Multiple sequence alignment - TraesCS1D01G186700

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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 TraesCS1D01G186700 chr1D 100.000 6565 0 0 1 6565 258089258 258095822 0.000000e+00 12124.0
1 TraesCS1D01G186700 chr1D 80.909 660 119 5 978 1632 258332306 258332963 1.260000e-141 514.0
2 TraesCS1D01G186700 chr1D 76.606 436 64 21 5158 5567 258341978 258342401 8.630000e-49 206.0
3 TraesCS1D01G186700 chr1D 82.114 246 29 8 6315 6549 35581727 35581486 5.190000e-46 196.0
4 TraesCS1D01G186700 chr1D 81.707 246 35 7 6312 6548 260606442 260606686 5.190000e-46 196.0
5 TraesCS1D01G186700 chr1D 80.800 250 41 5 6317 6560 317187320 317187072 8.690000e-44 189.0
6 TraesCS1D01G186700 chr1D 82.979 188 27 5 6362 6548 397211903 397212086 1.460000e-36 165.0
7 TraesCS1D01G186700 chr1D 76.892 251 33 13 6295 6542 7060809 7060581 1.160000e-22 119.0
8 TraesCS1D01G186700 chr1D 87.629 97 11 1 2706 2801 31154861 31154765 1.940000e-20 111.0
9 TraesCS1D01G186700 chr1D 81.481 108 10 6 2706 2806 28818386 28818282 5.460000e-11 80.5
10 TraesCS1D01G186700 chr1B 96.046 2883 91 7 875 3735 354989373 354986492 0.000000e+00 4671.0
11 TraesCS1D01G186700 chr1B 91.044 1887 114 19 847 2703 355107632 355105771 0.000000e+00 2497.0
12 TraesCS1D01G186700 chr1B 90.949 1580 112 16 2927 4491 355105664 355104101 0.000000e+00 2097.0
13 TraesCS1D01G186700 chr1B 97.986 1142 16 5 3718 4857 354984741 354983605 0.000000e+00 1975.0
14 TraesCS1D01G186700 chr1B 96.584 849 24 3 5111 5957 355103906 355103061 0.000000e+00 1402.0
15 TraesCS1D01G186700 chr1B 89.689 805 60 12 5110 5909 354983612 354982826 0.000000e+00 1005.0
16 TraesCS1D01G186700 chr1B 84.840 686 53 20 5914 6565 354979351 354978683 1.540000e-180 643.0
17 TraesCS1D01G186700 chr1B 94.048 420 18 3 6153 6565 355097927 355097508 1.200000e-176 630.0
18 TraesCS1D01G186700 chr1B 92.225 373 28 1 453 824 355133347 355132975 1.620000e-145 527.0
19 TraesCS1D01G186700 chr1B 79.341 789 125 25 3256 4026 354926280 354925512 2.710000e-143 520.0
20 TraesCS1D01G186700 chr1B 81.032 659 119 3 978 1632 354930191 354929535 2.710000e-143 520.0
21 TraesCS1D01G186700 chr1B 90.415 313 28 2 513 824 355012704 355012393 1.700000e-110 411.0
22 TraesCS1D01G186700 chr1B 94.318 264 6 6 4852 5114 571498200 571498455 4.770000e-106 396.0
23 TraesCS1D01G186700 chr1B 87.719 228 21 5 4631 4857 355104121 355103900 6.530000e-65 259.0
24 TraesCS1D01G186700 chr1B 77.064 436 59 17 5156 5567 354922639 354922221 5.160000e-51 213.0
25 TraesCS1D01G186700 chr1B 94.068 118 5 2 2800 2916 355105765 355105649 1.880000e-40 178.0
26 TraesCS1D01G186700 chr1B 98.701 77 1 0 6083 6159 355102804 355102728 3.190000e-28 137.0
27 TraesCS1D01G186700 chr1B 94.203 69 4 0 450 518 355022354 355022286 9.000000e-19 106.0
28 TraesCS1D01G186700 chr1A 96.692 1572 37 5 2931 4489 343421346 343419777 0.000000e+00 2601.0
29 TraesCS1D01G186700 chr1A 97.992 1444 27 2 1471 2912 343422778 343421335 0.000000e+00 2505.0
30 TraesCS1D01G186700 chr1A 97.263 1023 20 6 5111 6129 343419580 343418562 0.000000e+00 1727.0
31 TraesCS1D01G186700 chr1A 93.857 993 48 11 5579 6565 343416598 343415613 0.000000e+00 1483.0
32 TraesCS1D01G186700 chr1A 91.429 875 68 6 1 872 343425884 343425014 0.000000e+00 1194.0
33 TraesCS1D01G186700 chr1A 93.506 616 30 4 874 1482 343424850 343424238 0.000000e+00 907.0
34 TraesCS1D01G186700 chr1A 95.089 448 20 2 6120 6565 343418159 343417712 0.000000e+00 704.0
35 TraesCS1D01G186700 chr1A 79.014 791 124 29 3256 4026 343399750 343398982 2.730000e-138 503.0
36 TraesCS1D01G186700 chr1A 90.830 229 13 5 4631 4857 343419796 343419574 3.850000e-77 300.0
37 TraesCS1D01G186700 chr1A 96.000 150 3 3 4488 4636 24135797 24135944 2.370000e-59 241.0
38 TraesCS1D01G186700 chr1A 77.574 437 64 16 5156 5567 343396039 343395612 3.960000e-57 233.0
39 TraesCS1D01G186700 chr1A 84.689 209 22 5 6347 6548 544299344 544299549 4.010000e-47 200.0
40 TraesCS1D01G186700 chr1A 81.070 243 30 8 6316 6548 34354729 34354493 5.230000e-41 180.0
41 TraesCS1D01G186700 chr1A 79.457 258 38 10 6299 6548 33869091 33868841 1.130000e-37 169.0
42 TraesCS1D01G186700 chr1A 91.089 101 7 2 2702 2801 489238919 489239018 1.150000e-27 135.0
43 TraesCS1D01G186700 chr1A 86.869 99 12 1 2706 2803 276575800 276575898 6.960000e-20 110.0
44 TraesCS1D01G186700 chr1A 90.323 62 4 2 2699 2759 291252817 291252757 5.460000e-11 80.5
45 TraesCS1D01G186700 chr2A 88.322 608 51 11 5970 6561 459474839 459474236 0.000000e+00 712.0
46 TraesCS1D01G186700 chr2A 87.765 613 53 13 5970 6565 459366901 459366294 0.000000e+00 697.0
47 TraesCS1D01G186700 chr2A 87.642 615 48 19 5970 6565 459504331 459503726 0.000000e+00 689.0
48 TraesCS1D01G186700 chr2A 87.276 613 55 13 5970 6565 459443600 459442994 0.000000e+00 678.0
49 TraesCS1D01G186700 chr2A 87.092 612 54 14 5970 6565 459528073 459527471 0.000000e+00 669.0
50 TraesCS1D01G186700 chr2A 89.362 94 8 2 2699 2790 72936360 72936267 4.160000e-22 117.0
51 TraesCS1D01G186700 chr5D 96.565 262 7 2 4853 5114 40978102 40978361 3.640000e-117 433.0
52 TraesCS1D01G186700 chr5D 89.720 107 9 2 2696 2801 553674719 553674824 1.150000e-27 135.0
53 TraesCS1D01G186700 chr5D 84.615 91 13 1 2706 2795 46048711 46048621 9.070000e-14 89.8
54 TraesCS1D01G186700 chr2D 95.076 264 12 1 4853 5116 395940455 395940193 1.320000e-111 414.0
55 TraesCS1D01G186700 chr2D 91.633 251 21 0 3701 3951 356538190 356537940 1.350000e-91 348.0
56 TraesCS1D01G186700 chr2D 82.301 226 31 4 6346 6562 574183149 574183374 3.130000e-43 187.0
57 TraesCS1D01G186700 chr2D 82.126 207 23 8 6364 6558 642058347 642058143 1.460000e-36 165.0
58 TraesCS1D01G186700 chr2D 82.126 207 22 9 6364 6558 598302751 598302548 5.270000e-36 163.0
59 TraesCS1D01G186700 chr2D 88.421 95 10 1 2708 2801 586464313 586464219 5.380000e-21 113.0
60 TraesCS1D01G186700 chr4B 94.361 266 14 1 4851 5116 29940347 29940083 2.200000e-109 407.0
61 TraesCS1D01G186700 chr4B 91.633 251 21 0 3701 3951 420223723 420223473 1.350000e-91 348.0
62 TraesCS1D01G186700 chr4B 81.028 253 31 5 6316 6561 618651645 618651403 1.120000e-42 185.0
63 TraesCS1D01G186700 chr4B 94.915 59 2 1 2704 2761 506917725 506917783 2.520000e-14 91.6
64 TraesCS1D01G186700 chr4B 85.057 87 6 6 2706 2788 242704137 242704054 1.520000e-11 82.4
65 TraesCS1D01G186700 chr4B 77.320 97 18 2 2706 2801 340683021 340682928 3.000000e-03 54.7
66 TraesCS1D01G186700 chr2B 94.340 265 14 1 4850 5114 723031683 723031946 7.930000e-109 405.0
67 TraesCS1D01G186700 chr4A 93.962 265 13 3 4851 5114 46310456 46310194 1.330000e-106 398.0
68 TraesCS1D01G186700 chr4A 91.633 251 21 0 3701 3951 573697596 573697346 1.350000e-91 348.0
69 TraesCS1D01G186700 chr4A 90.000 100 9 1 2706 2804 699792032 699791933 1.920000e-25 128.0
70 TraesCS1D01G186700 chr3D 93.609 266 16 1 4850 5115 563055 563319 4.770000e-106 396.0
71 TraesCS1D01G186700 chr3D 91.633 251 21 0 3701 3951 549728815 549728565 1.350000e-91 348.0
72 TraesCS1D01G186700 chr3D 81.250 272 44 5 6296 6562 461552777 461553046 5.160000e-51 213.0
73 TraesCS1D01G186700 chr3D 89.899 99 9 1 2704 2801 513951644 513951742 6.910000e-25 126.0
74 TraesCS1D01G186700 chr3D 86.726 113 10 5 2695 2804 1887691 1887581 3.220000e-23 121.0
75 TraesCS1D01G186700 chr7A 93.561 264 16 1 4853 5116 535468312 535468574 6.170000e-105 392.0
76 TraesCS1D01G186700 chr7A 92.963 270 16 3 4846 5114 711611841 711612108 2.220000e-104 390.0
77 TraesCS1D01G186700 chr7A 96.667 150 2 3 4488 4636 552975388 552975535 5.080000e-61 246.0
78 TraesCS1D01G186700 chr7A 82.022 267 46 1 6296 6562 261313 261577 6.620000e-55 226.0
79 TraesCS1D01G186700 chr6B 85.141 249 35 2 6317 6565 610047146 610046900 3.040000e-63 254.0
80 TraesCS1D01G186700 chr6A 97.931 145 1 2 4488 4631 381088847 381088704 3.930000e-62 250.0
81 TraesCS1D01G186700 chr6D 96.667 150 2 3 4488 4636 267532954 267532807 5.080000e-61 246.0
82 TraesCS1D01G186700 chr6D 87.701 187 23 0 6349 6535 406113529 406113343 1.110000e-52 219.0
83 TraesCS1D01G186700 chr6D 81.176 255 36 6 6317 6560 13498886 13498633 1.870000e-45 195.0
84 TraesCS1D01G186700 chr6D 82.386 176 26 5 6316 6488 243421456 243421283 1.470000e-31 148.0
85 TraesCS1D01G186700 chr6D 82.486 177 24 4 6316 6488 243446920 243446747 1.470000e-31 148.0
86 TraesCS1D01G186700 chr7B 92.941 170 7 4 4488 4656 511856747 511856912 6.580000e-60 243.0
87 TraesCS1D01G186700 chr7B 92.353 170 8 4 4488 4656 511815882 511816047 3.060000e-58 237.0
88 TraesCS1D01G186700 chr7D 96.000 150 2 4 4484 4631 604292781 604292928 2.370000e-59 241.0
89 TraesCS1D01G186700 chr7D 83.521 267 32 8 6293 6548 499549057 499549322 8.510000e-59 239.0
90 TraesCS1D01G186700 chr4D 95.973 149 4 2 4488 4636 325107965 325108111 2.370000e-59 241.0
91 TraesCS1D01G186700 chr4D 80.827 266 32 11 6294 6548 446097039 446096782 2.420000e-44 191.0
92 TraesCS1D01G186700 chr4D 88.000 100 5 7 2706 2801 277378248 277378152 1.940000e-20 111.0
93 TraesCS1D01G186700 chr4D 91.667 48 3 1 2708 2754 20317061 20317108 1.530000e-06 65.8
94 TraesCS1D01G186700 chr3B 82.500 240 38 1 6327 6562 572381610 572381849 2.400000e-49 207.0
95 TraesCS1D01G186700 chrUn 75.945 291 52 10 6286 6562 355783389 355783675 4.130000e-27 134.0
96 TraesCS1D01G186700 chrUn 81.159 138 26 0 6428 6565 315204280 315204143 1.940000e-20 111.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G186700 chr1D 258089258 258095822 6564 False 12124.000000 12124 100.000000 1 6565 1 chr1D.!!$F1 6564
1 TraesCS1D01G186700 chr1D 258332306 258332963 657 False 514.000000 514 80.909000 978 1632 1 chr1D.!!$F2 654
2 TraesCS1D01G186700 chr1B 354978683 354989373 10690 True 2073.500000 4671 92.140250 875 6565 4 chr1B.!!$R6 5690
3 TraesCS1D01G186700 chr1B 355102728 355107632 4904 True 1095.000000 2497 93.177500 847 6159 6 chr1B.!!$R7 5312
4 TraesCS1D01G186700 chr1B 354922221 354930191 7970 True 417.666667 520 79.145667 978 5567 3 chr1B.!!$R5 4589
5 TraesCS1D01G186700 chr1A 343415613 343425884 10271 True 1427.625000 2601 94.582250 1 6565 8 chr1A.!!$R5 6564
6 TraesCS1D01G186700 chr1A 343395612 343399750 4138 True 368.000000 503 78.294000 3256 5567 2 chr1A.!!$R4 2311
7 TraesCS1D01G186700 chr2A 459474236 459474839 603 True 712.000000 712 88.322000 5970 6561 1 chr2A.!!$R4 591
8 TraesCS1D01G186700 chr2A 459366294 459366901 607 True 697.000000 697 87.765000 5970 6565 1 chr2A.!!$R2 595
9 TraesCS1D01G186700 chr2A 459503726 459504331 605 True 689.000000 689 87.642000 5970 6565 1 chr2A.!!$R5 595
10 TraesCS1D01G186700 chr2A 459442994 459443600 606 True 678.000000 678 87.276000 5970 6565 1 chr2A.!!$R3 595
11 TraesCS1D01G186700 chr2A 459527471 459528073 602 True 669.000000 669 87.092000 5970 6565 1 chr2A.!!$R6 595

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
77 78 0.041238 TCGTGATTCAGAGGGACCCT 59.959 55.0 14.79 14.79 36.03 4.34 F
1131 1308 0.108329 GCGATCCTCGAAAACCCTCA 60.108 55.0 0.00 0.00 43.74 3.86 F
1293 1473 0.396811 CCGGTTTCTCTGACACCCTT 59.603 55.0 0.00 0.00 29.36 3.95 F
2693 5008 0.674895 GCCTAGCAGACAACCCAGTG 60.675 60.0 0.00 0.00 0.00 3.66 F
3194 6618 2.033424 GGTCACTTTTGCTGGACAGTTC 59.967 50.0 0.82 0.00 32.00 3.01 F
4425 11267 0.042731 TTCCTCAGGTAGAGTGGGGG 59.957 60.0 0.00 0.00 43.12 5.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1278 1458 0.250295 CGGCAAGGGTGTCAGAGAAA 60.250 55.000 0.0 0.0 0.00 2.52 R
2939 6361 0.251916 TTTATGTCTGCCTGGGGACG 59.748 55.000 0.0 0.0 35.45 4.79 R
2970 6392 1.682854 CATGGCTCCACACTTTGTTGT 59.317 47.619 0.0 0.0 0.00 3.32 R
3657 7134 1.111277 AACAAGAAGGTGGTTGTGGC 58.889 50.000 0.0 0.0 36.98 5.01 R
5101 12707 1.906574 TGCTTGAATACTCCCTCCGTT 59.093 47.619 0.0 0.0 0.00 4.44 R
5609 13266 3.504906 AGTTCGTTAGGAGATTGTCGTCA 59.495 43.478 0.0 0.0 0.00 4.35 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
32 33 5.241728 GCCTTACAAGTTGGACATTTCTCTT 59.758 40.000 7.96 0.00 0.00 2.85
39 40 6.272822 AGTTGGACATTTCTCTTAAATGGC 57.727 37.500 13.36 10.68 43.24 4.40
40 41 6.012745 AGTTGGACATTTCTCTTAAATGGCT 58.987 36.000 14.21 3.45 43.43 4.75
41 42 7.175104 AGTTGGACATTTCTCTTAAATGGCTA 58.825 34.615 14.21 7.17 43.43 3.93
57 58 3.386768 GGCTATGTTGCCGATAGAGAA 57.613 47.619 0.00 0.00 43.74 2.87
58 59 3.931578 GGCTATGTTGCCGATAGAGAAT 58.068 45.455 0.00 0.00 43.74 2.40
77 78 0.041238 TCGTGATTCAGAGGGACCCT 59.959 55.000 14.79 14.79 36.03 4.34
123 125 2.176798 TCCCTGAATCTCTCTCCCTCTC 59.823 54.545 0.00 0.00 0.00 3.20
146 148 6.181190 TCCTATGGTCGATGGTTCTATCTAG 58.819 44.000 0.00 0.00 0.00 2.43
161 163 5.076182 TCTATCTAGCCTGTTGATCTGAGG 58.924 45.833 0.00 0.00 0.00 3.86
213 215 2.273619 AGTTGAGAGGAAGGCTCCAAT 58.726 47.619 5.90 0.00 45.24 3.16
226 228 0.537188 CTCCAATGGCTGGTACGAGT 59.463 55.000 6.75 0.00 46.51 4.18
240 242 2.962253 GAGTGGCCGCGCTCATAC 60.962 66.667 13.33 0.00 0.00 2.39
260 262 0.589229 CGCGCGTCGTCTTCTCTTAT 60.589 55.000 24.19 0.00 0.00 1.73
265 267 3.606777 CGCGTCGTCTTCTCTTATTTTGA 59.393 43.478 0.00 0.00 0.00 2.69
266 268 4.488889 CGCGTCGTCTTCTCTTATTTTGAC 60.489 45.833 0.00 0.00 0.00 3.18
305 307 6.066032 TCTCGAAAGGGAAAGTTACCAATTT 58.934 36.000 0.00 0.00 37.93 1.82
381 383 4.440758 GTGAATGACAAAAACCGACACATG 59.559 41.667 0.00 0.00 0.00 3.21
382 384 2.483583 TGACAAAAACCGACACATGC 57.516 45.000 0.00 0.00 0.00 4.06
383 385 1.066303 TGACAAAAACCGACACATGCC 59.934 47.619 0.00 0.00 0.00 4.40
385 387 1.066908 ACAAAAACCGACACATGCCAG 59.933 47.619 0.00 0.00 0.00 4.85
408 410 5.763698 AGGGTTAAACAAGCAAAGTACTCTC 59.236 40.000 0.00 0.00 0.00 3.20
409 411 5.333875 GGGTTAAACAAGCAAAGTACTCTCG 60.334 44.000 0.00 0.00 0.00 4.04
468 470 6.638873 CGTCCTAAGCTACAGTGATAAATGAG 59.361 42.308 0.00 0.00 0.00 2.90
494 496 1.901591 CTGCCATATGTCCACATCCC 58.098 55.000 1.24 0.00 37.76 3.85
500 502 1.352622 TATGTCCACATCCCCTGCCC 61.353 60.000 0.00 0.00 37.76 5.36
504 506 2.692824 CCACATCCCCTGCCCATCA 61.693 63.158 0.00 0.00 0.00 3.07
506 508 0.826256 CACATCCCCTGCCCATCATG 60.826 60.000 0.00 0.00 0.00 3.07
550 552 2.680805 GCTCAATTCCCTCCAATGTCGA 60.681 50.000 0.00 0.00 0.00 4.20
551 553 3.813443 CTCAATTCCCTCCAATGTCGAT 58.187 45.455 0.00 0.00 0.00 3.59
556 558 3.433306 TCCCTCCAATGTCGATTGTTT 57.567 42.857 0.00 0.00 37.82 2.83
562 564 4.047822 TCCAATGTCGATTGTTTTGTTGC 58.952 39.130 0.00 0.00 37.82 4.17
617 619 4.944619 TCGATGATGCAAGATACCTTCT 57.055 40.909 0.00 0.00 35.70 2.85
624 626 5.877012 TGATGCAAGATACCTTCTCACTTTC 59.123 40.000 0.00 0.00 31.78 2.62
625 627 5.227569 TGCAAGATACCTTCTCACTTTCA 57.772 39.130 0.00 0.00 31.78 2.69
628 630 6.716628 TGCAAGATACCTTCTCACTTTCAAAT 59.283 34.615 0.00 0.00 31.78 2.32
630 632 7.459486 CAAGATACCTTCTCACTTTCAAATCG 58.541 38.462 0.00 0.00 31.78 3.34
631 633 6.702329 AGATACCTTCTCACTTTCAAATCGT 58.298 36.000 0.00 0.00 0.00 3.73
632 634 7.837863 AGATACCTTCTCACTTTCAAATCGTA 58.162 34.615 0.00 0.00 0.00 3.43
634 636 6.969828 ACCTTCTCACTTTCAAATCGTATC 57.030 37.500 0.00 0.00 0.00 2.24
641 644 8.135529 TCTCACTTTCAAATCGTATCGATGTAT 58.864 33.333 8.54 0.00 46.30 2.29
647 650 5.629435 TCAAATCGTATCGATGTATCTGTGC 59.371 40.000 8.54 0.00 46.30 4.57
648 651 3.554259 TCGTATCGATGTATCTGTGCC 57.446 47.619 8.54 0.00 0.00 5.01
656 659 1.068250 GTATCTGTGCCGGAGCTCC 59.932 63.158 23.79 23.79 40.80 4.70
671 674 1.065418 AGCTCCCGGTTAAGGTTCATG 60.065 52.381 0.00 0.00 0.00 3.07
672 675 1.379527 CTCCCGGTTAAGGTTCATGC 58.620 55.000 0.00 0.00 0.00 4.06
684 687 0.949105 GTTCATGCCCGTCGACAACT 60.949 55.000 17.16 0.00 0.00 3.16
687 690 0.670546 CATGCCCGTCGACAACTTCT 60.671 55.000 17.16 0.00 0.00 2.85
719 722 2.792947 CCAGCATCATGCCCCTTGC 61.793 63.158 5.84 0.00 46.52 4.01
778 781 1.852077 GCGTTTGCTCATGTATCACGC 60.852 52.381 13.40 13.40 43.95 5.34
936 1106 2.224161 GCAAACCCACTGGCAAATAACA 60.224 45.455 0.00 0.00 33.59 2.41
1131 1308 0.108329 GCGATCCTCGAAAACCCTCA 60.108 55.000 0.00 0.00 43.74 3.86
1282 1462 4.675029 CCCGCGACACCGGTTTCT 62.675 66.667 18.20 0.00 46.71 2.52
1284 1464 2.049433 CGCGACACCGGTTTCTCT 60.049 61.111 18.20 0.00 36.06 3.10
1293 1473 0.396811 CCGGTTTCTCTGACACCCTT 59.603 55.000 0.00 0.00 29.36 3.95
1294 1474 1.512926 CGGTTTCTCTGACACCCTTG 58.487 55.000 0.00 0.00 29.36 3.61
1915 3961 4.716287 CCCAAAACTCACATATGGGGAATT 59.284 41.667 4.82 0.00 45.72 2.17
1931 4006 6.071984 TGGGGAATTTGTAGTAAATGTGTGT 58.928 36.000 0.00 0.00 0.00 3.72
1944 4019 8.915871 AGTAAATGTGTGTTATGAATGCAATC 57.084 30.769 0.00 0.00 0.00 2.67
2495 4809 8.836268 ACCGTTAAATGTTACATAGTTCTTGA 57.164 30.769 0.00 0.00 0.00 3.02
2693 5008 0.674895 GCCTAGCAGACAACCCAGTG 60.675 60.000 0.00 0.00 0.00 3.66
2909 6331 9.249053 CGGCTCCCTGTAGATTGATATATATAT 57.751 37.037 4.86 4.86 0.00 0.86
2970 6392 7.201812 CCAGGCAGACATAAATGCATTTAACTA 60.202 37.037 30.12 14.32 44.37 2.24
3133 6557 2.687935 TCCAGTCAAACACTTTGGAAGC 59.312 45.455 0.00 0.00 40.98 3.86
3194 6618 2.033424 GGTCACTTTTGCTGGACAGTTC 59.967 50.000 0.82 0.00 32.00 3.01
3699 7177 6.773976 TTCCATTTTCACAGACTTCTTGTT 57.226 33.333 0.00 0.00 0.00 2.83
3861 9107 2.621338 TCATGCTTCGCTTTGAGGTAG 58.379 47.619 0.00 0.00 0.00 3.18
3927 9174 5.551760 ACAAAGTTCGAGATGCCATTTAG 57.448 39.130 0.00 0.00 0.00 1.85
4240 11081 1.445942 CACTGGGAAGTGTGGACGT 59.554 57.895 0.00 0.00 35.25 4.34
4425 11267 0.042731 TTCCTCAGGTAGAGTGGGGG 59.957 60.000 0.00 0.00 43.12 5.40
4746 12051 8.891720 AGCTTAATTTTTGTTTTCTTCAATGCA 58.108 25.926 0.00 0.00 0.00 3.96
4851 12457 9.788960 GCCAAAAGATTAAATCCAACTACTAAG 57.211 33.333 0.00 0.00 0.00 2.18
4861 12467 5.793034 TCCAACTACTAAGTACTCCCTCT 57.207 43.478 0.00 0.00 33.75 3.69
4864 12470 5.715753 CCAACTACTAAGTACTCCCTCTGTT 59.284 44.000 0.00 0.00 33.75 3.16
4865 12471 6.210984 CCAACTACTAAGTACTCCCTCTGTTT 59.789 42.308 0.00 0.00 33.75 2.83
4866 12472 7.256225 CCAACTACTAAGTACTCCCTCTGTTTT 60.256 40.741 0.00 0.00 33.75 2.43
4867 12473 7.852550 ACTACTAAGTACTCCCTCTGTTTTT 57.147 36.000 0.00 0.00 32.84 1.94
4868 12474 8.946797 ACTACTAAGTACTCCCTCTGTTTTTA 57.053 34.615 0.00 0.00 32.84 1.52
4869 12475 9.544579 ACTACTAAGTACTCCCTCTGTTTTTAT 57.455 33.333 0.00 0.00 32.84 1.40
4875 12481 9.722184 AAGTACTCCCTCTGTTTTTATTTACTC 57.278 33.333 0.00 0.00 0.00 2.59
4876 12482 8.319881 AGTACTCCCTCTGTTTTTATTTACTCC 58.680 37.037 0.00 0.00 0.00 3.85
4877 12483 6.171213 ACTCCCTCTGTTTTTATTTACTCCG 58.829 40.000 0.00 0.00 0.00 4.63
4879 12485 4.698304 CCCTCTGTTTTTATTTACTCCGCA 59.302 41.667 0.00 0.00 0.00 5.69
4881 12487 6.540914 CCCTCTGTTTTTATTTACTCCGCATA 59.459 38.462 0.00 0.00 0.00 3.14
4886 12492 9.382244 CTGTTTTTATTTACTCCGCATATTAGC 57.618 33.333 0.00 0.00 0.00 3.09
4887 12493 9.116067 TGTTTTTATTTACTCCGCATATTAGCT 57.884 29.630 0.00 0.00 0.00 3.32
4888 12494 9.946165 GTTTTTATTTACTCCGCATATTAGCTT 57.054 29.630 0.00 0.00 0.00 3.74
4890 12496 9.944663 TTTTATTTACTCCGCATATTAGCTTTG 57.055 29.630 0.00 0.00 0.00 2.77
4891 12497 6.560253 ATTTACTCCGCATATTAGCTTTGG 57.440 37.500 0.00 0.00 0.00 3.28
4892 12498 3.560636 ACTCCGCATATTAGCTTTGGT 57.439 42.857 0.00 0.00 0.00 3.67
4893 12499 3.467803 ACTCCGCATATTAGCTTTGGTC 58.532 45.455 0.00 0.00 0.00 4.02
4894 12500 3.118408 ACTCCGCATATTAGCTTTGGTCA 60.118 43.478 0.00 0.00 0.00 4.02
4895 12501 3.876914 CTCCGCATATTAGCTTTGGTCAA 59.123 43.478 0.00 0.00 0.00 3.18
4896 12502 4.265893 TCCGCATATTAGCTTTGGTCAAA 58.734 39.130 0.00 0.00 0.00 2.69
4907 12513 3.621794 CTTTGGTCAAAGTCAAGCTTCG 58.378 45.455 13.58 0.00 42.02 3.79
4908 12514 2.325583 TGGTCAAAGTCAAGCTTCGT 57.674 45.000 0.00 0.00 36.17 3.85
4909 12515 3.462483 TGGTCAAAGTCAAGCTTCGTA 57.538 42.857 0.00 0.00 36.17 3.43
4910 12516 3.799366 TGGTCAAAGTCAAGCTTCGTAA 58.201 40.909 0.00 0.00 36.17 3.18
4911 12517 4.193090 TGGTCAAAGTCAAGCTTCGTAAA 58.807 39.130 0.00 0.00 36.17 2.01
4912 12518 4.034742 TGGTCAAAGTCAAGCTTCGTAAAC 59.965 41.667 0.00 0.00 36.17 2.01
4913 12519 4.272748 GGTCAAAGTCAAGCTTCGTAAACT 59.727 41.667 0.00 0.00 36.17 2.66
4914 12520 5.220796 GGTCAAAGTCAAGCTTCGTAAACTT 60.221 40.000 0.00 0.00 36.17 2.66
4915 12521 6.255950 GTCAAAGTCAAGCTTCGTAAACTTT 58.744 36.000 0.00 5.43 37.41 2.66
4916 12522 6.482451 CAAAGTCAAGCTTCGTAAACTTTG 57.518 37.500 21.13 21.13 43.84 2.77
4917 12523 6.431198 AAAGTCAAGCTTCGTAAACTTTGA 57.569 33.333 14.61 0.00 36.06 2.69
4918 12524 5.405331 AGTCAAGCTTCGTAAACTTTGAC 57.595 39.130 0.00 6.98 0.00 3.18
4919 12525 4.873827 AGTCAAGCTTCGTAAACTTTGACA 59.126 37.500 15.04 0.00 30.59 3.58
4920 12526 5.353123 AGTCAAGCTTCGTAAACTTTGACAA 59.647 36.000 15.04 0.00 30.59 3.18
4921 12527 6.025280 GTCAAGCTTCGTAAACTTTGACAAA 58.975 36.000 0.00 0.00 0.00 2.83
4922 12528 6.525280 GTCAAGCTTCGTAAACTTTGACAAAA 59.475 34.615 0.00 0.00 0.00 2.44
4923 12529 7.220108 GTCAAGCTTCGTAAACTTTGACAAAAT 59.780 33.333 0.00 0.00 0.00 1.82
4924 12530 7.757624 TCAAGCTTCGTAAACTTTGACAAAATT 59.242 29.630 0.00 0.00 0.00 1.82
4925 12531 8.379902 CAAGCTTCGTAAACTTTGACAAAATTT 58.620 29.630 11.63 11.63 0.00 1.82
4926 12532 8.474006 AGCTTCGTAAACTTTGACAAAATTTT 57.526 26.923 12.11 11.17 33.96 1.82
4927 12533 9.575783 AGCTTCGTAAACTTTGACAAAATTTTA 57.424 25.926 12.11 10.33 32.36 1.52
5000 12606 9.460019 TTCATTATTGAATGTACTTCCACATCA 57.540 29.630 0.00 0.00 42.71 3.07
5001 12607 9.631257 TCATTATTGAATGTACTTCCACATCAT 57.369 29.630 0.00 0.00 42.71 2.45
5089 12695 6.503616 GACTTCAGTCAACTCTAATATGCG 57.496 41.667 1.86 0.00 44.18 4.73
5090 12696 5.352284 ACTTCAGTCAACTCTAATATGCGG 58.648 41.667 0.00 0.00 0.00 5.69
5091 12697 5.127194 ACTTCAGTCAACTCTAATATGCGGA 59.873 40.000 0.00 0.00 0.00 5.54
5092 12698 5.188327 TCAGTCAACTCTAATATGCGGAG 57.812 43.478 0.00 0.00 0.00 4.63
5093 12699 4.645136 TCAGTCAACTCTAATATGCGGAGT 59.355 41.667 0.00 0.00 41.37 3.85
5094 12700 5.826208 TCAGTCAACTCTAATATGCGGAGTA 59.174 40.000 6.10 0.00 39.09 2.59
5095 12701 6.320418 TCAGTCAACTCTAATATGCGGAGTAA 59.680 38.462 6.10 0.00 39.09 2.24
5096 12702 6.978659 CAGTCAACTCTAATATGCGGAGTAAA 59.021 38.462 6.10 0.00 39.09 2.01
5097 12703 7.653713 CAGTCAACTCTAATATGCGGAGTAAAT 59.346 37.037 6.10 0.00 39.09 1.40
5098 12704 8.857098 AGTCAACTCTAATATGCGGAGTAAATA 58.143 33.333 6.10 0.00 39.09 1.40
5099 12705 9.472361 GTCAACTCTAATATGCGGAGTAAATAA 57.528 33.333 6.10 0.00 39.09 1.40
5223 12838 2.412847 GCGATTTCTTGTTCCTTGGTCG 60.413 50.000 0.00 0.00 0.00 4.79
5609 13266 1.813513 GCAGTATGTCCACTTGCTGT 58.186 50.000 10.85 0.00 39.31 4.40
5721 13381 2.428890 ACTGCAGATGAGTAGGTAGCAC 59.571 50.000 23.35 0.00 0.00 4.40
5764 13424 7.681125 ATCGTATCTTTAGTTTGTTAGCTCG 57.319 36.000 0.00 0.00 0.00 5.03
5775 13435 2.279741 TGTTAGCTCGAACATGATGGC 58.720 47.619 0.00 0.00 34.40 4.40
5896 13556 7.390996 GCCTGATATCAAATGAAGATCTGTCAT 59.609 37.037 6.90 12.07 37.31 3.06
5897 13557 9.939802 CCTGATATCAAATGAAGATCTGTCATA 57.060 33.333 16.01 6.25 34.60 2.15
5926 17056 6.267014 TGTCCTTATTCTATAGGGTCCTTTCG 59.733 42.308 0.00 0.00 32.20 3.46
6178 17884 1.202177 GGGATGTTGTAGTTGCGCATG 60.202 52.381 12.75 0.00 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 3.383185 GTCCCTCTGAATCACGATTCTCT 59.617 47.826 18.08 0.00 45.55 3.10
57 58 1.123928 GGGTCCCTCTGAATCACGAT 58.876 55.000 0.00 0.00 0.00 3.73
58 59 0.041238 AGGGTCCCTCTGAATCACGA 59.959 55.000 3.85 0.00 0.00 4.35
77 78 4.610605 TTACTTCACTTGGATCCGTTCA 57.389 40.909 7.39 0.00 0.00 3.18
123 125 5.163602 GCTAGATAGAACCATCGACCATAGG 60.164 48.000 0.00 0.00 0.00 2.57
161 163 0.029035 TTCGTAATCGAGCGAGAGGC 59.971 55.000 8.96 0.00 46.81 4.70
186 188 2.354203 GCCTTCCTCTCAACTACACAGG 60.354 54.545 0.00 0.00 0.00 4.00
213 215 3.702048 GGCCACTCGTACCAGCCA 61.702 66.667 0.00 0.00 43.32 4.75
236 238 2.565394 GAAGACGACGCGCGGTATG 61.565 63.158 35.22 21.62 46.49 2.39
240 242 2.573341 TAAGAGAAGACGACGCGCGG 62.573 60.000 35.22 19.92 46.49 6.46
243 245 3.606777 TCAAAATAAGAGAAGACGACGCG 59.393 43.478 3.53 3.53 0.00 6.01
260 262 5.192927 AGATAATTGGATCTGGCGTCAAAA 58.807 37.500 0.00 0.00 34.79 2.44
265 267 2.628178 TCGAGATAATTGGATCTGGCGT 59.372 45.455 0.00 0.00 36.27 5.68
266 268 3.303881 TCGAGATAATTGGATCTGGCG 57.696 47.619 0.00 0.00 36.27 5.69
299 301 5.395682 TGCTTGATTGAGAAGGAAATTGG 57.604 39.130 0.00 0.00 0.00 3.16
305 307 6.053632 TGTATCTTGCTTGATTGAGAAGGA 57.946 37.500 0.00 0.00 0.00 3.36
307 309 7.759465 ACATTGTATCTTGCTTGATTGAGAAG 58.241 34.615 0.00 0.00 0.00 2.85
353 355 6.577427 GTGTCGGTTTTTGTCATTCACTAATC 59.423 38.462 0.00 0.00 0.00 1.75
354 356 6.038825 TGTGTCGGTTTTTGTCATTCACTAAT 59.961 34.615 0.00 0.00 0.00 1.73
355 357 5.354513 TGTGTCGGTTTTTGTCATTCACTAA 59.645 36.000 0.00 0.00 0.00 2.24
366 368 1.602668 CCTGGCATGTGTCGGTTTTTG 60.603 52.381 0.00 0.00 0.00 2.44
367 369 0.673437 CCTGGCATGTGTCGGTTTTT 59.327 50.000 0.00 0.00 0.00 1.94
381 383 2.102420 ACTTTGCTTGTTTAACCCTGGC 59.898 45.455 0.00 0.00 0.00 4.85
382 384 4.583073 AGTACTTTGCTTGTTTAACCCTGG 59.417 41.667 0.00 0.00 0.00 4.45
383 385 5.531287 AGAGTACTTTGCTTGTTTAACCCTG 59.469 40.000 0.00 0.00 0.00 4.45
385 387 5.333875 CGAGAGTACTTTGCTTGTTTAACCC 60.334 44.000 0.00 0.00 0.00 4.11
468 470 1.356624 GACATATGGCAGCGCAACC 59.643 57.895 11.47 11.49 0.00 3.77
500 502 0.391528 TGTCGAGGCACCACATGATG 60.392 55.000 0.00 0.00 0.00 3.07
504 506 1.153568 CGATGTCGAGGCACCACAT 60.154 57.895 0.00 0.00 43.02 3.21
506 508 2.571757 TCGATGTCGAGGCACCAC 59.428 61.111 0.21 0.00 44.22 4.16
550 552 1.753956 GCTCGTCGCAACAAAACAAT 58.246 45.000 0.00 0.00 38.92 2.71
551 553 0.587737 CGCTCGTCGCAACAAAACAA 60.588 50.000 0.00 0.00 39.08 2.83
556 558 3.995669 GCACGCTCGTCGCAACAA 61.996 61.111 10.34 0.00 43.23 2.83
562 564 2.872001 GAGACTGCACGCTCGTCG 60.872 66.667 0.00 0.00 45.38 5.12
570 572 0.171455 AAGATCGACCGAGACTGCAC 59.829 55.000 0.00 0.00 0.00 4.57
617 619 8.135529 AGATACATCGATACGATTTGAAAGTGA 58.864 33.333 0.00 0.00 44.59 3.41
624 626 5.164051 GGCACAGATACATCGATACGATTTG 60.164 44.000 0.00 0.30 44.59 2.32
625 627 4.923871 GGCACAGATACATCGATACGATTT 59.076 41.667 0.00 1.34 44.59 2.17
628 630 2.095919 CGGCACAGATACATCGATACGA 60.096 50.000 0.00 0.00 41.13 3.43
630 632 2.228103 TCCGGCACAGATACATCGATAC 59.772 50.000 0.00 0.00 0.00 2.24
631 633 2.488153 CTCCGGCACAGATACATCGATA 59.512 50.000 0.00 0.00 0.00 2.92
632 634 1.270826 CTCCGGCACAGATACATCGAT 59.729 52.381 0.00 0.00 0.00 3.59
634 636 0.941463 GCTCCGGCACAGATACATCG 60.941 60.000 0.00 0.00 38.54 3.84
656 659 1.373590 CGGGCATGAACCTTAACCGG 61.374 60.000 0.00 0.00 36.45 5.28
671 674 2.087009 CGAGAAGTTGTCGACGGGC 61.087 63.158 16.85 3.38 39.92 6.13
672 675 1.577922 TCGAGAAGTTGTCGACGGG 59.422 57.895 20.01 0.00 41.41 5.28
684 687 2.417379 GCTGGAGCAATGTAGTCGAGAA 60.417 50.000 0.00 0.00 41.59 2.87
687 690 3.741029 GCTGGAGCAATGTAGTCGA 57.259 52.632 0.00 0.00 41.59 4.20
753 756 4.263677 GTGATACATGAGCAAACGCAATTG 59.736 41.667 0.00 0.00 0.00 2.32
754 757 4.414852 GTGATACATGAGCAAACGCAATT 58.585 39.130 0.00 0.00 0.00 2.32
759 762 1.267532 GGCGTGATACATGAGCAAACG 60.268 52.381 0.00 4.08 0.00 3.60
778 781 4.838152 CACGCCGGATCCCACTGG 62.838 72.222 5.05 2.21 39.16 4.00
815 818 6.790285 TGAAAATACCAAGACCTTACGAAC 57.210 37.500 0.00 0.00 0.00 3.95
816 819 7.550196 GGTATGAAAATACCAAGACCTTACGAA 59.450 37.037 9.54 0.00 44.57 3.85
845 848 4.339814 TGTGATTTAACTGGGGTGTTGTTC 59.660 41.667 0.00 0.00 0.00 3.18
850 853 4.657814 ATCTGTGATTTAACTGGGGTGT 57.342 40.909 0.00 0.00 0.00 4.16
891 1056 3.687698 ACATATGTGTTCGGTAGTTTGCC 59.312 43.478 7.78 0.00 34.01 4.52
961 1132 1.375326 GCCCGAAAGAGAAGGGTGT 59.625 57.895 1.46 0.00 46.69 4.16
1076 1253 2.034221 GCAGTTGGGGGAGTGACC 59.966 66.667 0.00 0.00 38.08 4.02
1245 1422 4.443266 GAGGAGAAGCTGCGGCGT 62.443 66.667 12.87 9.31 44.37 5.68
1278 1458 0.250295 CGGCAAGGGTGTCAGAGAAA 60.250 55.000 0.00 0.00 0.00 2.52
1282 1462 1.296392 CATCGGCAAGGGTGTCAGA 59.704 57.895 0.00 0.00 0.00 3.27
1284 1464 2.359850 GCATCGGCAAGGGTGTCA 60.360 61.111 0.00 0.00 40.72 3.58
1365 1545 0.467384 CGGCCATTGATGAGTCCTCT 59.533 55.000 2.24 0.00 0.00 3.69
1915 3961 8.787852 TGCATTCATAACACACATTTACTACAA 58.212 29.630 0.00 0.00 0.00 2.41
1931 4006 3.205056 ACTCAGGGGGATTGCATTCATAA 59.795 43.478 10.55 0.00 0.00 1.90
1944 4019 3.154827 ACACACATTTTACTCAGGGGG 57.845 47.619 0.00 0.00 0.00 5.40
2495 4809 4.248859 CACACGTCTCTTCTTTCATCCAT 58.751 43.478 0.00 0.00 0.00 3.41
2638 4953 6.758416 TCATGTCTCGGATGAAACAATCTAAG 59.242 38.462 0.00 0.00 0.00 2.18
2693 5008 7.929245 GGATCAGAGGGAGTAGATTTTTCTTAC 59.071 40.741 0.00 0.00 0.00 2.34
2926 6348 8.621073 TCTGCCTGGGGACGTATATATATATAT 58.379 37.037 17.37 17.37 33.68 0.86
2928 6350 6.720288 GTCTGCCTGGGGACGTATATATATAT 59.280 42.308 10.10 10.10 0.00 0.86
2930 6352 4.894114 GTCTGCCTGGGGACGTATATATAT 59.106 45.833 0.00 0.00 0.00 0.86
2932 6354 3.097614 GTCTGCCTGGGGACGTATATAT 58.902 50.000 0.00 0.00 0.00 0.86
2934 6356 1.339097 GTCTGCCTGGGGACGTATAT 58.661 55.000 0.00 0.00 0.00 0.86
2936 6358 0.691078 ATGTCTGCCTGGGGACGTAT 60.691 55.000 0.00 0.00 35.45 3.06
2938 6360 0.907704 TTATGTCTGCCTGGGGACGT 60.908 55.000 0.00 0.00 35.45 4.34
2939 6361 0.251916 TTTATGTCTGCCTGGGGACG 59.748 55.000 0.00 0.00 35.45 4.79
2940 6362 2.301346 CATTTATGTCTGCCTGGGGAC 58.699 52.381 0.00 0.00 0.00 4.46
2970 6392 1.682854 CATGGCTCCACACTTTGTTGT 59.317 47.619 0.00 0.00 0.00 3.32
3133 6557 6.443849 AGGTATGGGGTATGGACATTATACAG 59.556 42.308 0.00 0.00 33.66 2.74
3522 6989 2.292267 CAAGCCTGTGTGAACAAGAGT 58.708 47.619 0.00 0.00 0.00 3.24
3657 7134 1.111277 AACAAGAAGGTGGTTGTGGC 58.889 50.000 0.00 0.00 36.98 5.01
3861 9107 9.654663 ACATTTAGATAAGAAGAACTGTACACC 57.345 33.333 0.00 0.00 0.00 4.16
3927 9174 6.272822 AGGAAAAATAGTTGAAGGATGCAC 57.727 37.500 0.00 0.00 0.00 4.57
4030 10855 6.719370 AGTTGCCACCTTACATTTCTCAATAA 59.281 34.615 0.00 0.00 0.00 1.40
4175 11014 9.295825 AGTGAAATTTATGTGGTTTCTGTGATA 57.704 29.630 0.00 0.00 33.99 2.15
4425 11267 4.897025 AAGCTCTAAGCATGAGCAAATC 57.103 40.909 21.58 0.00 45.56 2.17
4713 12016 9.660180 AAGAAAACAAAAATTAAGCTGGTTACA 57.340 25.926 0.00 0.00 0.00 2.41
4851 12457 7.277319 CGGAGTAAATAAAAACAGAGGGAGTAC 59.723 40.741 0.00 0.00 0.00 2.73
4861 12467 9.116067 AGCTAATATGCGGAGTAAATAAAAACA 57.884 29.630 0.00 0.00 38.13 2.83
4864 12470 9.944663 CAAAGCTAATATGCGGAGTAAATAAAA 57.055 29.630 0.00 0.00 38.13 1.52
4865 12471 8.564574 CCAAAGCTAATATGCGGAGTAAATAAA 58.435 33.333 0.00 0.00 38.13 1.40
4866 12472 7.717875 ACCAAAGCTAATATGCGGAGTAAATAA 59.282 33.333 0.00 0.00 38.13 1.40
4867 12473 7.221450 ACCAAAGCTAATATGCGGAGTAAATA 58.779 34.615 0.00 0.00 38.13 1.40
4868 12474 6.062095 ACCAAAGCTAATATGCGGAGTAAAT 58.938 36.000 0.00 0.00 38.13 1.40
4869 12475 5.433526 ACCAAAGCTAATATGCGGAGTAAA 58.566 37.500 0.00 0.00 38.13 2.01
4870 12476 5.031066 ACCAAAGCTAATATGCGGAGTAA 57.969 39.130 0.00 0.00 38.13 2.24
4872 12478 3.118408 TGACCAAAGCTAATATGCGGAGT 60.118 43.478 0.00 0.00 38.13 3.85
4873 12479 3.466836 TGACCAAAGCTAATATGCGGAG 58.533 45.455 0.00 0.00 38.13 4.63
4874 12480 3.552132 TGACCAAAGCTAATATGCGGA 57.448 42.857 0.00 0.00 38.13 5.54
4875 12481 4.601019 CTTTGACCAAAGCTAATATGCGG 58.399 43.478 9.25 0.00 40.94 5.69
4887 12493 3.013921 ACGAAGCTTGACTTTGACCAAA 58.986 40.909 2.10 0.00 41.75 3.28
4888 12494 2.639065 ACGAAGCTTGACTTTGACCAA 58.361 42.857 2.10 0.00 41.75 3.67
4889 12495 2.325583 ACGAAGCTTGACTTTGACCA 57.674 45.000 2.10 0.00 41.75 4.02
4890 12496 4.272748 AGTTTACGAAGCTTGACTTTGACC 59.727 41.667 2.10 0.00 41.75 4.02
4891 12497 5.405331 AGTTTACGAAGCTTGACTTTGAC 57.595 39.130 2.10 0.00 41.75 3.18
4892 12498 6.431198 AAAGTTTACGAAGCTTGACTTTGA 57.569 33.333 2.10 0.00 41.75 2.69
4893 12499 6.482451 CAAAGTTTACGAAGCTTGACTTTG 57.518 37.500 21.42 21.42 43.93 2.77
4894 12500 6.128117 TGTCAAAGTTTACGAAGCTTGACTTT 60.128 34.615 2.10 9.31 39.29 2.66
4895 12501 5.353123 TGTCAAAGTTTACGAAGCTTGACTT 59.647 36.000 2.10 3.45 42.98 3.01
4896 12502 4.873827 TGTCAAAGTTTACGAAGCTTGACT 59.126 37.500 2.10 0.00 0.00 3.41
4897 12503 5.151632 TGTCAAAGTTTACGAAGCTTGAC 57.848 39.130 2.10 1.88 0.00 3.18
4898 12504 5.804692 TTGTCAAAGTTTACGAAGCTTGA 57.195 34.783 2.10 0.00 0.00 3.02
4899 12505 6.862944 TTTTGTCAAAGTTTACGAAGCTTG 57.137 33.333 2.10 0.00 0.00 4.01
4900 12506 8.474006 AAATTTTGTCAAAGTTTACGAAGCTT 57.526 26.923 14.99 0.00 29.90 3.74
4901 12507 8.474006 AAAATTTTGTCAAAGTTTACGAAGCT 57.526 26.923 16.40 0.47 38.17 3.74
4975 12581 9.631257 ATGATGTGGAAGTACATTCAATAATGA 57.369 29.630 5.18 0.00 44.50 2.57
5066 12672 5.460419 CCGCATATTAGAGTTGACTGAAGTC 59.540 44.000 3.41 3.41 44.97 3.01
5067 12673 5.127194 TCCGCATATTAGAGTTGACTGAAGT 59.873 40.000 0.00 0.00 0.00 3.01
5068 12674 5.592054 TCCGCATATTAGAGTTGACTGAAG 58.408 41.667 0.00 0.00 0.00 3.02
5069 12675 5.127194 ACTCCGCATATTAGAGTTGACTGAA 59.873 40.000 0.00 0.00 37.60 3.02
5070 12676 4.645136 ACTCCGCATATTAGAGTTGACTGA 59.355 41.667 0.00 0.00 37.60 3.41
5071 12677 4.938080 ACTCCGCATATTAGAGTTGACTG 58.062 43.478 0.00 0.00 37.60 3.51
5072 12678 6.710597 TTACTCCGCATATTAGAGTTGACT 57.289 37.500 4.78 0.00 41.09 3.41
5073 12679 7.948278 ATTTACTCCGCATATTAGAGTTGAC 57.052 36.000 4.78 0.00 41.09 3.18
5078 12684 9.793245 CGTTTTTATTTACTCCGCATATTAGAG 57.207 33.333 0.00 0.00 0.00 2.43
5079 12685 8.767085 CCGTTTTTATTTACTCCGCATATTAGA 58.233 33.333 0.00 0.00 0.00 2.10
5080 12686 8.767085 TCCGTTTTTATTTACTCCGCATATTAG 58.233 33.333 0.00 0.00 0.00 1.73
5081 12687 8.659925 TCCGTTTTTATTTACTCCGCATATTA 57.340 30.769 0.00 0.00 0.00 0.98
5082 12688 7.255001 CCTCCGTTTTTATTTACTCCGCATATT 60.255 37.037 0.00 0.00 0.00 1.28
5083 12689 6.204108 CCTCCGTTTTTATTTACTCCGCATAT 59.796 38.462 0.00 0.00 0.00 1.78
5084 12690 5.524646 CCTCCGTTTTTATTTACTCCGCATA 59.475 40.000 0.00 0.00 0.00 3.14
5085 12691 4.334481 CCTCCGTTTTTATTTACTCCGCAT 59.666 41.667 0.00 0.00 0.00 4.73
5086 12692 3.685756 CCTCCGTTTTTATTTACTCCGCA 59.314 43.478 0.00 0.00 0.00 5.69
5087 12693 3.064408 CCCTCCGTTTTTATTTACTCCGC 59.936 47.826 0.00 0.00 0.00 5.54
5088 12694 4.506758 TCCCTCCGTTTTTATTTACTCCG 58.493 43.478 0.00 0.00 0.00 4.63
5089 12695 5.494724 ACTCCCTCCGTTTTTATTTACTCC 58.505 41.667 0.00 0.00 0.00 3.85
5090 12696 8.728337 AATACTCCCTCCGTTTTTATTTACTC 57.272 34.615 0.00 0.00 0.00 2.59
5091 12697 8.323567 TGAATACTCCCTCCGTTTTTATTTACT 58.676 33.333 0.00 0.00 0.00 2.24
5092 12698 8.496707 TGAATACTCCCTCCGTTTTTATTTAC 57.503 34.615 0.00 0.00 0.00 2.01
5093 12699 9.169592 CTTGAATACTCCCTCCGTTTTTATTTA 57.830 33.333 0.00 0.00 0.00 1.40
5094 12700 7.362660 GCTTGAATACTCCCTCCGTTTTTATTT 60.363 37.037 0.00 0.00 0.00 1.40
5095 12701 6.095021 GCTTGAATACTCCCTCCGTTTTTATT 59.905 38.462 0.00 0.00 0.00 1.40
5096 12702 5.589050 GCTTGAATACTCCCTCCGTTTTTAT 59.411 40.000 0.00 0.00 0.00 1.40
5097 12703 4.939439 GCTTGAATACTCCCTCCGTTTTTA 59.061 41.667 0.00 0.00 0.00 1.52
5098 12704 3.756963 GCTTGAATACTCCCTCCGTTTTT 59.243 43.478 0.00 0.00 0.00 1.94
5099 12705 3.244770 TGCTTGAATACTCCCTCCGTTTT 60.245 43.478 0.00 0.00 0.00 2.43
5100 12706 2.304761 TGCTTGAATACTCCCTCCGTTT 59.695 45.455 0.00 0.00 0.00 3.60
5101 12707 1.906574 TGCTTGAATACTCCCTCCGTT 59.093 47.619 0.00 0.00 0.00 4.44
5223 12838 3.363844 GAGTCAGACCGCTCCAGGC 62.364 68.421 0.00 0.00 37.64 4.85
5545 13200 4.939509 ATTTAACCGTCTTTGGTCGATG 57.060 40.909 0.00 0.00 42.89 3.84
5609 13266 3.504906 AGTTCGTTAGGAGATTGTCGTCA 59.495 43.478 0.00 0.00 0.00 4.35
5764 13424 6.091713 CCAATTTCTTTTCAGCCATCATGTTC 59.908 38.462 0.00 0.00 0.00 3.18
5775 13435 5.458041 TTCTGCTCCCAATTTCTTTTCAG 57.542 39.130 0.00 0.00 0.00 3.02
5896 13556 9.136828 AGGACCCTATAGAATAAGGACATACTA 57.863 37.037 0.00 0.00 34.58 1.82
5897 13557 8.013806 AGGACCCTATAGAATAAGGACATACT 57.986 38.462 0.00 0.00 34.58 2.12
5898 13558 8.667592 AAGGACCCTATAGAATAAGGACATAC 57.332 38.462 0.00 0.00 34.58 2.39
6270 17977 5.248640 ACATGAAGATTCGTGGAGATGTTT 58.751 37.500 16.87 0.00 46.03 2.83


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

AutoCloner maintained by Alex Coulton.