Multiple sequence alignment - TraesCS6D01G158300

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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 TraesCS6D01G158300 chr6D 100.000 4261 0 0 1 4261 134743565 134739305 0.000000e+00 7869.0
1 TraesCS6D01G158300 chr6D 97.467 3671 47 8 635 4261 134338015 134334347 0.000000e+00 6222.0
2 TraesCS6D01G158300 chr6D 90.219 1963 163 19 1134 3077 134588309 134586357 0.000000e+00 2534.0
3 TraesCS6D01G158300 chr6D 90.112 1962 167 17 1134 3077 135041759 135039807 0.000000e+00 2523.0
4 TraesCS6D01G158300 chr6D 95.928 442 16 2 1 441 134338440 134338000 0.000000e+00 715.0
5 TraesCS6D01G158300 chr6D 93.665 442 27 1 1 441 432850171 432849730 0.000000e+00 660.0
6 TraesCS6D01G158300 chr6D 92.523 214 4 3 438 639 451070414 451070627 3.220000e-76 296.0
7 TraesCS6D01G158300 chr6D 92.019 213 4 4 436 635 114768195 114768407 1.940000e-73 287.0
8 TraesCS6D01G158300 chr6D 92.308 78 6 0 1751 1828 33243212 33243135 1.250000e-20 111.0
9 TraesCS6D01G158300 chr6D 100.000 44 0 0 635 678 116854610 116854653 9.820000e-12 82.4
10 TraesCS6D01G158300 chr6D 97.500 40 1 0 635 674 445155885 445155924 7.650000e-08 69.4
11 TraesCS6D01G158300 chr6D 97.436 39 1 0 641 679 366707565 366707603 2.750000e-07 67.6
12 TraesCS6D01G158300 chr6D 95.238 42 1 1 640 681 358396534 358396494 9.890000e-07 65.8
13 TraesCS6D01G158300 chr6B 95.607 2299 89 3 841 3127 233089210 233086912 0.000000e+00 3675.0
14 TraesCS6D01G158300 chr6B 89.501 1962 179 17 1134 3077 233674004 233672052 0.000000e+00 2457.0
15 TraesCS6D01G158300 chr6B 88.009 442 50 3 3823 4261 233044617 233044176 1.760000e-143 520.0
16 TraesCS6D01G158300 chr6B 89.273 289 20 9 3351 3632 693905998 693906282 6.780000e-93 351.0
17 TraesCS6D01G158300 chr6B 98.913 92 1 0 758 849 233090873 233090782 9.480000e-37 165.0
18 TraesCS6D01G158300 chr6B 91.071 112 8 2 3637 3747 233085684 233085574 2.650000e-32 150.0
19 TraesCS6D01G158300 chr6B 100.000 34 0 0 3131 3164 233085848 233085815 3.560000e-06 63.9
20 TraesCS6D01G158300 chr6B 100.000 29 0 0 4174 4202 583757400 583757428 2.000000e-03 54.7
21 TraesCS6D01G158300 chr6A 95.045 1655 71 3 1518 3164 175997191 175995540 0.000000e+00 2591.0
22 TraesCS6D01G158300 chr6A 90.010 1962 169 17 1134 3077 176293959 176292007 0.000000e+00 2512.0
23 TraesCS6D01G158300 chr6A 96.763 556 18 0 733 1288 176003356 176002801 0.000000e+00 928.0
24 TraesCS6D01G158300 chr6A 82.993 441 53 9 3823 4261 175992425 175992005 3.110000e-101 379.0
25 TraesCS6D01G158300 chr6A 97.297 185 5 0 1283 1467 175997372 175997188 8.890000e-82 315.0
26 TraesCS6D01G158300 chr6A 100.000 44 0 0 635 678 613150939 613150982 9.820000e-12 82.4
27 TraesCS6D01G158300 chr6A 100.000 44 0 0 635 678 613169042 613169085 9.820000e-12 82.4
28 TraesCS6D01G158300 chr6A 100.000 44 0 0 635 678 613188244 613188287 9.820000e-12 82.4
29 TraesCS6D01G158300 chr6A 100.000 44 0 0 635 678 613234109 613234152 9.820000e-12 82.4
30 TraesCS6D01G158300 chr6A 100.000 43 0 0 635 677 500503381 500503423 3.530000e-11 80.5
31 TraesCS6D01G158300 chr6A 100.000 42 0 0 635 676 376509003 376509044 1.270000e-10 78.7
32 TraesCS6D01G158300 chr6A 100.000 40 0 0 635 674 33626375 33626414 1.640000e-09 75.0
33 TraesCS6D01G158300 chr4D 95.249 442 20 1 1 441 360461799 360461358 0.000000e+00 699.0
34 TraesCS6D01G158300 chr4D 93.891 442 26 1 1 441 28486607 28487048 0.000000e+00 665.0
35 TraesCS6D01G158300 chr4D 89.520 229 10 5 432 648 499014008 499013782 1.170000e-70 278.0
36 TraesCS6D01G158300 chr4D 90.367 218 7 5 438 642 92303784 92303568 1.510000e-69 274.0
37 TraesCS6D01G158300 chr4D 100.000 42 0 0 635 676 57014743 57014702 1.270000e-10 78.7
38 TraesCS6D01G158300 chr4D 100.000 41 0 0 635 675 360461373 360461333 4.570000e-10 76.8
39 TraesCS6D01G158300 chr4D 95.556 45 2 0 635 679 403575447 403575491 5.910000e-09 73.1
40 TraesCS6D01G158300 chr2D 95.423 437 20 0 1 437 391827266 391826830 0.000000e+00 697.0
41 TraesCS6D01G158300 chr2D 93.891 442 25 2 1 441 200802347 200802787 0.000000e+00 665.0
42 TraesCS6D01G158300 chr2D 74.561 912 193 31 2130 3011 565090943 565091845 3.130000e-96 363.0
43 TraesCS6D01G158300 chr2D 89.474 285 26 3 3351 3632 639489336 639489053 1.460000e-94 357.0
44 TraesCS6D01G158300 chr2D 88.176 296 30 4 3351 3641 611247959 611247664 8.770000e-92 348.0
45 TraesCS6D01G158300 chr2D 76.018 663 135 18 2130 2771 565052904 565053563 5.320000e-84 322.0
46 TraesCS6D01G158300 chr7D 94.954 436 22 0 1 436 383277040 383277475 0.000000e+00 684.0
47 TraesCS6D01G158300 chr7D 91.981 212 5 3 436 635 587546638 587546427 1.940000e-73 287.0
48 TraesCS6D01G158300 chr7D 74.669 604 131 21 1143 1735 30264403 30264995 9.150000e-62 248.0
49 TraesCS6D01G158300 chr3D 94.773 440 22 1 3 441 549234059 549234498 0.000000e+00 684.0
50 TraesCS6D01G158300 chr3D 93.665 442 26 2 1 440 511422353 511421912 0.000000e+00 660.0
51 TraesCS6D01G158300 chr3D 92.019 213 4 4 438 637 554922278 554922066 1.940000e-73 287.0
52 TraesCS6D01G158300 chr3D 80.645 155 30 0 3895 4049 469821064 469821218 2.080000e-23 121.0
53 TraesCS6D01G158300 chr1D 89.474 285 26 3 3351 3632 287170838 287170555 1.460000e-94 357.0
54 TraesCS6D01G158300 chr1D 91.163 215 5 5 434 635 488618031 488617818 3.240000e-71 279.0
55 TraesCS6D01G158300 chr1D 97.727 44 1 0 635 678 331196644 331196687 4.570000e-10 76.8
56 TraesCS6D01G158300 chr1D 100.000 40 0 0 635 674 109300229 109300268 1.640000e-09 75.0
57 TraesCS6D01G158300 chr1D 100.000 29 0 0 4174 4202 79996438 79996410 2.000000e-03 54.7
58 TraesCS6D01G158300 chr7A 88.079 302 29 5 3334 3632 269124989 269125286 6.780000e-93 351.0
59 TraesCS6D01G158300 chr7A 92.771 83 5 1 3158 3240 118399516 118399597 7.480000e-23 119.0
60 TraesCS6D01G158300 chr2A 76.818 660 132 13 2130 2771 705532001 705532657 6.780000e-93 351.0
61 TraesCS6D01G158300 chr2A 78.421 190 39 2 3897 4085 54060532 54060344 5.790000e-24 122.0
62 TraesCS6D01G158300 chr2B 89.161 286 23 5 3351 3632 523090396 523090115 2.440000e-92 350.0
63 TraesCS6D01G158300 chr2B 75.904 664 137 13 2130 2771 676747731 676748393 6.880000e-83 318.0
64 TraesCS6D01G158300 chr2B 87.413 143 11 4 2439 2574 138547272 138547130 1.590000e-34 158.0
65 TraesCS6D01G158300 chr7B 88.811 286 28 3 3351 3632 634277382 634277097 8.770000e-92 348.0
66 TraesCS6D01G158300 chr7B 80.503 159 28 2 3897 4054 537986258 537986414 7.480000e-23 119.0
67 TraesCS6D01G158300 chr7B 92.208 77 6 0 3166 3242 712096429 712096353 4.500000e-20 110.0
68 TraesCS6D01G158300 chr5D 88.356 292 30 3 3351 3638 397331785 397331494 8.770000e-92 348.0
69 TraesCS6D01G158300 chr5D 91.981 212 5 3 437 636 481071231 481071442 1.940000e-73 287.0
70 TraesCS6D01G158300 chr5D 91.324 219 4 6 430 635 241420811 241421027 6.970000e-73 285.0
71 TraesCS6D01G158300 chr4A 74.783 690 137 30 1133 1803 698171061 698170390 4.200000e-70 276.0
72 TraesCS6D01G158300 chr4A 100.000 29 0 0 4176 4204 117250161 117250133 2.000000e-03 54.7
73 TraesCS6D01G158300 chrUn 87.500 96 10 2 3166 3260 36920993 36921087 4.500000e-20 110.0
74 TraesCS6D01G158300 chrUn 87.500 96 10 2 3166 3260 37006369 37006463 4.500000e-20 110.0
75 TraesCS6D01G158300 chrUn 87.500 96 10 2 3166 3260 38258590 38258684 4.500000e-20 110.0
76 TraesCS6D01G158300 chrUn 84.821 112 13 4 3166 3276 196709640 196709532 4.500000e-20 110.0
77 TraesCS6D01G158300 chrUn 86.458 96 11 2 3166 3260 242182944 242182850 2.100000e-18 104.0
78 TraesCS6D01G158300 chrUn 100.000 40 0 0 635 674 17893158 17893119 1.640000e-09 75.0
79 TraesCS6D01G158300 chrUn 100.000 40 0 0 637 676 36479936 36479897 1.640000e-09 75.0
80 TraesCS6D01G158300 chrUn 97.619 42 1 0 637 678 60287482 60287523 5.910000e-09 73.1
81 TraesCS6D01G158300 chrUn 97.619 42 1 0 637 678 60320049 60320008 5.910000e-09 73.1
82 TraesCS6D01G158300 chrUn 97.619 42 1 0 637 678 60350237 60350196 5.910000e-09 73.1
83 TraesCS6D01G158300 chrUn 97.059 34 1 0 635 668 408813606 408813573 1.650000e-04 58.4
84 TraesCS6D01G158300 chrUn 100.000 28 0 0 650 677 1909075 1909048 8.000000e-03 52.8
85 TraesCS6D01G158300 chr1B 91.781 73 6 0 3157 3229 117282740 117282812 7.540000e-18 102.0
86 TraesCS6D01G158300 chr1B 97.826 46 0 1 635 680 503622510 503622554 1.270000e-10 78.7
87 TraesCS6D01G158300 chr1B 95.833 48 1 1 634 681 623690337 623690291 4.570000e-10 76.8
88 TraesCS6D01G158300 chr1B 100.000 29 0 0 4174 4202 131374793 131374765 2.000000e-03 54.7
89 TraesCS6D01G158300 chr1B 100.000 29 0 0 4174 4202 131550151 131550123 2.000000e-03 54.7
90 TraesCS6D01G158300 chr1B 100.000 28 0 0 4174 4201 130844240 130844213 8.000000e-03 52.8
91 TraesCS6D01G158300 chr5B 83.495 103 13 4 3895 3997 520201127 520201225 4.540000e-15 93.5
92 TraesCS6D01G158300 chr5B 88.525 61 4 3 635 693 703268275 703268334 2.130000e-08 71.3
93 TraesCS6D01G158300 chr4B 85.366 82 10 2 4174 4253 552872118 552872037 2.730000e-12 84.2
94 TraesCS6D01G158300 chr3A 100.000 45 0 0 635 679 682267658 682267614 2.730000e-12 84.2
95 TraesCS6D01G158300 chr3A 100.000 45 0 0 635 679 745904827 745904871 2.730000e-12 84.2
96 TraesCS6D01G158300 chr5A 100.000 44 0 0 636 679 600179648 600179691 9.820000e-12 82.4
97 TraesCS6D01G158300 chr5A 94.118 51 2 1 637 687 514248574 514248623 4.570000e-10 76.8
98 TraesCS6D01G158300 chr5A 96.970 33 1 0 4174 4206 425582522 425582490 5.950000e-04 56.5
99 TraesCS6D01G158300 chr1A 97.727 44 1 0 635 678 376474648 376474605 4.570000e-10 76.8
100 TraesCS6D01G158300 chr1A 97.674 43 1 0 636 678 66172694 66172652 1.640000e-09 75.0
101 TraesCS6D01G158300 chr1A 97.674 43 1 0 635 677 431032815 431032857 1.640000e-09 75.0
102 TraesCS6D01G158300 chr3B 100.000 29 0 0 4174 4202 690063666 690063638 2.000000e-03 54.7


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 TraesCS6D01G158300 chr6D 134739305 134743565 4260 True 7869.000 7869 100.000000 1 4261 1 chr6D.!!$R3 4260
1 TraesCS6D01G158300 chr6D 134334347 134338440 4093 True 3468.500 6222 96.697500 1 4261 2 chr6D.!!$R7 4260
2 TraesCS6D01G158300 chr6D 134586357 134588309 1952 True 2534.000 2534 90.219000 1134 3077 1 chr6D.!!$R2 1943
3 TraesCS6D01G158300 chr6D 135039807 135041759 1952 True 2523.000 2523 90.112000 1134 3077 1 chr6D.!!$R4 1943
4 TraesCS6D01G158300 chr6B 233672052 233674004 1952 True 2457.000 2457 89.501000 1134 3077 1 chr6B.!!$R2 1943
5 TraesCS6D01G158300 chr6B 233085574 233090873 5299 True 1013.475 3675 96.397750 758 3747 4 chr6B.!!$R3 2989
6 TraesCS6D01G158300 chr6A 176292007 176293959 1952 True 2512.000 2512 90.010000 1134 3077 1 chr6A.!!$R2 1943
7 TraesCS6D01G158300 chr6A 175992005 175997372 5367 True 1095.000 2591 91.778333 1283 4261 3 chr6A.!!$R3 2978
8 TraesCS6D01G158300 chr6A 176002801 176003356 555 True 928.000 928 96.763000 733 1288 1 chr6A.!!$R1 555
9 TraesCS6D01G158300 chr2D 565090943 565091845 902 False 363.000 363 74.561000 2130 3011 1 chr2D.!!$F3 881
10 TraesCS6D01G158300 chr2D 565052904 565053563 659 False 322.000 322 76.018000 2130 2771 1 chr2D.!!$F2 641
11 TraesCS6D01G158300 chr7D 30264403 30264995 592 False 248.000 248 74.669000 1143 1735 1 chr7D.!!$F1 592
12 TraesCS6D01G158300 chr2A 705532001 705532657 656 False 351.000 351 76.818000 2130 2771 1 chr2A.!!$F1 641
13 TraesCS6D01G158300 chr2B 676747731 676748393 662 False 318.000 318 75.904000 2130 2771 1 chr2B.!!$F1 641
14 TraesCS6D01G158300 chr4A 698170390 698171061 671 True 276.000 276 74.783000 1133 1803 1 chr4A.!!$R2 670

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
496 497 0.105039 GCTCCCACTTCATCCTACGG 59.895 60.000 0.00 0.00 0.0 4.02 F
593 594 0.179048 TCAAGCCACATATGCGGGAG 60.179 55.000 16.14 6.68 0.0 4.30 F
630 631 0.392327 GAAGGGAGCAGGCAAGTCTC 60.392 60.000 0.00 0.00 0.0 3.36 F
633 634 1.446966 GGAGCAGGCAAGTCTCGTC 60.447 63.158 0.00 0.00 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3122 4799 4.157840 GGGAAAAGCTACTGTACATTTGGG 59.842 45.833 0.0 0.0 0.00 4.12 R
3183 5920 6.579491 ACTAGTGTAGTGTGAAAAACGTTC 57.421 37.500 0.0 0.0 37.69 3.95 R
3236 5973 9.186323 GTTTTCTTTTAGCTGATTTTTCTCCTC 57.814 33.333 0.0 0.0 0.00 3.71 R
3374 8846 5.405269 TGAATGTATGTGTGTATATGAGCGC 59.595 40.000 0.0 0.0 0.00 5.92 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
92 93 2.283173 GGTTTGGGACTGGGGCTG 60.283 66.667 0.00 0.00 0.00 4.85
171 172 3.014623 CGGTTCCCATTTAAGAAGGACC 58.985 50.000 0.00 0.00 0.00 4.46
173 174 2.413310 TCCCATTTAAGAAGGACCGC 57.587 50.000 0.00 0.00 0.00 5.68
240 241 1.508667 ATTGATGTGGGCAGGTGGGA 61.509 55.000 0.00 0.00 0.00 4.37
241 242 2.141011 TTGATGTGGGCAGGTGGGAG 62.141 60.000 0.00 0.00 0.00 4.30
242 243 3.341629 ATGTGGGCAGGTGGGAGG 61.342 66.667 0.00 0.00 0.00 4.30
409 410 4.038080 GGCCGCCTTGTTTGTCCG 62.038 66.667 0.71 0.00 0.00 4.79
421 422 3.094572 TGTTTGTCCGTTTTACCCCAAA 58.905 40.909 0.00 0.00 0.00 3.28
423 424 2.431954 TGTCCGTTTTACCCCAAACA 57.568 45.000 0.00 0.00 36.58 2.83
451 452 4.162690 GACGGATCCGGCTTGCCT 62.163 66.667 35.87 15.06 45.30 4.75
452 453 4.473520 ACGGATCCGGCTTGCCTG 62.474 66.667 35.87 7.52 44.69 4.85
453 454 4.473520 CGGATCCGGCTTGCCTGT 62.474 66.667 26.95 0.00 35.56 4.00
454 455 2.044946 GGATCCGGCTTGCCTGTT 60.045 61.111 10.12 0.00 0.00 3.16
455 456 2.115291 GGATCCGGCTTGCCTGTTC 61.115 63.158 10.12 7.67 0.00 3.18
456 457 2.044946 ATCCGGCTTGCCTGTTCC 60.045 61.111 10.12 0.00 0.00 3.62
457 458 3.645268 ATCCGGCTTGCCTGTTCCC 62.645 63.158 10.12 0.00 0.00 3.97
458 459 4.351054 CCGGCTTGCCTGTTCCCT 62.351 66.667 10.12 0.00 0.00 4.20
459 460 2.747855 CGGCTTGCCTGTTCCCTC 60.748 66.667 10.12 0.00 0.00 4.30
460 461 2.759795 GGCTTGCCTGTTCCCTCT 59.240 61.111 4.11 0.00 0.00 3.69
461 462 1.377856 GGCTTGCCTGTTCCCTCTC 60.378 63.158 4.11 0.00 0.00 3.20
462 463 1.377856 GCTTGCCTGTTCCCTCTCC 60.378 63.158 0.00 0.00 0.00 3.71
463 464 2.069776 CTTGCCTGTTCCCTCTCCA 58.930 57.895 0.00 0.00 0.00 3.86
464 465 0.622665 CTTGCCTGTTCCCTCTCCAT 59.377 55.000 0.00 0.00 0.00 3.41
465 466 0.329261 TTGCCTGTTCCCTCTCCATG 59.671 55.000 0.00 0.00 0.00 3.66
466 467 1.452833 GCCTGTTCCCTCTCCATGC 60.453 63.158 0.00 0.00 0.00 4.06
467 468 1.919600 GCCTGTTCCCTCTCCATGCT 61.920 60.000 0.00 0.00 0.00 3.79
468 469 0.179936 CCTGTTCCCTCTCCATGCTC 59.820 60.000 0.00 0.00 0.00 4.26
469 470 0.179936 CTGTTCCCTCTCCATGCTCC 59.820 60.000 0.00 0.00 0.00 4.70
470 471 1.274703 TGTTCCCTCTCCATGCTCCC 61.275 60.000 0.00 0.00 0.00 4.30
471 472 1.082766 TTCCCTCTCCATGCTCCCA 59.917 57.895 0.00 0.00 0.00 4.37
472 473 0.327867 TTCCCTCTCCATGCTCCCAT 60.328 55.000 0.00 0.00 0.00 4.00
473 474 0.765903 TCCCTCTCCATGCTCCCATC 60.766 60.000 0.00 0.00 0.00 3.51
474 475 1.759881 CCTCTCCATGCTCCCATCC 59.240 63.158 0.00 0.00 0.00 3.51
475 476 1.370437 CTCTCCATGCTCCCATCCG 59.630 63.158 0.00 0.00 0.00 4.18
476 477 1.383109 TCTCCATGCTCCCATCCGT 60.383 57.895 0.00 0.00 0.00 4.69
477 478 1.227764 CTCCATGCTCCCATCCGTG 60.228 63.158 0.00 0.00 0.00 4.94
478 479 2.903855 CCATGCTCCCATCCGTGC 60.904 66.667 0.00 0.00 0.00 5.34
479 480 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
480 481 1.890979 CATGCTCCCATCCGTGCTC 60.891 63.158 0.00 0.00 0.00 4.26
481 482 3.112205 ATGCTCCCATCCGTGCTCC 62.112 63.158 0.00 0.00 0.00 4.70
482 483 4.554036 GCTCCCATCCGTGCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
483 484 3.083349 CTCCCATCCGTGCTCCCA 61.083 66.667 0.00 0.00 0.00 4.37
484 485 3.391665 CTCCCATCCGTGCTCCCAC 62.392 68.421 0.00 0.00 38.62 4.61
485 486 3.402681 CCCATCCGTGCTCCCACT 61.403 66.667 0.00 0.00 39.86 4.00
486 487 2.671070 CCATCCGTGCTCCCACTT 59.329 61.111 0.00 0.00 39.86 3.16
487 488 1.450312 CCATCCGTGCTCCCACTTC 60.450 63.158 0.00 0.00 39.86 3.01
488 489 1.296392 CATCCGTGCTCCCACTTCA 59.704 57.895 0.00 0.00 39.86 3.02
489 490 0.107508 CATCCGTGCTCCCACTTCAT 60.108 55.000 0.00 0.00 39.86 2.57
490 491 0.179000 ATCCGTGCTCCCACTTCATC 59.821 55.000 0.00 0.00 39.86 2.92
491 492 1.450312 CCGTGCTCCCACTTCATCC 60.450 63.158 0.00 0.00 39.86 3.51
492 493 1.599047 CGTGCTCCCACTTCATCCT 59.401 57.895 0.00 0.00 39.86 3.24
493 494 0.824109 CGTGCTCCCACTTCATCCTA 59.176 55.000 0.00 0.00 39.86 2.94
494 495 1.471676 CGTGCTCCCACTTCATCCTAC 60.472 57.143 0.00 0.00 39.86 3.18
495 496 0.824109 TGCTCCCACTTCATCCTACG 59.176 55.000 0.00 0.00 0.00 3.51
496 497 0.105039 GCTCCCACTTCATCCTACGG 59.895 60.000 0.00 0.00 0.00 4.02
497 498 0.105039 CTCCCACTTCATCCTACGGC 59.895 60.000 0.00 0.00 0.00 5.68
498 499 0.325296 TCCCACTTCATCCTACGGCT 60.325 55.000 0.00 0.00 0.00 5.52
499 500 0.179073 CCCACTTCATCCTACGGCTG 60.179 60.000 0.00 0.00 0.00 4.85
500 501 0.537188 CCACTTCATCCTACGGCTGT 59.463 55.000 2.42 2.42 0.00 4.40
501 502 1.066143 CCACTTCATCCTACGGCTGTT 60.066 52.381 1.99 0.00 0.00 3.16
502 503 2.615493 CCACTTCATCCTACGGCTGTTT 60.615 50.000 1.99 0.00 0.00 2.83
503 504 3.074412 CACTTCATCCTACGGCTGTTTT 58.926 45.455 1.99 0.00 0.00 2.43
504 505 3.502211 CACTTCATCCTACGGCTGTTTTT 59.498 43.478 1.99 0.00 0.00 1.94
549 550 2.058593 CTGATTTTCAGGGGTAGGGC 57.941 55.000 0.00 0.00 40.71 5.19
550 551 0.629058 TGATTTTCAGGGGTAGGGCC 59.371 55.000 0.00 0.00 0.00 5.80
551 552 0.465642 GATTTTCAGGGGTAGGGCCG 60.466 60.000 0.00 0.00 38.44 6.13
552 553 1.933307 ATTTTCAGGGGTAGGGCCGG 61.933 60.000 0.00 0.00 38.44 6.13
559 560 4.043100 GGTAGGGCCGGCCTTGTT 62.043 66.667 42.70 27.22 36.10 2.83
560 561 2.035155 GTAGGGCCGGCCTTGTTT 59.965 61.111 42.70 24.86 36.10 2.83
561 562 1.605451 GTAGGGCCGGCCTTGTTTT 60.605 57.895 42.70 23.19 36.10 2.43
562 563 1.303806 TAGGGCCGGCCTTGTTTTC 60.304 57.895 42.70 25.32 36.10 2.29
563 564 1.785353 TAGGGCCGGCCTTGTTTTCT 61.785 55.000 42.70 30.44 36.10 2.52
564 565 2.207229 GGGCCGGCCTTGTTTTCTT 61.207 57.895 42.70 0.00 36.10 2.52
565 566 1.289066 GGCCGGCCTTGTTTTCTTC 59.711 57.895 38.76 6.70 0.00 2.87
566 567 1.289066 GCCGGCCTTGTTTTCTTCC 59.711 57.895 18.11 0.00 0.00 3.46
567 568 1.460273 GCCGGCCTTGTTTTCTTCCA 61.460 55.000 18.11 0.00 0.00 3.53
568 569 1.036707 CCGGCCTTGTTTTCTTCCAA 58.963 50.000 0.00 0.00 0.00 3.53
569 570 1.618343 CCGGCCTTGTTTTCTTCCAAT 59.382 47.619 0.00 0.00 0.00 3.16
570 571 2.352715 CCGGCCTTGTTTTCTTCCAATC 60.353 50.000 0.00 0.00 0.00 2.67
571 572 2.295909 CGGCCTTGTTTTCTTCCAATCA 59.704 45.455 0.00 0.00 0.00 2.57
572 573 3.243704 CGGCCTTGTTTTCTTCCAATCAA 60.244 43.478 0.00 0.00 0.00 2.57
573 574 4.702831 GGCCTTGTTTTCTTCCAATCAAA 58.297 39.130 0.00 0.00 0.00 2.69
574 575 5.308014 GGCCTTGTTTTCTTCCAATCAAAT 58.692 37.500 0.00 0.00 0.00 2.32
575 576 5.409520 GGCCTTGTTTTCTTCCAATCAAATC 59.590 40.000 0.00 0.00 0.00 2.17
576 577 5.990996 GCCTTGTTTTCTTCCAATCAAATCA 59.009 36.000 0.00 0.00 0.00 2.57
577 578 6.482973 GCCTTGTTTTCTTCCAATCAAATCAA 59.517 34.615 0.00 0.00 0.00 2.57
578 579 7.307573 GCCTTGTTTTCTTCCAATCAAATCAAG 60.308 37.037 0.00 0.00 36.97 3.02
579 580 7.307573 CCTTGTTTTCTTCCAATCAAATCAAGC 60.308 37.037 0.00 0.00 36.43 4.01
580 581 5.990996 TGTTTTCTTCCAATCAAATCAAGCC 59.009 36.000 0.00 0.00 0.00 4.35
581 582 5.804944 TTTCTTCCAATCAAATCAAGCCA 57.195 34.783 0.00 0.00 0.00 4.75
582 583 4.789012 TCTTCCAATCAAATCAAGCCAC 57.211 40.909 0.00 0.00 0.00 5.01
583 584 4.151121 TCTTCCAATCAAATCAAGCCACA 58.849 39.130 0.00 0.00 0.00 4.17
584 585 4.773674 TCTTCCAATCAAATCAAGCCACAT 59.226 37.500 0.00 0.00 0.00 3.21
585 586 5.951148 TCTTCCAATCAAATCAAGCCACATA 59.049 36.000 0.00 0.00 0.00 2.29
586 587 6.608405 TCTTCCAATCAAATCAAGCCACATAT 59.392 34.615 0.00 0.00 0.00 1.78
587 588 6.151663 TCCAATCAAATCAAGCCACATATG 57.848 37.500 0.00 0.00 0.00 1.78
588 589 4.748102 CCAATCAAATCAAGCCACATATGC 59.252 41.667 1.58 0.00 0.00 3.14
589 590 3.696281 TCAAATCAAGCCACATATGCG 57.304 42.857 1.58 0.00 0.00 4.73
590 591 2.358582 TCAAATCAAGCCACATATGCGG 59.641 45.455 5.33 5.33 0.00 5.69
591 592 1.321474 AATCAAGCCACATATGCGGG 58.679 50.000 11.69 10.35 0.00 6.13
592 593 0.473755 ATCAAGCCACATATGCGGGA 59.526 50.000 16.14 4.31 0.00 5.14
593 594 0.179048 TCAAGCCACATATGCGGGAG 60.179 55.000 16.14 6.68 0.00 4.30
605 606 4.227134 CGGGAGCACGGATGGGAG 62.227 72.222 0.00 0.00 0.00 4.30
606 607 4.554036 GGGAGCACGGATGGGAGC 62.554 72.222 0.00 0.00 0.00 4.70
607 608 3.785859 GGAGCACGGATGGGAGCA 61.786 66.667 0.00 0.00 0.00 4.26
608 609 2.507944 GAGCACGGATGGGAGCAT 59.492 61.111 0.00 0.00 0.00 3.79
609 610 1.890979 GAGCACGGATGGGAGCATG 60.891 63.158 0.00 0.00 0.00 4.06
610 611 2.903855 GCACGGATGGGAGCATGG 60.904 66.667 0.00 0.00 0.00 3.66
611 612 2.203252 CACGGATGGGAGCATGGG 60.203 66.667 0.00 0.00 0.00 4.00
612 613 2.366837 ACGGATGGGAGCATGGGA 60.367 61.111 0.00 0.00 0.00 4.37
613 614 2.000701 ACGGATGGGAGCATGGGAA 61.001 57.895 0.00 0.00 0.00 3.97
614 615 1.228063 CGGATGGGAGCATGGGAAG 60.228 63.158 0.00 0.00 0.00 3.46
615 616 1.152368 GGATGGGAGCATGGGAAGG 59.848 63.158 0.00 0.00 0.00 3.46
616 617 1.152368 GATGGGAGCATGGGAAGGG 59.848 63.158 0.00 0.00 0.00 3.95
617 618 1.309013 ATGGGAGCATGGGAAGGGA 60.309 57.895 0.00 0.00 0.00 4.20
618 619 1.358830 ATGGGAGCATGGGAAGGGAG 61.359 60.000 0.00 0.00 0.00 4.30
619 620 2.194326 GGAGCATGGGAAGGGAGC 59.806 66.667 0.00 0.00 0.00 4.70
620 621 2.683465 GGAGCATGGGAAGGGAGCA 61.683 63.158 0.00 0.00 0.00 4.26
621 622 1.153005 GAGCATGGGAAGGGAGCAG 60.153 63.158 0.00 0.00 0.00 4.24
622 623 2.123982 GCATGGGAAGGGAGCAGG 60.124 66.667 0.00 0.00 0.00 4.85
623 624 2.123982 CATGGGAAGGGAGCAGGC 60.124 66.667 0.00 0.00 0.00 4.85
624 625 2.614969 ATGGGAAGGGAGCAGGCA 60.615 61.111 0.00 0.00 0.00 4.75
625 626 2.240918 ATGGGAAGGGAGCAGGCAA 61.241 57.895 0.00 0.00 0.00 4.52
626 627 2.044551 GGGAAGGGAGCAGGCAAG 60.045 66.667 0.00 0.00 0.00 4.01
627 628 2.759795 GGAAGGGAGCAGGCAAGT 59.240 61.111 0.00 0.00 0.00 3.16
628 629 1.377856 GGAAGGGAGCAGGCAAGTC 60.378 63.158 0.00 0.00 0.00 3.01
629 630 1.682257 GAAGGGAGCAGGCAAGTCT 59.318 57.895 0.00 0.00 0.00 3.24
630 631 0.392327 GAAGGGAGCAGGCAAGTCTC 60.392 60.000 0.00 0.00 0.00 3.36
631 632 2.125350 GGGAGCAGGCAAGTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
632 633 2.659610 GGAGCAGGCAAGTCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
633 634 1.446966 GGAGCAGGCAAGTCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
634 635 1.446966 GAGCAGGCAAGTCTCGTCC 60.447 63.158 0.00 0.00 0.00 4.79
635 636 2.811317 GCAGGCAAGTCTCGTCCG 60.811 66.667 0.00 0.00 0.00 4.79
636 637 2.125912 CAGGCAAGTCTCGTCCGG 60.126 66.667 0.00 0.00 0.00 5.14
637 638 3.382832 AGGCAAGTCTCGTCCGGG 61.383 66.667 0.00 0.00 0.00 5.73
638 639 4.452733 GGCAAGTCTCGTCCGGGG 62.453 72.222 0.00 0.00 0.00 5.73
640 641 4.452733 CAAGTCTCGTCCGGGGCC 62.453 72.222 0.00 0.00 0.00 5.80
658 659 2.728817 GGACAGGATAGGGTCGCG 59.271 66.667 0.00 0.00 34.87 5.87
3122 4799 3.844577 TGGTGTAGCGAGAGTTAAGAC 57.155 47.619 0.00 0.00 0.00 3.01
3183 5920 6.238211 CGACTTGCTCTGTCCCAAAATATAAG 60.238 42.308 0.00 0.00 0.00 1.73
3313 8785 6.937465 GGGATTTTTAATTTTAGGTGTGGCAA 59.063 34.615 0.00 0.00 0.00 4.52
3375 8847 5.773239 TTTAATACAGTACAGACGCAAGC 57.227 39.130 0.00 0.00 45.62 4.01
3377 8849 0.731514 TACAGTACAGACGCAAGCGC 60.732 55.000 15.09 0.00 44.19 5.92
3395 8867 5.139435 AGCGCTCATATACACACATACAT 57.861 39.130 2.64 0.00 0.00 2.29
3400 8872 6.642540 CGCTCATATACACACATACATTCACT 59.357 38.462 0.00 0.00 0.00 3.41
3414 8886 5.654603 ACATTCACTCCTATGAACGTACA 57.345 39.130 0.00 0.00 41.29 2.90
3429 8901 1.534595 CGTACATACGCACACCCTACC 60.535 57.143 0.00 0.00 43.14 3.18
3440 8912 0.759346 CACCCTACCCCTATGAGCAC 59.241 60.000 0.00 0.00 0.00 4.40
3443 8915 1.695989 CCCTACCCCTATGAGCACCTT 60.696 57.143 0.00 0.00 0.00 3.50
3623 9095 1.913419 TCCCTCTAACCATCCAACCAC 59.087 52.381 0.00 0.00 0.00 4.16
3657 9129 4.151157 GCAATTTCAAATCAGTTGCTGGAC 59.849 41.667 0.00 0.00 41.30 4.02
3722 9223 3.057734 GACTCGTTCGGTTGAAAGACAT 58.942 45.455 0.00 0.00 37.62 3.06
3893 9410 0.485543 TCCTATGGCCAGGGTCGATA 59.514 55.000 22.11 3.92 36.26 2.92
4003 9520 1.202348 GGGTTGCACAGGCTACAATTC 59.798 52.381 3.92 0.00 45.77 2.17
4088 9605 0.650512 CGGCAGGCTGTTATACAACG 59.349 55.000 17.16 4.75 37.48 4.10
4113 9630 5.447757 AGGATCCTCTTACTGTACCACTAC 58.552 45.833 9.02 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.981302 GCCATGGGCCTTTGGAAC 59.019 61.111 24.65 8.57 44.06 3.62
60 61 2.224769 CCAAACCCTAGCCAAGAACTCA 60.225 50.000 0.00 0.00 0.00 3.41
92 93 2.125633 GCCTCCTCGAAACCCGAC 60.126 66.667 0.00 0.00 43.23 4.79
118 119 4.293648 TCCACACTGTCCCACGCG 62.294 66.667 3.53 3.53 0.00 6.01
233 234 2.285442 GCCACCTACCTCCCACCT 60.285 66.667 0.00 0.00 0.00 4.00
400 401 2.431954 TGGGGTAAAACGGACAAACA 57.568 45.000 0.00 0.00 0.00 2.83
409 410 1.610038 CCCGTCTGTTTGGGGTAAAAC 59.390 52.381 0.00 0.00 42.05 2.43
437 438 2.044946 AACAGGCAAGCCGGATCC 60.045 61.111 17.99 0.00 41.95 3.36
438 439 2.115291 GGAACAGGCAAGCCGGATC 61.115 63.158 17.99 14.68 41.95 3.36
439 440 2.044946 GGAACAGGCAAGCCGGAT 60.045 61.111 17.99 5.94 41.95 4.18
440 441 4.344865 GGGAACAGGCAAGCCGGA 62.345 66.667 17.99 0.00 41.95 5.14
441 442 4.351054 AGGGAACAGGCAAGCCGG 62.351 66.667 9.72 9.72 41.95 6.13
442 443 2.747855 GAGGGAACAGGCAAGCCG 60.748 66.667 5.28 3.53 41.95 5.52
443 444 1.377856 GAGAGGGAACAGGCAAGCC 60.378 63.158 2.02 2.02 0.00 4.35
444 445 1.377856 GGAGAGGGAACAGGCAAGC 60.378 63.158 0.00 0.00 0.00 4.01
445 446 0.622665 ATGGAGAGGGAACAGGCAAG 59.377 55.000 0.00 0.00 0.00 4.01
446 447 0.329261 CATGGAGAGGGAACAGGCAA 59.671 55.000 0.00 0.00 0.00 4.52
447 448 1.993653 CATGGAGAGGGAACAGGCA 59.006 57.895 0.00 0.00 0.00 4.75
448 449 1.452833 GCATGGAGAGGGAACAGGC 60.453 63.158 0.00 0.00 34.71 4.85
449 450 0.179936 GAGCATGGAGAGGGAACAGG 59.820 60.000 0.00 0.00 0.00 4.00
450 451 0.179936 GGAGCATGGAGAGGGAACAG 59.820 60.000 0.00 0.00 0.00 3.16
451 452 1.274703 GGGAGCATGGAGAGGGAACA 61.275 60.000 0.00 0.00 0.00 3.18
452 453 1.274703 TGGGAGCATGGAGAGGGAAC 61.275 60.000 0.00 0.00 0.00 3.62
453 454 0.327867 ATGGGAGCATGGAGAGGGAA 60.328 55.000 0.00 0.00 0.00 3.97
454 455 0.765903 GATGGGAGCATGGAGAGGGA 60.766 60.000 0.00 0.00 0.00 4.20
455 456 1.759881 GATGGGAGCATGGAGAGGG 59.240 63.158 0.00 0.00 0.00 4.30
456 457 1.759881 GGATGGGAGCATGGAGAGG 59.240 63.158 0.00 0.00 0.00 3.69
457 458 1.370437 CGGATGGGAGCATGGAGAG 59.630 63.158 0.00 0.00 0.00 3.20
458 459 1.383109 ACGGATGGGAGCATGGAGA 60.383 57.895 0.00 0.00 0.00 3.71
459 460 1.227764 CACGGATGGGAGCATGGAG 60.228 63.158 0.00 0.00 0.00 3.86
460 461 2.910360 CACGGATGGGAGCATGGA 59.090 61.111 0.00 0.00 0.00 3.41
461 462 2.903855 GCACGGATGGGAGCATGG 60.904 66.667 0.00 0.00 0.00 3.66
462 463 1.890979 GAGCACGGATGGGAGCATG 60.891 63.158 0.00 0.00 0.00 4.06
463 464 2.507944 GAGCACGGATGGGAGCAT 59.492 61.111 0.00 0.00 0.00 3.79
464 465 3.785859 GGAGCACGGATGGGAGCA 61.786 66.667 0.00 0.00 0.00 4.26
465 466 4.554036 GGGAGCACGGATGGGAGC 62.554 72.222 0.00 0.00 0.00 4.70
466 467 3.083349 TGGGAGCACGGATGGGAG 61.083 66.667 0.00 0.00 0.00 4.30
467 468 3.399181 GTGGGAGCACGGATGGGA 61.399 66.667 0.00 0.00 0.00 4.37
468 469 2.876368 GAAGTGGGAGCACGGATGGG 62.876 65.000 0.00 0.00 0.00 4.00
469 470 1.450312 GAAGTGGGAGCACGGATGG 60.450 63.158 0.00 0.00 0.00 3.51
470 471 0.107508 ATGAAGTGGGAGCACGGATG 60.108 55.000 0.00 0.00 0.00 3.51
471 472 0.179000 GATGAAGTGGGAGCACGGAT 59.821 55.000 0.00 0.00 0.00 4.18
472 473 1.596934 GATGAAGTGGGAGCACGGA 59.403 57.895 0.00 0.00 0.00 4.69
473 474 1.450312 GGATGAAGTGGGAGCACGG 60.450 63.158 0.00 0.00 0.00 4.94
474 475 0.824109 TAGGATGAAGTGGGAGCACG 59.176 55.000 0.00 0.00 0.00 5.34
475 476 1.471676 CGTAGGATGAAGTGGGAGCAC 60.472 57.143 0.00 0.00 0.00 4.40
476 477 0.824109 CGTAGGATGAAGTGGGAGCA 59.176 55.000 0.00 0.00 0.00 4.26
477 478 3.669354 CGTAGGATGAAGTGGGAGC 57.331 57.895 0.00 0.00 0.00 4.70
530 531 1.410224 GGCCCTACCCCTGAAAATCAG 60.410 57.143 0.00 0.32 43.91 2.90
531 532 0.629058 GGCCCTACCCCTGAAAATCA 59.371 55.000 0.00 0.00 0.00 2.57
532 533 0.465642 CGGCCCTACCCCTGAAAATC 60.466 60.000 0.00 0.00 33.26 2.17
533 534 1.613061 CGGCCCTACCCCTGAAAAT 59.387 57.895 0.00 0.00 33.26 1.82
534 535 2.608550 CCGGCCCTACCCCTGAAAA 61.609 63.158 0.00 0.00 33.26 2.29
535 536 3.012722 CCGGCCCTACCCCTGAAA 61.013 66.667 0.00 0.00 33.26 2.69
542 543 3.578968 AAACAAGGCCGGCCCTACC 62.579 63.158 41.72 17.41 45.62 3.18
543 544 1.592400 GAAAACAAGGCCGGCCCTAC 61.592 60.000 41.72 21.25 45.62 3.18
544 545 1.303806 GAAAACAAGGCCGGCCCTA 60.304 57.895 41.72 0.00 45.62 3.53
546 547 2.154798 GAAGAAAACAAGGCCGGCCC 62.155 60.000 41.72 24.24 36.58 5.80
547 548 1.289066 GAAGAAAACAAGGCCGGCC 59.711 57.895 39.29 39.29 0.00 6.13
548 549 1.289066 GGAAGAAAACAAGGCCGGC 59.711 57.895 21.18 21.18 0.00 6.13
549 550 1.036707 TTGGAAGAAAACAAGGCCGG 58.963 50.000 0.00 0.00 0.00 6.13
550 551 2.295909 TGATTGGAAGAAAACAAGGCCG 59.704 45.455 0.00 0.00 0.00 6.13
551 552 4.335400 TTGATTGGAAGAAAACAAGGCC 57.665 40.909 0.00 0.00 0.00 5.19
552 553 5.990996 TGATTTGATTGGAAGAAAACAAGGC 59.009 36.000 0.00 0.00 0.00 4.35
553 554 7.307573 GCTTGATTTGATTGGAAGAAAACAAGG 60.308 37.037 0.00 0.00 38.71 3.61
554 555 7.307573 GGCTTGATTTGATTGGAAGAAAACAAG 60.308 37.037 0.00 0.00 40.07 3.16
555 556 6.482973 GGCTTGATTTGATTGGAAGAAAACAA 59.517 34.615 0.00 0.00 0.00 2.83
556 557 5.990996 GGCTTGATTTGATTGGAAGAAAACA 59.009 36.000 0.00 0.00 0.00 2.83
557 558 5.990996 TGGCTTGATTTGATTGGAAGAAAAC 59.009 36.000 0.00 0.00 0.00 2.43
558 559 5.990996 GTGGCTTGATTTGATTGGAAGAAAA 59.009 36.000 0.00 0.00 0.00 2.29
559 560 5.070180 TGTGGCTTGATTTGATTGGAAGAAA 59.930 36.000 0.00 0.00 0.00 2.52
560 561 4.588106 TGTGGCTTGATTTGATTGGAAGAA 59.412 37.500 0.00 0.00 0.00 2.52
561 562 4.151121 TGTGGCTTGATTTGATTGGAAGA 58.849 39.130 0.00 0.00 0.00 2.87
562 563 4.524316 TGTGGCTTGATTTGATTGGAAG 57.476 40.909 0.00 0.00 0.00 3.46
563 564 6.575267 CATATGTGGCTTGATTTGATTGGAA 58.425 36.000 0.00 0.00 0.00 3.53
564 565 5.452216 GCATATGTGGCTTGATTTGATTGGA 60.452 40.000 4.29 0.00 0.00 3.53
565 566 4.748102 GCATATGTGGCTTGATTTGATTGG 59.252 41.667 4.29 0.00 0.00 3.16
566 567 4.443063 CGCATATGTGGCTTGATTTGATTG 59.557 41.667 8.46 0.00 0.00 2.67
567 568 4.500205 CCGCATATGTGGCTTGATTTGATT 60.500 41.667 21.89 0.00 39.04 2.57
568 569 3.005050 CCGCATATGTGGCTTGATTTGAT 59.995 43.478 21.89 0.00 39.04 2.57
569 570 2.358582 CCGCATATGTGGCTTGATTTGA 59.641 45.455 21.89 0.00 39.04 2.69
570 571 2.544277 CCCGCATATGTGGCTTGATTTG 60.544 50.000 26.98 9.28 44.11 2.32
571 572 1.682854 CCCGCATATGTGGCTTGATTT 59.317 47.619 26.98 0.00 44.11 2.17
572 573 1.133823 TCCCGCATATGTGGCTTGATT 60.134 47.619 26.98 0.00 44.11 2.57
573 574 0.473755 TCCCGCATATGTGGCTTGAT 59.526 50.000 26.98 0.00 44.11 2.57
574 575 0.179048 CTCCCGCATATGTGGCTTGA 60.179 55.000 26.98 18.25 44.11 3.02
575 576 1.789078 GCTCCCGCATATGTGGCTTG 61.789 60.000 26.98 18.95 44.11 4.01
576 577 1.526917 GCTCCCGCATATGTGGCTT 60.527 57.895 26.98 0.00 44.11 4.35
577 578 2.111878 GCTCCCGCATATGTGGCT 59.888 61.111 26.98 0.00 44.11 4.75
578 579 2.203195 TGCTCCCGCATATGTGGC 60.203 61.111 26.98 17.22 44.11 5.01
588 589 4.227134 CTCCCATCCGTGCTCCCG 62.227 72.222 0.00 0.00 0.00 5.14
589 590 4.554036 GCTCCCATCCGTGCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
590 591 3.112205 ATGCTCCCATCCGTGCTCC 62.112 63.158 0.00 0.00 0.00 4.70
591 592 1.890979 CATGCTCCCATCCGTGCTC 60.891 63.158 0.00 0.00 0.00 4.26
592 593 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
593 594 2.903855 CCATGCTCCCATCCGTGC 60.904 66.667 0.00 0.00 0.00 5.34
594 595 2.203252 CCCATGCTCCCATCCGTG 60.203 66.667 0.00 0.00 0.00 4.94
595 596 1.987807 CTTCCCATGCTCCCATCCGT 61.988 60.000 0.00 0.00 0.00 4.69
596 597 1.228063 CTTCCCATGCTCCCATCCG 60.228 63.158 0.00 0.00 0.00 4.18
597 598 1.152368 CCTTCCCATGCTCCCATCC 59.848 63.158 0.00 0.00 0.00 3.51
598 599 1.152368 CCCTTCCCATGCTCCCATC 59.848 63.158 0.00 0.00 0.00 3.51
599 600 1.309013 TCCCTTCCCATGCTCCCAT 60.309 57.895 0.00 0.00 0.00 4.00
600 601 2.002977 CTCCCTTCCCATGCTCCCA 61.003 63.158 0.00 0.00 0.00 4.37
601 602 2.922234 CTCCCTTCCCATGCTCCC 59.078 66.667 0.00 0.00 0.00 4.30
602 603 2.194326 GCTCCCTTCCCATGCTCC 59.806 66.667 0.00 0.00 0.00 4.70
603 604 1.153005 CTGCTCCCTTCCCATGCTC 60.153 63.158 0.00 0.00 0.00 4.26
604 605 2.687610 CCTGCTCCCTTCCCATGCT 61.688 63.158 0.00 0.00 0.00 3.79
605 606 2.123982 CCTGCTCCCTTCCCATGC 60.124 66.667 0.00 0.00 0.00 4.06
606 607 2.123982 GCCTGCTCCCTTCCCATG 60.124 66.667 0.00 0.00 0.00 3.66
607 608 2.220786 CTTGCCTGCTCCCTTCCCAT 62.221 60.000 0.00 0.00 0.00 4.00
608 609 2.858476 TTGCCTGCTCCCTTCCCA 60.858 61.111 0.00 0.00 0.00 4.37
609 610 2.044551 CTTGCCTGCTCCCTTCCC 60.045 66.667 0.00 0.00 0.00 3.97
610 611 1.377856 GACTTGCCTGCTCCCTTCC 60.378 63.158 0.00 0.00 0.00 3.46
611 612 0.392327 GAGACTTGCCTGCTCCCTTC 60.392 60.000 0.00 0.00 0.00 3.46
612 613 1.682257 GAGACTTGCCTGCTCCCTT 59.318 57.895 0.00 0.00 0.00 3.95
613 614 2.654079 CGAGACTTGCCTGCTCCCT 61.654 63.158 0.00 0.00 0.00 4.20
614 615 2.125350 CGAGACTTGCCTGCTCCC 60.125 66.667 0.00 0.00 0.00 4.30
615 616 1.446966 GACGAGACTTGCCTGCTCC 60.447 63.158 0.00 0.00 0.00 4.70
616 617 1.446966 GGACGAGACTTGCCTGCTC 60.447 63.158 0.00 0.00 0.00 4.26
617 618 2.659610 GGACGAGACTTGCCTGCT 59.340 61.111 0.00 0.00 0.00 4.24
618 619 2.811317 CGGACGAGACTTGCCTGC 60.811 66.667 0.00 0.00 0.00 4.85
619 620 2.125912 CCGGACGAGACTTGCCTG 60.126 66.667 0.00 0.00 0.00 4.85
620 621 3.382832 CCCGGACGAGACTTGCCT 61.383 66.667 0.73 0.00 0.00 4.75
621 622 4.452733 CCCCGGACGAGACTTGCC 62.453 72.222 0.73 0.00 0.00 4.52
623 624 4.452733 GGCCCCGGACGAGACTTG 62.453 72.222 0.73 0.00 0.00 3.16
634 635 3.616721 CTATCCTGTCCGGCCCCG 61.617 72.222 0.00 0.00 39.44 5.73
635 636 3.242291 CCTATCCTGTCCGGCCCC 61.242 72.222 0.00 0.00 0.00 5.80
636 637 3.242291 CCCTATCCTGTCCGGCCC 61.242 72.222 0.00 0.00 0.00 5.80
637 638 2.446036 ACCCTATCCTGTCCGGCC 60.446 66.667 0.00 0.00 0.00 6.13
638 639 2.857744 CGACCCTATCCTGTCCGGC 61.858 68.421 0.00 0.00 0.00 6.13
639 640 2.857744 GCGACCCTATCCTGTCCGG 61.858 68.421 0.00 0.00 0.00 5.14
640 641 2.728817 GCGACCCTATCCTGTCCG 59.271 66.667 0.00 0.00 0.00 4.79
641 642 2.728817 CGCGACCCTATCCTGTCC 59.271 66.667 0.00 0.00 0.00 4.02
642 643 2.027751 GCGCGACCCTATCCTGTC 59.972 66.667 12.10 0.00 0.00 3.51
643 644 3.900892 CGCGCGACCCTATCCTGT 61.901 66.667 28.94 0.00 0.00 4.00
644 645 4.647615 CCGCGCGACCCTATCCTG 62.648 72.222 34.63 6.11 0.00 3.86
658 659 1.745489 CTAAGGCCAACTCCACCGC 60.745 63.158 5.01 0.00 0.00 5.68
749 769 0.796870 CGCGATGTACAGAGCGTTGA 60.797 55.000 28.46 0.00 46.48 3.18
3122 4799 4.157840 GGGAAAAGCTACTGTACATTTGGG 59.842 45.833 0.00 0.00 0.00 4.12
3183 5920 6.579491 ACTAGTGTAGTGTGAAAAACGTTC 57.421 37.500 0.00 0.00 37.69 3.95
3236 5973 9.186323 GTTTTCTTTTAGCTGATTTTTCTCCTC 57.814 33.333 0.00 0.00 0.00 3.71
3374 8846 5.405269 TGAATGTATGTGTGTATATGAGCGC 59.595 40.000 0.00 0.00 0.00 5.92
3375 8847 6.642540 AGTGAATGTATGTGTGTATATGAGCG 59.357 38.462 0.00 0.00 0.00 5.03
3377 8849 8.363390 AGGAGTGAATGTATGTGTGTATATGAG 58.637 37.037 0.00 0.00 0.00 2.90
3395 8867 5.813717 CGTATGTACGTTCATAGGAGTGAA 58.186 41.667 22.73 0.00 44.13 3.18
3414 8886 0.262580 TAGGGGTAGGGTGTGCGTAT 59.737 55.000 0.00 0.00 0.00 3.06
3429 8901 2.168521 TCTTTCGAAGGTGCTCATAGGG 59.831 50.000 7.20 0.00 0.00 3.53
3440 8912 0.243907 TCGGCTCAGTCTTTCGAAGG 59.756 55.000 0.00 0.00 0.00 3.46
3443 8915 0.888619 ATGTCGGCTCAGTCTTTCGA 59.111 50.000 0.00 0.00 0.00 3.71
3657 9129 4.032356 TGTGCAACAGTCTGAGCG 57.968 55.556 6.91 0.00 45.67 5.03
3884 9401 1.228490 CCCTACCGCTATCGACCCT 60.228 63.158 0.00 0.00 38.10 4.34
3893 9410 3.584868 GACGTGCAACCCTACCGCT 62.585 63.158 0.00 0.00 0.00 5.52
3925 9442 7.161773 AGCACTGTATTTGATACTTGCAATT 57.838 32.000 18.66 0.00 42.68 2.32
3930 9447 7.173419 CGTACAAGCACTGTATTTGATACTTG 58.827 38.462 9.55 0.00 42.50 3.16
4088 9605 5.447757 AGTGGTACAGTAAGAGGATCCTAC 58.552 45.833 16.16 9.86 42.13 3.18
4113 9630 6.910536 AAAAGATTGTAGCTTCGTATCCAG 57.089 37.500 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.