Multiple sequence alignment - TraesCS6D01G279900

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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 TraesCS6D01G279900 chr6D 100.000 2597 0 0 1 2597 387798013 387800609 0.000000e+00 4796.0
1 TraesCS6D01G279900 chr7D 95.096 1774 84 3 825 2597 91693243 91695014 0.000000e+00 2791.0
2 TraesCS6D01G279900 chr7D 84.292 1617 234 16 993 2597 7485477 7487085 0.000000e+00 1561.0
3 TraesCS6D01G279900 chr7D 98.413 63 1 0 566 628 542226982 542227044 7.600000e-21 111.0
4 TraesCS6D01G279900 chr7D 77.049 122 21 6 21 141 626006882 626006767 2.160000e-06 63.9
5 TraesCS6D01G279900 chr7A 92.124 1257 95 3 825 2080 653599312 653600565 0.000000e+00 1770.0
6 TraesCS6D01G279900 chr7A 95.000 520 26 0 2078 2597 653610745 653611264 0.000000e+00 817.0
7 TraesCS6D01G279900 chr7A 94.808 520 27 0 2078 2597 653625231 653625750 0.000000e+00 811.0
8 TraesCS6D01G279900 chr7A 94.231 520 30 0 2078 2597 653640824 653641343 0.000000e+00 795.0
9 TraesCS6D01G279900 chr2A 84.225 1775 260 16 828 2597 754598127 754596368 0.000000e+00 1709.0
10 TraesCS6D01G279900 chr2A 82.231 1784 287 24 825 2593 102742518 102744286 0.000000e+00 1511.0
11 TraesCS6D01G279900 chr2A 87.770 139 13 3 9 144 617429938 617430075 2.670000e-35 159.0
12 TraesCS6D01G279900 chr2D 82.462 1779 292 17 824 2590 497912230 497914000 0.000000e+00 1539.0
13 TraesCS6D01G279900 chr2D 98.361 61 1 0 566 626 495035164 495035104 9.830000e-20 108.0
14 TraesCS6D01G279900 chr4D 82.133 1791 281 28 825 2597 10402978 10401209 0.000000e+00 1498.0
15 TraesCS6D01G279900 chr4D 87.719 57 5 2 2 57 6680709 6680764 6.000000e-07 65.8
16 TraesCS6D01G279900 chr1D 83.416 1616 254 11 993 2597 439432714 439431102 0.000000e+00 1487.0
17 TraesCS6D01G279900 chr1D 79.861 144 24 5 2 141 54202773 54202915 1.640000e-17 100.0
18 TraesCS6D01G279900 chr1D 93.651 63 4 0 566 628 86884799 86884861 7.650000e-16 95.3
19 TraesCS6D01G279900 chr7B 80.335 1790 321 23 824 2597 54266206 54267980 0.000000e+00 1327.0
20 TraesCS6D01G279900 chr7B 82.372 1509 236 19 1080 2582 684963535 684965019 0.000000e+00 1286.0
21 TraesCS6D01G279900 chr7B 81.279 1485 231 33 824 2293 34662063 34660611 0.000000e+00 1158.0
22 TraesCS6D01G279900 chr5A 79.619 1786 333 26 826 2597 14247613 14245845 0.000000e+00 1253.0
23 TraesCS6D01G279900 chr6B 92.383 407 27 4 162 566 579036970 579037374 6.230000e-161 577.0
24 TraesCS6D01G279900 chr6B 92.442 172 5 3 628 792 579037371 579037541 3.340000e-59 239.0
25 TraesCS6D01G279900 chr6B 100.000 31 0 0 775 805 579037555 579037585 1.000000e-04 58.4
26 TraesCS6D01G279900 chr6A 88.078 411 42 4 162 566 533237807 533238216 5.030000e-132 481.0
27 TraesCS6D01G279900 chr6A 91.124 169 8 4 628 791 533238213 533238379 3.360000e-54 222.0
28 TraesCS6D01G279900 chr3D 83.453 139 20 2 2 137 498428078 498427940 2.710000e-25 126.0
29 TraesCS6D01G279900 chr3D 95.455 66 1 1 566 629 40991677 40991742 1.270000e-18 104.0
30 TraesCS6D01G279900 chr5B 89.394 66 7 0 566 631 589203580 589203515 1.660000e-12 84.2


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 TraesCS6D01G279900 chr6D 387798013 387800609 2596 False 4796.000000 4796 100.000000 1 2597 1 chr6D.!!$F1 2596
1 TraesCS6D01G279900 chr7D 91693243 91695014 1771 False 2791.000000 2791 95.096000 825 2597 1 chr7D.!!$F2 1772
2 TraesCS6D01G279900 chr7D 7485477 7487085 1608 False 1561.000000 1561 84.292000 993 2597 1 chr7D.!!$F1 1604
3 TraesCS6D01G279900 chr7A 653599312 653600565 1253 False 1770.000000 1770 92.124000 825 2080 1 chr7A.!!$F1 1255
4 TraesCS6D01G279900 chr7A 653610745 653611264 519 False 817.000000 817 95.000000 2078 2597 1 chr7A.!!$F2 519
5 TraesCS6D01G279900 chr7A 653625231 653625750 519 False 811.000000 811 94.808000 2078 2597 1 chr7A.!!$F3 519
6 TraesCS6D01G279900 chr7A 653640824 653641343 519 False 795.000000 795 94.231000 2078 2597 1 chr7A.!!$F4 519
7 TraesCS6D01G279900 chr2A 754596368 754598127 1759 True 1709.000000 1709 84.225000 828 2597 1 chr2A.!!$R1 1769
8 TraesCS6D01G279900 chr2A 102742518 102744286 1768 False 1511.000000 1511 82.231000 825 2593 1 chr2A.!!$F1 1768
9 TraesCS6D01G279900 chr2D 497912230 497914000 1770 False 1539.000000 1539 82.462000 824 2590 1 chr2D.!!$F1 1766
10 TraesCS6D01G279900 chr4D 10401209 10402978 1769 True 1498.000000 1498 82.133000 825 2597 1 chr4D.!!$R1 1772
11 TraesCS6D01G279900 chr1D 439431102 439432714 1612 True 1487.000000 1487 83.416000 993 2597 1 chr1D.!!$R1 1604
12 TraesCS6D01G279900 chr7B 54266206 54267980 1774 False 1327.000000 1327 80.335000 824 2597 1 chr7B.!!$F1 1773
13 TraesCS6D01G279900 chr7B 684963535 684965019 1484 False 1286.000000 1286 82.372000 1080 2582 1 chr7B.!!$F2 1502
14 TraesCS6D01G279900 chr7B 34660611 34662063 1452 True 1158.000000 1158 81.279000 824 2293 1 chr7B.!!$R1 1469
15 TraesCS6D01G279900 chr5A 14245845 14247613 1768 True 1253.000000 1253 79.619000 826 2597 1 chr5A.!!$R1 1771
16 TraesCS6D01G279900 chr6B 579036970 579037585 615 False 291.466667 577 94.941667 162 805 3 chr6B.!!$F1 643
17 TraesCS6D01G279900 chr6A 533237807 533238379 572 False 351.500000 481 89.601000 162 791 2 chr6A.!!$F1 629

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
983 1045 0.171903 GGCGCATCTGCATCACTTTT 59.828 50.0 10.83 0.0 42.21 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2551 2622 0.179004 TCCATGTTTTGTGCCGGAGT 60.179 50.0 5.05 0.0 0.0 3.85 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
23 24 6.419980 CAAACTCCAAAAAGCACATGAAAA 57.580 33.333 0.00 0.00 0.00 2.29
24 25 6.250089 CAAACTCCAAAAAGCACATGAAAAC 58.750 36.000 0.00 0.00 0.00 2.43
25 26 4.111916 ACTCCAAAAAGCACATGAAAACG 58.888 39.130 0.00 0.00 0.00 3.60
26 27 4.142271 ACTCCAAAAAGCACATGAAAACGA 60.142 37.500 0.00 0.00 0.00 3.85
27 28 4.748892 TCCAAAAAGCACATGAAAACGAA 58.251 34.783 0.00 0.00 0.00 3.85
28 29 4.803088 TCCAAAAAGCACATGAAAACGAAG 59.197 37.500 0.00 0.00 0.00 3.79
29 30 4.508052 CAAAAAGCACATGAAAACGAAGC 58.492 39.130 0.00 0.00 0.00 3.86
30 31 2.422276 AAGCACATGAAAACGAAGCC 57.578 45.000 0.00 0.00 0.00 4.35
31 32 0.598065 AGCACATGAAAACGAAGCCC 59.402 50.000 0.00 0.00 0.00 5.19
32 33 0.598065 GCACATGAAAACGAAGCCCT 59.402 50.000 0.00 0.00 0.00 5.19
33 34 1.401539 GCACATGAAAACGAAGCCCTC 60.402 52.381 0.00 0.00 0.00 4.30
34 35 1.200020 CACATGAAAACGAAGCCCTCC 59.800 52.381 0.00 0.00 0.00 4.30
35 36 0.811281 CATGAAAACGAAGCCCTCCC 59.189 55.000 0.00 0.00 0.00 4.30
36 37 0.676782 ATGAAAACGAAGCCCTCCCG 60.677 55.000 0.00 0.00 0.00 5.14
37 38 2.671963 AAAACGAAGCCCTCCCGC 60.672 61.111 0.00 0.00 0.00 6.13
38 39 4.717313 AAACGAAGCCCTCCCGCC 62.717 66.667 0.00 0.00 0.00 6.13
54 55 2.504519 CCGGAAAGGGACGGGATC 59.495 66.667 0.00 0.00 46.08 3.36
63 64 2.280186 GACGGGATCCATCGTGCC 60.280 66.667 19.08 4.04 39.88 5.01
64 65 2.764128 ACGGGATCCATCGTGCCT 60.764 61.111 15.23 0.00 38.25 4.75
65 66 2.029666 CGGGATCCATCGTGCCTC 59.970 66.667 15.23 0.00 0.00 4.70
66 67 2.502492 CGGGATCCATCGTGCCTCT 61.502 63.158 15.23 0.00 0.00 3.69
67 68 1.179174 CGGGATCCATCGTGCCTCTA 61.179 60.000 15.23 0.00 0.00 2.43
68 69 1.270907 GGGATCCATCGTGCCTCTAT 58.729 55.000 15.23 0.00 0.00 1.98
69 70 1.066573 GGGATCCATCGTGCCTCTATG 60.067 57.143 15.23 0.00 0.00 2.23
70 71 1.895798 GGATCCATCGTGCCTCTATGA 59.104 52.381 6.95 0.00 0.00 2.15
71 72 2.499289 GGATCCATCGTGCCTCTATGAT 59.501 50.000 6.95 0.00 0.00 2.45
72 73 3.430098 GGATCCATCGTGCCTCTATGATC 60.430 52.174 6.95 0.00 0.00 2.92
73 74 1.895798 TCCATCGTGCCTCTATGATCC 59.104 52.381 0.00 0.00 0.00 3.36
74 75 1.620323 CCATCGTGCCTCTATGATCCA 59.380 52.381 0.00 0.00 0.00 3.41
75 76 2.037641 CCATCGTGCCTCTATGATCCAA 59.962 50.000 0.00 0.00 0.00 3.53
76 77 3.324117 CATCGTGCCTCTATGATCCAAG 58.676 50.000 0.00 0.00 0.00 3.61
77 78 1.688735 TCGTGCCTCTATGATCCAAGG 59.311 52.381 0.00 0.00 0.00 3.61
78 79 1.688735 CGTGCCTCTATGATCCAAGGA 59.311 52.381 0.00 0.00 0.00 3.36
79 80 2.546795 CGTGCCTCTATGATCCAAGGAC 60.547 54.545 0.00 0.00 0.00 3.85
80 81 2.050144 TGCCTCTATGATCCAAGGACC 58.950 52.381 0.00 0.00 0.00 4.46
81 82 2.050144 GCCTCTATGATCCAAGGACCA 58.950 52.381 0.00 0.00 0.00 4.02
82 83 2.641815 GCCTCTATGATCCAAGGACCAT 59.358 50.000 0.83 0.83 32.29 3.55
83 84 3.840666 GCCTCTATGATCCAAGGACCATA 59.159 47.826 3.22 3.22 29.83 2.74
84 85 4.081198 GCCTCTATGATCCAAGGACCATAG 60.081 50.000 20.23 20.23 45.60 2.23
85 86 4.469227 CCTCTATGATCCAAGGACCATAGG 59.531 50.000 23.99 16.52 44.78 2.57
86 87 5.336945 CTCTATGATCCAAGGACCATAGGA 58.663 45.833 23.99 13.39 44.78 2.94
87 88 5.336945 TCTATGATCCAAGGACCATAGGAG 58.663 45.833 23.99 7.75 44.78 3.69
88 89 3.706389 TGATCCAAGGACCATAGGAGA 57.294 47.619 0.00 0.00 32.91 3.71
89 90 3.309296 TGATCCAAGGACCATAGGAGAC 58.691 50.000 0.00 0.00 32.91 3.36
90 91 1.776662 TCCAAGGACCATAGGAGACG 58.223 55.000 0.00 0.00 0.00 4.18
91 92 1.286849 TCCAAGGACCATAGGAGACGA 59.713 52.381 0.00 0.00 0.00 4.20
92 93 1.683917 CCAAGGACCATAGGAGACGAG 59.316 57.143 0.00 0.00 0.00 4.18
93 94 2.656002 CAAGGACCATAGGAGACGAGA 58.344 52.381 0.00 0.00 0.00 4.04
94 95 2.351706 AGGACCATAGGAGACGAGAC 57.648 55.000 0.00 0.00 0.00 3.36
95 96 0.945813 GGACCATAGGAGACGAGACG 59.054 60.000 0.00 0.00 0.00 4.18
96 97 0.945813 GACCATAGGAGACGAGACGG 59.054 60.000 0.00 0.00 0.00 4.79
97 98 0.545171 ACCATAGGAGACGAGACGGA 59.455 55.000 0.00 0.00 0.00 4.69
98 99 1.064906 ACCATAGGAGACGAGACGGAA 60.065 52.381 0.00 0.00 0.00 4.30
99 100 1.334243 CCATAGGAGACGAGACGGAAC 59.666 57.143 0.00 0.00 0.00 3.62
147 148 0.463620 CTAACTGAGGAGGCAGGAGC 59.536 60.000 0.00 0.00 40.20 4.70
148 149 1.323271 TAACTGAGGAGGCAGGAGCG 61.323 60.000 0.00 0.00 43.41 5.03
149 150 2.757508 CTGAGGAGGCAGGAGCGA 60.758 66.667 0.00 0.00 43.41 4.93
150 151 2.283894 TGAGGAGGCAGGAGCGAA 60.284 61.111 0.00 0.00 43.41 4.70
151 152 2.295472 CTGAGGAGGCAGGAGCGAAG 62.295 65.000 0.00 0.00 43.41 3.79
152 153 3.080121 AGGAGGCAGGAGCGAAGG 61.080 66.667 0.00 0.00 43.41 3.46
153 154 4.847444 GGAGGCAGGAGCGAAGGC 62.847 72.222 0.00 0.00 43.41 4.35
217 218 8.627208 ACACAATTATATCCTGATGTTCATCC 57.373 34.615 9.83 0.00 0.00 3.51
225 226 2.086869 CTGATGTTCATCCGTGCCTTT 58.913 47.619 9.83 0.00 0.00 3.11
227 228 3.879295 CTGATGTTCATCCGTGCCTTTAT 59.121 43.478 9.83 0.00 0.00 1.40
235 236 4.569162 TCATCCGTGCCTTTATTAAAGTCG 59.431 41.667 13.68 13.60 36.77 4.18
256 258 6.258230 TCGAACTCGATTTTAAGACACCTA 57.742 37.500 0.00 0.00 44.22 3.08
259 261 7.274904 TCGAACTCGATTTTAAGACACCTAATG 59.725 37.037 0.00 0.00 44.22 1.90
264 266 8.036273 TCGATTTTAAGACACCTAATGAAACC 57.964 34.615 0.00 0.00 0.00 3.27
272 274 5.765182 AGACACCTAATGAAACCAAAGTCAG 59.235 40.000 0.00 0.00 0.00 3.51
273 275 4.827284 ACACCTAATGAAACCAAAGTCAGG 59.173 41.667 0.00 0.00 0.00 3.86
330 332 7.959175 TCTCTGCCTTAACTAAAGAAACTACA 58.041 34.615 0.00 0.00 37.38 2.74
331 333 8.594550 TCTCTGCCTTAACTAAAGAAACTACAT 58.405 33.333 0.00 0.00 37.38 2.29
496 503 4.013728 GACACCAATAATGCCACCACTAA 58.986 43.478 0.00 0.00 0.00 2.24
499 506 3.384467 ACCAATAATGCCACCACTAATGC 59.616 43.478 0.00 0.00 0.00 3.56
566 573 5.088739 CCTGCAAATTGATCACGTTAACTC 58.911 41.667 3.71 0.00 0.00 3.01
567 574 5.041951 TGCAAATTGATCACGTTAACTCC 57.958 39.130 3.71 0.00 0.00 3.85
568 575 4.759693 TGCAAATTGATCACGTTAACTCCT 59.240 37.500 3.71 0.00 0.00 3.69
569 576 5.935206 TGCAAATTGATCACGTTAACTCCTA 59.065 36.000 3.71 0.00 0.00 2.94
570 577 6.428465 TGCAAATTGATCACGTTAACTCCTAA 59.572 34.615 3.71 0.00 0.00 2.69
571 578 7.041030 TGCAAATTGATCACGTTAACTCCTAAA 60.041 33.333 3.71 0.00 0.00 1.85
572 579 7.806014 GCAAATTGATCACGTTAACTCCTAAAA 59.194 33.333 3.71 0.00 0.00 1.52
573 580 9.840427 CAAATTGATCACGTTAACTCCTAAAAT 57.160 29.630 3.71 0.00 0.00 1.82
575 582 9.840427 AATTGATCACGTTAACTCCTAAAATTG 57.160 29.630 3.71 0.00 0.00 2.32
576 583 7.972832 TGATCACGTTAACTCCTAAAATTGT 57.027 32.000 3.71 0.00 0.00 2.71
577 584 9.491675 TTGATCACGTTAACTCCTAAAATTGTA 57.508 29.630 3.71 0.00 0.00 2.41
578 585 9.491675 TGATCACGTTAACTCCTAAAATTGTAA 57.508 29.630 3.71 0.00 0.00 2.41
581 588 8.274939 TCACGTTAACTCCTAAAATTGTAAACG 58.725 33.333 3.71 6.52 41.08 3.60
582 589 8.274939 CACGTTAACTCCTAAAATTGTAAACGA 58.725 33.333 12.64 0.00 39.25 3.85
583 590 8.275632 ACGTTAACTCCTAAAATTGTAAACGAC 58.724 33.333 12.64 0.00 39.25 4.34
584 591 8.490355 CGTTAACTCCTAAAATTGTAAACGACT 58.510 33.333 3.71 0.00 38.49 4.18
587 594 7.198306 ACTCCTAAAATTGTAAACGACTTGG 57.802 36.000 0.00 0.00 0.00 3.61
588 595 6.004408 TCCTAAAATTGTAAACGACTTGGC 57.996 37.500 0.00 0.00 0.00 4.52
589 596 5.048573 TCCTAAAATTGTAAACGACTTGGCC 60.049 40.000 0.00 0.00 0.00 5.36
590 597 4.657436 AAAATTGTAAACGACTTGGCCA 57.343 36.364 0.00 0.00 0.00 5.36
591 598 4.864704 AAATTGTAAACGACTTGGCCAT 57.135 36.364 6.09 0.00 0.00 4.40
592 599 4.434713 AATTGTAAACGACTTGGCCATC 57.565 40.909 6.09 0.00 0.00 3.51
593 600 2.552599 TGTAAACGACTTGGCCATCA 57.447 45.000 6.09 0.00 0.00 3.07
594 601 3.066291 TGTAAACGACTTGGCCATCAT 57.934 42.857 6.09 0.00 0.00 2.45
595 602 3.417101 TGTAAACGACTTGGCCATCATT 58.583 40.909 6.09 2.93 0.00 2.57
596 603 3.823873 TGTAAACGACTTGGCCATCATTT 59.176 39.130 6.09 5.88 0.00 2.32
597 604 3.302365 AAACGACTTGGCCATCATTTG 57.698 42.857 6.09 0.00 0.00 2.32
598 605 2.198827 ACGACTTGGCCATCATTTGA 57.801 45.000 6.09 0.00 0.00 2.69
599 606 2.086869 ACGACTTGGCCATCATTTGAG 58.913 47.619 6.09 0.37 0.00 3.02
600 607 1.402968 CGACTTGGCCATCATTTGAGG 59.597 52.381 6.09 0.00 0.00 3.86
601 608 2.726821 GACTTGGCCATCATTTGAGGA 58.273 47.619 6.09 0.00 0.00 3.71
602 609 3.091545 GACTTGGCCATCATTTGAGGAA 58.908 45.455 6.09 0.00 0.00 3.36
603 610 3.703052 GACTTGGCCATCATTTGAGGAAT 59.297 43.478 6.09 0.00 0.00 3.01
604 611 4.870636 ACTTGGCCATCATTTGAGGAATA 58.129 39.130 6.09 0.00 0.00 1.75
605 612 5.271598 ACTTGGCCATCATTTGAGGAATAA 58.728 37.500 6.09 0.00 0.00 1.40
606 613 5.721000 ACTTGGCCATCATTTGAGGAATAAA 59.279 36.000 6.09 0.00 0.00 1.40
607 614 5.857471 TGGCCATCATTTGAGGAATAAAG 57.143 39.130 0.00 0.00 0.00 1.85
608 615 5.271598 TGGCCATCATTTGAGGAATAAAGT 58.728 37.500 0.00 0.00 0.00 2.66
609 616 5.721000 TGGCCATCATTTGAGGAATAAAGTT 59.279 36.000 0.00 0.00 0.00 2.66
610 617 6.894654 TGGCCATCATTTGAGGAATAAAGTTA 59.105 34.615 0.00 0.00 0.00 2.24
611 618 7.564660 TGGCCATCATTTGAGGAATAAAGTTAT 59.435 33.333 0.00 0.00 0.00 1.89
612 619 8.424133 GGCCATCATTTGAGGAATAAAGTTATT 58.576 33.333 0.00 0.00 36.14 1.40
613 620 9.252962 GCCATCATTTGAGGAATAAAGTTATTG 57.747 33.333 1.05 0.00 33.72 1.90
673 687 3.865446 GGCCTTTCCGTTAGTAGCTTTA 58.135 45.455 0.00 0.00 0.00 1.85
805 852 2.287977 ACACCTAAAGGAAAGCCCAC 57.712 50.000 2.23 0.00 38.94 4.61
806 853 1.780919 ACACCTAAAGGAAAGCCCACT 59.219 47.619 2.23 0.00 38.94 4.00
807 854 2.177016 ACACCTAAAGGAAAGCCCACTT 59.823 45.455 2.23 0.00 38.94 3.16
808 855 3.396611 ACACCTAAAGGAAAGCCCACTTA 59.603 43.478 2.23 0.00 38.94 2.24
809 856 4.010349 CACCTAAAGGAAAGCCCACTTAG 58.990 47.826 2.23 0.00 38.94 2.18
810 857 3.914435 ACCTAAAGGAAAGCCCACTTAGA 59.086 43.478 2.23 0.00 35.91 2.10
811 858 4.540502 ACCTAAAGGAAAGCCCACTTAGAT 59.459 41.667 2.23 0.00 35.91 1.98
812 859 4.884164 CCTAAAGGAAAGCCCACTTAGATG 59.116 45.833 0.00 0.00 35.91 2.90
813 860 2.426842 AGGAAAGCCCACTTAGATGC 57.573 50.000 0.00 0.00 34.05 3.91
814 861 1.064389 AGGAAAGCCCACTTAGATGCC 60.064 52.381 0.00 0.00 34.05 4.40
815 862 1.393603 GAAAGCCCACTTAGATGCCC 58.606 55.000 0.00 0.00 34.05 5.36
816 863 1.002857 AAAGCCCACTTAGATGCCCT 58.997 50.000 0.00 0.00 34.05 5.19
817 864 1.893315 AAGCCCACTTAGATGCCCTA 58.107 50.000 0.00 0.00 33.13 3.53
818 865 2.124560 AGCCCACTTAGATGCCCTAT 57.875 50.000 0.00 0.00 0.00 2.57
819 866 1.701847 AGCCCACTTAGATGCCCTATG 59.298 52.381 0.00 0.00 0.00 2.23
820 867 1.884067 GCCCACTTAGATGCCCTATGC 60.884 57.143 0.00 0.00 41.77 3.14
888 936 5.336055 CCATCGCCGTTAAGAGATCTTATCT 60.336 44.000 0.00 0.00 43.70 1.98
982 1044 0.961857 TGGCGCATCTGCATCACTTT 60.962 50.000 10.83 0.00 42.21 2.66
983 1045 0.171903 GGCGCATCTGCATCACTTTT 59.828 50.000 10.83 0.00 42.21 2.27
1062 1124 3.133721 GGAAGAATCTTGAGGAGCTGCTA 59.866 47.826 8.12 0.00 0.00 3.49
1110 1172 0.907230 TCGATGATGTGGTGGTGGGA 60.907 55.000 0.00 0.00 0.00 4.37
1192 1254 1.201647 CGACTCGCCCTTTCAGTTCTA 59.798 52.381 0.00 0.00 0.00 2.10
1320 1382 1.515521 GGAAGAAGGTTGTGCACGGG 61.516 60.000 13.13 0.00 0.00 5.28
1515 1577 3.256631 TGAAAGAAATTCAGCTTGCTCCC 59.743 43.478 0.00 0.00 43.08 4.30
1527 1589 2.565841 CTTGCTCCCAGGCTGTATTAC 58.434 52.381 14.43 0.00 0.00 1.89
1673 1736 2.957491 TCTGCAAGGTTTGTGGTTTG 57.043 45.000 0.00 0.00 0.00 2.93
1772 1835 0.693049 AACGAAGGGAGATTGCACCT 59.307 50.000 0.00 0.00 35.78 4.00
1872 1935 4.504916 CCCGTCAGCGCTCTCCAG 62.505 72.222 7.13 0.00 36.67 3.86
2389 2459 8.754080 TCTTTAGGTTTTGATTTCAGTTTTGGA 58.246 29.630 0.00 0.00 0.00 3.53
2417 2487 1.742268 GTAGTGGTCGTAGTGGAGGTC 59.258 57.143 0.00 0.00 0.00 3.85
2457 2527 5.638596 AATTCGGTGGAGGTTGAAATAAC 57.361 39.130 0.00 0.00 0.00 1.89
2468 2538 7.148052 TGGAGGTTGAAATAACAAACTTTTCGA 60.148 33.333 0.00 0.00 46.02 3.71
2558 2629 0.530870 GGCAACTAGATCACTCCGGC 60.531 60.000 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.250089 GTTTTCATGTGCTTTTTGGAGTTTG 58.750 36.000 0.00 0.00 0.00 2.93
1 2 5.063312 CGTTTTCATGTGCTTTTTGGAGTTT 59.937 36.000 0.00 0.00 0.00 2.66
2 3 4.566360 CGTTTTCATGTGCTTTTTGGAGTT 59.434 37.500 0.00 0.00 0.00 3.01
3 4 4.111916 CGTTTTCATGTGCTTTTTGGAGT 58.888 39.130 0.00 0.00 0.00 3.85
4 5 4.358851 TCGTTTTCATGTGCTTTTTGGAG 58.641 39.130 0.00 0.00 0.00 3.86
5 6 4.377839 TCGTTTTCATGTGCTTTTTGGA 57.622 36.364 0.00 0.00 0.00 3.53
6 7 4.550639 GCTTCGTTTTCATGTGCTTTTTGG 60.551 41.667 0.00 0.00 0.00 3.28
7 8 4.508052 GCTTCGTTTTCATGTGCTTTTTG 58.492 39.130 0.00 0.00 0.00 2.44
8 9 3.555547 GGCTTCGTTTTCATGTGCTTTTT 59.444 39.130 0.00 0.00 0.00 1.94
9 10 3.123050 GGCTTCGTTTTCATGTGCTTTT 58.877 40.909 0.00 0.00 0.00 2.27
10 11 2.545742 GGGCTTCGTTTTCATGTGCTTT 60.546 45.455 0.00 0.00 0.00 3.51
11 12 1.000274 GGGCTTCGTTTTCATGTGCTT 60.000 47.619 0.00 0.00 0.00 3.91
12 13 0.598065 GGGCTTCGTTTTCATGTGCT 59.402 50.000 0.00 0.00 0.00 4.40
13 14 0.598065 AGGGCTTCGTTTTCATGTGC 59.402 50.000 0.00 0.00 0.00 4.57
14 15 1.200020 GGAGGGCTTCGTTTTCATGTG 59.800 52.381 0.00 0.00 0.00 3.21
15 16 1.534729 GGAGGGCTTCGTTTTCATGT 58.465 50.000 0.00 0.00 0.00 3.21
16 17 0.811281 GGGAGGGCTTCGTTTTCATG 59.189 55.000 0.00 0.00 0.00 3.07
17 18 0.676782 CGGGAGGGCTTCGTTTTCAT 60.677 55.000 0.00 0.00 0.00 2.57
18 19 1.302192 CGGGAGGGCTTCGTTTTCA 60.302 57.895 0.00 0.00 0.00 2.69
19 20 2.687805 GCGGGAGGGCTTCGTTTTC 61.688 63.158 0.00 0.00 0.00 2.29
20 21 2.671963 GCGGGAGGGCTTCGTTTT 60.672 61.111 0.00 0.00 0.00 2.43
21 22 4.717313 GGCGGGAGGGCTTCGTTT 62.717 66.667 0.00 0.00 38.40 3.60
36 37 3.752088 GATCCCGTCCCTTTCCGGC 62.752 68.421 0.00 0.00 42.87 6.13
37 38 2.504519 GATCCCGTCCCTTTCCGG 59.495 66.667 0.00 0.00 43.82 5.14
38 39 2.504519 GGATCCCGTCCCTTTCCG 59.495 66.667 0.00 0.00 41.50 4.30
46 47 2.280186 GGCACGATGGATCCCGTC 60.280 66.667 12.47 8.38 36.83 4.79
47 48 2.764128 AGGCACGATGGATCCCGT 60.764 61.111 9.90 9.91 39.88 5.28
48 49 1.179174 TAGAGGCACGATGGATCCCG 61.179 60.000 9.90 9.19 0.00 5.14
49 50 1.066573 CATAGAGGCACGATGGATCCC 60.067 57.143 9.90 0.00 0.00 3.85
50 51 1.895798 TCATAGAGGCACGATGGATCC 59.104 52.381 4.20 4.20 33.50 3.36
51 52 3.430098 GGATCATAGAGGCACGATGGATC 60.430 52.174 5.33 6.92 33.50 3.36
52 53 2.499289 GGATCATAGAGGCACGATGGAT 59.501 50.000 5.33 0.00 33.50 3.41
53 54 1.895798 GGATCATAGAGGCACGATGGA 59.104 52.381 5.33 0.00 33.50 3.41
54 55 1.620323 TGGATCATAGAGGCACGATGG 59.380 52.381 5.33 0.00 33.50 3.51
55 56 3.324117 CTTGGATCATAGAGGCACGATG 58.676 50.000 0.00 0.00 33.87 3.84
56 57 2.301296 CCTTGGATCATAGAGGCACGAT 59.699 50.000 0.00 0.00 0.00 3.73
57 58 1.688735 CCTTGGATCATAGAGGCACGA 59.311 52.381 0.00 0.00 0.00 4.35
58 59 1.688735 TCCTTGGATCATAGAGGCACG 59.311 52.381 0.00 0.00 0.00 5.34
59 60 2.224402 GGTCCTTGGATCATAGAGGCAC 60.224 54.545 0.00 0.00 0.00 5.01
60 61 2.050144 GGTCCTTGGATCATAGAGGCA 58.950 52.381 0.00 0.00 0.00 4.75
61 62 2.050144 TGGTCCTTGGATCATAGAGGC 58.950 52.381 0.00 0.00 0.00 4.70
62 63 4.469227 CCTATGGTCCTTGGATCATAGAGG 59.531 50.000 34.42 24.88 40.64 3.69
63 64 5.336945 TCCTATGGTCCTTGGATCATAGAG 58.663 45.833 34.42 26.92 40.64 2.43
64 65 5.076458 TCTCCTATGGTCCTTGGATCATAGA 59.924 44.000 34.42 22.57 40.64 1.98
65 66 5.186797 GTCTCCTATGGTCCTTGGATCATAG 59.813 48.000 29.60 29.60 38.95 2.23
66 67 5.087323 GTCTCCTATGGTCCTTGGATCATA 58.913 45.833 18.41 18.41 0.00 2.15
67 68 3.906846 GTCTCCTATGGTCCTTGGATCAT 59.093 47.826 18.16 18.16 0.00 2.45
68 69 3.309296 GTCTCCTATGGTCCTTGGATCA 58.691 50.000 4.96 4.96 0.00 2.92
69 70 2.297597 CGTCTCCTATGGTCCTTGGATC 59.702 54.545 0.00 0.00 0.00 3.36
70 71 2.091278 TCGTCTCCTATGGTCCTTGGAT 60.091 50.000 0.00 0.00 0.00 3.41
71 72 1.286849 TCGTCTCCTATGGTCCTTGGA 59.713 52.381 0.00 0.00 0.00 3.53
72 73 1.683917 CTCGTCTCCTATGGTCCTTGG 59.316 57.143 0.00 0.00 0.00 3.61
73 74 2.359531 GTCTCGTCTCCTATGGTCCTTG 59.640 54.545 0.00 0.00 0.00 3.61
74 75 2.657143 GTCTCGTCTCCTATGGTCCTT 58.343 52.381 0.00 0.00 0.00 3.36
75 76 1.475392 CGTCTCGTCTCCTATGGTCCT 60.475 57.143 0.00 0.00 0.00 3.85
76 77 0.945813 CGTCTCGTCTCCTATGGTCC 59.054 60.000 0.00 0.00 0.00 4.46
77 78 0.945813 CCGTCTCGTCTCCTATGGTC 59.054 60.000 0.00 0.00 0.00 4.02
78 79 0.545171 TCCGTCTCGTCTCCTATGGT 59.455 55.000 0.00 0.00 0.00 3.55
79 80 1.334243 GTTCCGTCTCGTCTCCTATGG 59.666 57.143 0.00 0.00 0.00 2.74
80 81 1.003759 CGTTCCGTCTCGTCTCCTATG 60.004 57.143 0.00 0.00 0.00 2.23
81 82 1.297664 CGTTCCGTCTCGTCTCCTAT 58.702 55.000 0.00 0.00 0.00 2.57
82 83 0.742281 CCGTTCCGTCTCGTCTCCTA 60.742 60.000 0.00 0.00 0.00 2.94
83 84 2.039405 CCGTTCCGTCTCGTCTCCT 61.039 63.158 0.00 0.00 0.00 3.69
84 85 2.484203 CCGTTCCGTCTCGTCTCC 59.516 66.667 0.00 0.00 0.00 3.71
85 86 2.202453 GCCGTTCCGTCTCGTCTC 60.202 66.667 0.00 0.00 0.00 3.36
86 87 4.099170 CGCCGTTCCGTCTCGTCT 62.099 66.667 0.00 0.00 0.00 4.18
103 104 4.785453 CTGCCTCTCGCCAACCCC 62.785 72.222 0.00 0.00 36.24 4.95
104 105 4.785453 CCTGCCTCTCGCCAACCC 62.785 72.222 0.00 0.00 36.24 4.11
105 106 4.785453 CCCTGCCTCTCGCCAACC 62.785 72.222 0.00 0.00 36.24 3.77
106 107 2.748058 TTTCCCTGCCTCTCGCCAAC 62.748 60.000 0.00 0.00 36.24 3.77
107 108 2.525124 TTTCCCTGCCTCTCGCCAA 61.525 57.895 0.00 0.00 36.24 4.52
108 109 2.927856 TTTCCCTGCCTCTCGCCA 60.928 61.111 0.00 0.00 36.24 5.69
109 110 2.436824 GTTTCCCTGCCTCTCGCC 60.437 66.667 0.00 0.00 36.24 5.54
110 111 2.436824 GGTTTCCCTGCCTCTCGC 60.437 66.667 0.00 0.00 38.31 5.03
111 112 2.269241 GGGTTTCCCTGCCTCTCG 59.731 66.667 0.00 0.00 41.34 4.04
120 121 1.560146 CCTCCTCAGTTAGGGTTTCCC 59.440 57.143 0.00 0.00 46.55 3.97
121 122 1.065345 GCCTCCTCAGTTAGGGTTTCC 60.065 57.143 0.00 0.00 46.55 3.13
122 123 1.628846 TGCCTCCTCAGTTAGGGTTTC 59.371 52.381 0.00 0.00 46.55 2.78
123 124 1.630878 CTGCCTCCTCAGTTAGGGTTT 59.369 52.381 0.00 0.00 46.55 3.27
124 125 1.280457 CTGCCTCCTCAGTTAGGGTT 58.720 55.000 0.00 0.00 46.55 4.11
125 126 0.618968 CCTGCCTCCTCAGTTAGGGT 60.619 60.000 0.00 0.00 46.55 4.34
126 127 0.325671 TCCTGCCTCCTCAGTTAGGG 60.326 60.000 0.00 0.00 46.55 3.53
128 129 0.463620 GCTCCTGCCTCCTCAGTTAG 59.536 60.000 0.00 0.00 32.32 2.34
129 130 1.323271 CGCTCCTGCCTCCTCAGTTA 61.323 60.000 0.00 0.00 35.36 2.24
130 131 2.654079 CGCTCCTGCCTCCTCAGTT 61.654 63.158 0.00 0.00 35.36 3.16
131 132 3.073735 CGCTCCTGCCTCCTCAGT 61.074 66.667 0.00 0.00 35.36 3.41
132 133 2.295472 CTTCGCTCCTGCCTCCTCAG 62.295 65.000 0.00 0.00 35.36 3.35
133 134 2.283894 TTCGCTCCTGCCTCCTCA 60.284 61.111 0.00 0.00 35.36 3.86
134 135 2.498726 CTTCGCTCCTGCCTCCTC 59.501 66.667 0.00 0.00 35.36 3.71
135 136 3.080121 CCTTCGCTCCTGCCTCCT 61.080 66.667 0.00 0.00 35.36 3.69
136 137 4.847444 GCCTTCGCTCCTGCCTCC 62.847 72.222 0.00 0.00 35.36 4.30
137 138 1.961180 TTAGCCTTCGCTCCTGCCTC 61.961 60.000 0.00 0.00 43.95 4.70
138 139 1.341156 ATTAGCCTTCGCTCCTGCCT 61.341 55.000 0.00 0.00 43.95 4.75
139 140 0.882484 GATTAGCCTTCGCTCCTGCC 60.882 60.000 0.00 0.00 43.95 4.85
140 141 0.105778 AGATTAGCCTTCGCTCCTGC 59.894 55.000 0.00 0.00 43.95 4.85
141 142 1.410517 TCAGATTAGCCTTCGCTCCTG 59.589 52.381 0.00 0.00 43.95 3.86
142 143 1.410882 GTCAGATTAGCCTTCGCTCCT 59.589 52.381 0.00 0.00 43.95 3.69
143 144 1.859383 GTCAGATTAGCCTTCGCTCC 58.141 55.000 0.00 0.00 43.95 4.70
144 145 1.065701 TCGTCAGATTAGCCTTCGCTC 59.934 52.381 0.00 0.00 43.95 5.03
145 146 2.101582 AATCGTCAGATTAGCCTTCGCT 59.898 45.455 0.00 0.00 44.65 4.93
146 147 2.141535 ATCGTCAGATTAGCCTTCGC 57.858 50.000 0.00 0.00 32.03 4.70
147 148 3.706698 TGAATCGTCAGATTAGCCTTCG 58.293 45.455 0.00 0.00 46.30 3.79
148 149 5.112686 AGTTGAATCGTCAGATTAGCCTTC 58.887 41.667 0.00 0.00 46.30 3.46
149 150 5.091261 AGTTGAATCGTCAGATTAGCCTT 57.909 39.130 0.00 0.00 46.30 4.35
150 151 4.744795 AGTTGAATCGTCAGATTAGCCT 57.255 40.909 0.00 0.00 46.30 4.58
151 152 4.870426 TGAAGTTGAATCGTCAGATTAGCC 59.130 41.667 0.00 0.00 46.30 3.93
152 153 6.595772 ATGAAGTTGAATCGTCAGATTAGC 57.404 37.500 0.00 0.00 46.30 3.09
153 154 8.189709 TCAATGAAGTTGAATCGTCAGATTAG 57.810 34.615 0.00 0.00 46.30 1.73
188 189 8.685427 TGAACATCAGGATATAATTGTGTTTGG 58.315 33.333 0.00 0.00 0.00 3.28
201 202 2.224281 GGCACGGATGAACATCAGGATA 60.224 50.000 16.33 0.00 39.54 2.59
235 236 8.475331 TCATTAGGTGTCTTAAAATCGAGTTC 57.525 34.615 0.00 0.00 0.00 3.01
256 258 2.962859 AGGCCTGACTTTGGTTTCATT 58.037 42.857 3.11 0.00 0.00 2.57
259 261 3.956744 AGATAGGCCTGACTTTGGTTTC 58.043 45.455 17.99 0.00 0.00 2.78
264 266 3.922171 AGGAAGATAGGCCTGACTTTG 57.078 47.619 17.99 0.00 32.06 2.77
310 312 8.693542 TCGTATGTAGTTTCTTTAGTTAAGGC 57.306 34.615 0.00 0.00 34.46 4.35
330 332 5.965334 CGAGCTTGTGCAAATTTTATCGTAT 59.035 36.000 0.00 0.00 42.74 3.06
331 333 5.120986 TCGAGCTTGTGCAAATTTTATCGTA 59.879 36.000 0.00 0.00 42.74 3.43
496 503 3.055094 AGGTCTTTGTATGGTCTTCGCAT 60.055 43.478 0.00 0.00 0.00 4.73
499 506 7.429636 TTTTTAGGTCTTTGTATGGTCTTCG 57.570 36.000 0.00 0.00 0.00 3.79
555 562 8.274939 CGTTTACAATTTTAGGAGTTAACGTGA 58.725 33.333 0.00 0.00 40.16 4.35
566 573 5.158494 GGCCAAGTCGTTTACAATTTTAGG 58.842 41.667 0.00 0.00 0.00 2.69
567 574 5.764131 TGGCCAAGTCGTTTACAATTTTAG 58.236 37.500 0.61 0.00 0.00 1.85
568 575 5.769484 TGGCCAAGTCGTTTACAATTTTA 57.231 34.783 0.61 0.00 0.00 1.52
569 576 4.657436 TGGCCAAGTCGTTTACAATTTT 57.343 36.364 0.61 0.00 0.00 1.82
570 577 4.279671 TGATGGCCAAGTCGTTTACAATTT 59.720 37.500 10.96 0.00 0.00 1.82
571 578 3.823873 TGATGGCCAAGTCGTTTACAATT 59.176 39.130 10.96 0.00 0.00 2.32
572 579 3.417101 TGATGGCCAAGTCGTTTACAAT 58.583 40.909 10.96 0.00 0.00 2.71
573 580 2.852449 TGATGGCCAAGTCGTTTACAA 58.148 42.857 10.96 0.00 0.00 2.41
574 581 2.552599 TGATGGCCAAGTCGTTTACA 57.447 45.000 10.96 0.00 0.00 2.41
575 582 4.083003 TCAAATGATGGCCAAGTCGTTTAC 60.083 41.667 20.91 2.89 33.18 2.01
576 583 4.075682 TCAAATGATGGCCAAGTCGTTTA 58.924 39.130 20.91 10.66 33.18 2.01
577 584 2.890311 TCAAATGATGGCCAAGTCGTTT 59.110 40.909 17.28 17.28 34.75 3.60
578 585 2.489329 CTCAAATGATGGCCAAGTCGTT 59.511 45.455 10.96 8.99 0.00 3.85
579 586 2.086869 CTCAAATGATGGCCAAGTCGT 58.913 47.619 10.96 1.35 0.00 4.34
580 587 1.402968 CCTCAAATGATGGCCAAGTCG 59.597 52.381 10.96 0.00 0.00 4.18
581 588 2.726821 TCCTCAAATGATGGCCAAGTC 58.273 47.619 10.96 3.94 0.00 3.01
582 589 2.905415 TCCTCAAATGATGGCCAAGT 57.095 45.000 10.96 0.00 0.00 3.16
583 590 5.857471 TTATTCCTCAAATGATGGCCAAG 57.143 39.130 10.96 0.00 0.00 3.61
584 591 5.721000 ACTTTATTCCTCAAATGATGGCCAA 59.279 36.000 10.96 0.00 0.00 4.52
585 592 5.271598 ACTTTATTCCTCAAATGATGGCCA 58.728 37.500 8.56 8.56 0.00 5.36
586 593 5.859205 ACTTTATTCCTCAAATGATGGCC 57.141 39.130 0.00 0.00 0.00 5.36
587 594 9.252962 CAATAACTTTATTCCTCAAATGATGGC 57.747 33.333 0.00 0.00 31.28 4.40
624 631 6.316140 GCAATTTCCTTGAAGTTGGAGTTTTT 59.684 34.615 12.15 0.00 38.88 1.94
625 632 5.817296 GCAATTTCCTTGAAGTTGGAGTTTT 59.183 36.000 12.15 0.00 38.88 2.43
626 633 5.104982 TGCAATTTCCTTGAAGTTGGAGTTT 60.105 36.000 12.15 0.00 38.88 2.66
627 634 4.405358 TGCAATTTCCTTGAAGTTGGAGTT 59.595 37.500 12.15 0.00 38.88 3.01
628 635 3.960102 TGCAATTTCCTTGAAGTTGGAGT 59.040 39.130 12.15 0.00 38.88 3.85
629 636 4.301628 GTGCAATTTCCTTGAAGTTGGAG 58.698 43.478 12.15 0.00 39.31 3.86
630 637 3.243367 CGTGCAATTTCCTTGAAGTTGGA 60.243 43.478 12.15 7.84 38.88 3.53
631 638 3.052036 CGTGCAATTTCCTTGAAGTTGG 58.948 45.455 12.15 0.00 38.88 3.77
673 687 7.510343 TCTTTTCTTTCCTGGAATGGAGAAAAT 59.490 33.333 29.56 0.00 38.45 1.82
812 859 1.002544 GAGAGGGTACATGCATAGGGC 59.997 57.143 0.00 0.00 45.13 5.19
813 860 1.273606 CGAGAGGGTACATGCATAGGG 59.726 57.143 0.00 0.00 0.00 3.53
814 861 1.964223 ACGAGAGGGTACATGCATAGG 59.036 52.381 0.00 0.00 0.00 2.57
815 862 3.735237 AACGAGAGGGTACATGCATAG 57.265 47.619 0.00 0.00 0.00 2.23
816 863 4.038763 CCTAAACGAGAGGGTACATGCATA 59.961 45.833 0.00 0.00 0.00 3.14
817 864 3.181465 CCTAAACGAGAGGGTACATGCAT 60.181 47.826 0.00 0.00 0.00 3.96
818 865 2.167693 CCTAAACGAGAGGGTACATGCA 59.832 50.000 0.00 0.00 0.00 3.96
819 866 2.822764 CCTAAACGAGAGGGTACATGC 58.177 52.381 0.00 0.00 0.00 4.06
846 893 4.845580 AATCGCCGCCAGAGCCTG 62.846 66.667 0.00 0.00 34.57 4.85
888 936 0.390124 CAGCCGGCGGTAGGTATAAA 59.610 55.000 28.82 0.00 0.00 1.40
982 1044 3.569491 CCATCTAGGGTTACTCCGGTAA 58.431 50.000 0.00 0.00 35.78 2.85
983 1045 2.754186 GCCATCTAGGGTTACTCCGGTA 60.754 54.545 0.00 0.00 38.09 4.02
1062 1124 4.472470 TCATCCTGAAGATCCAGATGTTGT 59.528 41.667 0.93 0.00 36.29 3.32
1110 1172 7.255070 GCTTCAAACTTCTTCACATCTTCTTCT 60.255 37.037 0.00 0.00 0.00 2.85
1192 1254 1.999735 CATACACTCAAACATCGCCGT 59.000 47.619 0.00 0.00 0.00 5.68
1411 1473 6.126652 GGTATATTATGGATCTGAGCCCACAT 60.127 42.308 9.83 0.00 34.92 3.21
1515 1577 3.520290 TCACCTTCGTAATACAGCCTG 57.480 47.619 0.00 0.00 0.00 4.85
1527 1589 3.515330 ACCCTAACGTAATCACCTTCG 57.485 47.619 0.00 0.00 0.00 3.79
1673 1736 1.347707 TCCTCGTGATTATGGCCCATC 59.652 52.381 0.00 0.00 0.00 3.51
1845 1908 2.656069 GCTGACGGGTAGCTTGGGA 61.656 63.158 0.00 0.00 38.14 4.37
2389 2459 3.755378 CACTACGACCACTACTACCAACT 59.245 47.826 0.00 0.00 0.00 3.16
2417 2487 8.487176 CACCGAATTTTTCCAAAAGATACAAAG 58.513 33.333 0.00 0.00 0.00 2.77
2457 2527 6.898041 TCCACATGATACTTCGAAAAGTTTG 58.102 36.000 0.00 0.00 43.28 2.93
2468 2538 3.053395 ACCCAAGCATCCACATGATACTT 60.053 43.478 0.00 0.00 37.52 2.24
2551 2622 0.179004 TCCATGTTTTGTGCCGGAGT 60.179 50.000 5.05 0.00 0.00 3.85
2558 2629 6.142161 CGTTTCATAGTGTTCCATGTTTTGTG 59.858 38.462 0.00 0.00 0.00 3.33
2575 2646 0.179111 CGCCTCTCAGCCGTTTCATA 60.179 55.000 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.