Multiple sequence alignment - TraesCS2A01G052600

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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 TraesCS2A01G052600 chr2A 100.000 3696 0 0 1 3696 21007691 21003996 0.000000e+00 6826.0
1 TraesCS2A01G052600 chr2A 88.993 1708 159 15 963 2659 21177303 21178992 0.000000e+00 2085.0
2 TraesCS2A01G052600 chr2A 86.256 1608 200 15 1021 2625 21191617 21193206 0.000000e+00 1725.0
3 TraesCS2A01G052600 chr2A 85.509 1601 208 12 1041 2640 21148240 21149817 0.000000e+00 1650.0
4 TraesCS2A01G052600 chr2D 90.654 2247 171 15 770 3003 20380829 20383049 0.000000e+00 2950.0
5 TraesCS2A01G052600 chr2D 89.090 1769 160 19 904 2659 20324857 20323109 0.000000e+00 2167.0
6 TraesCS2A01G052600 chr2D 85.450 1622 213 17 1022 2640 20189074 20187473 0.000000e+00 1666.0
7 TraesCS2A01G052600 chr2D 84.947 1601 210 17 1034 2629 20183829 20185403 0.000000e+00 1592.0
8 TraesCS2A01G052600 chr2D 90.236 594 48 5 197 787 20380231 20380817 0.000000e+00 767.0
9 TraesCS2A01G052600 chr2B 90.785 2127 151 15 770 2880 33728084 33730181 0.000000e+00 2800.0
10 TraesCS2A01G052600 chr2B 89.221 1707 155 16 963 2659 33662975 33664662 0.000000e+00 2106.0
11 TraesCS2A01G052600 chr2B 86.286 350 39 4 443 787 33727727 33728072 4.510000e-99 372.0
12 TraesCS2A01G052600 chr5D 85.084 1676 197 30 969 2634 406352009 406350377 0.000000e+00 1661.0
13 TraesCS2A01G052600 chr5D 93.578 327 21 0 3014 3340 369030828 369030502 4.290000e-134 488.0
14 TraesCS2A01G052600 chr5D 94.444 216 12 0 3460 3675 369030442 369030227 2.130000e-87 333.0
15 TraesCS2A01G052600 chr5A 83.462 1681 193 27 969 2634 511964693 511963083 0.000000e+00 1485.0
16 TraesCS2A01G052600 chrUn 95.619 662 28 1 3014 3675 10306149 10306809 0.000000e+00 1061.0
17 TraesCS2A01G052600 chrUn 89.899 396 29 6 3002 3387 292088130 292088524 1.980000e-137 499.0
18 TraesCS2A01G052600 chrUn 89.899 396 29 6 3002 3387 312304705 312305099 1.980000e-137 499.0
19 TraesCS2A01G052600 chrUn 90.096 313 20 8 3085 3387 303792666 303792355 2.670000e-106 396.0
20 TraesCS2A01G052600 chrUn 90.096 313 20 8 3085 3387 308988971 308988660 2.670000e-106 396.0
21 TraesCS2A01G052600 chrUn 76.471 221 39 11 2802 3016 395070217 395070430 1.400000e-19 108.0
22 TraesCS2A01G052600 chrUn 76.471 221 39 11 2802 3016 395891618 395891405 1.400000e-19 108.0
23 TraesCS2A01G052600 chr3B 90.657 396 26 6 3002 3387 803452375 803452769 1.970000e-142 516.0
24 TraesCS2A01G052600 chr3B 90.404 396 27 6 3002 3387 803354500 803354894 9.160000e-141 510.0
25 TraesCS2A01G052600 chr3B 90.152 396 28 6 3002 3387 803496987 803497381 4.260000e-139 505.0
26 TraesCS2A01G052600 chr3B 89.394 396 31 6 3002 3387 803324880 803325274 4.290000e-134 488.0
27 TraesCS2A01G052600 chr3B 90.735 313 18 8 3085 3387 803458066 803458377 1.240000e-109 407.0
28 TraesCS2A01G052600 chr3B 89.137 313 22 8 3085 3387 803360328 803360638 2.690000e-101 379.0
29 TraesCS2A01G052600 chr3B 88.818 313 24 4 3085 3387 803502353 803502664 1.250000e-99 374.0
30 TraesCS2A01G052600 chr3B 94.091 220 12 1 3456 3675 803508709 803508927 2.130000e-87 333.0
31 TraesCS2A01G052600 chr3B 93.578 218 14 0 3456 3673 803330771 803330988 3.560000e-85 326.0
32 TraesCS2A01G052600 chr3B 93.578 218 14 0 3456 3673 803360660 803360877 3.560000e-85 326.0
33 TraesCS2A01G052600 chr3B 92.727 220 16 0 3456 3675 803497403 803497622 5.960000e-83 318.0
34 TraesCS2A01G052600 chr3B 92.411 224 16 1 3456 3679 803502686 803502908 5.960000e-83 318.0
35 TraesCS2A01G052600 chr3B 92.202 218 17 0 3456 3673 803458399 803458616 3.580000e-80 309.0
36 TraesCS2A01G052600 chr3B 90.909 220 19 1 3456 3675 803325296 803325514 1.000000e-75 294.0
37 TraesCS2A01G052600 chr3D 82.338 402 52 11 3003 3386 93204975 93204575 7.650000e-87 331.0
38 TraesCS2A01G052600 chr1D 75.465 591 122 19 55 629 22849645 22850228 2.190000e-67 267.0
39 TraesCS2A01G052600 chr4D 77.926 376 65 12 12 371 479443851 479444224 6.210000e-53 219.0
40 TraesCS2A01G052600 chr4D 75.930 457 84 22 12 451 79709732 79709285 1.040000e-50 211.0
41 TraesCS2A01G052600 chr4D 74.308 253 49 12 35 283 113423712 113423472 3.930000e-15 93.5


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 TraesCS2A01G052600 chr2A 21003996 21007691 3695 True 6826.0 6826 100.0000 1 3696 1 chr2A.!!$R1 3695
1 TraesCS2A01G052600 chr2A 21177303 21178992 1689 False 2085.0 2085 88.9930 963 2659 1 chr2A.!!$F2 1696
2 TraesCS2A01G052600 chr2A 21191617 21193206 1589 False 1725.0 1725 86.2560 1021 2625 1 chr2A.!!$F3 1604
3 TraesCS2A01G052600 chr2A 21148240 21149817 1577 False 1650.0 1650 85.5090 1041 2640 1 chr2A.!!$F1 1599
4 TraesCS2A01G052600 chr2D 20323109 20324857 1748 True 2167.0 2167 89.0900 904 2659 1 chr2D.!!$R2 1755
5 TraesCS2A01G052600 chr2D 20380231 20383049 2818 False 1858.5 2950 90.4450 197 3003 2 chr2D.!!$F2 2806
6 TraesCS2A01G052600 chr2D 20187473 20189074 1601 True 1666.0 1666 85.4500 1022 2640 1 chr2D.!!$R1 1618
7 TraesCS2A01G052600 chr2D 20183829 20185403 1574 False 1592.0 1592 84.9470 1034 2629 1 chr2D.!!$F1 1595
8 TraesCS2A01G052600 chr2B 33662975 33664662 1687 False 2106.0 2106 89.2210 963 2659 1 chr2B.!!$F1 1696
9 TraesCS2A01G052600 chr2B 33727727 33730181 2454 False 1586.0 2800 88.5355 443 2880 2 chr2B.!!$F2 2437
10 TraesCS2A01G052600 chr5D 406350377 406352009 1632 True 1661.0 1661 85.0840 969 2634 1 chr5D.!!$R1 1665
11 TraesCS2A01G052600 chr5D 369030227 369030828 601 True 410.5 488 94.0110 3014 3675 2 chr5D.!!$R2 661
12 TraesCS2A01G052600 chr5A 511963083 511964693 1610 True 1485.0 1485 83.4620 969 2634 1 chr5A.!!$R1 1665
13 TraesCS2A01G052600 chrUn 10306149 10306809 660 False 1061.0 1061 95.6190 3014 3675 1 chrUn.!!$F1 661
14 TraesCS2A01G052600 chr3B 803496987 803497622 635 False 411.5 505 91.4395 3002 3675 2 chr3B.!!$F8 673
15 TraesCS2A01G052600 chr3B 803324880 803325514 634 False 391.0 488 90.1515 3002 3675 2 chr3B.!!$F5 673
16 TraesCS2A01G052600 chr3B 803458066 803458616 550 False 358.0 407 91.4685 3085 3673 2 chr3B.!!$F7 588
17 TraesCS2A01G052600 chr3B 803360328 803360877 549 False 352.5 379 91.3575 3085 3673 2 chr3B.!!$F6 588
18 TraesCS2A01G052600 chr3B 803502353 803502908 555 False 346.0 374 90.6145 3085 3679 2 chr3B.!!$F9 594
19 TraesCS2A01G052600 chr1D 22849645 22850228 583 False 267.0 267 75.4650 55 629 1 chr1D.!!$F1 574

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
497 502 0.037303 ACCTTGTCCAGTGATGGCAG 59.963 55.0 0.0 0.0 0.00 4.85 F
1013 1070 0.249489 AGAAGCACCGTGTCAGTGTC 60.249 55.0 0.0 0.0 37.56 3.67 F
1014 1071 0.529773 GAAGCACCGTGTCAGTGTCA 60.530 55.0 0.0 0.0 37.56 3.58 F
2630 2800 0.035739 TACCGCCACTTCCCTTGAAC 59.964 55.0 0.0 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2364 2531 0.314302 CCGATCCAGTTAGGCGTAGG 59.686 60.0 0.0 0.0 37.29 3.18 R
2520 2690 0.107165 GCTGGGCCGAAATACCTCTT 60.107 55.0 0.0 0.0 0.00 2.85 R
2644 2818 0.109179 TGCGATTGATTTGCACAGCC 60.109 50.0 0.0 0.0 39.94 4.85 R
3445 3646 0.458543 CTTCACAGGATGACCCGTCG 60.459 60.0 0.0 0.0 39.69 5.12 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
22 23 4.689612 TTCTTGGTCTGCTTGAAGTAGT 57.310 40.909 10.05 0.00 0.00 2.73
23 24 4.258702 TCTTGGTCTGCTTGAAGTAGTC 57.741 45.455 10.05 4.70 0.00 2.59
24 25 3.641436 TCTTGGTCTGCTTGAAGTAGTCA 59.359 43.478 10.05 7.42 0.00 3.41
25 26 4.284490 TCTTGGTCTGCTTGAAGTAGTCAT 59.716 41.667 10.05 0.00 35.70 3.06
26 27 4.623932 TGGTCTGCTTGAAGTAGTCATT 57.376 40.909 10.05 0.00 35.70 2.57
27 28 5.738619 TGGTCTGCTTGAAGTAGTCATTA 57.261 39.130 10.05 0.00 35.70 1.90
28 29 5.724328 TGGTCTGCTTGAAGTAGTCATTAG 58.276 41.667 10.05 0.00 35.70 1.73
29 30 4.568760 GGTCTGCTTGAAGTAGTCATTAGC 59.431 45.833 10.05 0.00 39.58 3.09
30 31 4.568760 GTCTGCTTGAAGTAGTCATTAGCC 59.431 45.833 10.05 0.00 38.74 3.93
31 32 4.467795 TCTGCTTGAAGTAGTCATTAGCCT 59.532 41.667 10.05 0.00 38.74 4.58
32 33 4.759782 TGCTTGAAGTAGTCATTAGCCTC 58.240 43.478 0.00 0.00 38.74 4.70
33 34 4.222810 TGCTTGAAGTAGTCATTAGCCTCA 59.777 41.667 0.00 0.00 38.74 3.86
34 35 5.104776 TGCTTGAAGTAGTCATTAGCCTCAT 60.105 40.000 0.00 0.00 38.74 2.90
35 36 5.465056 GCTTGAAGTAGTCATTAGCCTCATC 59.535 44.000 0.00 0.00 35.04 2.92
36 37 5.537300 TGAAGTAGTCATTAGCCTCATCC 57.463 43.478 0.00 0.00 0.00 3.51
37 38 4.962362 TGAAGTAGTCATTAGCCTCATCCA 59.038 41.667 0.00 0.00 0.00 3.41
38 39 4.946478 AGTAGTCATTAGCCTCATCCAC 57.054 45.455 0.00 0.00 0.00 4.02
39 40 2.898729 AGTCATTAGCCTCATCCACG 57.101 50.000 0.00 0.00 0.00 4.94
40 41 1.414181 AGTCATTAGCCTCATCCACGG 59.586 52.381 0.00 0.00 0.00 4.94
41 42 0.106708 TCATTAGCCTCATCCACGGC 59.893 55.000 0.00 0.00 46.65 5.68
45 46 3.425422 GCCTCATCCACGGCATTC 58.575 61.111 0.00 0.00 45.59 2.67
46 47 1.451927 GCCTCATCCACGGCATTCA 60.452 57.895 0.00 0.00 45.59 2.57
47 48 1.718757 GCCTCATCCACGGCATTCAC 61.719 60.000 0.00 0.00 45.59 3.18
48 49 0.107508 CCTCATCCACGGCATTCACT 60.108 55.000 0.00 0.00 0.00 3.41
49 50 1.138859 CCTCATCCACGGCATTCACTA 59.861 52.381 0.00 0.00 0.00 2.74
50 51 2.224378 CCTCATCCACGGCATTCACTAT 60.224 50.000 0.00 0.00 0.00 2.12
51 52 2.804527 CTCATCCACGGCATTCACTATG 59.195 50.000 0.00 0.00 37.31 2.23
52 53 2.170397 TCATCCACGGCATTCACTATGT 59.830 45.455 0.00 0.00 36.57 2.29
53 54 2.022764 TCCACGGCATTCACTATGTG 57.977 50.000 0.00 0.00 36.57 3.21
64 65 5.865552 GCATTCACTATGTGCAAGAACAAAT 59.134 36.000 0.00 0.00 38.68 2.32
65 66 7.028962 GCATTCACTATGTGCAAGAACAAATA 58.971 34.615 0.00 0.00 38.68 1.40
75 76 7.420002 TGTGCAAGAACAAATATATGCTCATC 58.580 34.615 0.00 0.00 33.85 2.92
76 77 7.283807 TGTGCAAGAACAAATATATGCTCATCT 59.716 33.333 0.00 0.00 33.85 2.90
78 79 7.499895 TGCAAGAACAAATATATGCTCATCTGA 59.500 33.333 0.00 0.00 34.97 3.27
82 83 9.624373 AGAACAAATATATGCTCATCTGAAAGT 57.376 29.630 0.00 0.00 33.76 2.66
85 86 8.834465 ACAAATATATGCTCATCTGAAAGTGAC 58.166 33.333 0.00 0.00 33.76 3.67
89 90 1.651138 GCTCATCTGAAAGTGACGTCG 59.349 52.381 11.62 0.00 33.76 5.12
125 128 4.945543 GGTACATTGGGTCCGATTTAAAGT 59.054 41.667 0.00 0.00 0.00 2.66
129 132 6.949715 ACATTGGGTCCGATTTAAAGTAGTA 58.050 36.000 0.00 0.00 0.00 1.82
133 136 7.716799 TGGGTCCGATTTAAAGTAGTACTTA 57.283 36.000 15.84 1.25 37.47 2.24
135 138 8.199449 TGGGTCCGATTTAAAGTAGTACTTATG 58.801 37.037 15.84 3.28 37.47 1.90
136 139 7.654923 GGGTCCGATTTAAAGTAGTACTTATGG 59.345 40.741 15.84 11.05 37.47 2.74
138 141 9.460906 GTCCGATTTAAAGTAGTACTTATGGAG 57.539 37.037 15.84 6.66 37.47 3.86
152 155 2.029838 ATGGAGAAGCTTTACGCCAG 57.970 50.000 14.41 0.00 39.09 4.85
154 157 0.673644 GGAGAAGCTTTACGCCAGCA 60.674 55.000 0.00 0.00 39.99 4.41
157 160 2.936498 GAGAAGCTTTACGCCAGCAATA 59.064 45.455 0.00 0.00 39.99 1.90
159 162 2.403252 AGCTTTACGCCAGCAATACT 57.597 45.000 4.12 0.00 39.99 2.12
162 165 4.058817 AGCTTTACGCCAGCAATACTATC 58.941 43.478 4.12 0.00 39.99 2.08
163 166 4.058817 GCTTTACGCCAGCAATACTATCT 58.941 43.478 0.00 0.00 37.22 1.98
164 167 4.511826 GCTTTACGCCAGCAATACTATCTT 59.488 41.667 0.00 0.00 37.22 2.40
174 177 7.177878 CCAGCAATACTATCTTGGGGAATAAT 58.822 38.462 0.00 0.00 0.00 1.28
196 199 4.261411 TCTCCTACCCTTTATCGAACCT 57.739 45.455 0.00 0.00 0.00 3.50
201 204 5.427481 TCCTACCCTTTATCGAACCTTTGAT 59.573 40.000 0.00 0.00 35.52 2.57
219 222 6.294120 CCTTTGATGTTCAACACATGCTCTTA 60.294 38.462 0.00 0.00 46.96 2.10
228 231 4.959596 ACACATGCTCTTATTGCTTCTG 57.040 40.909 0.00 0.00 0.00 3.02
242 245 3.689309 GCTTCTGCAATTCTTCCTAGC 57.311 47.619 0.00 0.00 39.41 3.42
248 251 1.596727 GCAATTCTTCCTAGCTGCTCG 59.403 52.381 4.91 0.00 0.00 5.03
277 280 1.710013 TTTCAGCATCTTCGTCGTCC 58.290 50.000 0.00 0.00 0.00 4.79
290 293 4.100707 TCGTCGTCCGAATTCAACTAAT 57.899 40.909 6.22 0.00 44.03 1.73
291 294 4.487948 TCGTCGTCCGAATTCAACTAATT 58.512 39.130 6.22 0.00 44.03 1.40
292 295 4.325204 TCGTCGTCCGAATTCAACTAATTG 59.675 41.667 6.22 0.00 44.03 2.32
297 300 6.035650 TCGTCCGAATTCAACTAATTGATGAC 59.964 38.462 6.22 0.00 44.36 3.06
298 301 6.036083 CGTCCGAATTCAACTAATTGATGACT 59.964 38.462 6.22 0.00 44.36 3.41
299 302 7.222031 CGTCCGAATTCAACTAATTGATGACTA 59.778 37.037 6.22 0.00 44.36 2.59
300 303 9.046296 GTCCGAATTCAACTAATTGATGACTAT 57.954 33.333 6.22 0.00 44.36 2.12
301 304 9.261180 TCCGAATTCAACTAATTGATGACTATC 57.739 33.333 6.22 0.00 44.36 2.08
302 305 9.265901 CCGAATTCAACTAATTGATGACTATCT 57.734 33.333 6.22 0.00 44.36 1.98
304 307 9.875675 GAATTCAACTAATTGATGACTATCTGC 57.124 33.333 0.00 0.00 44.36 4.26
305 308 8.969260 ATTCAACTAATTGATGACTATCTGCA 57.031 30.769 0.00 0.00 44.36 4.41
314 318 8.774890 ATTGATGACTATCTGCATATGAACTC 57.225 34.615 6.97 0.00 34.31 3.01
344 348 8.331931 AGGTCCTTGTTTCCATACTTATCATA 57.668 34.615 0.00 0.00 0.00 2.15
349 353 7.096189 CCTTGTTTCCATACTTATCATACGACG 60.096 40.741 0.00 0.00 0.00 5.12
423 428 6.803320 AGACATTTCATCAAACACATAAAGCG 59.197 34.615 0.00 0.00 0.00 4.68
424 429 6.446318 ACATTTCATCAAACACATAAAGCGT 58.554 32.000 0.00 0.00 0.00 5.07
429 434 3.734463 TCAAACACATAAAGCGTGAGGA 58.266 40.909 0.00 0.00 37.80 3.71
455 460 2.032290 GTCCAAAGAAGTTGCACGTACC 60.032 50.000 0.00 0.00 35.74 3.34
486 491 4.778143 ATGGCGGCGACCTTGTCC 62.778 66.667 11.74 0.00 0.00 4.02
497 502 0.037303 ACCTTGTCCAGTGATGGCAG 59.963 55.000 0.00 0.00 0.00 4.85
505 510 2.887568 GTGATGGCAGAGTCGGCG 60.888 66.667 9.22 0.00 0.00 6.46
557 562 0.622154 TATGGGTTGGGGATGACGGT 60.622 55.000 0.00 0.00 0.00 4.83
565 570 1.335132 GGGGATGACGGTGGAGCTAA 61.335 60.000 0.00 0.00 0.00 3.09
572 577 2.954684 CGGTGGAGCTAAGGTGGCA 61.955 63.158 0.00 0.00 0.00 4.92
605 611 4.728772 TGAGGCAAAATGAGGAGAGAAAA 58.271 39.130 0.00 0.00 0.00 2.29
629 635 2.043248 GGTCAGGCTAGGTCGGGA 60.043 66.667 0.00 0.00 0.00 5.14
678 684 3.039988 CCGATAGCCCGACGTGAT 58.960 61.111 0.00 0.00 0.00 3.06
727 737 1.145531 CACATATGGGCTGGGAATGGA 59.854 52.381 7.80 0.00 0.00 3.41
833 872 7.991460 CCCCTTTAACTTTCTACCATAGTTAGG 59.009 40.741 0.00 0.00 36.18 2.69
841 880 4.303794 TCTACCATAGTTAGGGCCATGTT 58.696 43.478 6.18 0.00 0.00 2.71
847 886 5.707298 CCATAGTTAGGGCCATGTTGATAAG 59.293 44.000 6.18 0.00 0.00 1.73
857 896 8.890472 AGGGCCATGTTGATAAGTATTTATCTA 58.110 33.333 16.30 8.34 43.62 1.98
944 983 7.610305 TCTTTGGGTCACATTTATTTCCTACTC 59.390 37.037 0.00 0.00 0.00 2.59
1013 1070 0.249489 AGAAGCACCGTGTCAGTGTC 60.249 55.000 0.00 0.00 37.56 3.67
1014 1071 0.529773 GAAGCACCGTGTCAGTGTCA 60.530 55.000 0.00 0.00 37.56 3.58
1016 1073 2.598632 GCACCGTGTCAGTGTCAGC 61.599 63.158 0.00 0.00 37.56 4.26
1017 1074 2.027605 ACCGTGTCAGTGTCAGCG 59.972 61.111 0.00 0.00 0.00 5.18
1018 1075 2.027605 CCGTGTCAGTGTCAGCGT 59.972 61.111 9.80 0.00 0.00 5.07
1106 1170 4.097361 GTCCCTTCCCTGGCGTCC 62.097 72.222 0.00 0.00 0.00 4.79
1152 1222 4.459089 GGTGCCTCTCCACGAGCC 62.459 72.222 0.00 0.00 38.49 4.70
1874 2028 1.371512 CAAATGGCAAACGCTCGCA 60.372 52.632 0.00 0.00 0.00 5.10
2267 2422 2.517875 GCAATGGGCAGGATCGCT 60.518 61.111 0.00 0.00 43.97 4.93
2343 2504 0.733150 GGAGCTATGGAACGGCAAAC 59.267 55.000 0.00 0.00 0.00 2.93
2399 2569 1.153168 CGGGGGCCTGTATGACTTG 60.153 63.158 0.84 0.00 0.00 3.16
2450 2620 1.132436 CGCGTACGTCAACTACCGA 59.868 57.895 17.90 0.00 33.53 4.69
2499 2669 2.513897 GCGGGGTCACATGCTACC 60.514 66.667 8.28 8.28 34.85 3.18
2537 2707 0.393808 GCAAGAGGTATTTCGGCCCA 60.394 55.000 0.00 0.00 0.00 5.36
2597 2767 2.879462 CGCACCGACTACTTCCGC 60.879 66.667 0.00 0.00 0.00 5.54
2612 2782 1.519234 CCGCAACGAGCAGAGCATA 60.519 57.895 0.00 0.00 46.13 3.14
2629 2799 0.988832 ATACCGCCACTTCCCTTGAA 59.011 50.000 0.00 0.00 0.00 2.69
2630 2800 0.035739 TACCGCCACTTCCCTTGAAC 59.964 55.000 0.00 0.00 0.00 3.18
2631 2801 1.073199 CCGCCACTTCCCTTGAACT 59.927 57.895 0.00 0.00 0.00 3.01
2632 2802 0.323629 CCGCCACTTCCCTTGAACTA 59.676 55.000 0.00 0.00 0.00 2.24
2644 2818 3.118956 CCCTTGAACTAGCTAGTGGTCAG 60.119 52.174 26.70 18.24 36.50 3.51
2662 2836 0.171903 AGGCTGTGCAAATCAATCGC 59.828 50.000 0.00 0.00 0.00 4.58
2663 2837 0.109179 GGCTGTGCAAATCAATCGCA 60.109 50.000 0.00 0.00 0.00 5.10
2670 2844 3.922240 GTGCAAATCAATCGCATTTGACT 59.078 39.130 9.86 0.00 41.81 3.41
2671 2845 4.386652 GTGCAAATCAATCGCATTTGACTT 59.613 37.500 9.86 0.00 41.81 3.01
2682 2856 9.767684 CAATCGCATTTGACTTTATTGTAACTA 57.232 29.630 0.00 0.00 0.00 2.24
2684 2858 8.542497 TCGCATTTGACTTTATTGTAACTACT 57.458 30.769 0.00 0.00 0.00 2.57
2685 2859 9.642327 TCGCATTTGACTTTATTGTAACTACTA 57.358 29.630 0.00 0.00 0.00 1.82
2686 2860 9.685005 CGCATTTGACTTTATTGTAACTACTAC 57.315 33.333 0.00 0.00 0.00 2.73
2717 2891 2.891191 TTCGGATGGGCTAAAAAGGT 57.109 45.000 0.00 0.00 0.00 3.50
2722 2896 3.447229 CGGATGGGCTAAAAAGGTCATTT 59.553 43.478 0.00 0.00 0.00 2.32
2723 2897 4.677779 CGGATGGGCTAAAAAGGTCATTTG 60.678 45.833 0.00 0.00 0.00 2.32
2729 2903 6.169800 GGGCTAAAAAGGTCATTTGCATTTA 58.830 36.000 0.00 0.00 0.00 1.40
2730 2904 6.092122 GGGCTAAAAAGGTCATTTGCATTTAC 59.908 38.462 0.00 0.00 0.00 2.01
2824 2998 6.154203 TGCAAGTGGATTTGTGTGAAATTA 57.846 33.333 0.00 0.00 0.00 1.40
2825 2999 5.982516 TGCAAGTGGATTTGTGTGAAATTAC 59.017 36.000 0.00 0.00 0.00 1.89
2858 3033 3.435275 AGACTGCACCACTATCAAGAGA 58.565 45.455 0.00 0.00 0.00 3.10
2898 3083 9.238368 GTAAAATATTAGTATATGCCAAGGCCA 57.762 33.333 5.01 0.00 41.09 5.36
2902 3087 2.936202 AGTATATGCCAAGGCCAAGTG 58.064 47.619 5.01 0.00 41.09 3.16
2908 3093 1.892474 TGCCAAGGCCAAGTGTATTTC 59.108 47.619 5.01 0.00 41.09 2.17
2915 3100 1.201414 GCCAAGTGTATTTCAACGGGG 59.799 52.381 0.00 0.00 0.00 5.73
2947 3132 2.162681 GAGCCATTTGCCAAGTGTACT 58.837 47.619 0.00 0.00 42.71 2.73
2964 3149 2.851263 ACTGGCGATAACACTTTGGA 57.149 45.000 0.00 0.00 0.00 3.53
2985 3170 6.767456 TGGAACAAAATGATACTTGGCAAAT 58.233 32.000 0.00 0.00 31.92 2.32
2989 3174 9.585099 GAACAAAATGATACTTGGCAAATCATA 57.415 29.630 21.58 5.51 38.97 2.15
3101 3286 3.554752 CGGACAATTTGCACCCTCAATTT 60.555 43.478 0.00 0.00 0.00 1.82
3151 3336 1.522668 CAGCCGACTGGATTTTGACA 58.477 50.000 0.00 0.00 40.48 3.58
3180 3367 2.171027 ACTCCGGTTTTGACCAGTTGTA 59.829 45.455 0.00 0.00 0.00 2.41
3325 3526 1.535028 CCACAAGCATAAACTCGCACA 59.465 47.619 0.00 0.00 0.00 4.57
3361 3562 3.865929 CTGGTGCTGCGTCGGACTT 62.866 63.158 6.57 0.00 0.00 3.01
3444 3645 4.384056 CAAGTCCTCATTGACAGTGAAGT 58.616 43.478 0.00 0.00 37.73 3.01
3445 3646 4.264460 AGTCCTCATTGACAGTGAAGTC 57.736 45.455 0.00 0.00 37.73 3.01
3557 3766 2.033141 AGTGCTCACTGCGGCAAT 59.967 55.556 3.44 0.00 46.63 3.56
3624 3834 3.558099 CTCTGCACGTCGGCACTCA 62.558 63.158 4.55 0.00 39.25 3.41
3648 3858 2.439156 GGGATGCCGAAGCTTGCT 60.439 61.111 2.10 0.00 40.80 3.91
3677 3887 4.988598 CGGGTTCAGGTGCGCAGT 62.989 66.667 12.22 0.00 0.00 4.40
3678 3888 3.357079 GGGTTCAGGTGCGCAGTG 61.357 66.667 12.22 12.43 0.00 3.66
3679 3889 3.357079 GGTTCAGGTGCGCAGTGG 61.357 66.667 12.22 2.40 0.00 4.00
3680 3890 4.030452 GTTCAGGTGCGCAGTGGC 62.030 66.667 12.22 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.623932 ATGACTACTTCAAGCAGACCAA 57.376 40.909 0.00 0.00 37.92 3.67
5 6 4.623932 AATGACTACTTCAAGCAGACCA 57.376 40.909 0.00 0.00 37.92 4.02
6 7 4.568760 GCTAATGACTACTTCAAGCAGACC 59.431 45.833 0.00 0.00 37.82 3.85
8 9 4.467795 AGGCTAATGACTACTTCAAGCAGA 59.532 41.667 0.00 0.00 39.13 4.26
9 10 4.764172 AGGCTAATGACTACTTCAAGCAG 58.236 43.478 0.00 0.00 39.13 4.24
10 11 4.222810 TGAGGCTAATGACTACTTCAAGCA 59.777 41.667 0.00 0.00 39.13 3.91
11 12 4.759782 TGAGGCTAATGACTACTTCAAGC 58.240 43.478 0.00 0.00 37.92 4.01
12 13 5.988561 GGATGAGGCTAATGACTACTTCAAG 59.011 44.000 0.00 0.00 37.92 3.02
13 14 5.425217 TGGATGAGGCTAATGACTACTTCAA 59.575 40.000 0.00 0.00 37.92 2.69
14 15 4.962362 TGGATGAGGCTAATGACTACTTCA 59.038 41.667 0.00 0.00 39.11 3.02
15 16 5.293560 GTGGATGAGGCTAATGACTACTTC 58.706 45.833 0.00 0.00 0.00 3.01
16 17 4.202161 CGTGGATGAGGCTAATGACTACTT 60.202 45.833 0.00 0.00 0.00 2.24
17 18 3.319405 CGTGGATGAGGCTAATGACTACT 59.681 47.826 0.00 0.00 0.00 2.57
18 19 3.553096 CCGTGGATGAGGCTAATGACTAC 60.553 52.174 0.00 0.00 0.00 2.73
19 20 2.628178 CCGTGGATGAGGCTAATGACTA 59.372 50.000 0.00 0.00 0.00 2.59
20 21 1.414181 CCGTGGATGAGGCTAATGACT 59.586 52.381 0.00 0.00 0.00 3.41
21 22 1.871080 CCGTGGATGAGGCTAATGAC 58.129 55.000 0.00 0.00 0.00 3.06
29 30 0.107508 AGTGAATGCCGTGGATGAGG 60.108 55.000 0.00 0.00 0.00 3.86
30 31 2.602257 TAGTGAATGCCGTGGATGAG 57.398 50.000 0.00 0.00 0.00 2.90
31 32 2.170397 ACATAGTGAATGCCGTGGATGA 59.830 45.455 0.00 0.00 39.39 2.92
32 33 2.288729 CACATAGTGAATGCCGTGGATG 59.711 50.000 0.00 0.00 39.39 3.51
33 34 2.564771 CACATAGTGAATGCCGTGGAT 58.435 47.619 0.00 0.00 39.39 3.41
34 35 2.011548 GCACATAGTGAATGCCGTGGA 61.012 52.381 0.58 0.00 39.39 4.02
35 36 0.378257 GCACATAGTGAATGCCGTGG 59.622 55.000 0.58 0.00 39.39 4.94
36 37 1.085893 TGCACATAGTGAATGCCGTG 58.914 50.000 0.58 0.00 39.39 4.94
37 38 1.739466 CTTGCACATAGTGAATGCCGT 59.261 47.619 0.58 0.00 39.39 5.68
38 39 2.009051 TCTTGCACATAGTGAATGCCG 58.991 47.619 0.58 0.00 39.39 5.69
39 40 3.191162 TGTTCTTGCACATAGTGAATGCC 59.809 43.478 0.58 0.00 39.39 4.40
40 41 4.424061 TGTTCTTGCACATAGTGAATGC 57.576 40.909 0.58 0.00 39.39 3.56
44 45 8.344831 GCATATATTTGTTCTTGCACATAGTGA 58.655 33.333 0.58 0.00 35.23 3.41
45 46 8.347771 AGCATATATTTGTTCTTGCACATAGTG 58.652 33.333 0.00 0.00 36.51 2.74
46 47 8.455903 AGCATATATTTGTTCTTGCACATAGT 57.544 30.769 0.00 0.00 32.66 2.12
47 48 8.562052 TGAGCATATATTTGTTCTTGCACATAG 58.438 33.333 10.43 0.00 32.66 2.23
48 49 8.449251 TGAGCATATATTTGTTCTTGCACATA 57.551 30.769 10.43 0.00 32.66 2.29
49 50 7.337480 TGAGCATATATTTGTTCTTGCACAT 57.663 32.000 10.43 0.00 32.66 3.21
50 51 6.756299 TGAGCATATATTTGTTCTTGCACA 57.244 33.333 10.43 0.00 32.66 4.57
51 52 7.590322 CAGATGAGCATATATTTGTTCTTGCAC 59.410 37.037 10.43 0.00 32.66 4.57
52 53 7.499895 TCAGATGAGCATATATTTGTTCTTGCA 59.500 33.333 10.43 0.00 32.66 4.08
53 54 7.868775 TCAGATGAGCATATATTTGTTCTTGC 58.131 34.615 10.43 0.00 0.00 4.01
64 65 6.149129 ACGTCACTTTCAGATGAGCATATA 57.851 37.500 0.00 0.00 0.00 0.86
65 66 5.016051 ACGTCACTTTCAGATGAGCATAT 57.984 39.130 0.00 0.00 0.00 1.78
67 68 3.257393 GACGTCACTTTCAGATGAGCAT 58.743 45.455 11.55 0.00 0.00 3.79
75 76 3.308866 AGGTTTTTCGACGTCACTTTCAG 59.691 43.478 17.16 0.00 0.00 3.02
76 77 3.264104 AGGTTTTTCGACGTCACTTTCA 58.736 40.909 17.16 0.00 0.00 2.69
78 79 3.685756 TGAAGGTTTTTCGACGTCACTTT 59.314 39.130 17.16 8.16 0.00 2.66
82 83 2.546368 CCATGAAGGTTTTTCGACGTCA 59.454 45.455 17.16 0.00 0.00 4.35
106 109 7.046033 AGTACTACTTTAAATCGGACCCAATG 58.954 38.462 0.00 0.00 0.00 2.82
107 110 7.191593 AGTACTACTTTAAATCGGACCCAAT 57.808 36.000 0.00 0.00 0.00 3.16
121 124 9.872721 GTAAAGCTTCTCCATAAGTACTACTTT 57.127 33.333 6.77 0.00 39.51 2.66
125 128 6.501781 GCGTAAAGCTTCTCCATAAGTACTA 58.498 40.000 0.00 0.00 44.04 1.82
143 146 4.814234 CCAAGATAGTATTGCTGGCGTAAA 59.186 41.667 0.00 0.00 0.00 2.01
144 147 4.377021 CCAAGATAGTATTGCTGGCGTAA 58.623 43.478 0.00 0.00 0.00 3.18
146 149 2.485479 CCCAAGATAGTATTGCTGGCGT 60.485 50.000 0.00 0.00 0.00 5.68
152 155 8.870075 AGAATTATTCCCCAAGATAGTATTGC 57.130 34.615 0.78 0.00 0.00 3.56
154 157 9.411848 AGGAGAATTATTCCCCAAGATAGTATT 57.588 33.333 8.19 0.00 35.20 1.89
157 160 7.237887 GGTAGGAGAATTATTCCCCAAGATAGT 59.762 40.741 8.19 0.00 35.20 2.12
159 162 6.504279 GGGTAGGAGAATTATTCCCCAAGATA 59.496 42.308 8.19 0.00 35.20 1.98
162 165 4.665483 AGGGTAGGAGAATTATTCCCCAAG 59.335 45.833 15.28 0.00 35.20 3.61
163 166 4.652628 AGGGTAGGAGAATTATTCCCCAA 58.347 43.478 15.28 1.88 35.20 4.12
164 167 4.311208 AGGGTAGGAGAATTATTCCCCA 57.689 45.455 15.28 0.00 35.20 4.96
174 177 4.617593 AGGTTCGATAAAGGGTAGGAGAA 58.382 43.478 0.00 0.00 0.00 2.87
181 184 4.918588 ACATCAAAGGTTCGATAAAGGGT 58.081 39.130 0.00 0.00 0.00 4.34
190 193 4.285807 TGTGTTGAACATCAAAGGTTCG 57.714 40.909 0.00 0.00 45.86 3.95
201 204 4.520111 AGCAATAAGAGCATGTGTTGAACA 59.480 37.500 0.00 0.00 44.79 3.18
228 231 1.596727 CGAGCAGCTAGGAAGAATTGC 59.403 52.381 0.00 0.00 36.28 3.56
240 243 2.616634 AATGATGATGACGAGCAGCT 57.383 45.000 0.00 0.00 33.04 4.24
242 245 3.303197 GCTGAAATGATGATGACGAGCAG 60.303 47.826 0.00 0.00 0.00 4.24
248 251 5.007430 ACGAAGATGCTGAAATGATGATGAC 59.993 40.000 0.00 0.00 0.00 3.06
290 293 6.865205 CGAGTTCATATGCAGATAGTCATCAA 59.135 38.462 0.00 0.00 33.21 2.57
291 294 6.015940 ACGAGTTCATATGCAGATAGTCATCA 60.016 38.462 0.00 0.00 33.21 3.07
292 295 6.385843 ACGAGTTCATATGCAGATAGTCATC 58.614 40.000 0.00 0.00 0.00 2.92
297 300 5.632764 CCTTGACGAGTTCATATGCAGATAG 59.367 44.000 0.00 0.00 32.84 2.08
298 301 5.069119 ACCTTGACGAGTTCATATGCAGATA 59.931 40.000 0.00 0.00 32.84 1.98
299 302 4.141846 ACCTTGACGAGTTCATATGCAGAT 60.142 41.667 0.00 0.00 32.84 2.90
300 303 3.195610 ACCTTGACGAGTTCATATGCAGA 59.804 43.478 0.00 0.00 32.84 4.26
301 304 3.525537 ACCTTGACGAGTTCATATGCAG 58.474 45.455 0.00 0.00 32.84 4.41
302 305 3.521560 GACCTTGACGAGTTCATATGCA 58.478 45.455 0.00 0.00 32.84 3.96
303 306 2.866762 GGACCTTGACGAGTTCATATGC 59.133 50.000 0.00 0.00 32.84 3.14
304 307 4.392921 AGGACCTTGACGAGTTCATATG 57.607 45.455 0.00 0.00 32.84 1.78
305 308 4.223032 ACAAGGACCTTGACGAGTTCATAT 59.777 41.667 35.69 10.12 43.42 1.78
314 318 1.961793 TGGAAACAAGGACCTTGACG 58.038 50.000 35.69 14.18 43.42 4.35
344 348 4.684265 CGATGGATTCGTCGTCGT 57.316 55.556 7.50 0.00 44.73 4.34
410 415 3.740115 ACTCCTCACGCTTTATGTGTTT 58.260 40.909 0.00 0.00 37.28 2.83
423 428 5.153950 ACTTCTTTGGACATACTCCTCAC 57.846 43.478 0.00 0.00 40.26 3.51
424 429 5.551233 CAACTTCTTTGGACATACTCCTCA 58.449 41.667 0.00 0.00 40.26 3.86
455 460 2.401766 GCCATCAGACGTTGCCCAG 61.402 63.158 0.00 0.00 0.00 4.45
486 491 1.812922 GCCGACTCTGCCATCACTG 60.813 63.158 0.00 0.00 0.00 3.66
497 502 4.072088 CAACAACGCCGCCGACTC 62.072 66.667 0.00 0.00 38.29 3.36
505 510 2.261361 GGCCCAATCAACAACGCC 59.739 61.111 0.00 0.00 0.00 5.68
533 538 0.468029 CATCCCCAACCCATAGCACC 60.468 60.000 0.00 0.00 0.00 5.01
535 540 0.550914 GTCATCCCCAACCCATAGCA 59.449 55.000 0.00 0.00 0.00 3.49
557 562 0.036732 CAACTGCCACCTTAGCTCCA 59.963 55.000 0.00 0.00 0.00 3.86
565 570 0.538057 CATCCACACAACTGCCACCT 60.538 55.000 0.00 0.00 0.00 4.00
572 577 2.363306 TTTGCCTCATCCACACAACT 57.637 45.000 0.00 0.00 0.00 3.16
605 611 1.002274 CCTAGCCTGACCTGTCCCT 59.998 63.158 0.00 0.00 0.00 4.20
629 635 7.173735 GCCCATTTCAAATCTTTTGAGAACATT 59.826 33.333 3.22 0.00 0.00 2.71
678 684 4.424566 GTTGCCCGGACGCGTCTA 62.425 66.667 35.50 16.08 0.00 2.59
727 737 2.203818 TTTTGGGCTGCCTGGCAT 60.204 55.556 23.64 0.00 43.83 4.40
944 983 2.529632 TGGATGTCTCTCCCCATATCG 58.470 52.381 0.00 0.00 34.12 2.92
1013 1070 1.227380 GGTGGATCTGCCTACGCTG 60.227 63.158 0.00 0.00 37.63 5.18
1014 1071 2.786495 CGGTGGATCTGCCTACGCT 61.786 63.158 0.00 0.00 37.63 5.07
1016 1073 0.174845 TTTCGGTGGATCTGCCTACG 59.825 55.000 0.00 0.00 37.63 3.51
1017 1074 2.213499 CATTTCGGTGGATCTGCCTAC 58.787 52.381 0.00 0.00 37.63 3.18
1018 1075 1.140852 CCATTTCGGTGGATCTGCCTA 59.859 52.381 0.00 0.00 42.02 3.93
1053 1117 0.947244 AAGAAGCAAACCGTGAGCAG 59.053 50.000 0.00 0.00 0.00 4.24
1106 1170 0.884704 CGTTGTGGTTGTGGGAGGAG 60.885 60.000 0.00 0.00 0.00 3.69
1113 1183 1.597663 GAGGAAGTCGTTGTGGTTGTG 59.402 52.381 0.00 0.00 0.00 3.33
1152 1222 4.463879 CACGAGCTGGCTGGGGAG 62.464 72.222 9.22 0.00 0.00 4.30
1490 1644 1.310904 GGTAGTAGAGCTCTCCGGTG 58.689 60.000 22.17 0.00 0.00 4.94
1815 1969 1.153086 GCTCCATGGTCTTGGCGAT 60.153 57.895 12.58 0.00 36.66 4.58
2250 2405 2.517875 AGCGATCCTGCCCATTGC 60.518 61.111 0.00 0.00 41.77 3.56
2259 2414 1.680522 ATCTTGTCGGCAGCGATCCT 61.681 55.000 0.00 0.00 0.00 3.24
2261 2416 1.218230 GGATCTTGTCGGCAGCGATC 61.218 60.000 17.89 17.89 34.99 3.69
2267 2422 1.079405 GAACGGGATCTTGTCGGCA 60.079 57.895 0.00 0.00 0.00 5.69
2300 2455 3.366985 CGTACTGGATGTTGTAGAGCACA 60.367 47.826 0.00 0.00 34.51 4.57
2364 2531 0.314302 CCGATCCAGTTAGGCGTAGG 59.686 60.000 0.00 0.00 37.29 3.18
2365 2532 0.314302 CCCGATCCAGTTAGGCGTAG 59.686 60.000 0.00 0.00 37.29 3.51
2366 2533 1.111116 CCCCGATCCAGTTAGGCGTA 61.111 60.000 0.00 0.00 37.29 4.42
2367 2534 2.432300 CCCCGATCCAGTTAGGCGT 61.432 63.158 0.00 0.00 37.29 5.68
2368 2535 2.421739 CCCCGATCCAGTTAGGCG 59.578 66.667 0.00 0.00 37.29 5.52
2450 2620 1.003355 CACGCCCATGTCAAGGTCT 60.003 57.895 0.00 0.00 0.00 3.85
2499 2669 1.741525 CCCACACCTTGGCAGTTTG 59.258 57.895 0.00 0.00 45.37 2.93
2520 2690 0.107165 GCTGGGCCGAAATACCTCTT 60.107 55.000 0.00 0.00 0.00 2.85
2537 2707 1.946283 GCGAGCCTCCTAAAGTTTGCT 60.946 52.381 0.00 0.00 0.00 3.91
2576 2746 1.582968 GAAGTAGTCGGTGCGGTCA 59.417 57.895 0.00 0.00 0.00 4.02
2580 2750 2.879462 GCGGAAGTAGTCGGTGCG 60.879 66.667 0.00 0.00 0.00 5.34
2581 2751 1.373748 TTGCGGAAGTAGTCGGTGC 60.374 57.895 0.00 0.00 0.00 5.01
2597 2767 1.756375 GCGGTATGCTCTGCTCGTTG 61.756 60.000 0.00 0.00 41.73 4.10
2612 2782 1.228154 GTTCAAGGGAAGTGGCGGT 60.228 57.895 0.00 0.00 32.62 5.68
2629 2799 1.272760 ACAGCCTGACCACTAGCTAGT 60.273 52.381 20.95 20.95 36.90 2.57
2630 2800 1.135915 CACAGCCTGACCACTAGCTAG 59.864 57.143 19.44 19.44 33.33 3.42
2631 2801 1.186200 CACAGCCTGACCACTAGCTA 58.814 55.000 0.00 0.00 33.33 3.32
2632 2802 1.978473 CACAGCCTGACCACTAGCT 59.022 57.895 0.00 0.00 35.52 3.32
2644 2818 0.109179 TGCGATTGATTTGCACAGCC 60.109 50.000 0.00 0.00 39.94 4.85
2682 2856 7.822822 GCCCATCCGAATTATTATTACAGTAGT 59.177 37.037 0.00 0.00 0.00 2.73
2684 2858 7.913789 AGCCCATCCGAATTATTATTACAGTA 58.086 34.615 0.00 0.00 0.00 2.74
2685 2859 6.779860 AGCCCATCCGAATTATTATTACAGT 58.220 36.000 0.00 0.00 0.00 3.55
2686 2860 8.786826 TTAGCCCATCCGAATTATTATTACAG 57.213 34.615 0.00 0.00 0.00 2.74
2687 2861 9.575868 TTTTAGCCCATCCGAATTATTATTACA 57.424 29.630 0.00 0.00 0.00 2.41
2701 2875 4.758688 CAAATGACCTTTTTAGCCCATCC 58.241 43.478 0.00 0.00 0.00 3.51
2706 2880 6.092122 GGTAAATGCAAATGACCTTTTTAGCC 59.908 38.462 0.00 0.00 0.00 3.93
2729 2903 9.407380 TGAGCACTTTATCATAATTATGTTGGT 57.593 29.630 21.89 15.47 35.26 3.67
2730 2904 9.888878 CTGAGCACTTTATCATAATTATGTTGG 57.111 33.333 21.89 12.59 35.26 3.77
2798 2972 0.311790 ACACAAATCCACTTGCAGCG 59.688 50.000 0.00 0.00 0.00 5.18
2824 2998 5.581085 GTGGTGCAGTCTTAAAATATCTCGT 59.419 40.000 0.00 0.00 0.00 4.18
2825 2999 5.812642 AGTGGTGCAGTCTTAAAATATCTCG 59.187 40.000 0.00 0.00 0.00 4.04
2883 3058 2.654863 ACACTTGGCCTTGGCATATAC 58.345 47.619 14.04 0.00 38.08 1.47
2884 3059 4.722526 ATACACTTGGCCTTGGCATATA 57.277 40.909 14.04 0.00 38.08 0.86
2887 3062 2.236489 AATACACTTGGCCTTGGCAT 57.764 45.000 14.04 0.00 38.08 4.40
2889 3064 1.892474 TGAAATACACTTGGCCTTGGC 59.108 47.619 3.32 2.49 0.00 4.52
2890 3065 3.611530 CGTTGAAATACACTTGGCCTTGG 60.612 47.826 3.32 0.00 0.00 3.61
2891 3066 3.564511 CGTTGAAATACACTTGGCCTTG 58.435 45.455 3.32 0.50 0.00 3.61
2892 3067 2.556622 CCGTTGAAATACACTTGGCCTT 59.443 45.455 3.32 0.00 0.00 4.35
2893 3068 2.159382 CCGTTGAAATACACTTGGCCT 58.841 47.619 3.32 0.00 0.00 5.19
2894 3069 1.201414 CCCGTTGAAATACACTTGGCC 59.799 52.381 0.00 0.00 0.00 5.36
2898 3083 3.671716 GAGTCCCCGTTGAAATACACTT 58.328 45.455 0.00 0.00 0.00 3.16
2902 3087 1.648504 CCGAGTCCCCGTTGAAATAC 58.351 55.000 0.00 0.00 0.00 1.89
2908 3093 1.674322 ATTTGCCGAGTCCCCGTTG 60.674 57.895 0.00 0.00 0.00 4.10
2939 3124 3.955650 AGTGTTATCGCCAGTACACTT 57.044 42.857 0.00 0.00 46.55 3.16
2947 3132 2.852449 TGTTCCAAAGTGTTATCGCCA 58.148 42.857 0.00 0.00 0.00 5.69
2964 3149 9.941325 TTATGATTTGCCAAGTATCATTTTGTT 57.059 25.926 9.29 0.00 39.19 2.83
3036 3221 7.122353 ACCAAATCTAGACTTCGCTAAGAGTTA 59.878 37.037 4.78 0.00 36.50 2.24
3151 3336 1.760613 TCAAAACCGGAGTGAGTCAGT 59.239 47.619 9.46 0.00 0.00 3.41
3265 3461 2.281484 GAGGCAGGTCGTTGGCAA 60.281 61.111 0.00 0.00 45.32 4.52
3444 3645 0.896479 TTCACAGGATGACCCGTCGA 60.896 55.000 0.00 0.00 39.69 4.20
3445 3646 0.458543 CTTCACAGGATGACCCGTCG 60.459 60.000 0.00 0.00 39.69 5.12
3557 3766 0.608130 AACACTGCACTATCGCCAGA 59.392 50.000 0.00 0.00 0.00 3.86
3630 3840 2.439156 GCAAGCTTCGGCATCCCT 60.439 61.111 0.00 0.00 44.74 4.20
3648 3858 3.950794 GAACCCGGACATGAGCGCA 62.951 63.158 11.47 0.00 0.00 6.09


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

AutoCloner maintained by Alex Coulton.