCTGACATTATGATCGAA 58.563 34.615 0.00 0.00 38.07 3.71
2939 4242 8.935844 CAAAACAGTATAAGCTTGTATCTGACA 58.064 33.333 25.04 2.09 35.78 3.58
2940 4243 9.151471 TCAAAACAGTATAAGCTTGTATCTGAC 57.849 33.333 25.04 10.72 0.00 3.51
2963 4266 7.899648 TCCCACCTTTACTAAAAACATTCAA 57.100 32.000 0.00 0.00 0.00 2.69
2973 4276 8.153221 TGTCTGAAATATCCCACCTTTACTAA 57.847 34.615 0.00 0.00 0.00 2.24
3005 4308 6.708054 TCGGTAACAAAATGCAAAATTTGGAT 59.292 30.769 20.29 6.90 44.02 3.41
3014 4317 4.902443 TCACTTCGGTAACAAAATGCAA 57.098 36.364 0.00 0.00 0.00 4.08
3167 4531 7.177216 TGAGACGGAGGAAGTACATTTTAGTTA 59.823 37.037 0.00 0.00 0.00 2.24
3180 4544 8.240682 CAGTCTTATATTATGAGACGGAGGAAG 58.759 40.741 17.89 5.23 46.84 3.46
3181 4545 7.724506 ACAGTCTTATATTATGAGACGGAGGAA 59.275 37.037 24.95 0.00 46.84 3.36
3182 4546 7.232188 ACAGTCTTATATTATGAGACGGAGGA 58.768 38.462 24.95 0.00 46.84 3.71
3183 4547 7.455641 ACAGTCTTATATTATGAGACGGAGG 57.544 40.000 24.95 16.61 46.84 4.30
3184 4548 8.788806 AGAACAGTCTTATATTATGAGACGGAG 58.211 37.037 24.95 18.47 46.84 4.63
3185 4549 8.693120 AGAACAGTCTTATATTATGAGACGGA 57.307 34.615 24.95 0.00 46.84 4.69
3186 4550 9.186323 CAAGAACAGTCTTATATTATGAGACGG 57.814 37.037 19.84 19.84 46.84 4.79
3187 4551 9.952188 TCAAGAACAGTCTTATATTATGAGACG 57.048 33.333 17.91 15.53 46.84 4.18
3196 4560 9.469097 AGAGTAGTGTCAAGAACAGTCTTATAT 57.531 33.333 0.00 0.00 42.45 0.86
3197 4561 8.865420 AGAGTAGTGTCAAGAACAGTCTTATA 57.135 34.615 0.00 0.00 42.45 0.98
3198 4562 7.768807 AGAGTAGTGTCAAGAACAGTCTTAT 57.231 36.000 0.00 0.00 42.45 1.73
3199 4563 7.937942 ACTAGAGTAGTGTCAAGAACAGTCTTA 59.062 37.037 0.00 0.00 40.79 2.10
3200 4564 6.773685 ACTAGAGTAGTGTCAAGAACAGTCTT 59.226 38.462 0.00 0.00 40.79 3.01
3201 4565 6.300703 ACTAGAGTAGTGTCAAGAACAGTCT 58.699 40.000 0.00 0.00 40.79 3.24
3202 4566 6.563222 ACTAGAGTAGTGTCAAGAACAGTC 57.437 41.667 0.00 0.00 40.79 3.51
3225 4589 8.585018 TCTCATAACATAAGAGTGTTCTTGACA 58.415 33.333 0.26 0.00 43.41 3.58
3226 4590 8.865001 GTCTCATAACATAAGAGTGTTCTTGAC 58.135 37.037 0.26 0.00 43.41 3.18
3227 4591 7.755373 CGTCTCATAACATAAGAGTGTTCTTGA 59.245 37.037 0.26 1.55 43.41 3.02
3228 4592 7.009631 CCGTCTCATAACATAAGAGTGTTCTTG 59.990 40.741 0.26 0.00 43.41 3.02
3229 4593 7.036220 CCGTCTCATAACATAAGAGTGTTCTT 58.964 38.462 0.00 0.00 45.45 2.52
3230 4594 6.377429 TCCGTCTCATAACATAAGAGTGTTCT 59.623 38.462 0.00 0.00 41.18 3.01
3231 4595 6.561614 TCCGTCTCATAACATAAGAGTGTTC 58.438 40.000 0.00 0.00 41.18 3.18
3232 4596 6.525578 TCCGTCTCATAACATAAGAGTGTT 57.474 37.500 0.00 0.00 44.09 3.32
3233 4597 6.461648 CCATCCGTCTCATAACATAAGAGTGT 60.462 42.308 0.00 0.00 0.00 3.55
3234 4598 5.923114 CCATCCGTCTCATAACATAAGAGTG 59.077 44.000 0.00 0.00 0.00 3.51
3235 4599 5.833667 TCCATCCGTCTCATAACATAAGAGT 59.166 40.000 0.00 0.00 0.00 3.24
3236 4600 6.015856 ACTCCATCCGTCTCATAACATAAGAG 60.016 42.308 0.00 0.00 0.00 2.85
3237 4601 5.833667 ACTCCATCCGTCTCATAACATAAGA 59.166 40.000 0.00 0.00 0.00 2.10
3238 4602 6.090483 ACTCCATCCGTCTCATAACATAAG 57.910 41.667 0.00 0.00 0.00 1.73
3239 4603 7.670140 AGATACTCCATCCGTCTCATAACATAA 59.330 37.037 0.00 0.00 33.75 1.90
3240 4604 7.175797 AGATACTCCATCCGTCTCATAACATA 58.824 38.462 0.00 0.00 33.75 2.29
3241 4605 6.013379 AGATACTCCATCCGTCTCATAACAT 58.987 40.000 0.00 0.00 33.75 2.71
3242 4606 5.386060 AGATACTCCATCCGTCTCATAACA 58.614 41.667 0.00 0.00 33.75 2.41
3243 4607 5.968528 AGATACTCCATCCGTCTCATAAC 57.031 43.478 0.00 0.00 33.75 1.89
3244 4608 6.549736 TGAAAGATACTCCATCCGTCTCATAA 59.450 38.462 0.00 0.00 33.75 1.90
3245 4609 6.068670 TGAAAGATACTCCATCCGTCTCATA 58.931 40.000 0.00 0.00 33.75 2.15
3246 4610 4.895889 TGAAAGATACTCCATCCGTCTCAT 59.104 41.667 0.00 0.00 33.75 2.90
3247 4611 4.278310 TGAAAGATACTCCATCCGTCTCA 58.722 43.478 0.00 0.00 33.75 3.27
3248 4612 4.261825 CCTGAAAGATACTCCATCCGTCTC 60.262 50.000 0.00 0.00 34.07 3.36
3249 4613 3.639094 CCTGAAAGATACTCCATCCGTCT 59.361 47.826 0.00 0.00 34.07 4.18
3250 4614 3.385111 ACCTGAAAGATACTCCATCCGTC 59.615 47.826 0.00 0.00 34.07 4.79
3251 4615 3.375699 ACCTGAAAGATACTCCATCCGT 58.624 45.455 0.00 0.00 34.07 4.69
3252 4616 4.262079 GGTACCTGAAAGATACTCCATCCG 60.262 50.000 4.06 0.00 31.83 4.18
3253 4617 4.654262 TGGTACCTGAAAGATACTCCATCC 59.346 45.833 14.36 0.00 31.83 3.51
3254 4618 5.871396 TGGTACCTGAAAGATACTCCATC 57.129 43.478 14.36 0.00 31.83 3.51
3255 4619 6.415573 GTTTGGTACCTGAAAGATACTCCAT 58.584 40.000 14.36 0.00 31.83 3.41
3256 4620 5.568023 CGTTTGGTACCTGAAAGATACTCCA 60.568 44.000 14.36 0.00 31.83 3.86
3257 4621 4.868734 CGTTTGGTACCTGAAAGATACTCC 59.131 45.833 14.36 0.00 31.83 3.85
3258 4622 5.575995 GTCGTTTGGTACCTGAAAGATACTC 59.424 44.000 14.36 1.36 31.83 2.59
3259 4623 5.011329 TGTCGTTTGGTACCTGAAAGATACT 59.989 40.000 14.36 0.00 31.83 2.12
3260 4624 5.119743 GTGTCGTTTGGTACCTGAAAGATAC 59.880 44.000 14.36 17.46 29.61 2.24
3261 4625 5.232463 GTGTCGTTTGGTACCTGAAAGATA 58.768 41.667 14.36 10.81 34.07 1.98
3262 4626 4.062991 GTGTCGTTTGGTACCTGAAAGAT 58.937 43.478 14.36 0.00 34.07 2.40
3263 4627 3.460103 GTGTCGTTTGGTACCTGAAAGA 58.540 45.455 14.36 12.38 34.07 2.52
3267 4631 1.416243 AGGTGTCGTTTGGTACCTGA 58.584 50.000 14.36 3.07 41.76 3.86
3293 4657 7.412891 GCCCAAGTGCATTGTGAATTTTATAAC 60.413 37.037 0.00 0.00 37.17 1.89
3294 4658 6.593382 GCCCAAGTGCATTGTGAATTTTATAA 59.407 34.615 0.00 0.00 37.17 0.98


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

AutoCloner maintained by Alex Coulton.