Multiple sequence alignment - TraesCS7B01G203900

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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 TraesCS7B01G203900 chr7B 100.000 3144 0 0 1 3144 374312300 374315443 0.000000e+00 5806.0
1 TraesCS7B01G203900 chr7B 95.000 120 4 2 3027 3144 457410769 457410888 1.490000e-43 187.0
2 TraesCS7B01G203900 chr7D 96.286 2612 73 15 436 3040 378849764 378852358 0.000000e+00 4265.0
3 TraesCS7B01G203900 chr7D 90.838 382 20 3 1 368 76613818 76613438 6.060000e-137 497.0
4 TraesCS7B01G203900 chr7D 89.239 381 26 3 1 366 612013497 612013117 2.210000e-126 462.0
5 TraesCS7B01G203900 chr7D 89.607 356 23 2 23 364 123735644 123735289 1.040000e-119 440.0
6 TraesCS7B01G203900 chr7D 92.883 281 19 1 83 362 6443425 6443145 1.050000e-109 407.0
7 TraesCS7B01G203900 chr2A 95.349 1763 71 4 882 2640 338279376 338281131 0.000000e+00 2791.0
8 TraesCS7B01G203900 chr2A 95.354 452 19 2 436 885 338278845 338279296 0.000000e+00 717.0
9 TraesCS7B01G203900 chr2A 93.103 348 22 2 1 347 28814917 28814571 2.800000e-140 508.0
10 TraesCS7B01G203900 chr2A 88.352 352 30 11 2696 3040 338282378 338282725 2.260000e-111 412.0
11 TraesCS7B01G203900 chr2A 94.444 144 8 0 1 144 459097312 459097169 4.080000e-54 222.0
12 TraesCS7B01G203900 chr2A 81.600 250 37 5 2778 3023 361458804 361459048 6.880000e-47 198.0
13 TraesCS7B01G203900 chr2A 98.198 111 2 0 3034 3144 79316412 79316522 8.900000e-46 195.0
14 TraesCS7B01G203900 chr2A 99.057 106 1 0 3039 3144 706216338 706216233 1.150000e-44 191.0
15 TraesCS7B01G203900 chr7A 96.433 1486 45 4 964 2446 427288186 427289666 0.000000e+00 2444.0
16 TraesCS7B01G203900 chr7A 97.767 403 7 2 436 838 427287735 427288135 0.000000e+00 693.0
17 TraesCS7B01G203900 chr7A 92.727 110 8 0 2534 2643 466460550 466460441 3.250000e-35 159.0
18 TraesCS7B01G203900 chr7A 92.593 108 7 1 2531 2637 80134329 80134436 1.510000e-33 154.0
19 TraesCS7B01G203900 chr7A 92.063 63 4 1 2470 2531 427295748 427295810 1.550000e-13 87.9
20 TraesCS7B01G203900 chr3D 91.076 381 19 3 1 366 500536993 500537373 4.680000e-138 501.0
21 TraesCS7B01G203900 chr3D 88.535 157 5 1 1 144 56309418 56309574 8.960000e-41 178.0
22 TraesCS7B01G203900 chr3D 98.864 88 1 0 1 88 56303523 56303610 1.170000e-34 158.0
23 TraesCS7B01G203900 chr3D 97.727 88 2 0 1 88 56288626 56288713 5.430000e-33 152.0
24 TraesCS7B01G203900 chr3D 100.000 31 0 0 405 435 496149474 496149444 1.220000e-04 58.4
25 TraesCS7B01G203900 chr2B 89.583 384 25 5 1 369 496089284 496088901 1.020000e-129 473.0
26 TraesCS7B01G203900 chr2B 92.593 108 7 1 2531 2637 142947662 142947769 1.510000e-33 154.0
27 TraesCS7B01G203900 chr6D 90.027 371 22 3 1 356 176484726 176485096 1.710000e-127 466.0
28 TraesCS7B01G203900 chr4B 88.718 390 23 5 1 369 11722974 11722585 1.030000e-124 457.0
29 TraesCS7B01G203900 chr4B 99.057 106 1 0 3039 3144 324974001 324974106 1.150000e-44 191.0
30 TraesCS7B01G203900 chr1D 89.516 372 24 3 1 357 447396163 447395792 1.030000e-124 457.0
31 TraesCS7B01G203900 chr1D 99.074 108 1 0 3037 3144 36841376 36841269 8.900000e-46 195.0
32 TraesCS7B01G203900 chr4D 92.466 292 19 3 76 366 117704657 117704368 6.270000e-112 414.0
33 TraesCS7B01G203900 chr4D 99.074 108 1 0 3037 3144 472667889 472667996 8.900000e-46 195.0
34 TraesCS7B01G203900 chr1A 77.674 533 64 40 2534 3023 506548444 506547924 1.110000e-69 274.0
35 TraesCS7B01G203900 chr3B 84.034 238 27 6 2798 3028 39576961 39577194 5.280000e-53 219.0
36 TraesCS7B01G203900 chr3B 99.057 106 1 0 3039 3144 533015200 533015095 1.150000e-44 191.0
37 TraesCS7B01G203900 chr3B 87.898 157 6 1 1 144 829536343 829536187 4.170000e-39 172.0
38 TraesCS7B01G203900 chr3B 100.000 28 0 0 408 435 655310323 655310296 6.000000e-03 52.8
39 TraesCS7B01G203900 chr5A 82.996 247 30 10 2790 3031 519883970 519883731 2.460000e-51 213.0
40 TraesCS7B01G203900 chrUn 82.000 250 32 8 2778 3019 71400904 71401148 1.910000e-47 200.0
41 TraesCS7B01G203900 chrUn 82.000 250 32 8 2778 3019 71495623 71495867 1.910000e-47 200.0
42 TraesCS7B01G203900 chrUn 82.000 250 32 8 2778 3019 71556947 71557191 1.910000e-47 200.0
43 TraesCS7B01G203900 chr1B 96.552 116 2 2 3030 3144 359442176 359442290 1.150000e-44 191.0
44 TraesCS7B01G203900 chr1B 97.321 112 2 1 3033 3144 57105541 57105651 4.140000e-44 189.0
45 TraesCS7B01G203900 chr4A 92.727 110 8 0 2534 2643 613610083 613609974 3.250000e-35 159.0
46 TraesCS7B01G203900 chr5D 91.818 110 9 0 2534 2643 493525449 493525340 1.510000e-33 154.0
47 TraesCS7B01G203900 chr3A 91.818 110 9 0 2534 2643 142577081 142576972 1.510000e-33 154.0
48 TraesCS7B01G203900 chr3A 96.970 33 0 1 403 435 635485508 635485477 2.000000e-03 54.7
49 TraesCS7B01G203900 chr6A 91.743 109 8 1 2530 2637 604154316 604154424 1.950000e-32 150.0


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 TraesCS7B01G203900 chr7B 374312300 374315443 3143 False 5806.000000 5806 100.000000 1 3144 1 chr7B.!!$F1 3143
1 TraesCS7B01G203900 chr7D 378849764 378852358 2594 False 4265.000000 4265 96.286000 436 3040 1 chr7D.!!$F1 2604
2 TraesCS7B01G203900 chr2A 338278845 338282725 3880 False 1306.666667 2791 93.018333 436 3040 3 chr2A.!!$F3 2604
3 TraesCS7B01G203900 chr7A 427287735 427289666 1931 False 1568.500000 2444 97.100000 436 2446 2 chr7A.!!$F3 2010
4 TraesCS7B01G203900 chr1A 506547924 506548444 520 True 274.000000 274 77.674000 2534 3023 1 chr1A.!!$R1 489

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
397 398 0.036732 ATGGCGATGTTGACAGGTGT 59.963 50.0 0.0 0.0 0.00 4.16 F
402 403 0.235665 GATGTTGACAGGTGTGCGTG 59.764 55.0 0.0 0.0 36.63 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1758 1848 1.348696 TGCTCTTCAGATGGCACTTCA 59.651 47.619 0.00 0.0 0.0 3.02 R
2302 2395 2.070399 TTTTTACAGCAGGGCCCGGA 62.070 55.000 27.79 0.0 0.0 5.14 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
17 18 3.771160 ACACATCCTCCGCCGTCC 61.771 66.667 0.00 0.00 0.00 4.79
18 19 4.873129 CACATCCTCCGCCGTCCG 62.873 72.222 0.00 0.00 0.00 4.79
73 74 2.954611 GGAACGAAGCCACCAAGC 59.045 61.111 0.00 0.00 0.00 4.01
74 75 2.626780 GGAACGAAGCCACCAAGCC 61.627 63.158 0.00 0.00 0.00 4.35
75 76 2.597510 AACGAAGCCACCAAGCCC 60.598 61.111 0.00 0.00 0.00 5.19
76 77 4.660938 ACGAAGCCACCAAGCCCC 62.661 66.667 0.00 0.00 0.00 5.80
77 78 4.659172 CGAAGCCACCAAGCCCCA 62.659 66.667 0.00 0.00 0.00 4.96
78 79 2.037847 GAAGCCACCAAGCCCCAT 59.962 61.111 0.00 0.00 0.00 4.00
79 80 2.037847 AAGCCACCAAGCCCCATC 59.962 61.111 0.00 0.00 0.00 3.51
80 81 3.944250 AAGCCACCAAGCCCCATCG 62.944 63.158 0.00 0.00 0.00 3.84
81 82 4.424711 GCCACCAAGCCCCATCGA 62.425 66.667 0.00 0.00 0.00 3.59
82 83 2.124570 CCACCAAGCCCCATCGAG 60.125 66.667 0.00 0.00 0.00 4.04
83 84 2.124570 CACCAAGCCCCATCGAGG 60.125 66.667 0.00 0.00 37.03 4.63
92 93 2.419198 CCATCGAGGGCGGAGAAG 59.581 66.667 1.77 0.00 38.28 2.85
93 94 2.279784 CATCGAGGGCGGAGAAGC 60.280 66.667 0.00 0.00 38.28 3.86
94 95 2.443016 ATCGAGGGCGGAGAAGCT 60.443 61.111 0.00 0.00 38.28 3.74
95 96 1.152735 ATCGAGGGCGGAGAAGCTA 60.153 57.895 0.00 0.00 38.28 3.32
96 97 1.175983 ATCGAGGGCGGAGAAGCTAG 61.176 60.000 0.00 0.00 38.28 3.42
97 98 1.824329 CGAGGGCGGAGAAGCTAGA 60.824 63.158 0.00 0.00 37.29 2.43
98 99 1.175983 CGAGGGCGGAGAAGCTAGAT 61.176 60.000 0.00 0.00 37.29 1.98
99 100 0.601057 GAGGGCGGAGAAGCTAGATC 59.399 60.000 0.00 0.00 37.29 2.75
100 101 0.830023 AGGGCGGAGAAGCTAGATCC 60.830 60.000 0.00 0.00 37.29 3.36
104 105 1.668867 GGAGAAGCTAGATCCGGCC 59.331 63.158 0.00 0.00 0.00 6.13
105 106 1.115930 GGAGAAGCTAGATCCGGCCA 61.116 60.000 2.24 0.00 0.00 5.36
106 107 0.753262 GAGAAGCTAGATCCGGCCAA 59.247 55.000 2.24 0.00 0.00 4.52
107 108 1.139058 GAGAAGCTAGATCCGGCCAAA 59.861 52.381 2.24 0.00 0.00 3.28
108 109 1.134371 AGAAGCTAGATCCGGCCAAAC 60.134 52.381 2.24 0.00 0.00 2.93
109 110 0.107165 AAGCTAGATCCGGCCAAACC 60.107 55.000 2.24 0.00 0.00 3.27
110 111 1.526225 GCTAGATCCGGCCAAACCC 60.526 63.158 2.24 0.00 33.26 4.11
111 112 1.984288 GCTAGATCCGGCCAAACCCT 61.984 60.000 2.24 0.00 33.26 4.34
112 113 0.179045 CTAGATCCGGCCAAACCCTG 60.179 60.000 2.24 0.00 33.26 4.45
113 114 2.265467 TAGATCCGGCCAAACCCTGC 62.265 60.000 2.24 0.00 33.26 4.85
114 115 4.759205 ATCCGGCCAAACCCTGCC 62.759 66.667 2.24 0.00 44.41 4.85
119 120 2.037847 GCCAAACCCTGCCAGGAT 59.962 61.111 13.74 0.00 37.67 3.24
120 121 2.054453 GCCAAACCCTGCCAGGATC 61.054 63.158 13.74 0.00 37.67 3.36
121 122 1.380380 CCAAACCCTGCCAGGATCC 60.380 63.158 13.74 2.48 37.67 3.36
122 123 1.750399 CAAACCCTGCCAGGATCCG 60.750 63.158 13.74 0.00 37.67 4.18
123 124 2.983879 AAACCCTGCCAGGATCCGG 61.984 63.158 13.74 15.77 37.67 5.14
129 130 3.934962 GCCAGGATCCGGCCTCTC 61.935 72.222 27.42 8.31 44.22 3.20
130 131 3.237741 CCAGGATCCGGCCTCTCC 61.238 72.222 5.98 3.90 35.66 3.71
131 132 3.237741 CAGGATCCGGCCTCTCCC 61.238 72.222 5.98 0.00 35.66 4.30
132 133 4.565850 AGGATCCGGCCTCTCCCC 62.566 72.222 5.98 0.00 30.76 4.81
141 142 4.521062 CCTCTCCCCGCGCTGAAG 62.521 72.222 5.56 0.00 0.00 3.02
151 152 4.379243 CGCTGAAGCCACTCCCGT 62.379 66.667 0.00 0.00 37.91 5.28
152 153 2.743928 GCTGAAGCCACTCCCGTG 60.744 66.667 0.00 0.00 40.89 4.94
162 163 4.864334 CTCCCGTGGCCCTGCATC 62.864 72.222 0.00 0.00 0.00 3.91
164 165 4.864334 CCCGTGGCCCTGCATCTC 62.864 72.222 0.00 0.00 0.00 2.75
189 190 4.478371 CCTGAGGCGATGCAGGCA 62.478 66.667 13.74 0.00 44.53 4.75
190 191 2.895865 CTGAGGCGATGCAGGCAG 60.896 66.667 13.74 0.35 39.37 4.85
320 321 4.135153 CGAGGAGACCTGGCGGTG 62.135 72.222 5.76 0.00 45.73 4.94
321 322 3.775654 GAGGAGACCTGGCGGTGG 61.776 72.222 5.76 0.00 45.73 4.61
334 335 4.547367 GGTGGCGGCGCTAGGATT 62.547 66.667 32.30 0.00 0.00 3.01
335 336 2.967615 GTGGCGGCGCTAGGATTC 60.968 66.667 32.30 13.58 0.00 2.52
336 337 4.235762 TGGCGGCGCTAGGATTCC 62.236 66.667 32.30 12.78 0.00 3.01
337 338 4.990553 GGCGGCGCTAGGATTCCC 62.991 72.222 32.30 7.60 0.00 3.97
338 339 4.990553 GCGGCGCTAGGATTCCCC 62.991 72.222 26.86 0.00 0.00 4.81
339 340 4.315941 CGGCGCTAGGATTCCCCC 62.316 72.222 7.64 0.00 34.66 5.40
340 341 4.315941 GGCGCTAGGATTCCCCCG 62.316 72.222 7.64 1.11 34.66 5.73
341 342 3.231736 GCGCTAGGATTCCCCCGA 61.232 66.667 0.00 0.00 34.66 5.14
342 343 3.052081 CGCTAGGATTCCCCCGAG 58.948 66.667 0.00 0.00 34.66 4.63
343 344 1.833049 CGCTAGGATTCCCCCGAGT 60.833 63.158 0.00 0.00 32.39 4.18
344 345 1.807495 CGCTAGGATTCCCCCGAGTC 61.807 65.000 0.00 0.00 32.39 3.36
345 346 1.807495 GCTAGGATTCCCCCGAGTCG 61.807 65.000 5.29 5.29 32.39 4.18
346 347 1.807495 CTAGGATTCCCCCGAGTCGC 61.807 65.000 7.12 0.00 34.66 5.19
347 348 4.237207 GGATTCCCCCGAGTCGCC 62.237 72.222 7.12 0.00 0.00 5.54
348 349 4.237207 GATTCCCCCGAGTCGCCC 62.237 72.222 7.12 0.00 0.00 6.13
374 375 4.815108 GCGGGGGCGGGATTTTCT 62.815 66.667 0.00 0.00 0.00 2.52
375 376 2.044352 CGGGGGCGGGATTTTCTT 60.044 61.111 0.00 0.00 0.00 2.52
376 377 1.225148 CGGGGGCGGGATTTTCTTA 59.775 57.895 0.00 0.00 0.00 2.10
377 378 0.818040 CGGGGGCGGGATTTTCTTAG 60.818 60.000 0.00 0.00 0.00 2.18
378 379 0.549469 GGGGGCGGGATTTTCTTAGA 59.451 55.000 0.00 0.00 0.00 2.10
379 380 1.145119 GGGGGCGGGATTTTCTTAGAT 59.855 52.381 0.00 0.00 0.00 1.98
380 381 2.230660 GGGGCGGGATTTTCTTAGATG 58.769 52.381 0.00 0.00 0.00 2.90
381 382 2.230660 GGGCGGGATTTTCTTAGATGG 58.769 52.381 0.00 0.00 0.00 3.51
382 383 1.609072 GGCGGGATTTTCTTAGATGGC 59.391 52.381 0.00 0.00 0.00 4.40
383 384 1.264288 GCGGGATTTTCTTAGATGGCG 59.736 52.381 0.00 0.00 0.00 5.69
384 385 2.833794 CGGGATTTTCTTAGATGGCGA 58.166 47.619 0.00 0.00 0.00 5.54
385 386 3.403038 CGGGATTTTCTTAGATGGCGAT 58.597 45.455 0.00 0.00 0.00 4.58
386 387 3.187227 CGGGATTTTCTTAGATGGCGATG 59.813 47.826 0.00 0.00 0.00 3.84
387 388 4.137543 GGGATTTTCTTAGATGGCGATGT 58.862 43.478 0.00 0.00 0.00 3.06
388 389 4.580580 GGGATTTTCTTAGATGGCGATGTT 59.419 41.667 0.00 0.00 0.00 2.71
389 390 5.506317 GGGATTTTCTTAGATGGCGATGTTG 60.506 44.000 0.00 0.00 0.00 3.33
390 391 5.296780 GGATTTTCTTAGATGGCGATGTTGA 59.703 40.000 0.00 0.00 0.00 3.18
391 392 5.545658 TTTTCTTAGATGGCGATGTTGAC 57.454 39.130 0.00 0.00 0.00 3.18
392 393 3.885724 TCTTAGATGGCGATGTTGACA 57.114 42.857 0.00 0.00 0.00 3.58
393 394 3.785486 TCTTAGATGGCGATGTTGACAG 58.215 45.455 0.00 0.00 0.00 3.51
394 395 2.602257 TAGATGGCGATGTTGACAGG 57.398 50.000 0.00 0.00 0.00 4.00
395 396 0.615331 AGATGGCGATGTTGACAGGT 59.385 50.000 0.00 0.00 0.00 4.00
396 397 0.729116 GATGGCGATGTTGACAGGTG 59.271 55.000 0.00 0.00 0.00 4.00
397 398 0.036732 ATGGCGATGTTGACAGGTGT 59.963 50.000 0.00 0.00 0.00 4.16
398 399 0.884259 TGGCGATGTTGACAGGTGTG 60.884 55.000 0.00 0.00 0.00 3.82
399 400 1.207593 GCGATGTTGACAGGTGTGC 59.792 57.895 0.00 0.00 0.00 4.57
400 401 1.492873 CGATGTTGACAGGTGTGCG 59.507 57.895 0.00 0.00 0.00 5.34
401 402 1.221466 CGATGTTGACAGGTGTGCGT 61.221 55.000 0.00 0.00 0.00 5.24
402 403 0.235665 GATGTTGACAGGTGTGCGTG 59.764 55.000 0.00 0.00 36.63 5.34
403 404 1.785041 ATGTTGACAGGTGTGCGTGC 61.785 55.000 0.00 0.00 34.13 5.34
404 405 2.899838 TTGACAGGTGTGCGTGCC 60.900 61.111 0.00 0.00 34.13 5.01
405 406 3.399105 TTGACAGGTGTGCGTGCCT 62.399 57.895 0.00 0.00 34.13 4.75
406 407 3.044305 GACAGGTGTGCGTGCCTC 61.044 66.667 0.00 0.00 34.13 4.70
407 408 4.969196 ACAGGTGTGCGTGCCTCG 62.969 66.667 0.00 0.00 43.12 4.63
413 414 4.980805 GTGCGTGCCTCGGTCCAA 62.981 66.667 0.00 0.00 40.26 3.53
414 415 4.680237 TGCGTGCCTCGGTCCAAG 62.680 66.667 0.00 0.00 40.26 3.61
415 416 4.373116 GCGTGCCTCGGTCCAAGA 62.373 66.667 0.00 0.00 40.26 3.02
416 417 2.125912 CGTGCCTCGGTCCAAGAG 60.126 66.667 0.00 0.00 35.71 2.85
417 418 2.932234 CGTGCCTCGGTCCAAGAGT 61.932 63.158 0.00 0.00 34.08 3.24
418 419 1.371558 GTGCCTCGGTCCAAGAGTT 59.628 57.895 0.00 0.00 34.08 3.01
419 420 0.951040 GTGCCTCGGTCCAAGAGTTG 60.951 60.000 0.00 0.00 34.08 3.16
432 433 4.606457 CAAGAGTTGGGACGAATGATTC 57.394 45.455 0.00 0.00 0.00 2.52
433 434 4.256920 CAAGAGTTGGGACGAATGATTCT 58.743 43.478 3.43 0.00 0.00 2.40
434 435 3.866651 AGAGTTGGGACGAATGATTCTG 58.133 45.455 3.43 0.03 0.00 3.02
488 489 5.180492 CGTAATGCAGTTCCTTCTTTACCAA 59.820 40.000 0.00 0.00 0.00 3.67
545 546 5.163099 TGCAATTGCTACTGGATACCCTTAT 60.163 40.000 29.37 0.00 42.66 1.73
716 719 3.423539 TGATCACTTTTCACTCCCTGG 57.576 47.619 0.00 0.00 0.00 4.45
725 728 3.593442 TTCACTCCCTGGTTCATTTGT 57.407 42.857 0.00 0.00 0.00 2.83
918 1005 4.098914 TCTCTGCTTGGTGGTTACATTT 57.901 40.909 0.00 0.00 0.00 2.32
1332 1422 0.752658 GGGCCTTCAACTTGCAACTT 59.247 50.000 0.84 0.00 0.00 2.66
1476 1566 6.958767 ACTGATAGCAAACATAGTTAAGGGT 58.041 36.000 0.00 0.00 0.00 4.34
1758 1848 0.465705 CGGGATCAGCTGGTGTGTAT 59.534 55.000 15.13 0.00 0.00 2.29
2059 2151 7.367285 TCAAATTGCAACCTATGTTACAGTTC 58.633 34.615 0.00 0.00 29.36 3.01
2109 2201 2.409012 TGAACGAAGCTTTATCACGCA 58.591 42.857 0.00 0.00 0.00 5.24
2302 2395 8.319057 TCAGGTAGTTGTGGATTATCATAGTT 57.681 34.615 0.00 0.00 0.00 2.24
2391 2484 6.997239 ACTAAATTTACCTTTTAGCCCGAG 57.003 37.500 0.00 0.00 39.29 4.63
2406 2499 2.478539 GCCCGAGAAATTGAGATGTTGC 60.479 50.000 0.00 0.00 0.00 4.17
2455 2548 4.686091 GCTGGTAAAAACTTGCTCCAAATC 59.314 41.667 0.00 0.00 0.00 2.17
2630 2723 9.210329 TCTAACAACGACTCTAAATTTTATGCA 57.790 29.630 0.00 0.00 0.00 3.96
2662 3743 4.223923 CCCTAGATGACACCTGAAAAGACT 59.776 45.833 0.00 0.00 0.00 3.24
2669 3750 5.253330 TGACACCTGAAAAGACTCTTTTGT 58.747 37.500 19.43 12.19 0.00 2.83
2683 3767 8.006298 AGACTCTTTTGTCTCTCATATGGTAG 57.994 38.462 2.13 1.02 43.04 3.18
2730 3948 1.081641 GCTGTGTGTGTGATGCTGC 60.082 57.895 0.00 0.00 0.00 5.25
2731 3949 1.577922 CTGTGTGTGTGATGCTGCC 59.422 57.895 0.00 0.00 0.00 4.85
2755 3973 4.943591 GCTGCGTGCGTGTGTGTG 62.944 66.667 0.00 0.00 0.00 3.82
2758 3976 3.334751 GCGTGCGTGTGTGTGCTA 61.335 61.111 0.00 0.00 0.00 3.49
2759 3977 2.544359 CGTGCGTGTGTGTGCTAC 59.456 61.111 0.00 0.00 0.00 3.58
2760 3978 1.949133 CGTGCGTGTGTGTGCTACT 60.949 57.895 0.00 0.00 0.00 2.57
2761 3979 1.564622 GTGCGTGTGTGTGCTACTG 59.435 57.895 0.00 0.00 0.00 2.74
2762 3980 0.874175 GTGCGTGTGTGTGCTACTGA 60.874 55.000 0.00 0.00 0.00 3.41
2773 4063 0.605083 TGCTACTGACCTGCACTGAG 59.395 55.000 0.00 0.00 0.00 3.35
2840 4132 0.535102 GTTGTGTGTGCTACTGCCCT 60.535 55.000 0.00 0.00 38.71 5.19
2843 4135 0.736325 GTGTGTGCTACTGCCCTACG 60.736 60.000 0.00 0.00 38.71 3.51
2844 4136 1.183030 TGTGTGCTACTGCCCTACGT 61.183 55.000 0.00 0.00 38.71 3.57
2856 4148 1.202452 GCCCTACGTACACATACCACC 60.202 57.143 0.00 0.00 0.00 4.61
2893 4186 5.946377 GGGTCTTTTCAGGTGTCATTTAGAT 59.054 40.000 0.00 0.00 0.00 1.98
3044 4339 9.744468 GTTTCTCTAAACATTGTTTGGTGTTAT 57.256 29.630 22.04 0.00 43.73 1.89
3045 4340 9.743057 TTTCTCTAAACATTGTTTGGTGTTATG 57.257 29.630 22.04 9.00 37.56 1.90
3046 4341 7.881142 TCTCTAAACATTGTTTGGTGTTATGG 58.119 34.615 22.04 7.68 37.56 2.74
3047 4342 6.451393 TCTAAACATTGTTTGGTGTTATGGC 58.549 36.000 22.04 0.00 37.56 4.40
3048 4343 3.296322 ACATTGTTTGGTGTTATGGCG 57.704 42.857 0.00 0.00 0.00 5.69
3049 4344 1.991965 CATTGTTTGGTGTTATGGCGC 59.008 47.619 0.00 0.00 0.00 6.53
3050 4345 1.323412 TTGTTTGGTGTTATGGCGCT 58.677 45.000 7.64 0.00 0.00 5.92
3051 4346 0.595588 TGTTTGGTGTTATGGCGCTG 59.404 50.000 7.64 0.00 0.00 5.18
3052 4347 0.732538 GTTTGGTGTTATGGCGCTGC 60.733 55.000 7.64 0.00 0.00 5.25
3053 4348 0.893270 TTTGGTGTTATGGCGCTGCT 60.893 50.000 7.64 0.00 0.00 4.24
3054 4349 0.035915 TTGGTGTTATGGCGCTGCTA 60.036 50.000 7.64 0.00 0.00 3.49
3055 4350 0.461870 TGGTGTTATGGCGCTGCTAG 60.462 55.000 7.64 0.00 0.00 3.42
3056 4351 0.179084 GGTGTTATGGCGCTGCTAGA 60.179 55.000 7.64 0.00 0.00 2.43
3057 4352 1.651987 GTGTTATGGCGCTGCTAGAA 58.348 50.000 7.64 0.00 0.00 2.10
3058 4353 1.594862 GTGTTATGGCGCTGCTAGAAG 59.405 52.381 7.64 0.00 0.00 2.85
3059 4354 1.221414 GTTATGGCGCTGCTAGAAGG 58.779 55.000 7.64 0.00 0.00 3.46
3060 4355 1.119684 TTATGGCGCTGCTAGAAGGA 58.880 50.000 7.64 0.00 0.00 3.36
3061 4356 0.676184 TATGGCGCTGCTAGAAGGAG 59.324 55.000 7.64 0.00 36.68 3.69
3062 4357 2.037620 ATGGCGCTGCTAGAAGGAGG 62.038 60.000 7.64 0.00 33.92 4.30
3063 4358 2.107953 GCGCTGCTAGAAGGAGGG 59.892 66.667 0.00 7.93 46.69 4.30
3064 4359 2.107953 CGCTGCTAGAAGGAGGGC 59.892 66.667 0.00 0.00 39.48 5.19
3065 4360 2.107953 GCTGCTAGAAGGAGGGCG 59.892 66.667 0.00 0.00 33.92 6.13
3066 4361 2.107953 CTGCTAGAAGGAGGGCGC 59.892 66.667 0.00 0.00 29.18 6.53
3067 4362 3.781770 CTGCTAGAAGGAGGGCGCG 62.782 68.421 0.00 0.00 29.18 6.86
3068 4363 3.528370 GCTAGAAGGAGGGCGCGA 61.528 66.667 12.10 0.00 0.00 5.87
3069 4364 2.725008 CTAGAAGGAGGGCGCGAG 59.275 66.667 12.10 0.00 0.00 5.03
3070 4365 1.824329 CTAGAAGGAGGGCGCGAGA 60.824 63.158 12.10 0.00 0.00 4.04
3071 4366 1.791103 CTAGAAGGAGGGCGCGAGAG 61.791 65.000 12.10 0.00 0.00 3.20
3072 4367 4.214327 GAAGGAGGGCGCGAGAGG 62.214 72.222 12.10 0.00 0.00 3.69
3119 4414 2.368878 GGGCCAGAGGGAAGGGAT 60.369 66.667 4.39 0.00 35.59 3.85
3120 4415 2.009302 GGGCCAGAGGGAAGGGATT 61.009 63.158 4.39 0.00 35.59 3.01
3121 4416 1.584717 GGGCCAGAGGGAAGGGATTT 61.585 60.000 4.39 0.00 35.59 2.17
3122 4417 0.106469 GGCCAGAGGGAAGGGATTTC 60.106 60.000 0.00 0.00 35.59 2.17
3137 4432 6.782082 AGGGATTTCCTTCTTAATTCTTGC 57.218 37.500 0.00 0.00 45.47 4.01
3138 4433 6.497640 AGGGATTTCCTTCTTAATTCTTGCT 58.502 36.000 0.00 0.00 45.47 3.91
3139 4434 6.956435 AGGGATTTCCTTCTTAATTCTTGCTT 59.044 34.615 0.00 0.00 45.47 3.91
3140 4435 7.038048 GGGATTTCCTTCTTAATTCTTGCTTG 58.962 38.462 0.00 0.00 35.95 4.01
3141 4436 7.093771 GGGATTTCCTTCTTAATTCTTGCTTGA 60.094 37.037 0.00 0.00 35.95 3.02
3142 4437 8.473219 GGATTTCCTTCTTAATTCTTGCTTGAT 58.527 33.333 0.00 0.00 0.00 2.57
3143 4438 9.866798 GATTTCCTTCTTAATTCTTGCTTGATT 57.133 29.630 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.771160 GGACGGCGGAGGATGTGT 61.771 66.667 13.24 0.00 0.00 3.72
1 2 4.873129 CGGACGGCGGAGGATGTG 62.873 72.222 13.24 0.00 0.00 3.21
54 55 2.281208 TTGGTGGCTTCGTTCCGG 60.281 61.111 0.00 0.00 0.00 5.14
55 56 2.966309 GCTTGGTGGCTTCGTTCCG 61.966 63.158 0.00 0.00 0.00 4.30
56 57 2.626780 GGCTTGGTGGCTTCGTTCC 61.627 63.158 0.00 0.00 38.32 3.62
57 58 2.626780 GGGCTTGGTGGCTTCGTTC 61.627 63.158 0.00 0.00 41.48 3.95
58 59 2.597510 GGGCTTGGTGGCTTCGTT 60.598 61.111 0.00 0.00 41.48 3.85
59 60 4.660938 GGGGCTTGGTGGCTTCGT 62.661 66.667 0.00 0.00 41.48 3.85
60 61 3.944250 ATGGGGCTTGGTGGCTTCG 62.944 63.158 0.00 0.00 41.48 3.79
61 62 2.037847 ATGGGGCTTGGTGGCTTC 59.962 61.111 0.00 0.00 41.48 3.86
62 63 2.037847 GATGGGGCTTGGTGGCTT 59.962 61.111 0.00 0.00 41.48 4.35
63 64 4.431131 CGATGGGGCTTGGTGGCT 62.431 66.667 0.00 0.00 41.48 4.75
64 65 4.424711 TCGATGGGGCTTGGTGGC 62.425 66.667 0.00 0.00 40.96 5.01
65 66 2.124570 CTCGATGGGGCTTGGTGG 60.125 66.667 0.00 0.00 0.00 4.61
66 67 2.124570 CCTCGATGGGGCTTGGTG 60.125 66.667 0.00 0.00 0.00 4.17
75 76 2.419198 CTTCTCCGCCCTCGATGG 59.581 66.667 1.78 1.78 38.10 3.51
76 77 1.456196 TAGCTTCTCCGCCCTCGATG 61.456 60.000 0.00 0.00 38.10 3.84
77 78 1.152735 TAGCTTCTCCGCCCTCGAT 60.153 57.895 0.00 0.00 38.10 3.59
78 79 1.824329 CTAGCTTCTCCGCCCTCGA 60.824 63.158 0.00 0.00 38.10 4.04
79 80 1.175983 ATCTAGCTTCTCCGCCCTCG 61.176 60.000 0.00 0.00 0.00 4.63
80 81 0.601057 GATCTAGCTTCTCCGCCCTC 59.399 60.000 0.00 0.00 0.00 4.30
81 82 0.830023 GGATCTAGCTTCTCCGCCCT 60.830 60.000 0.00 0.00 0.00 5.19
82 83 1.668867 GGATCTAGCTTCTCCGCCC 59.331 63.158 0.00 0.00 0.00 6.13
83 84 1.287503 CGGATCTAGCTTCTCCGCC 59.712 63.158 15.49 0.38 44.65 6.13
84 85 4.955089 CGGATCTAGCTTCTCCGC 57.045 61.111 15.49 0.00 44.65 5.54
86 87 1.115930 TGGCCGGATCTAGCTTCTCC 61.116 60.000 5.05 0.00 0.00 3.71
87 88 0.753262 TTGGCCGGATCTAGCTTCTC 59.247 55.000 5.05 0.00 0.00 2.87
88 89 1.134371 GTTTGGCCGGATCTAGCTTCT 60.134 52.381 5.05 0.00 0.00 2.85
89 90 1.300481 GTTTGGCCGGATCTAGCTTC 58.700 55.000 5.05 0.00 0.00 3.86
90 91 0.107165 GGTTTGGCCGGATCTAGCTT 60.107 55.000 5.05 0.00 0.00 3.74
91 92 1.527370 GGTTTGGCCGGATCTAGCT 59.473 57.895 5.05 0.00 0.00 3.32
92 93 1.526225 GGGTTTGGCCGGATCTAGC 60.526 63.158 5.05 0.00 38.44 3.42
93 94 0.179045 CAGGGTTTGGCCGGATCTAG 60.179 60.000 5.05 0.00 38.44 2.43
94 95 1.912220 CAGGGTTTGGCCGGATCTA 59.088 57.895 5.05 0.00 38.44 1.98
95 96 2.677228 CAGGGTTTGGCCGGATCT 59.323 61.111 5.05 0.00 38.44 2.75
96 97 3.140814 GCAGGGTTTGGCCGGATC 61.141 66.667 5.05 0.00 38.44 3.36
97 98 4.759205 GGCAGGGTTTGGCCGGAT 62.759 66.667 5.05 0.00 46.14 4.18
103 104 1.380380 GGATCCTGGCAGGGTTTGG 60.380 63.158 32.23 7.86 35.59 3.28
104 105 1.750399 CGGATCCTGGCAGGGTTTG 60.750 63.158 32.23 18.23 35.59 2.93
105 106 2.677228 CGGATCCTGGCAGGGTTT 59.323 61.111 32.23 17.90 35.59 3.27
106 107 3.411517 CCGGATCCTGGCAGGGTT 61.412 66.667 32.23 20.46 35.59 4.11
113 114 3.237741 GGAGAGGCCGGATCCTGG 61.238 72.222 5.05 13.74 36.38 4.45
114 115 3.237741 GGGAGAGGCCGGATCCTG 61.238 72.222 19.41 4.14 36.38 3.86
115 116 4.565850 GGGGAGAGGCCGGATCCT 62.566 72.222 19.41 1.74 39.67 3.24
124 125 4.521062 CTTCAGCGCGGGGAGAGG 62.521 72.222 8.83 0.00 0.00 3.69
134 135 4.379243 ACGGGAGTGGCTTCAGCG 62.379 66.667 0.00 0.00 44.82 5.18
145 146 4.864334 GATGCAGGGCCACGGGAG 62.864 72.222 6.18 0.00 0.00 4.30
147 148 4.864334 GAGATGCAGGGCCACGGG 62.864 72.222 6.18 0.00 0.00 5.28
173 174 2.895865 CTGCCTGCATCGCCTCAG 60.896 66.667 3.67 0.00 0.00 3.35
208 209 4.814294 CGTTTCCCCTCTCCGCGG 62.814 72.222 22.12 22.12 0.00 6.46
281 282 4.214327 CTCCCTCGCTTCGCCTCC 62.214 72.222 0.00 0.00 0.00 4.30
282 283 4.214327 CCTCCCTCGCTTCGCCTC 62.214 72.222 0.00 0.00 0.00 4.70
296 297 4.467107 AGGTCTCCTCGCCCCCTC 62.467 72.222 0.00 0.00 0.00 4.30
297 298 4.787280 CAGGTCTCCTCGCCCCCT 62.787 72.222 0.00 0.00 0.00 4.79
317 318 4.547367 AATCCTAGCGCCGCCACC 62.547 66.667 4.98 0.00 0.00 4.61
318 319 2.967615 GAATCCTAGCGCCGCCAC 60.968 66.667 4.98 0.00 0.00 5.01
319 320 4.235762 GGAATCCTAGCGCCGCCA 62.236 66.667 4.98 0.00 0.00 5.69
320 321 4.990553 GGGAATCCTAGCGCCGCC 62.991 72.222 4.98 0.00 0.00 6.13
321 322 4.990553 GGGGAATCCTAGCGCCGC 62.991 72.222 2.29 0.00 0.00 6.53
322 323 4.315941 GGGGGAATCCTAGCGCCG 62.316 72.222 2.29 0.00 37.94 6.46
323 324 4.315941 CGGGGGAATCCTAGCGCC 62.316 72.222 2.29 0.00 36.47 6.53
324 325 3.227792 CTCGGGGGAATCCTAGCGC 62.228 68.421 0.00 0.00 35.33 5.92
325 326 1.807495 GACTCGGGGGAATCCTAGCG 61.807 65.000 0.00 0.00 35.33 4.26
326 327 1.807495 CGACTCGGGGGAATCCTAGC 61.807 65.000 0.00 0.00 35.33 3.42
327 328 1.807495 GCGACTCGGGGGAATCCTAG 61.807 65.000 0.00 0.00 35.33 3.02
328 329 1.831286 GCGACTCGGGGGAATCCTA 60.831 63.158 0.00 0.00 35.33 2.94
329 330 3.155167 GCGACTCGGGGGAATCCT 61.155 66.667 0.00 0.00 35.33 3.24
330 331 4.237207 GGCGACTCGGGGGAATCC 62.237 72.222 0.00 0.00 0.00 3.01
331 332 4.237207 GGGCGACTCGGGGGAATC 62.237 72.222 0.00 0.00 0.00 2.52
357 358 2.897172 TAAGAAAATCCCGCCCCCGC 62.897 60.000 0.00 0.00 0.00 6.13
358 359 0.818040 CTAAGAAAATCCCGCCCCCG 60.818 60.000 0.00 0.00 0.00 5.73
359 360 0.549469 TCTAAGAAAATCCCGCCCCC 59.451 55.000 0.00 0.00 0.00 5.40
360 361 2.230660 CATCTAAGAAAATCCCGCCCC 58.769 52.381 0.00 0.00 0.00 5.80
361 362 2.230660 CCATCTAAGAAAATCCCGCCC 58.769 52.381 0.00 0.00 0.00 6.13
362 363 1.609072 GCCATCTAAGAAAATCCCGCC 59.391 52.381 0.00 0.00 0.00 6.13
363 364 1.264288 CGCCATCTAAGAAAATCCCGC 59.736 52.381 0.00 0.00 0.00 6.13
364 365 2.833794 TCGCCATCTAAGAAAATCCCG 58.166 47.619 0.00 0.00 0.00 5.14
365 366 4.137543 ACATCGCCATCTAAGAAAATCCC 58.862 43.478 0.00 0.00 0.00 3.85
366 367 5.296780 TCAACATCGCCATCTAAGAAAATCC 59.703 40.000 0.00 0.00 0.00 3.01
367 368 6.183360 TGTCAACATCGCCATCTAAGAAAATC 60.183 38.462 0.00 0.00 0.00 2.17
368 369 5.647658 TGTCAACATCGCCATCTAAGAAAAT 59.352 36.000 0.00 0.00 0.00 1.82
369 370 5.000591 TGTCAACATCGCCATCTAAGAAAA 58.999 37.500 0.00 0.00 0.00 2.29
370 371 4.574892 TGTCAACATCGCCATCTAAGAAA 58.425 39.130 0.00 0.00 0.00 2.52
371 372 4.183865 CTGTCAACATCGCCATCTAAGAA 58.816 43.478 0.00 0.00 0.00 2.52
372 373 3.430790 CCTGTCAACATCGCCATCTAAGA 60.431 47.826 0.00 0.00 0.00 2.10
373 374 2.868583 CCTGTCAACATCGCCATCTAAG 59.131 50.000 0.00 0.00 0.00 2.18
374 375 2.236146 ACCTGTCAACATCGCCATCTAA 59.764 45.455 0.00 0.00 0.00 2.10
375 376 1.831106 ACCTGTCAACATCGCCATCTA 59.169 47.619 0.00 0.00 0.00 1.98
376 377 0.615331 ACCTGTCAACATCGCCATCT 59.385 50.000 0.00 0.00 0.00 2.90
377 378 0.729116 CACCTGTCAACATCGCCATC 59.271 55.000 0.00 0.00 0.00 3.51
378 379 0.036732 ACACCTGTCAACATCGCCAT 59.963 50.000 0.00 0.00 0.00 4.40
379 380 0.884259 CACACCTGTCAACATCGCCA 60.884 55.000 0.00 0.00 0.00 5.69
380 381 1.868997 CACACCTGTCAACATCGCC 59.131 57.895 0.00 0.00 0.00 5.54
381 382 1.207593 GCACACCTGTCAACATCGC 59.792 57.895 0.00 0.00 0.00 4.58
382 383 1.221466 ACGCACACCTGTCAACATCG 61.221 55.000 0.00 0.00 0.00 3.84
383 384 0.235665 CACGCACACCTGTCAACATC 59.764 55.000 0.00 0.00 0.00 3.06
384 385 1.785041 GCACGCACACCTGTCAACAT 61.785 55.000 0.00 0.00 0.00 2.71
385 386 2.468670 GCACGCACACCTGTCAACA 61.469 57.895 0.00 0.00 0.00 3.33
386 387 2.327940 GCACGCACACCTGTCAAC 59.672 61.111 0.00 0.00 0.00 3.18
387 388 2.899838 GGCACGCACACCTGTCAA 60.900 61.111 0.00 0.00 0.00 3.18
388 389 3.807631 GAGGCACGCACACCTGTCA 62.808 63.158 0.00 0.00 36.05 3.58
389 390 3.044305 GAGGCACGCACACCTGTC 61.044 66.667 0.00 0.00 36.05 3.51
390 391 4.969196 CGAGGCACGCACACCTGT 62.969 66.667 0.00 0.00 36.05 4.00
396 397 4.980805 TTGGACCGAGGCACGCAC 62.981 66.667 0.00 0.00 41.07 5.34
397 398 4.680237 CTTGGACCGAGGCACGCA 62.680 66.667 0.00 0.00 41.07 5.24
398 399 4.373116 TCTTGGACCGAGGCACGC 62.373 66.667 9.00 0.00 41.07 5.34
399 400 2.125912 CTCTTGGACCGAGGCACG 60.126 66.667 9.00 0.00 42.18 5.34
400 401 0.951040 CAACTCTTGGACCGAGGCAC 60.951 60.000 9.00 0.00 32.83 5.01
401 402 1.371183 CAACTCTTGGACCGAGGCA 59.629 57.895 9.00 0.00 32.83 4.75
402 403 4.285851 CAACTCTTGGACCGAGGC 57.714 61.111 9.00 0.00 32.83 4.70
408 409 8.963455 AGAATCATTCGTCCCAACTCTTGGAC 62.963 46.154 2.37 0.00 43.55 4.02
409 410 7.036137 AGAATCATTCGTCCCAACTCTTGGA 62.036 44.000 2.37 0.00 43.55 3.53
410 411 4.864588 AGAATCATTCGTCCCAACTCTTGG 60.865 45.833 0.00 0.00 41.84 3.61
411 412 4.093998 CAGAATCATTCGTCCCAACTCTTG 59.906 45.833 0.00 0.00 34.02 3.02
412 413 4.020218 TCAGAATCATTCGTCCCAACTCTT 60.020 41.667 0.00 0.00 34.02 2.85
413 414 3.515502 TCAGAATCATTCGTCCCAACTCT 59.484 43.478 0.00 0.00 34.02 3.24
414 415 3.861840 TCAGAATCATTCGTCCCAACTC 58.138 45.455 0.00 0.00 34.02 3.01
415 416 3.369892 CCTCAGAATCATTCGTCCCAACT 60.370 47.826 0.00 0.00 34.02 3.16
416 417 2.939103 CCTCAGAATCATTCGTCCCAAC 59.061 50.000 0.00 0.00 34.02 3.77
417 418 2.837591 TCCTCAGAATCATTCGTCCCAA 59.162 45.455 0.00 0.00 34.02 4.12
418 419 2.432146 CTCCTCAGAATCATTCGTCCCA 59.568 50.000 0.00 0.00 34.02 4.37
419 420 2.432510 ACTCCTCAGAATCATTCGTCCC 59.567 50.000 0.00 0.00 34.02 4.46
420 421 3.810310 ACTCCTCAGAATCATTCGTCC 57.190 47.619 0.00 0.00 34.02 4.79
421 422 4.098044 TGGTACTCCTCAGAATCATTCGTC 59.902 45.833 0.00 0.00 32.60 4.20
422 423 4.023980 TGGTACTCCTCAGAATCATTCGT 58.976 43.478 0.00 0.00 32.60 3.85
423 424 4.500545 CCTGGTACTCCTCAGAATCATTCG 60.501 50.000 0.00 0.00 33.11 3.34
424 425 4.202305 CCCTGGTACTCCTCAGAATCATTC 60.202 50.000 0.00 0.00 33.11 2.67
425 426 3.713764 CCCTGGTACTCCTCAGAATCATT 59.286 47.826 0.00 0.00 33.11 2.57
426 427 3.312890 CCCTGGTACTCCTCAGAATCAT 58.687 50.000 0.00 0.00 33.11 2.45
427 428 2.752030 CCCTGGTACTCCTCAGAATCA 58.248 52.381 0.00 0.00 33.11 2.57
428 429 1.414550 GCCCTGGTACTCCTCAGAATC 59.585 57.143 0.00 0.00 33.11 2.52
429 430 1.008938 AGCCCTGGTACTCCTCAGAAT 59.991 52.381 0.00 0.00 33.11 2.40
430 431 0.413832 AGCCCTGGTACTCCTCAGAA 59.586 55.000 0.00 0.00 33.11 3.02
431 432 0.324738 CAGCCCTGGTACTCCTCAGA 60.325 60.000 0.00 0.00 33.11 3.27
432 433 1.333636 CCAGCCCTGGTACTCCTCAG 61.334 65.000 6.15 0.00 45.53 3.35
433 434 1.306141 CCAGCCCTGGTACTCCTCA 60.306 63.158 6.15 0.00 45.53 3.86
434 435 3.635510 CCAGCCCTGGTACTCCTC 58.364 66.667 6.15 0.00 45.53 3.71
488 489 2.895404 AGCTCTCACAATGGTTGCATTT 59.105 40.909 0.00 0.00 0.00 2.32
725 728 7.307160 CGCAGCCGTGATCTATTTTATAAGAAA 60.307 37.037 0.00 0.00 0.00 2.52
958 1045 3.989104 CCGCGGAGGAATAGAACAT 57.011 52.632 24.07 0.00 45.00 2.71
1332 1422 1.902508 CTGTAGTTCTCCTTGCTGGGA 59.097 52.381 0.00 0.00 36.20 4.37
1476 1566 1.613255 GCTTTTCGGACAATCCAGGGA 60.613 52.381 0.00 0.00 35.91 4.20
1758 1848 1.348696 TGCTCTTCAGATGGCACTTCA 59.651 47.619 0.00 0.00 0.00 3.02
1919 2009 2.354510 TGCTGCACTTACCAATTATCGC 59.645 45.455 0.00 0.00 0.00 4.58
2033 2125 7.466746 ACTGTAACATAGGTTGCAATTTGAT 57.533 32.000 12.03 0.00 46.64 2.57
2059 2151 9.605275 TCAGAAACATTTTCAGATACATCCTAG 57.395 33.333 1.72 0.00 0.00 3.02
2302 2395 2.070399 TTTTTACAGCAGGGCCCGGA 62.070 55.000 27.79 0.00 0.00 5.14
2391 2484 6.312918 AGAATGCAATGCAACATCTCAATTTC 59.687 34.615 13.45 7.37 43.62 2.17
2406 2499 4.023963 CACAGCCAGATAGAGAATGCAATG 60.024 45.833 0.00 0.00 0.00 2.82
2455 2548 3.771160 CTCCGGGTTCCACGAGGG 61.771 72.222 0.00 0.00 34.83 4.30
2532 2625 6.373495 ACACGGTGTTAAATAAGGAATTCTCC 59.627 38.462 8.21 0.00 42.81 3.71
2630 2723 6.386927 TCAGGTGTCATCTAGGGTCATAAAAT 59.613 38.462 0.00 0.00 0.00 1.82
2644 3725 6.038714 ACAAAAGAGTCTTTTCAGGTGTCATC 59.961 38.462 24.77 0.00 0.00 2.92
2662 3743 8.375506 ACAAACTACCATATGAGAGACAAAAGA 58.624 33.333 3.65 0.00 0.00 2.52
2669 3750 5.419542 GTGCACAAACTACCATATGAGAGA 58.580 41.667 13.17 0.00 0.00 3.10
2671 3752 4.180817 CGTGCACAAACTACCATATGAGA 58.819 43.478 18.64 0.00 0.00 3.27
2730 3948 4.081030 CGCACGCAGCAAGACAGG 62.081 66.667 0.00 0.00 46.13 4.00
2731 3949 3.341043 ACGCACGCAGCAAGACAG 61.341 61.111 0.00 0.00 46.13 3.51
2755 3973 0.108424 CCTCAGTGCAGGTCAGTAGC 60.108 60.000 0.00 0.00 0.00 3.58
2757 3975 1.344438 CAACCTCAGTGCAGGTCAGTA 59.656 52.381 12.78 0.00 46.97 2.74
2758 3976 0.107456 CAACCTCAGTGCAGGTCAGT 59.893 55.000 12.78 0.00 46.97 3.41
2759 3977 0.107456 ACAACCTCAGTGCAGGTCAG 59.893 55.000 12.78 11.28 46.97 3.51
2760 3978 0.179048 CACAACCTCAGTGCAGGTCA 60.179 55.000 12.78 0.00 46.97 4.02
2761 3979 0.179045 ACACAACCTCAGTGCAGGTC 60.179 55.000 12.78 0.00 46.97 3.85
2773 4063 1.597027 AGCGGCAGTACACACAACC 60.597 57.895 1.45 0.00 0.00 3.77
2816 4106 2.096069 GCAGTAGCACACACAACATCAG 60.096 50.000 0.00 0.00 41.58 2.90
2840 4132 3.018856 CCTCAGGTGGTATGTGTACGTA 58.981 50.000 0.00 0.00 0.00 3.57
2843 4135 1.485066 CCCCTCAGGTGGTATGTGTAC 59.515 57.143 0.00 0.00 0.00 2.90
2844 4136 1.874129 CCCCTCAGGTGGTATGTGTA 58.126 55.000 0.00 0.00 0.00 2.90
2856 4148 1.068121 AAGACCCTTTCACCCCTCAG 58.932 55.000 0.00 0.00 0.00 3.35
2893 4186 9.619316 CTTTATGACATTTTCGTCCATTTTGTA 57.381 29.630 0.00 0.00 34.88 2.41
2997 4292 8.739972 AGAAACAATTCCTTATTTGACGCTATT 58.260 29.630 0.00 0.00 36.12 1.73
3040 4335 1.202533 TCCTTCTAGCAGCGCCATAAC 60.203 52.381 2.29 0.00 0.00 1.89
3041 4336 1.069204 CTCCTTCTAGCAGCGCCATAA 59.931 52.381 2.29 0.00 0.00 1.90
3042 4337 0.676184 CTCCTTCTAGCAGCGCCATA 59.324 55.000 2.29 0.00 0.00 2.74
3043 4338 1.445095 CTCCTTCTAGCAGCGCCAT 59.555 57.895 2.29 0.00 0.00 4.40
3044 4339 2.725312 CCTCCTTCTAGCAGCGCCA 61.725 63.158 2.29 0.00 0.00 5.69
3045 4340 2.107953 CCTCCTTCTAGCAGCGCC 59.892 66.667 2.29 0.00 0.00 6.53
3046 4341 2.107953 CCCTCCTTCTAGCAGCGC 59.892 66.667 0.00 0.00 0.00 5.92
3047 4342 2.107953 GCCCTCCTTCTAGCAGCG 59.892 66.667 0.00 0.00 0.00 5.18
3048 4343 2.107953 CGCCCTCCTTCTAGCAGC 59.892 66.667 0.00 0.00 0.00 5.25
3049 4344 2.107953 GCGCCCTCCTTCTAGCAG 59.892 66.667 0.00 0.00 0.00 4.24
3050 4345 3.838271 CGCGCCCTCCTTCTAGCA 61.838 66.667 0.00 0.00 0.00 3.49
3051 4346 3.492311 CTCGCGCCCTCCTTCTAGC 62.492 68.421 0.00 0.00 0.00 3.42
3052 4347 1.791103 CTCTCGCGCCCTCCTTCTAG 61.791 65.000 0.00 0.00 0.00 2.43
3053 4348 1.824329 CTCTCGCGCCCTCCTTCTA 60.824 63.158 0.00 0.00 0.00 2.10
3054 4349 3.144193 CTCTCGCGCCCTCCTTCT 61.144 66.667 0.00 0.00 0.00 2.85
3055 4350 4.214327 CCTCTCGCGCCCTCCTTC 62.214 72.222 0.00 0.00 0.00 3.46
3102 4397 1.584717 AAATCCCTTCCCTCTGGCCC 61.585 60.000 0.00 0.00 0.00 5.80
3103 4398 0.106469 GAAATCCCTTCCCTCTGGCC 60.106 60.000 0.00 0.00 0.00 5.36
3104 4399 3.503998 GAAATCCCTTCCCTCTGGC 57.496 57.895 0.00 0.00 0.00 4.85
3115 4410 6.782082 AGCAAGAATTAAGAAGGAAATCCC 57.218 37.500 0.00 0.00 36.42 3.85
3116 4411 7.830739 TCAAGCAAGAATTAAGAAGGAAATCC 58.169 34.615 0.00 0.00 0.00 3.01
3117 4412 9.866798 AATCAAGCAAGAATTAAGAAGGAAATC 57.133 29.630 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.