Multiple sequence alignment - TraesCS2D01G269600

Loading Multiple Alignment...

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 TraesCS2D01G269600 chr2D 100.000 2381 0 0 1 2381 331739663 331737283 0.000000e+00 4397.0
1 TraesCS2D01G269600 chr2D 82.247 721 68 30 989 1686 73286457 73285774 3.430000e-158 568.0
2 TraesCS2D01G269600 chr2B 94.578 1826 53 18 587 2381 399935679 399933869 0.000000e+00 2782.0
3 TraesCS2D01G269600 chr2B 86.555 238 19 5 116 341 399935905 399935669 1.410000e-62 250.0
4 TraesCS2D01G269600 chr2A 90.495 1252 80 23 466 1697 439201534 439200302 0.000000e+00 1616.0
5 TraesCS2D01G269600 chr2A 92.661 545 26 6 1747 2287 439200062 439199528 0.000000e+00 773.0
6 TraesCS2D01G269600 chr2A 84.000 100 16 0 21 120 393391397 393391496 1.950000e-16 97.1
7 TraesCS2D01G269600 chr7A 83.265 735 91 21 1013 1729 139200793 139200073 0.000000e+00 647.0
8 TraesCS2D01G269600 chr7A 84.891 503 50 16 1241 1729 607561670 607562160 3.560000e-133 484.0
9 TraesCS2D01G269600 chr7A 79.620 736 87 35 978 1684 453358001 453357300 9.960000e-129 470.0
10 TraesCS2D01G269600 chr7A 79.343 731 87 32 983 1684 453207042 453206347 2.790000e-124 455.0
11 TraesCS2D01G269600 chr7A 79.212 736 90 31 978 1684 453275888 453275187 1.000000e-123 453.0
12 TraesCS2D01G269600 chr7A 78.804 736 93 32 978 1684 453402581 453401880 1.010000e-118 436.0
13 TraesCS2D01G269600 chr4B 81.502 719 89 18 1026 1729 134954225 134954914 3.460000e-153 551.0
14 TraesCS2D01G269600 chr5A 80.675 326 42 16 418 724 542150527 542150204 1.420000e-57 233.0
15 TraesCS2D01G269600 chr5A 82.828 99 17 0 21 119 461883756 461883854 3.260000e-14 89.8
16 TraesCS2D01G269600 chr5A 82.000 100 18 0 21 120 591484449 591484350 4.220000e-13 86.1
17 TraesCS2D01G269600 chr1A 84.167 120 18 1 1 120 533142713 533142831 5.380000e-22 115.0
18 TraesCS2D01G269600 chrUn 81.250 128 18 4 506 633 206998104 206997983 5.420000e-17 99.0
19 TraesCS2D01G269600 chr6A 83.168 101 15 2 21 120 113198548 113198449 9.060000e-15 91.6
20 TraesCS2D01G269600 chr1B 83.168 101 15 2 21 120 494895771 494895870 9.060000e-15 91.6
21 TraesCS2D01G269600 chr1B 80.342 117 23 0 21 137 684002855 684002739 3.260000e-14 89.8
22 TraesCS2D01G269600 chr3B 82.000 100 18 0 21 120 540449298 540449397 4.220000e-13 86.1
23 TraesCS2D01G269600 chr3A 82.000 100 18 0 21 120 738124930 738125029 4.220000e-13 86.1


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 TraesCS2D01G269600 chr2D 331737283 331739663 2380 True 4397.0 4397 100.0000 1 2381 1 chr2D.!!$R2 2380
1 TraesCS2D01G269600 chr2D 73285774 73286457 683 True 568.0 568 82.2470 989 1686 1 chr2D.!!$R1 697
2 TraesCS2D01G269600 chr2B 399933869 399935905 2036 True 1516.0 2782 90.5665 116 2381 2 chr2B.!!$R1 2265
3 TraesCS2D01G269600 chr2A 439199528 439201534 2006 True 1194.5 1616 91.5780 466 2287 2 chr2A.!!$R1 1821
4 TraesCS2D01G269600 chr7A 139200073 139200793 720 True 647.0 647 83.2650 1013 1729 1 chr7A.!!$R1 716
5 TraesCS2D01G269600 chr7A 453357300 453358001 701 True 470.0 470 79.6200 978 1684 1 chr7A.!!$R4 706
6 TraesCS2D01G269600 chr7A 453206347 453207042 695 True 455.0 455 79.3430 983 1684 1 chr7A.!!$R2 701
7 TraesCS2D01G269600 chr7A 453275187 453275888 701 True 453.0 453 79.2120 978 1684 1 chr7A.!!$R3 706
8 TraesCS2D01G269600 chr7A 453401880 453402581 701 True 436.0 436 78.8040 978 1684 1 chr7A.!!$R5 706
9 TraesCS2D01G269600 chr4B 134954225 134954914 689 False 551.0 551 81.5020 1026 1729 1 chr4B.!!$F1 703

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
47 48 0.031616 TGGGTTTGGGCCTGAAAACT 60.032 50.0 20.83 0.0 36.68 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1757 2045 1.359848 CTGCGGATAACACCAGACAC 58.64 55.0 0.0 0.0 0.0 3.67 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
19 20 3.047735 CCCAACGGGCCTTTTCAC 58.952 61.111 0.84 0.00 35.35 3.18
20 21 1.530655 CCCAACGGGCCTTTTCACT 60.531 57.895 0.84 0.00 35.35 3.41
21 22 1.659794 CCAACGGGCCTTTTCACTG 59.340 57.895 0.84 0.00 0.00 3.66
22 23 0.821711 CCAACGGGCCTTTTCACTGA 60.822 55.000 0.84 0.00 0.00 3.41
23 24 1.247567 CAACGGGCCTTTTCACTGAT 58.752 50.000 0.84 0.00 0.00 2.90
24 25 1.068333 CAACGGGCCTTTTCACTGATG 60.068 52.381 0.84 0.00 0.00 3.07
25 26 0.609131 ACGGGCCTTTTCACTGATGG 60.609 55.000 0.84 0.00 0.00 3.51
26 27 1.315257 CGGGCCTTTTCACTGATGGG 61.315 60.000 0.84 0.00 0.00 4.00
27 28 1.607801 GGGCCTTTTCACTGATGGGC 61.608 60.000 0.84 9.77 41.79 5.36
28 29 0.613012 GGCCTTTTCACTGATGGGCT 60.613 55.000 0.00 0.00 39.78 5.19
29 30 0.529378 GCCTTTTCACTGATGGGCTG 59.471 55.000 9.06 0.00 36.96 4.85
30 31 1.180029 CCTTTTCACTGATGGGCTGG 58.820 55.000 0.00 0.00 0.00 4.85
31 32 1.180029 CTTTTCACTGATGGGCTGGG 58.820 55.000 0.00 0.00 0.00 4.45
32 33 0.482446 TTTTCACTGATGGGCTGGGT 59.518 50.000 0.00 0.00 0.00 4.51
33 34 0.482446 TTTCACTGATGGGCTGGGTT 59.518 50.000 0.00 0.00 0.00 4.11
34 35 0.482446 TTCACTGATGGGCTGGGTTT 59.518 50.000 0.00 0.00 0.00 3.27
35 36 0.251297 TCACTGATGGGCTGGGTTTG 60.251 55.000 0.00 0.00 0.00 2.93
36 37 1.077265 ACTGATGGGCTGGGTTTGG 59.923 57.895 0.00 0.00 0.00 3.28
37 38 1.683365 CTGATGGGCTGGGTTTGGG 60.683 63.158 0.00 0.00 0.00 4.12
38 39 3.076916 GATGGGCTGGGTTTGGGC 61.077 66.667 0.00 0.00 0.00 5.36
39 40 4.720680 ATGGGCTGGGTTTGGGCC 62.721 66.667 0.00 0.00 46.56 5.80
42 43 4.299796 GGCTGGGTTTGGGCCTGA 62.300 66.667 4.53 0.00 42.31 3.86
43 44 2.203625 GCTGGGTTTGGGCCTGAA 60.204 61.111 4.53 0.00 0.00 3.02
44 45 1.836604 GCTGGGTTTGGGCCTGAAA 60.837 57.895 4.53 0.00 0.00 2.69
45 46 1.406860 GCTGGGTTTGGGCCTGAAAA 61.407 55.000 4.53 0.00 0.00 2.29
46 47 0.392706 CTGGGTTTGGGCCTGAAAAC 59.607 55.000 16.25 16.25 35.89 2.43
47 48 0.031616 TGGGTTTGGGCCTGAAAACT 60.032 50.000 20.83 0.00 36.68 2.66
48 49 1.218196 TGGGTTTGGGCCTGAAAACTA 59.782 47.619 20.83 11.63 36.68 2.24
49 50 1.893137 GGGTTTGGGCCTGAAAACTAG 59.107 52.381 20.83 0.00 36.68 2.57
50 51 1.893137 GGTTTGGGCCTGAAAACTAGG 59.107 52.381 20.83 0.00 36.68 3.02
56 57 3.154589 CCTGAAAACTAGGCCCGAC 57.845 57.895 0.00 0.00 0.00 4.79
57 58 0.739813 CCTGAAAACTAGGCCCGACG 60.740 60.000 0.00 0.00 0.00 5.12
58 59 0.739813 CTGAAAACTAGGCCCGACGG 60.740 60.000 6.99 6.99 0.00 4.79
79 80 4.162690 GCCCAGGCTAGGTCCGTG 62.163 72.222 0.08 0.00 38.26 4.94
80 81 2.683933 CCCAGGCTAGGTCCGTGT 60.684 66.667 0.00 0.00 0.00 4.49
81 82 2.722201 CCCAGGCTAGGTCCGTGTC 61.722 68.421 0.00 0.00 0.00 3.67
82 83 1.682684 CCAGGCTAGGTCCGTGTCT 60.683 63.158 0.00 0.00 0.00 3.41
83 84 0.395311 CCAGGCTAGGTCCGTGTCTA 60.395 60.000 0.00 0.00 0.00 2.59
84 85 1.025812 CAGGCTAGGTCCGTGTCTAG 58.974 60.000 0.00 0.00 36.84 2.43
85 86 0.106619 AGGCTAGGTCCGTGTCTAGG 60.107 60.000 0.00 0.00 34.95 3.02
86 87 0.395448 GGCTAGGTCCGTGTCTAGGT 60.395 60.000 0.00 0.00 34.95 3.08
87 88 1.472188 GCTAGGTCCGTGTCTAGGTT 58.528 55.000 0.00 0.00 34.95 3.50
88 89 1.823610 GCTAGGTCCGTGTCTAGGTTT 59.176 52.381 0.00 0.00 34.95 3.27
89 90 2.233186 GCTAGGTCCGTGTCTAGGTTTT 59.767 50.000 0.00 0.00 34.95 2.43
90 91 3.675502 GCTAGGTCCGTGTCTAGGTTTTC 60.676 52.174 0.00 0.00 34.95 2.29
91 92 2.606378 AGGTCCGTGTCTAGGTTTTCT 58.394 47.619 0.00 0.00 0.00 2.52
92 93 3.771216 AGGTCCGTGTCTAGGTTTTCTA 58.229 45.455 0.00 0.00 0.00 2.10
93 94 3.509184 AGGTCCGTGTCTAGGTTTTCTAC 59.491 47.826 0.00 0.00 0.00 2.59
94 95 3.509184 GGTCCGTGTCTAGGTTTTCTACT 59.491 47.826 0.00 0.00 0.00 2.57
95 96 4.021632 GGTCCGTGTCTAGGTTTTCTACTT 60.022 45.833 0.00 0.00 0.00 2.24
96 97 5.159925 GTCCGTGTCTAGGTTTTCTACTTC 58.840 45.833 0.00 0.00 0.00 3.01
97 98 4.083110 TCCGTGTCTAGGTTTTCTACTTCG 60.083 45.833 0.00 0.00 0.00 3.79
98 99 4.164294 CGTGTCTAGGTTTTCTACTTCGG 58.836 47.826 0.00 0.00 0.00 4.30
99 100 4.492611 GTGTCTAGGTTTTCTACTTCGGG 58.507 47.826 0.00 0.00 0.00 5.14
100 101 3.056322 TGTCTAGGTTTTCTACTTCGGGC 60.056 47.826 0.00 0.00 0.00 6.13
101 102 3.195182 GTCTAGGTTTTCTACTTCGGGCT 59.805 47.826 0.00 0.00 0.00 5.19
102 103 3.836562 TCTAGGTTTTCTACTTCGGGCTT 59.163 43.478 0.00 0.00 0.00 4.35
103 104 3.503800 AGGTTTTCTACTTCGGGCTTT 57.496 42.857 0.00 0.00 0.00 3.51
104 105 3.146847 AGGTTTTCTACTTCGGGCTTTG 58.853 45.455 0.00 0.00 0.00 2.77
105 106 2.882761 GGTTTTCTACTTCGGGCTTTGT 59.117 45.455 0.00 0.00 0.00 2.83
106 107 3.317149 GGTTTTCTACTTCGGGCTTTGTT 59.683 43.478 0.00 0.00 0.00 2.83
107 108 4.516321 GGTTTTCTACTTCGGGCTTTGTTA 59.484 41.667 0.00 0.00 0.00 2.41
108 109 5.334646 GGTTTTCTACTTCGGGCTTTGTTAG 60.335 44.000 0.00 0.00 0.00 2.34
109 110 3.604875 TCTACTTCGGGCTTTGTTAGG 57.395 47.619 0.00 0.00 0.00 2.69
116 117 2.568003 GGCTTTGTTAGGCCTGACC 58.432 57.895 23.81 8.96 44.48 4.02
117 118 0.965866 GGCTTTGTTAGGCCTGACCC 60.966 60.000 23.81 14.13 44.48 4.46
118 119 1.305930 GCTTTGTTAGGCCTGACCCG 61.306 60.000 23.81 13.15 40.58 5.28
119 120 0.323629 CTTTGTTAGGCCTGACCCGA 59.676 55.000 23.81 8.15 40.58 5.14
127 128 2.660064 GCCTGACCCGACAGATGGT 61.660 63.158 0.00 0.00 39.94 3.55
140 141 5.854010 GACAGATGGTCAGGTATACTTCA 57.146 43.478 2.25 0.00 46.19 3.02
141 142 5.837437 GACAGATGGTCAGGTATACTTCAG 58.163 45.833 2.25 0.00 46.19 3.02
152 153 4.338682 AGGTATACTTCAGTGTAGAAGCGG 59.661 45.833 3.49 0.00 46.97 5.52
181 190 1.758936 TCGAGGAATCGAGGCTAACA 58.241 50.000 0.00 0.00 37.20 2.41
260 273 9.632638 ACATAAGCTTACATGATCTATGGTTTT 57.367 29.630 14.73 0.00 41.25 2.43
265 278 9.988815 AGCTTACATGATCTATGGTTTTACTAG 57.011 33.333 0.00 0.00 41.25 2.57
270 283 7.287005 ACATGATCTATGGTTTTACTAGGACGA 59.713 37.037 0.00 0.00 41.25 4.20
323 336 4.393680 TGCCGAGAACACCAATAATGTTAC 59.606 41.667 0.00 0.00 40.36 2.50
324 337 4.493545 GCCGAGAACACCAATAATGTTACG 60.494 45.833 0.00 0.00 40.36 3.18
334 347 7.879160 ACACCAATAATGTTACGGTTCTAAAGA 59.121 33.333 0.00 0.00 0.00 2.52
336 349 9.106070 ACCAATAATGTTACGGTTCTAAAGATC 57.894 33.333 0.00 0.00 0.00 2.75
342 355 9.832445 AATGTTACGGTTCTAAAGATCATATGT 57.168 29.630 1.90 0.00 0.00 2.29
343 356 8.642908 TGTTACGGTTCTAAAGATCATATGTG 57.357 34.615 1.90 0.00 0.00 3.21
344 357 8.471609 TGTTACGGTTCTAAAGATCATATGTGA 58.528 33.333 1.90 0.00 39.04 3.58
345 358 9.309516 GTTACGGTTCTAAAGATCATATGTGAA 57.690 33.333 1.90 0.00 38.01 3.18
346 359 9.529325 TTACGGTTCTAAAGATCATATGTGAAG 57.471 33.333 1.90 0.00 38.01 3.02
347 360 7.556844 ACGGTTCTAAAGATCATATGTGAAGT 58.443 34.615 1.90 0.00 38.01 3.01
348 361 8.692710 ACGGTTCTAAAGATCATATGTGAAGTA 58.307 33.333 1.90 0.00 38.01 2.24
349 362 9.529325 CGGTTCTAAAGATCATATGTGAAGTAA 57.471 33.333 1.90 0.00 38.01 2.24
361 374 9.605275 TCATATGTGAAGTAAGAAGAAATGGAG 57.395 33.333 1.90 0.00 0.00 3.86
362 375 8.834465 CATATGTGAAGTAAGAAGAAATGGAGG 58.166 37.037 0.00 0.00 0.00 4.30
363 376 6.433847 TGTGAAGTAAGAAGAAATGGAGGA 57.566 37.500 0.00 0.00 0.00 3.71
364 377 6.837312 TGTGAAGTAAGAAGAAATGGAGGAA 58.163 36.000 0.00 0.00 0.00 3.36
365 378 6.936900 TGTGAAGTAAGAAGAAATGGAGGAAG 59.063 38.462 0.00 0.00 0.00 3.46
366 379 6.937465 GTGAAGTAAGAAGAAATGGAGGAAGT 59.063 38.462 0.00 0.00 0.00 3.01
367 380 8.095169 GTGAAGTAAGAAGAAATGGAGGAAGTA 58.905 37.037 0.00 0.00 0.00 2.24
368 381 8.826765 TGAAGTAAGAAGAAATGGAGGAAGTAT 58.173 33.333 0.00 0.00 0.00 2.12
369 382 9.674068 GAAGTAAGAAGAAATGGAGGAAGTATT 57.326 33.333 0.00 0.00 0.00 1.89
374 387 9.981460 AAGAAGAAATGGAGGAAGTATTATTGT 57.019 29.630 0.00 0.00 0.00 2.71
375 388 9.401058 AGAAGAAATGGAGGAAGTATTATTGTG 57.599 33.333 0.00 0.00 0.00 3.33
376 389 9.178758 GAAGAAATGGAGGAAGTATTATTGTGT 57.821 33.333 0.00 0.00 0.00 3.72
377 390 9.533831 AAGAAATGGAGGAAGTATTATTGTGTT 57.466 29.630 0.00 0.00 0.00 3.32
380 393 9.747898 AAATGGAGGAAGTATTATTGTGTTACA 57.252 29.630 0.00 0.00 0.00 2.41
381 394 9.920946 AATGGAGGAAGTATTATTGTGTTACAT 57.079 29.630 0.00 0.00 0.00 2.29
382 395 9.920946 ATGGAGGAAGTATTATTGTGTTACATT 57.079 29.630 0.00 0.00 0.00 2.71
383 396 9.747898 TGGAGGAAGTATTATTGTGTTACATTT 57.252 29.630 0.00 0.00 0.00 2.32
408 421 5.403558 AAAAATAAGGTATCTGGGAGGGG 57.596 43.478 0.00 0.00 0.00 4.79
409 422 2.046280 ATAAGGTATCTGGGAGGGGC 57.954 55.000 0.00 0.00 0.00 5.80
410 423 0.471211 TAAGGTATCTGGGAGGGGCG 60.471 60.000 0.00 0.00 0.00 6.13
411 424 2.446036 GGTATCTGGGAGGGGCGT 60.446 66.667 0.00 0.00 0.00 5.68
412 425 2.070650 GGTATCTGGGAGGGGCGTT 61.071 63.158 0.00 0.00 0.00 4.84
413 426 1.632965 GGTATCTGGGAGGGGCGTTT 61.633 60.000 0.00 0.00 0.00 3.60
414 427 0.255033 GTATCTGGGAGGGGCGTTTT 59.745 55.000 0.00 0.00 0.00 2.43
415 428 1.487558 GTATCTGGGAGGGGCGTTTTA 59.512 52.381 0.00 0.00 0.00 1.52
416 429 1.222567 ATCTGGGAGGGGCGTTTTAT 58.777 50.000 0.00 0.00 0.00 1.40
417 430 0.996583 TCTGGGAGGGGCGTTTTATT 59.003 50.000 0.00 0.00 0.00 1.40
418 431 2.198336 TCTGGGAGGGGCGTTTTATTA 58.802 47.619 0.00 0.00 0.00 0.98
419 432 2.577105 TCTGGGAGGGGCGTTTTATTAA 59.423 45.455 0.00 0.00 0.00 1.40
420 433 3.010361 TCTGGGAGGGGCGTTTTATTAAA 59.990 43.478 0.00 0.00 0.00 1.52
421 434 3.958147 CTGGGAGGGGCGTTTTATTAAAT 59.042 43.478 0.00 0.00 0.00 1.40
422 435 3.702045 TGGGAGGGGCGTTTTATTAAATG 59.298 43.478 0.00 0.00 34.12 2.32
423 436 3.702548 GGGAGGGGCGTTTTATTAAATGT 59.297 43.478 0.00 0.00 33.64 2.71
424 437 4.160814 GGGAGGGGCGTTTTATTAAATGTT 59.839 41.667 0.00 0.00 33.64 2.71
425 438 5.360429 GGGAGGGGCGTTTTATTAAATGTTA 59.640 40.000 0.00 0.00 33.64 2.41
426 439 6.127394 GGGAGGGGCGTTTTATTAAATGTTAA 60.127 38.462 0.00 0.00 33.64 2.01
427 440 7.321908 GGAGGGGCGTTTTATTAAATGTTAAA 58.678 34.615 0.00 0.00 33.64 1.52
428 441 7.818446 GGAGGGGCGTTTTATTAAATGTTAAAA 59.182 33.333 0.00 0.00 33.64 1.52
429 442 9.205719 GAGGGGCGTTTTATTAAATGTTAAAAA 57.794 29.630 0.00 0.00 33.64 1.94
473 486 6.995511 TTAATGTTAGTGTCCCAAGTATGC 57.004 37.500 0.00 0.00 0.00 3.14
489 502 6.956299 AAGTATGCTTGACAATTTTCATGC 57.044 33.333 20.02 20.02 43.59 4.06
490 503 5.097529 AGTATGCTTGACAATTTTCATGCG 58.902 37.500 20.87 5.31 45.30 4.73
491 504 2.674954 TGCTTGACAATTTTCATGCGG 58.325 42.857 20.87 4.76 45.30 5.69
495 508 3.998099 TGACAATTTTCATGCGGAACA 57.002 38.095 0.00 0.00 34.56 3.18
496 509 4.313277 TGACAATTTTCATGCGGAACAA 57.687 36.364 0.00 0.00 34.56 2.83
502 515 6.928492 ACAATTTTCATGCGGAACAAAATAGT 59.072 30.769 8.85 0.00 34.56 2.12
515 528 5.834239 ACAAAATAGTAGTGTTTCGTCGG 57.166 39.130 0.00 0.00 0.00 4.79
518 531 2.995466 TAGTAGTGTTTCGTCGGTGG 57.005 50.000 0.00 0.00 0.00 4.61
524 537 2.096335 AGTGTTTCGTCGGTGGAAAAAC 59.904 45.455 8.22 8.22 40.39 2.43
547 560 6.256912 CCAATTTTGGGATGACATTTTTGG 57.743 37.500 1.14 0.00 44.70 3.28
548 561 5.183522 CCAATTTTGGGATGACATTTTTGGG 59.816 40.000 1.14 0.00 44.70 4.12
550 563 6.694445 ATTTTGGGATGACATTTTTGGGTA 57.306 33.333 0.00 0.00 0.00 3.69
551 564 6.500589 TTTTGGGATGACATTTTTGGGTAA 57.499 33.333 0.00 0.00 0.00 2.85
553 566 5.004361 TGGGATGACATTTTTGGGTAAGA 57.996 39.130 0.00 0.00 0.00 2.10
554 567 5.588845 TGGGATGACATTTTTGGGTAAGAT 58.411 37.500 0.00 0.00 0.00 2.40
555 568 6.022315 TGGGATGACATTTTTGGGTAAGATT 58.978 36.000 0.00 0.00 0.00 2.40
556 569 6.500049 TGGGATGACATTTTTGGGTAAGATTT 59.500 34.615 0.00 0.00 0.00 2.17
557 570 6.818142 GGGATGACATTTTTGGGTAAGATTTG 59.182 38.462 0.00 0.00 0.00 2.32
558 571 7.310361 GGGATGACATTTTTGGGTAAGATTTGA 60.310 37.037 0.00 0.00 0.00 2.69
559 572 8.260114 GGATGACATTTTTGGGTAAGATTTGAT 58.740 33.333 0.00 0.00 0.00 2.57
560 573 9.090692 GATGACATTTTTGGGTAAGATTTGATG 57.909 33.333 0.00 0.00 0.00 3.07
561 574 7.961351 TGACATTTTTGGGTAAGATTTGATGT 58.039 30.769 0.00 0.00 0.00 3.06
562 575 8.428063 TGACATTTTTGGGTAAGATTTGATGTT 58.572 29.630 0.00 0.00 0.00 2.71
563 576 8.831715 ACATTTTTGGGTAAGATTTGATGTTC 57.168 30.769 0.00 0.00 0.00 3.18
564 577 8.428063 ACATTTTTGGGTAAGATTTGATGTTCA 58.572 29.630 0.00 0.00 0.00 3.18
565 578 9.439500 CATTTTTGGGTAAGATTTGATGTTCAT 57.561 29.630 0.00 0.00 0.00 2.57
567 580 9.844257 TTTTTGGGTAAGATTTGATGTTCATTT 57.156 25.926 0.00 0.00 0.00 2.32
569 582 8.830201 TTGGGTAAGATTTGATGTTCATTTTG 57.170 30.769 0.00 0.00 0.00 2.44
581 594 8.410030 TGATGTTCATTTTGTTTTTCTCACAG 57.590 30.769 0.00 0.00 0.00 3.66
591 604 3.749665 TTTTCTCACAGGCCAAAATGG 57.250 42.857 5.01 0.00 41.55 3.16
694 719 4.676951 TTTTGGGCCCGGGAGCAG 62.677 66.667 29.31 0.00 0.00 4.24
758 784 7.672351 TTTTGTTAATACTCGTGCAGTTTTG 57.328 32.000 0.00 0.00 36.43 2.44
815 841 6.837312 TGGTACAGTATAATCAAATGGGAGG 58.163 40.000 0.00 0.00 0.00 4.30
821 847 8.004215 ACAGTATAATCAAATGGGAGGCAAATA 58.996 33.333 0.00 0.00 0.00 1.40
912 941 1.591183 GGCACCGCAAACCATGAAT 59.409 52.632 0.00 0.00 0.00 2.57
934 963 9.723601 TGAATGAAAAATAAAAATCTGAAGGGG 57.276 29.630 0.00 0.00 0.00 4.79
935 964 9.166173 GAATGAAAAATAAAAATCTGAAGGGGG 57.834 33.333 0.00 0.00 0.00 5.40
970 999 3.224884 AGTTTAGACAAGCGAGAGAGC 57.775 47.619 0.00 0.00 37.41 4.09
1416 1489 2.310647 AGGTATGATTTGGGGGTCGTTT 59.689 45.455 0.00 0.00 0.00 3.60
1493 1578 2.546795 CCAATCTATCACCAGTCTCGGC 60.547 54.545 0.00 0.00 0.00 5.54
1507 1592 1.002430 TCTCGGCAGAATTCTGTTGCT 59.998 47.619 30.88 0.00 45.45 3.91
1699 1966 5.750547 CACACTGCTCTGGTATGTACTAATG 59.249 44.000 0.00 0.00 0.00 1.90
1925 2214 9.569122 ACCTTTTATATCAAACTGTACTGTTGT 57.431 29.630 17.59 10.19 0.00 3.32
2016 2307 8.567948 TGAGTTAAAATTGTCAGGATGTTCTTC 58.432 33.333 0.00 0.00 37.40 2.87
2116 2407 4.925054 TGTCTTTGCAGATGCTTTATTTGC 59.075 37.500 6.35 0.00 44.76 3.68
2117 2408 4.328169 GTCTTTGCAGATGCTTTATTTGCC 59.672 41.667 6.35 0.00 44.10 4.52
2118 2409 4.221262 TCTTTGCAGATGCTTTATTTGCCT 59.779 37.500 6.35 0.00 44.10 4.75
2119 2410 4.540359 TTGCAGATGCTTTATTTGCCTT 57.460 36.364 6.35 0.00 44.10 4.35
2120 2411 5.657826 TTGCAGATGCTTTATTTGCCTTA 57.342 34.783 6.35 0.00 44.10 2.69
2121 2412 5.857471 TGCAGATGCTTTATTTGCCTTAT 57.143 34.783 6.35 0.00 44.10 1.73
2122 2413 6.224665 TGCAGATGCTTTATTTGCCTTATT 57.775 33.333 6.35 0.00 44.10 1.40
2123 2414 6.642430 TGCAGATGCTTTATTTGCCTTATTT 58.358 32.000 6.35 0.00 44.10 1.40
2124 2415 6.535865 TGCAGATGCTTTATTTGCCTTATTTG 59.464 34.615 6.35 0.00 44.10 2.32
2141 2432 6.128172 CCTTATTTGCCTGTCTCAGTTGTAAG 60.128 42.308 0.00 0.00 0.00 2.34
2183 2474 7.148306 GGATACATGTAACATTCGTGACCTTTT 60.148 37.037 10.14 0.00 0.00 2.27
2202 2493 5.519927 CCTTTTTGTTGAATGTTCCTGTCAC 59.480 40.000 0.00 0.00 0.00 3.67
2298 2601 4.570772 TGAAGTGACTTGCTTACACAGAAC 59.429 41.667 0.90 0.00 37.05 3.01
2299 2602 4.408182 AGTGACTTGCTTACACAGAACT 57.592 40.909 0.00 0.00 37.05 3.01
2363 2667 5.279456 GGTTAAAAGGATGTGCCAGATTGTT 60.279 40.000 0.00 0.00 40.02 2.83
2374 2678 2.670509 GCCAGATTGTTGCTTGAGCTTC 60.671 50.000 4.44 0.00 42.66 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.821711 TCAGTGAAAAGGCCCGTTGG 60.822 55.000 0.00 0.00 0.00 3.77
4 5 1.068333 CATCAGTGAAAAGGCCCGTTG 60.068 52.381 0.00 0.00 0.00 4.10
5 6 1.247567 CATCAGTGAAAAGGCCCGTT 58.752 50.000 0.00 0.00 0.00 4.44
6 7 0.609131 CCATCAGTGAAAAGGCCCGT 60.609 55.000 0.00 0.00 0.00 5.28
7 8 1.315257 CCCATCAGTGAAAAGGCCCG 61.315 60.000 0.00 0.00 0.00 6.13
8 9 1.607801 GCCCATCAGTGAAAAGGCCC 61.608 60.000 16.72 2.84 34.23 5.80
9 10 0.613012 AGCCCATCAGTGAAAAGGCC 60.613 55.000 21.48 0.00 41.42 5.19
10 11 0.529378 CAGCCCATCAGTGAAAAGGC 59.471 55.000 18.87 18.87 40.79 4.35
11 12 1.180029 CCAGCCCATCAGTGAAAAGG 58.820 55.000 0.00 0.00 0.00 3.11
12 13 1.180029 CCCAGCCCATCAGTGAAAAG 58.820 55.000 0.00 0.00 0.00 2.27
13 14 0.482446 ACCCAGCCCATCAGTGAAAA 59.518 50.000 0.00 0.00 0.00 2.29
14 15 0.482446 AACCCAGCCCATCAGTGAAA 59.518 50.000 0.00 0.00 0.00 2.69
15 16 0.482446 AAACCCAGCCCATCAGTGAA 59.518 50.000 0.00 0.00 0.00 3.18
16 17 0.251297 CAAACCCAGCCCATCAGTGA 60.251 55.000 0.00 0.00 0.00 3.41
17 18 1.252904 CCAAACCCAGCCCATCAGTG 61.253 60.000 0.00 0.00 0.00 3.66
18 19 1.077265 CCAAACCCAGCCCATCAGT 59.923 57.895 0.00 0.00 0.00 3.41
19 20 1.683365 CCCAAACCCAGCCCATCAG 60.683 63.158 0.00 0.00 0.00 2.90
20 21 2.444696 CCCAAACCCAGCCCATCA 59.555 61.111 0.00 0.00 0.00 3.07
21 22 3.076916 GCCCAAACCCAGCCCATC 61.077 66.667 0.00 0.00 0.00 3.51
22 23 4.720680 GGCCCAAACCCAGCCCAT 62.721 66.667 0.00 0.00 41.00 4.00
26 27 1.406860 TTTTCAGGCCCAAACCCAGC 61.407 55.000 0.00 0.00 0.00 4.85
27 28 0.392706 GTTTTCAGGCCCAAACCCAG 59.607 55.000 0.00 0.00 0.00 4.45
28 29 0.031616 AGTTTTCAGGCCCAAACCCA 60.032 50.000 15.79 0.00 34.00 4.51
29 30 1.893137 CTAGTTTTCAGGCCCAAACCC 59.107 52.381 15.79 3.39 34.00 4.11
30 31 1.893137 CCTAGTTTTCAGGCCCAAACC 59.107 52.381 15.79 2.43 34.00 3.27
38 39 0.739813 CGTCGGGCCTAGTTTTCAGG 60.740 60.000 0.84 0.00 36.16 3.86
39 40 0.739813 CCGTCGGGCCTAGTTTTCAG 60.740 60.000 2.34 0.00 0.00 3.02
40 41 1.294138 CCGTCGGGCCTAGTTTTCA 59.706 57.895 2.34 0.00 0.00 2.69
41 42 4.196965 CCGTCGGGCCTAGTTTTC 57.803 61.111 2.34 0.00 0.00 2.29
62 63 4.162690 CACGGACCTAGCCTGGGC 62.163 72.222 3.00 3.00 42.33 5.36
63 64 2.683933 ACACGGACCTAGCCTGGG 60.684 66.667 0.00 0.00 0.00 4.45
64 65 0.395311 TAGACACGGACCTAGCCTGG 60.395 60.000 0.00 0.00 0.00 4.45
65 66 1.025812 CTAGACACGGACCTAGCCTG 58.974 60.000 0.00 0.00 0.00 4.85
66 67 0.106619 CCTAGACACGGACCTAGCCT 60.107 60.000 0.00 0.00 32.96 4.58
67 68 0.395448 ACCTAGACACGGACCTAGCC 60.395 60.000 0.00 0.00 32.96 3.93
68 69 1.472188 AACCTAGACACGGACCTAGC 58.528 55.000 0.00 0.00 32.96 3.42
69 70 3.762823 AGAAAACCTAGACACGGACCTAG 59.237 47.826 0.00 0.00 33.83 3.02
70 71 3.771216 AGAAAACCTAGACACGGACCTA 58.229 45.455 0.00 0.00 0.00 3.08
71 72 2.606378 AGAAAACCTAGACACGGACCT 58.394 47.619 0.00 0.00 0.00 3.85
72 73 3.509184 AGTAGAAAACCTAGACACGGACC 59.491 47.826 0.00 0.00 0.00 4.46
73 74 4.780275 AGTAGAAAACCTAGACACGGAC 57.220 45.455 0.00 0.00 0.00 4.79
74 75 4.083110 CGAAGTAGAAAACCTAGACACGGA 60.083 45.833 0.00 0.00 0.00 4.69
75 76 4.164294 CGAAGTAGAAAACCTAGACACGG 58.836 47.826 0.00 0.00 0.00 4.94
76 77 4.164294 CCGAAGTAGAAAACCTAGACACG 58.836 47.826 0.00 0.00 0.00 4.49
77 78 4.492611 CCCGAAGTAGAAAACCTAGACAC 58.507 47.826 0.00 0.00 0.00 3.67
78 79 3.056322 GCCCGAAGTAGAAAACCTAGACA 60.056 47.826 0.00 0.00 0.00 3.41
79 80 3.195182 AGCCCGAAGTAGAAAACCTAGAC 59.805 47.826 0.00 0.00 0.00 2.59
80 81 3.438183 AGCCCGAAGTAGAAAACCTAGA 58.562 45.455 0.00 0.00 0.00 2.43
81 82 3.889520 AGCCCGAAGTAGAAAACCTAG 57.110 47.619 0.00 0.00 0.00 3.02
82 83 4.202388 ACAAAGCCCGAAGTAGAAAACCTA 60.202 41.667 0.00 0.00 0.00 3.08
83 84 3.146847 CAAAGCCCGAAGTAGAAAACCT 58.853 45.455 0.00 0.00 0.00 3.50
84 85 2.882761 ACAAAGCCCGAAGTAGAAAACC 59.117 45.455 0.00 0.00 0.00 3.27
85 86 4.563337 AACAAAGCCCGAAGTAGAAAAC 57.437 40.909 0.00 0.00 0.00 2.43
86 87 4.758165 CCTAACAAAGCCCGAAGTAGAAAA 59.242 41.667 0.00 0.00 0.00 2.29
87 88 4.320870 CCTAACAAAGCCCGAAGTAGAAA 58.679 43.478 0.00 0.00 0.00 2.52
88 89 3.867216 GCCTAACAAAGCCCGAAGTAGAA 60.867 47.826 0.00 0.00 0.00 2.10
89 90 2.354403 GCCTAACAAAGCCCGAAGTAGA 60.354 50.000 0.00 0.00 0.00 2.59
90 91 2.007608 GCCTAACAAAGCCCGAAGTAG 58.992 52.381 0.00 0.00 0.00 2.57
91 92 1.339342 GGCCTAACAAAGCCCGAAGTA 60.339 52.381 0.00 0.00 43.76 2.24
92 93 0.608308 GGCCTAACAAAGCCCGAAGT 60.608 55.000 0.00 0.00 43.76 3.01
93 94 2.180674 GGCCTAACAAAGCCCGAAG 58.819 57.895 0.00 0.00 43.76 3.79
94 95 4.408378 GGCCTAACAAAGCCCGAA 57.592 55.556 0.00 0.00 43.76 4.30
99 100 1.305930 CGGGTCAGGCCTAACAAAGC 61.306 60.000 8.72 0.32 37.43 3.51
100 101 0.323629 TCGGGTCAGGCCTAACAAAG 59.676 55.000 8.72 0.00 37.43 2.77
101 102 0.035739 GTCGGGTCAGGCCTAACAAA 59.964 55.000 8.72 0.00 37.43 2.83
102 103 1.122632 TGTCGGGTCAGGCCTAACAA 61.123 55.000 8.72 0.00 37.43 2.83
103 104 1.534476 TGTCGGGTCAGGCCTAACA 60.534 57.895 8.72 2.46 37.43 2.41
104 105 1.218316 CTGTCGGGTCAGGCCTAAC 59.782 63.158 3.98 0.00 37.43 2.34
105 106 0.325296 ATCTGTCGGGTCAGGCCTAA 60.325 55.000 3.98 0.00 36.25 2.69
106 107 1.043116 CATCTGTCGGGTCAGGCCTA 61.043 60.000 3.98 0.00 36.25 3.93
107 108 2.039624 ATCTGTCGGGTCAGGCCT 59.960 61.111 0.00 0.00 36.25 5.19
108 109 2.187946 CATCTGTCGGGTCAGGCC 59.812 66.667 0.00 0.00 36.25 5.19
109 110 2.187946 CCATCTGTCGGGTCAGGC 59.812 66.667 0.00 0.00 36.25 4.85
110 111 3.713650 ACCATCTGTCGGGTCAGG 58.286 61.111 0.00 0.00 36.25 3.86
118 119 5.361285 ACTGAAGTATACCTGACCATCTGTC 59.639 44.000 0.00 0.00 44.72 3.51
119 120 5.127845 CACTGAAGTATACCTGACCATCTGT 59.872 44.000 0.00 0.00 0.00 3.41
127 128 5.066117 CGCTTCTACACTGAAGTATACCTGA 59.934 44.000 0.00 0.00 43.74 3.86
130 131 4.499357 CCCGCTTCTACACTGAAGTATACC 60.499 50.000 0.00 0.00 43.74 2.73
132 133 4.275810 ACCCGCTTCTACACTGAAGTATA 58.724 43.478 6.20 0.00 43.74 1.47
140 141 4.024670 AGAATCTTACCCGCTTCTACACT 58.975 43.478 0.00 0.00 0.00 3.55
141 142 4.361420 GAGAATCTTACCCGCTTCTACAC 58.639 47.826 0.00 0.00 0.00 2.90
246 259 7.834881 TCGTCCTAGTAAAACCATAGATCAT 57.165 36.000 0.00 0.00 0.00 2.45
247 260 7.834881 ATCGTCCTAGTAAAACCATAGATCA 57.165 36.000 0.00 0.00 0.00 2.92
270 283 8.091449 CCCTTATCTCTTAGTTGCGATCTAAAT 58.909 37.037 0.00 0.00 0.00 1.40
323 336 9.529325 TTACTTCACATATGATCTTTAGAACCG 57.471 33.333 10.38 0.00 33.85 4.44
336 349 8.834465 CCTCCATTTCTTCTTACTTCACATATG 58.166 37.037 0.00 0.00 0.00 1.78
339 352 7.020827 TCCTCCATTTCTTCTTACTTCACAT 57.979 36.000 0.00 0.00 0.00 3.21
340 353 6.433847 TCCTCCATTTCTTCTTACTTCACA 57.566 37.500 0.00 0.00 0.00 3.58
341 354 6.937465 ACTTCCTCCATTTCTTCTTACTTCAC 59.063 38.462 0.00 0.00 0.00 3.18
342 355 7.079451 ACTTCCTCCATTTCTTCTTACTTCA 57.921 36.000 0.00 0.00 0.00 3.02
343 356 9.674068 AATACTTCCTCCATTTCTTCTTACTTC 57.326 33.333 0.00 0.00 0.00 3.01
348 361 9.981460 ACAATAATACTTCCTCCATTTCTTCTT 57.019 29.630 0.00 0.00 0.00 2.52
349 362 9.401058 CACAATAATACTTCCTCCATTTCTTCT 57.599 33.333 0.00 0.00 0.00 2.85
350 363 9.178758 ACACAATAATACTTCCTCCATTTCTTC 57.821 33.333 0.00 0.00 0.00 2.87
351 364 9.533831 AACACAATAATACTTCCTCCATTTCTT 57.466 29.630 0.00 0.00 0.00 2.52
354 367 9.747898 TGTAACACAATAATACTTCCTCCATTT 57.252 29.630 0.00 0.00 0.00 2.32
355 368 9.920946 ATGTAACACAATAATACTTCCTCCATT 57.079 29.630 0.00 0.00 0.00 3.16
356 369 9.920946 AATGTAACACAATAATACTTCCTCCAT 57.079 29.630 0.00 0.00 0.00 3.41
357 370 9.747898 AAATGTAACACAATAATACTTCCTCCA 57.252 29.630 0.00 0.00 0.00 3.86
382 395 8.675096 CCCCTCCCAGATACCTTATTTTTATAA 58.325 37.037 0.00 0.00 0.00 0.98
383 396 7.257272 GCCCCTCCCAGATACCTTATTTTTATA 60.257 40.741 0.00 0.00 0.00 0.98
384 397 6.468798 GCCCCTCCCAGATACCTTATTTTTAT 60.469 42.308 0.00 0.00 0.00 1.40
385 398 5.163023 GCCCCTCCCAGATACCTTATTTTTA 60.163 44.000 0.00 0.00 0.00 1.52
386 399 4.387550 GCCCCTCCCAGATACCTTATTTTT 60.388 45.833 0.00 0.00 0.00 1.94
387 400 3.140332 GCCCCTCCCAGATACCTTATTTT 59.860 47.826 0.00 0.00 0.00 1.82
388 401 2.716969 GCCCCTCCCAGATACCTTATTT 59.283 50.000 0.00 0.00 0.00 1.40
389 402 2.349445 GCCCCTCCCAGATACCTTATT 58.651 52.381 0.00 0.00 0.00 1.40
390 403 1.831697 CGCCCCTCCCAGATACCTTAT 60.832 57.143 0.00 0.00 0.00 1.73
391 404 0.471211 CGCCCCTCCCAGATACCTTA 60.471 60.000 0.00 0.00 0.00 2.69
392 405 1.766461 CGCCCCTCCCAGATACCTT 60.766 63.158 0.00 0.00 0.00 3.50
393 406 2.122813 CGCCCCTCCCAGATACCT 60.123 66.667 0.00 0.00 0.00 3.08
394 407 1.632965 AAACGCCCCTCCCAGATACC 61.633 60.000 0.00 0.00 0.00 2.73
395 408 0.255033 AAAACGCCCCTCCCAGATAC 59.745 55.000 0.00 0.00 0.00 2.24
396 409 1.882308 TAAAACGCCCCTCCCAGATA 58.118 50.000 0.00 0.00 0.00 1.98
397 410 1.222567 ATAAAACGCCCCTCCCAGAT 58.777 50.000 0.00 0.00 0.00 2.90
398 411 0.996583 AATAAAACGCCCCTCCCAGA 59.003 50.000 0.00 0.00 0.00 3.86
399 412 2.721425 TAATAAAACGCCCCTCCCAG 57.279 50.000 0.00 0.00 0.00 4.45
400 413 3.453059 TTTAATAAAACGCCCCTCCCA 57.547 42.857 0.00 0.00 0.00 4.37
401 414 3.702548 ACATTTAATAAAACGCCCCTCCC 59.297 43.478 0.00 0.00 0.00 4.30
402 415 4.994907 ACATTTAATAAAACGCCCCTCC 57.005 40.909 0.00 0.00 0.00 4.30
403 416 8.760103 TTTTAACATTTAATAAAACGCCCCTC 57.240 30.769 0.00 0.00 0.00 4.30
439 452 8.962679 GGGACACTAACATTAATATCCACAAAA 58.037 33.333 0.00 0.00 0.00 2.44
440 453 8.110271 TGGGACACTAACATTAATATCCACAAA 58.890 33.333 0.00 0.00 0.00 2.83
441 454 7.634718 TGGGACACTAACATTAATATCCACAA 58.365 34.615 0.00 0.00 0.00 3.33
442 455 7.201702 TGGGACACTAACATTAATATCCACA 57.798 36.000 0.00 0.00 0.00 4.17
443 456 7.773690 ACTTGGGACACTAACATTAATATCCAC 59.226 37.037 0.00 0.00 39.29 4.02
444 457 7.867921 ACTTGGGACACTAACATTAATATCCA 58.132 34.615 0.00 0.00 39.29 3.41
447 460 9.284968 GCATACTTGGGACACTAACATTAATAT 57.715 33.333 0.00 0.00 39.29 1.28
448 461 8.491134 AGCATACTTGGGACACTAACATTAATA 58.509 33.333 0.00 0.00 39.29 0.98
449 462 7.346471 AGCATACTTGGGACACTAACATTAAT 58.654 34.615 0.00 0.00 39.29 1.40
450 463 6.717289 AGCATACTTGGGACACTAACATTAA 58.283 36.000 0.00 0.00 39.29 1.40
451 464 6.308015 AGCATACTTGGGACACTAACATTA 57.692 37.500 0.00 0.00 39.29 1.90
452 465 5.179452 AGCATACTTGGGACACTAACATT 57.821 39.130 0.00 0.00 39.29 2.71
453 466 4.844349 AGCATACTTGGGACACTAACAT 57.156 40.909 0.00 0.00 39.29 2.71
454 467 4.634012 AAGCATACTTGGGACACTAACA 57.366 40.909 0.00 0.00 39.29 2.41
473 486 4.297510 TGTTCCGCATGAAAATTGTCAAG 58.702 39.130 1.55 0.00 33.94 3.02
489 502 6.219302 ACGAAACACTACTATTTTGTTCCG 57.781 37.500 0.00 0.00 37.06 4.30
490 503 6.294363 CGACGAAACACTACTATTTTGTTCC 58.706 40.000 0.00 0.00 33.46 3.62
491 504 6.074142 ACCGACGAAACACTACTATTTTGTTC 60.074 38.462 0.00 0.00 33.46 3.18
495 508 4.687483 CCACCGACGAAACACTACTATTTT 59.313 41.667 0.00 0.00 0.00 1.82
496 509 4.022068 TCCACCGACGAAACACTACTATTT 60.022 41.667 0.00 0.00 0.00 1.40
502 515 2.886862 TTTCCACCGACGAAACACTA 57.113 45.000 0.00 0.00 0.00 2.74
528 541 6.327626 TCTTACCCAAAAATGTCATCCCAAAA 59.672 34.615 0.00 0.00 0.00 2.44
537 550 8.831715 AACATCAAATCTTACCCAAAAATGTC 57.168 30.769 0.00 0.00 0.00 3.06
539 552 8.830201 TGAACATCAAATCTTACCCAAAAATG 57.170 30.769 0.00 0.00 0.00 2.32
545 558 7.961351 ACAAAATGAACATCAAATCTTACCCA 58.039 30.769 0.00 0.00 0.00 4.51
554 567 9.212641 TGTGAGAAAAACAAAATGAACATCAAA 57.787 25.926 0.00 0.00 0.00 2.69
555 568 8.768957 TGTGAGAAAAACAAAATGAACATCAA 57.231 26.923 0.00 0.00 0.00 2.57
556 569 7.492020 CCTGTGAGAAAAACAAAATGAACATCA 59.508 33.333 0.00 0.00 0.00 3.07
557 570 7.517259 GCCTGTGAGAAAAACAAAATGAACATC 60.517 37.037 0.00 0.00 0.00 3.06
558 571 6.258507 GCCTGTGAGAAAAACAAAATGAACAT 59.741 34.615 0.00 0.00 0.00 2.71
559 572 5.580297 GCCTGTGAGAAAAACAAAATGAACA 59.420 36.000 0.00 0.00 0.00 3.18
560 573 5.006649 GGCCTGTGAGAAAAACAAAATGAAC 59.993 40.000 0.00 0.00 0.00 3.18
561 574 5.115480 GGCCTGTGAGAAAAACAAAATGAA 58.885 37.500 0.00 0.00 0.00 2.57
562 575 4.161189 TGGCCTGTGAGAAAAACAAAATGA 59.839 37.500 3.32 0.00 0.00 2.57
563 576 4.440880 TGGCCTGTGAGAAAAACAAAATG 58.559 39.130 3.32 0.00 0.00 2.32
564 577 4.751767 TGGCCTGTGAGAAAAACAAAAT 57.248 36.364 3.32 0.00 0.00 1.82
565 578 4.543590 TTGGCCTGTGAGAAAAACAAAA 57.456 36.364 3.32 0.00 0.00 2.44
567 580 4.543590 TTTTGGCCTGTGAGAAAAACAA 57.456 36.364 3.32 0.00 0.00 2.83
569 582 3.809279 CCATTTTGGCCTGTGAGAAAAAC 59.191 43.478 3.32 0.00 0.00 2.43
575 588 4.463891 AGATTAACCATTTTGGCCTGTGAG 59.536 41.667 3.32 0.00 42.67 3.51
576 589 4.415596 AGATTAACCATTTTGGCCTGTGA 58.584 39.130 3.32 0.00 42.67 3.58
581 594 5.698832 GCAAAAAGATTAACCATTTTGGCC 58.301 37.500 11.25 0.00 42.67 5.36
591 604 9.791838 CGTAAATTTTGAGGCAAAAAGATTAAC 57.208 29.630 9.10 3.08 44.68 2.01
758 784 5.909610 CGTTTCTGTCAGAAAATCCAACTTC 59.090 40.000 25.87 11.71 44.84 3.01
912 941 7.524698 CGTCCCCCTTCAGATTTTTATTTTTCA 60.525 37.037 0.00 0.00 0.00 2.69
927 956 2.228480 CCCCTTTCGTCCCCCTTCA 61.228 63.158 0.00 0.00 0.00 3.02
928 957 2.675371 CCCCTTTCGTCCCCCTTC 59.325 66.667 0.00 0.00 0.00 3.46
970 999 2.094417 GCGATTTCTCCTCGTTTCCTTG 59.906 50.000 0.00 0.00 38.37 3.61
1032 1064 1.806461 CGGTCACGGATCCGGATGAT 61.806 60.000 35.87 13.89 44.69 2.45
1416 1489 4.793071 CAACAAATCGACCAACAAGCATA 58.207 39.130 0.00 0.00 0.00 3.14
1507 1592 3.962063 TCGCCTGTTGATTATACTACCCA 59.038 43.478 0.00 0.00 0.00 4.51
1699 1966 3.984508 TGGAAGCTACGCATACTCTAC 57.015 47.619 0.00 0.00 0.00 2.59
1757 2045 1.359848 CTGCGGATAACACCAGACAC 58.640 55.000 0.00 0.00 0.00 3.67
1820 2108 2.863704 GCACACAGAAGCAATGTTTCCC 60.864 50.000 6.21 0.00 0.00 3.97
1957 2246 3.503363 ACAGTGATAACAGGTGTTGCATG 59.497 43.478 5.59 0.00 38.90 4.06
2016 2307 4.963276 TGAGGTGCCAAAAAGAATATCG 57.037 40.909 0.00 0.00 0.00 2.92
2116 2407 4.074970 ACAACTGAGACAGGCAAATAAGG 58.925 43.478 0.00 0.00 35.51 2.69
2117 2408 6.650807 TCTTACAACTGAGACAGGCAAATAAG 59.349 38.462 0.00 0.00 35.51 1.73
2118 2409 6.530120 TCTTACAACTGAGACAGGCAAATAA 58.470 36.000 0.00 0.00 35.51 1.40
2119 2410 6.109156 TCTTACAACTGAGACAGGCAAATA 57.891 37.500 0.00 0.00 35.51 1.40
2120 2411 4.973168 TCTTACAACTGAGACAGGCAAAT 58.027 39.130 0.00 0.00 35.51 2.32
2121 2412 4.415881 TCTTACAACTGAGACAGGCAAA 57.584 40.909 0.00 0.00 35.51 3.68
2122 2413 4.318332 CATCTTACAACTGAGACAGGCAA 58.682 43.478 0.00 0.00 35.51 4.52
2123 2414 3.866066 GCATCTTACAACTGAGACAGGCA 60.866 47.826 0.00 0.00 35.51 4.75
2124 2415 2.675348 GCATCTTACAACTGAGACAGGC 59.325 50.000 0.00 0.00 35.51 4.85
2183 2474 2.955660 GGGTGACAGGAACATTCAACAA 59.044 45.455 0.00 0.00 31.63 2.83
2202 2493 4.400884 TGAATCCCATACGTTGATTTTGGG 59.599 41.667 0.00 1.57 46.99 4.12
2298 2601 5.391523 CCGTGTTTACCACAAATACCATCAG 60.392 44.000 0.00 0.00 44.78 2.90
2299 2602 4.456222 CCGTGTTTACCACAAATACCATCA 59.544 41.667 0.00 0.00 44.78 3.07


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

AutoCloner maintained by Alex Coulton.