Multiple sequence alignment - TraesCS7D01G052300

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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 TraesCS7D01G052300 chr7D 100.000 3642 0 0 1 3642 27242394 27246035 0.000000e+00 6726.0
1 TraesCS7D01G052300 chr7D 86.680 976 130 0 1677 2652 25898025 25897050 0.000000e+00 1083.0
2 TraesCS7D01G052300 chr7D 85.121 1035 143 6 1647 2672 26559510 26558478 0.000000e+00 1048.0
3 TraesCS7D01G052300 chr7D 86.593 634 76 7 902 1529 25898774 25898144 0.000000e+00 691.0
4 TraesCS7D01G052300 chr7D 88.385 551 64 0 996 1546 26566514 26565964 0.000000e+00 664.0
5 TraesCS7D01G052300 chr7A 95.167 1138 42 5 1591 2723 27605171 27606300 0.000000e+00 1784.0
6 TraesCS7D01G052300 chr7A 94.709 1115 48 7 434 1540 27604064 27605175 0.000000e+00 1722.0
7 TraesCS7D01G052300 chr7A 86.992 984 124 4 1670 2652 26823241 26822261 0.000000e+00 1105.0
8 TraesCS7D01G052300 chr7A 86.238 1010 134 4 1647 2652 26977679 26976671 0.000000e+00 1090.0
9 TraesCS7D01G052300 chr7A 90.577 520 49 0 1027 1546 27032927 27032408 0.000000e+00 689.0
10 TraesCS7D01G052300 chr7A 90.661 514 48 0 1027 1540 26823933 26823420 0.000000e+00 684.0
11 TraesCS7D01G052300 chr7A 97.279 147 4 0 2687 2833 27606299 27606445 2.170000e-62 250.0
12 TraesCS7D01G052300 chr7A 79.224 361 40 25 96 437 27603684 27604028 6.120000e-53 219.0
13 TraesCS7D01G052300 chr7A 92.308 52 4 0 2856 2907 27606505 27606556 1.400000e-09 75.0
14 TraesCS7D01G052300 chr4A 91.719 1268 82 13 1572 2829 703652231 703653485 0.000000e+00 1738.0
15 TraesCS7D01G052300 chr4A 91.562 1268 83 15 1572 2829 703707801 703709054 0.000000e+00 1727.0
16 TraesCS7D01G052300 chr4A 91.246 1268 87 15 1572 2829 703605978 703607231 0.000000e+00 1705.0
17 TraesCS7D01G052300 chr4A 88.574 1129 75 27 434 1540 703604883 703605979 0.000000e+00 1321.0
18 TraesCS7D01G052300 chr4A 91.728 677 46 4 873 1540 703707127 703707802 0.000000e+00 931.0
19 TraesCS7D01G052300 chr4A 92.790 638 37 3 912 1540 703651595 703652232 0.000000e+00 915.0
20 TraesCS7D01G052300 chr4A 88.385 551 64 0 996 1546 710284837 710284287 0.000000e+00 664.0
21 TraesCS7D01G052300 chr4A 88.224 535 63 0 996 1530 710695539 710695005 1.100000e-179 640.0
22 TraesCS7D01G052300 chr4A 88.398 543 41 18 2899 3433 740148091 740147563 5.130000e-178 634.0
23 TraesCS7D01G052300 chr4A 83.455 550 72 12 999 1531 710677393 710676846 9.080000e-136 494.0
24 TraesCS7D01G052300 chr4A 88.674 362 27 9 434 786 703650682 703651038 2.600000e-116 429.0
25 TraesCS7D01G052300 chr4A 87.871 371 30 10 434 794 703706680 703707045 4.350000e-114 422.0
26 TraesCS7D01G052300 chr4A 96.296 54 2 0 3589 3642 740147563 740147510 5.010000e-14 89.8
27 TraesCS7D01G052300 chr4A 84.146 82 7 6 2832 2907 703709092 703709173 1.400000e-09 75.0
28 TraesCS7D01G052300 chr4A 82.927 82 8 6 2832 2907 703607269 703607350 6.530000e-08 69.4
29 TraesCS7D01G052300 chr4A 100.000 30 0 0 1304 1333 698920482 698920511 5.080000e-04 56.5
30 TraesCS7D01G052300 chr2D 86.804 970 123 3 1681 2649 338331178 338330213 0.000000e+00 1077.0
31 TraesCS7D01G052300 chr2D 87.736 530 65 0 1001 1530 338331800 338331271 1.440000e-173 619.0
32 TraesCS7D01G052300 chr2A 91.895 765 36 13 2899 3642 753432141 753431382 0.000000e+00 1046.0
33 TraesCS7D01G052300 chr2A 88.469 529 61 0 1001 1529 448294893 448294365 1.100000e-179 640.0
34 TraesCS7D01G052300 chr3B 89.905 733 56 9 2906 3627 521516251 521515526 0.000000e+00 928.0
35 TraesCS7D01G052300 chr3B 89.617 732 58 9 2907 3627 18235102 18234378 0.000000e+00 915.0
36 TraesCS7D01G052300 chr3B 88.113 530 63 0 1001 1530 224961037 224960508 6.640000e-177 630.0
37 TraesCS7D01G052300 chrUn 89.023 747 53 8 2905 3627 249745992 249745251 0.000000e+00 898.0
38 TraesCS7D01G052300 chrUn 89.023 747 53 8 2905 3627 309786363 309785622 0.000000e+00 898.0
39 TraesCS7D01G052300 chr7B 89.023 747 53 8 2905 3627 723017516 723018257 0.000000e+00 898.0
40 TraesCS7D01G052300 chr2B 83.025 595 91 6 945 1535 800172551 800171963 6.920000e-147 531.0
41 TraesCS7D01G052300 chr2B 87.234 376 26 12 2898 3251 551247983 551247608 3.390000e-110 409.0
42 TraesCS7D01G052300 chr5A 88.175 389 25 10 2890 3257 149207088 149207476 9.280000e-121 444.0
43 TraesCS7D01G052300 chr4B 89.101 367 19 9 2907 3257 626511274 626510913 1.550000e-118 436.0
44 TraesCS7D01G052300 chr4B 87.958 382 22 12 2898 3257 633748547 633748168 2.600000e-116 429.0
45 TraesCS7D01G052300 chr6B 87.978 366 23 11 2907 3251 297533664 297534029 2.620000e-111 412.0
46 TraesCS7D01G052300 chr6A 87.705 366 24 12 2907 3251 605355587 605355222 1.220000e-109 407.0
47 TraesCS7D01G052300 chr6A 90.244 41 4 0 59 99 60232423 60232383 2.000000e-03 54.7
48 TraesCS7D01G052300 chr6A 94.286 35 2 0 59 93 411084934 411084900 2.000000e-03 54.7
49 TraesCS7D01G052300 chr1A 87.158 366 26 11 2907 3251 474249235 474248870 2.640000e-106 396.0
50 TraesCS7D01G052300 chr5B 86.740 362 16 14 2907 3257 544544479 544544139 1.230000e-99 374.0
51 TraesCS7D01G052300 chr3D 90.459 283 13 8 2907 3175 613710154 613709872 9.610000e-96 361.0
52 TraesCS7D01G052300 chr3D 88.664 247 22 4 3396 3642 119128397 119128157 2.750000e-76 296.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G052300 chr7D 27242394 27246035 3641 False 6726.000000 6726 100.000000 1 3642 1 chr7D.!!$F1 3641
1 TraesCS7D01G052300 chr7D 26558478 26559510 1032 True 1048.000000 1048 85.121000 1647 2672 1 chr7D.!!$R1 1025
2 TraesCS7D01G052300 chr7D 25897050 25898774 1724 True 887.000000 1083 86.636500 902 2652 2 chr7D.!!$R3 1750
3 TraesCS7D01G052300 chr7D 26565964 26566514 550 True 664.000000 664 88.385000 996 1546 1 chr7D.!!$R2 550
4 TraesCS7D01G052300 chr7A 26976671 26977679 1008 True 1090.000000 1090 86.238000 1647 2652 1 chr7A.!!$R1 1005
5 TraesCS7D01G052300 chr7A 26822261 26823933 1672 True 894.500000 1105 88.826500 1027 2652 2 chr7A.!!$R3 1625
6 TraesCS7D01G052300 chr7A 27603684 27606556 2872 False 810.000000 1784 91.737400 96 2907 5 chr7A.!!$F1 2811
7 TraesCS7D01G052300 chr7A 27032408 27032927 519 True 689.000000 689 90.577000 1027 1546 1 chr7A.!!$R2 519
8 TraesCS7D01G052300 chr4A 703604883 703607350 2467 False 1031.800000 1705 87.582333 434 2907 3 chr4A.!!$F2 2473
9 TraesCS7D01G052300 chr4A 703650682 703653485 2803 False 1027.333333 1738 91.061000 434 2829 3 chr4A.!!$F3 2395
10 TraesCS7D01G052300 chr4A 703706680 703709173 2493 False 788.750000 1727 88.826750 434 2907 4 chr4A.!!$F4 2473
11 TraesCS7D01G052300 chr4A 710284287 710284837 550 True 664.000000 664 88.385000 996 1546 1 chr4A.!!$R1 550
12 TraesCS7D01G052300 chr4A 710695005 710695539 534 True 640.000000 640 88.224000 996 1530 1 chr4A.!!$R3 534
13 TraesCS7D01G052300 chr4A 710676846 710677393 547 True 494.000000 494 83.455000 999 1531 1 chr4A.!!$R2 532
14 TraesCS7D01G052300 chr4A 740147510 740148091 581 True 361.900000 634 92.347000 2899 3642 2 chr4A.!!$R4 743
15 TraesCS7D01G052300 chr2D 338330213 338331800 1587 True 848.000000 1077 87.270000 1001 2649 2 chr2D.!!$R1 1648
16 TraesCS7D01G052300 chr2A 753431382 753432141 759 True 1046.000000 1046 91.895000 2899 3642 1 chr2A.!!$R2 743
17 TraesCS7D01G052300 chr2A 448294365 448294893 528 True 640.000000 640 88.469000 1001 1529 1 chr2A.!!$R1 528
18 TraesCS7D01G052300 chr3B 521515526 521516251 725 True 928.000000 928 89.905000 2906 3627 1 chr3B.!!$R3 721
19 TraesCS7D01G052300 chr3B 18234378 18235102 724 True 915.000000 915 89.617000 2907 3627 1 chr3B.!!$R1 720
20 TraesCS7D01G052300 chr3B 224960508 224961037 529 True 630.000000 630 88.113000 1001 1530 1 chr3B.!!$R2 529
21 TraesCS7D01G052300 chrUn 249745251 249745992 741 True 898.000000 898 89.023000 2905 3627 1 chrUn.!!$R1 722
22 TraesCS7D01G052300 chrUn 309785622 309786363 741 True 898.000000 898 89.023000 2905 3627 1 chrUn.!!$R2 722
23 TraesCS7D01G052300 chr7B 723017516 723018257 741 False 898.000000 898 89.023000 2905 3627 1 chr7B.!!$F1 722
24 TraesCS7D01G052300 chr2B 800171963 800172551 588 True 531.000000 531 83.025000 945 1535 1 chr2B.!!$R2 590

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
323 361 0.550914 TCTGTTCCTTGGTGCAGGTT 59.449 50.0 0.0 0.0 35.15 3.50 F
1135 1664 0.580104 CGTCACCTTCGTCAACAACC 59.420 55.0 0.0 0.0 0.00 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1567 2155 0.191064 AACCCAGGAGAGAGACCACA 59.809 55.0 0.00 0.0 0.00 4.17 R
3069 3877 1.056660 GTCCACCTTCCACTCAAGGA 58.943 55.0 6.24 0.0 45.41 3.36 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
43 44 9.999660 TTATATCACTAAGTCGTCTAGATCACT 57.000 33.333 0.00 0.00 0.00 3.41
45 46 9.999660 ATATCACTAAGTCGTCTAGATCACTAA 57.000 33.333 0.00 0.00 0.00 2.24
46 47 8.734218 ATCACTAAGTCGTCTAGATCACTAAA 57.266 34.615 0.00 0.00 0.00 1.85
47 48 8.557592 TCACTAAGTCGTCTAGATCACTAAAA 57.442 34.615 0.00 0.00 0.00 1.52
48 49 8.449397 TCACTAAGTCGTCTAGATCACTAAAAC 58.551 37.037 0.00 0.00 0.00 2.43
49 50 7.425882 CACTAAGTCGTCTAGATCACTAAAACG 59.574 40.741 0.00 0.00 0.00 3.60
50 51 5.876612 AGTCGTCTAGATCACTAAAACGT 57.123 39.130 0.00 0.00 0.00 3.99
51 52 6.251655 AGTCGTCTAGATCACTAAAACGTT 57.748 37.500 0.00 0.00 0.00 3.99
52 53 6.675987 AGTCGTCTAGATCACTAAAACGTTT 58.324 36.000 7.96 7.96 0.00 3.60
53 54 7.810658 AGTCGTCTAGATCACTAAAACGTTTA 58.189 34.615 15.03 0.00 0.00 2.01
54 55 7.961827 AGTCGTCTAGATCACTAAAACGTTTAG 59.038 37.037 15.03 13.64 0.00 1.85
55 56 7.959651 GTCGTCTAGATCACTAAAACGTTTAGA 59.040 37.037 15.03 10.46 0.00 2.10
56 57 8.671921 TCGTCTAGATCACTAAAACGTTTAGAT 58.328 33.333 15.03 14.50 0.00 1.98
57 58 9.926751 CGTCTAGATCACTAAAACGTTTAGATA 57.073 33.333 15.03 2.27 0.00 1.98
83 84 9.924650 AAGTGATCTAAAACGTCTTGTATTAGT 57.075 29.630 0.00 0.00 0.00 2.24
84 85 9.924650 AGTGATCTAAAACGTCTTGTATTAGTT 57.075 29.630 0.00 0.00 0.00 2.24
93 94 9.933723 AAACGTCTTGTATTAGTTTATACAGGT 57.066 29.630 0.00 0.00 40.86 4.00
106 107 8.380743 AGTTTATACAGGTAGTATGTCTCTCG 57.619 38.462 0.00 0.00 43.20 4.04
107 108 6.798315 TTATACAGGTAGTATGTCTCTCGC 57.202 41.667 0.00 0.00 43.20 5.03
123 125 9.915629 ATGTCTCTCGCTAGTTATATTTTAAGG 57.084 33.333 0.00 0.00 0.00 2.69
162 164 7.921214 TCAGTCTAAATCGACTCAATAACCATC 59.079 37.037 0.00 0.00 42.10 3.51
172 174 8.974408 TCGACTCAATAACCATCATATTTTACG 58.026 33.333 0.00 0.00 0.00 3.18
173 175 7.740346 CGACTCAATAACCATCATATTTTACGC 59.260 37.037 0.00 0.00 0.00 4.42
202 204 5.628797 TTTTTGGATTTTCCCTTCTGCTT 57.371 34.783 0.00 0.00 35.03 3.91
206 208 6.739331 TTGGATTTTCCCTTCTGCTTTTTA 57.261 33.333 0.00 0.00 35.03 1.52
214 216 8.432110 TTTCCCTTCTGCTTTTTATGTTTTTC 57.568 30.769 0.00 0.00 0.00 2.29
224 226 6.477360 GCTTTTTATGTTTTTCCGTTCCTTGA 59.523 34.615 0.00 0.00 0.00 3.02
234 236 2.890311 TCCGTTCCTTGATGCACATTTT 59.110 40.909 0.00 0.00 0.00 1.82
235 237 3.057596 TCCGTTCCTTGATGCACATTTTC 60.058 43.478 0.00 0.00 0.00 2.29
238 240 2.178580 TCCTTGATGCACATTTTCCCC 58.821 47.619 0.00 0.00 0.00 4.81
239 241 1.901159 CCTTGATGCACATTTTCCCCA 59.099 47.619 0.00 0.00 0.00 4.96
261 263 7.332430 CCCCATTTTTATTTTCTTTTACGGGTC 59.668 37.037 0.00 0.00 0.00 4.46
295 333 2.666190 ACACGCGCATGTGAAGCT 60.666 55.556 20.20 0.00 42.55 3.74
320 358 3.799281 TTTTTCTGTTCCTTGGTGCAG 57.201 42.857 0.00 6.81 0.00 4.41
321 359 1.691196 TTTCTGTTCCTTGGTGCAGG 58.309 50.000 0.00 0.00 34.86 4.85
323 361 0.550914 TCTGTTCCTTGGTGCAGGTT 59.449 50.000 0.00 0.00 35.15 3.50
326 364 2.955660 CTGTTCCTTGGTGCAGGTTTTA 59.044 45.455 0.00 0.00 35.15 1.52
327 365 2.691011 TGTTCCTTGGTGCAGGTTTTAC 59.309 45.455 0.00 0.00 35.15 2.01
328 366 1.600023 TCCTTGGTGCAGGTTTTACG 58.400 50.000 0.00 0.00 35.15 3.18
329 367 1.134037 TCCTTGGTGCAGGTTTTACGT 60.134 47.619 0.00 0.00 35.15 3.57
330 368 1.679153 CCTTGGTGCAGGTTTTACGTT 59.321 47.619 0.00 0.00 0.00 3.99
331 369 2.542824 CCTTGGTGCAGGTTTTACGTTG 60.543 50.000 0.00 0.00 0.00 4.10
332 370 2.039818 TGGTGCAGGTTTTACGTTGA 57.960 45.000 0.00 0.00 0.00 3.18
333 371 1.671845 TGGTGCAGGTTTTACGTTGAC 59.328 47.619 0.00 0.00 0.00 3.18
334 372 1.944709 GGTGCAGGTTTTACGTTGACT 59.055 47.619 0.00 0.00 0.00 3.41
335 373 2.356695 GGTGCAGGTTTTACGTTGACTT 59.643 45.455 0.00 0.00 0.00 3.01
336 374 3.181494 GGTGCAGGTTTTACGTTGACTTT 60.181 43.478 0.00 0.00 0.00 2.66
337 375 4.035441 GGTGCAGGTTTTACGTTGACTTTA 59.965 41.667 0.00 0.00 0.00 1.85
338 376 5.278120 GGTGCAGGTTTTACGTTGACTTTAT 60.278 40.000 0.00 0.00 0.00 1.40
339 377 5.849604 GTGCAGGTTTTACGTTGACTTTATC 59.150 40.000 0.00 0.00 0.00 1.75
340 378 5.761234 TGCAGGTTTTACGTTGACTTTATCT 59.239 36.000 0.00 0.00 0.00 1.98
341 379 6.261381 TGCAGGTTTTACGTTGACTTTATCTT 59.739 34.615 0.00 0.00 0.00 2.40
342 380 6.795593 GCAGGTTTTACGTTGACTTTATCTTC 59.204 38.462 0.00 0.00 0.00 2.87
343 381 7.295930 CAGGTTTTACGTTGACTTTATCTTCC 58.704 38.462 0.00 0.00 0.00 3.46
344 382 6.429078 AGGTTTTACGTTGACTTTATCTTCCC 59.571 38.462 0.00 0.00 0.00 3.97
345 383 6.205270 GGTTTTACGTTGACTTTATCTTCCCA 59.795 38.462 0.00 0.00 0.00 4.37
346 384 7.094506 GGTTTTACGTTGACTTTATCTTCCCAT 60.095 37.037 0.00 0.00 0.00 4.00
347 385 7.989416 TTTACGTTGACTTTATCTTCCCATT 57.011 32.000 0.00 0.00 0.00 3.16
348 386 7.989416 TTACGTTGACTTTATCTTCCCATTT 57.011 32.000 0.00 0.00 0.00 2.32
349 387 6.496338 ACGTTGACTTTATCTTCCCATTTC 57.504 37.500 0.00 0.00 0.00 2.17
350 388 5.414765 ACGTTGACTTTATCTTCCCATTTCC 59.585 40.000 0.00 0.00 0.00 3.13
351 389 5.648092 CGTTGACTTTATCTTCCCATTTCCT 59.352 40.000 0.00 0.00 0.00 3.36
352 390 6.151144 CGTTGACTTTATCTTCCCATTTCCTT 59.849 38.462 0.00 0.00 0.00 3.36
379 417 9.928236 TTTGTTTTCACTTTTGTTCTTTTTCTG 57.072 25.926 0.00 0.00 0.00 3.02
403 441 4.154737 CGCCAGTTTCATTTCTCTGAATGA 59.845 41.667 0.00 0.00 42.58 2.57
404 442 5.397326 GCCAGTTTCATTTCTCTGAATGAC 58.603 41.667 0.15 0.00 43.61 3.06
442 519 1.311859 CAAACCTGTGAGCTTGCTGA 58.688 50.000 0.00 0.00 0.00 4.26
451 528 2.030451 GTGAGCTTGCTGAAAAGGGAAG 60.030 50.000 0.00 0.00 35.67 3.46
458 535 1.872653 GCTGAAAAGGGAAGACGTCGT 60.873 52.381 10.46 6.85 0.00 4.34
506 583 3.244976 GTGTTGCATGCTCCACAATTAC 58.755 45.455 25.53 10.59 0.00 1.89
623 703 2.221169 GTGCTTCCAGATCACACAACA 58.779 47.619 0.00 0.00 0.00 3.33
625 705 2.815503 TGCTTCCAGATCACACAACATG 59.184 45.455 0.00 0.00 0.00 3.21
745 831 7.284034 TCCTTCCAAGATCAAATTAGCATCTTC 59.716 37.037 0.00 0.00 35.16 2.87
778 864 3.427773 GGGCACGTTGTGACTTGTTTTTA 60.428 43.478 2.39 0.00 42.03 1.52
799 885 9.562583 TTTTTATTTGATTCGTTTTCTATCCCG 57.437 29.630 0.00 0.00 0.00 5.14
829 915 6.541111 AACGACCTAAAGTCTCACAATTTC 57.459 37.500 0.00 0.00 43.91 2.17
965 1483 1.633852 GAGAGCCAAGTGAAGCAGCG 61.634 60.000 0.00 0.00 0.00 5.18
982 1500 1.589716 GCGAGCAGGTGAGGCATTTT 61.590 55.000 0.00 0.00 0.00 1.82
1135 1664 0.580104 CGTCACCTTCGTCAACAACC 59.420 55.000 0.00 0.00 0.00 3.77
1490 2040 2.959030 TCATGGGCTACTGCTACTACAG 59.041 50.000 0.00 0.00 43.59 2.74
1503 2053 3.683847 GCTACTACAGGGGTCTAGTCGAA 60.684 52.174 0.00 0.00 0.00 3.71
1540 2128 3.379057 TCTCAAAGGTATGCATGCATGTG 59.621 43.478 37.43 25.74 37.82 3.21
1541 2129 3.090790 TCAAAGGTATGCATGCATGTGT 58.909 40.909 37.43 21.01 37.82 3.72
1542 2130 3.510753 TCAAAGGTATGCATGCATGTGTT 59.489 39.130 37.43 24.81 37.82 3.32
1543 2131 4.021280 TCAAAGGTATGCATGCATGTGTTT 60.021 37.500 37.43 28.09 37.82 2.83
1544 2132 3.788333 AGGTATGCATGCATGTGTTTC 57.212 42.857 37.43 20.86 37.82 2.78
1545 2133 3.359033 AGGTATGCATGCATGTGTTTCT 58.641 40.909 37.43 22.39 37.82 2.52
1546 2134 3.765511 AGGTATGCATGCATGTGTTTCTT 59.234 39.130 37.43 15.82 37.82 2.52
1547 2135 4.107622 GGTATGCATGCATGTGTTTCTTC 58.892 43.478 37.43 17.38 37.82 2.87
1548 2136 3.945981 ATGCATGCATGTGTTTCTTCA 57.054 38.095 31.74 14.20 35.03 3.02
1549 2137 3.729862 TGCATGCATGTGTTTCTTCAA 57.270 38.095 26.79 0.00 0.00 2.69
1550 2138 3.382855 TGCATGCATGTGTTTCTTCAAC 58.617 40.909 26.79 7.03 35.71 3.18
1551 2139 3.068448 TGCATGCATGTGTTTCTTCAACT 59.932 39.130 26.79 0.00 36.21 3.16
1552 2140 4.277921 TGCATGCATGTGTTTCTTCAACTA 59.722 37.500 26.79 0.00 36.21 2.24
1553 2141 4.855388 GCATGCATGTGTTTCTTCAACTAG 59.145 41.667 26.79 0.00 36.21 2.57
1554 2142 4.488126 TGCATGTGTTTCTTCAACTAGC 57.512 40.909 0.00 0.00 36.21 3.42
1555 2143 3.882288 TGCATGTGTTTCTTCAACTAGCA 59.118 39.130 0.00 0.00 36.21 3.49
1556 2144 4.337836 TGCATGTGTTTCTTCAACTAGCAA 59.662 37.500 0.00 0.00 36.21 3.91
1557 2145 4.913924 GCATGTGTTTCTTCAACTAGCAAG 59.086 41.667 0.00 0.00 36.21 4.01
1558 2146 5.277974 GCATGTGTTTCTTCAACTAGCAAGA 60.278 40.000 0.00 0.00 36.21 3.02
1559 2147 6.728200 CATGTGTTTCTTCAACTAGCAAGAA 58.272 36.000 7.65 7.65 36.94 2.52
1560 2148 6.119144 TGTGTTTCTTCAACTAGCAAGAAC 57.881 37.500 10.27 7.69 38.16 3.01
1561 2149 5.645929 TGTGTTTCTTCAACTAGCAAGAACA 59.354 36.000 10.27 9.40 38.16 3.18
1562 2150 6.318648 TGTGTTTCTTCAACTAGCAAGAACAT 59.681 34.615 10.27 0.00 38.16 2.71
1563 2151 6.634436 GTGTTTCTTCAACTAGCAAGAACATG 59.366 38.462 10.27 0.00 38.16 3.21
1564 2152 6.318648 TGTTTCTTCAACTAGCAAGAACATGT 59.681 34.615 10.27 0.00 38.16 3.21
1565 2153 6.942532 TTCTTCAACTAGCAAGAACATGTT 57.057 33.333 11.78 11.78 34.39 2.71
1566 2154 6.304356 TCTTCAACTAGCAAGAACATGTTG 57.696 37.500 17.58 3.39 36.93 3.33
1567 2155 5.822519 TCTTCAACTAGCAAGAACATGTTGT 59.177 36.000 17.58 9.57 36.93 3.32
1568 2156 5.422666 TCAACTAGCAAGAACATGTTGTG 57.577 39.130 17.58 14.48 36.93 3.33
1569 2157 4.881273 TCAACTAGCAAGAACATGTTGTGT 59.119 37.500 17.58 2.67 44.84 3.72
1570 2158 4.818534 ACTAGCAAGAACATGTTGTGTG 57.181 40.909 17.58 13.42 41.14 3.82
1571 2159 3.565482 ACTAGCAAGAACATGTTGTGTGG 59.435 43.478 17.58 6.86 41.14 4.17
1572 2160 2.378038 AGCAAGAACATGTTGTGTGGT 58.622 42.857 17.58 14.65 41.14 4.16
1620 2208 4.905429 TGGTGTAGTATGTTGTTCTGCAT 58.095 39.130 0.00 0.00 0.00 3.96
1625 2213 5.874810 TGTAGTATGTTGTTCTGCATTCCTC 59.125 40.000 0.00 0.00 0.00 3.71
1639 2227 3.066621 GCATTCCTCGGTTTATTGCATCA 59.933 43.478 0.00 0.00 0.00 3.07
1640 2228 4.790766 GCATTCCTCGGTTTATTGCATCAG 60.791 45.833 0.00 0.00 0.00 2.90
1641 2229 3.904800 TCCTCGGTTTATTGCATCAGA 57.095 42.857 0.00 0.00 0.00 3.27
1642 2230 4.214986 TCCTCGGTTTATTGCATCAGAA 57.785 40.909 0.00 0.00 0.00 3.02
1643 2231 3.938963 TCCTCGGTTTATTGCATCAGAAC 59.061 43.478 0.00 0.00 0.00 3.01
1644 2232 3.941483 CCTCGGTTTATTGCATCAGAACT 59.059 43.478 0.00 0.00 0.00 3.01
1645 2233 4.396166 CCTCGGTTTATTGCATCAGAACTT 59.604 41.667 0.00 0.00 0.00 2.66
1646 2234 5.106157 CCTCGGTTTATTGCATCAGAACTTT 60.106 40.000 0.00 0.00 0.00 2.66
1647 2235 6.093495 CCTCGGTTTATTGCATCAGAACTTTA 59.907 38.462 0.00 0.00 0.00 1.85
1711 2414 0.662619 TTGTTTGTGCAGAAGAGGCG 59.337 50.000 0.00 0.00 0.00 5.52
1736 2439 3.260475 TGACCAATGGATACTTGGACG 57.740 47.619 6.16 0.00 43.42 4.79
2232 2935 2.431942 CAACGCCGTACTTCCGCT 60.432 61.111 0.00 0.00 0.00 5.52
2617 3322 1.462616 TGCGCAATGTTGATAGGCTT 58.537 45.000 8.16 0.00 0.00 4.35
2673 3385 7.595875 GCAAACTGGTAAATAATAAACGGTTGT 59.404 33.333 0.00 0.00 0.00 3.32
2798 3547 8.991243 ATGTAACCAATGTCATTCATTTTCAG 57.009 30.769 0.00 0.00 43.33 3.02
2841 3627 8.836268 AGTCGTTAGTTACATTGGAAATACAA 57.164 30.769 0.00 0.00 34.41 2.41
2986 3776 4.899502 AGTGGTGATAGGAAAACTCAGTG 58.100 43.478 0.00 0.00 0.00 3.66
3029 3823 5.322754 ACTTACTGCTGGTTACTGTCTCTA 58.677 41.667 0.00 0.00 0.00 2.43
3060 3868 9.958180 TGATTACTGTTTCTCCTTGAATGATAA 57.042 29.630 0.00 0.00 34.24 1.75
3091 3899 2.432628 GAGTGGAAGGTGGACGCG 60.433 66.667 3.53 3.53 0.00 6.01
3137 3945 6.015519 TCCTTGCTTAGCATATTTGTTGTTGT 60.016 34.615 8.05 0.00 38.76 3.32
3149 3957 5.968528 TTTGTTGTTGTTGGTGAGTACTT 57.031 34.783 0.00 0.00 0.00 2.24
3161 3969 7.068103 TGTTGGTGAGTACTTGATGTTTGAAAT 59.932 33.333 0.00 0.00 0.00 2.17
3205 4013 9.553064 CAGATAATTATAGATAAGGGTGGCATC 57.447 37.037 0.00 0.00 0.00 3.91
3328 4142 6.393990 ACATGTTCACTGTTGTTGCTAAAAA 58.606 32.000 0.00 0.00 0.00 1.94
3616 4430 2.738846 CGTGATGACCTTCAAACAGGAG 59.261 50.000 0.00 0.00 37.39 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 9.999660 AGTGATCTAGACGACTTAGTGATATAA 57.000 33.333 0.00 0.00 0.00 0.98
19 20 9.999660 TTAGTGATCTAGACGACTTAGTGATAT 57.000 33.333 10.08 0.00 0.00 1.63
20 21 9.828039 TTTAGTGATCTAGACGACTTAGTGATA 57.172 33.333 10.08 0.00 0.00 2.15
21 22 8.734218 TTTAGTGATCTAGACGACTTAGTGAT 57.266 34.615 10.08 0.00 0.00 3.06
22 23 8.449397 GTTTTAGTGATCTAGACGACTTAGTGA 58.551 37.037 10.08 0.00 0.00 3.41
23 24 7.425882 CGTTTTAGTGATCTAGACGACTTAGTG 59.574 40.741 10.08 0.00 38.53 2.74
24 25 7.118971 ACGTTTTAGTGATCTAGACGACTTAGT 59.881 37.037 10.08 0.00 38.53 2.24
25 26 7.462731 ACGTTTTAGTGATCTAGACGACTTAG 58.537 38.462 10.08 2.78 38.53 2.18
26 27 7.369803 ACGTTTTAGTGATCTAGACGACTTA 57.630 36.000 10.08 0.34 38.53 2.24
27 28 6.251655 ACGTTTTAGTGATCTAGACGACTT 57.748 37.500 10.08 0.00 38.53 3.01
28 29 5.876612 ACGTTTTAGTGATCTAGACGACT 57.123 39.130 9.78 9.78 38.53 4.18
29 30 6.924629 AAACGTTTTAGTGATCTAGACGAC 57.075 37.500 7.96 0.00 38.53 4.34
30 31 8.032952 TCTAAACGTTTTAGTGATCTAGACGA 57.967 34.615 20.19 0.00 38.53 4.20
31 32 8.838452 ATCTAAACGTTTTAGTGATCTAGACG 57.162 34.615 20.19 0.00 40.21 4.18
57 58 9.924650 ACTAATACAAGACGTTTTAGATCACTT 57.075 29.630 8.71 0.00 39.94 3.16
58 59 9.924650 AACTAATACAAGACGTTTTAGATCACT 57.075 29.630 8.71 0.00 39.94 3.41
67 68 9.933723 ACCTGTATAAACTAATACAAGACGTTT 57.066 29.630 0.00 0.00 40.79 3.60
80 81 9.486497 CGAGAGACATACTACCTGTATAAACTA 57.514 37.037 0.00 0.00 39.66 2.24
81 82 7.041235 GCGAGAGACATACTACCTGTATAAACT 60.041 40.741 0.00 0.00 39.66 2.66
82 83 7.041235 AGCGAGAGACATACTACCTGTATAAAC 60.041 40.741 0.00 0.00 39.66 2.01
83 84 6.996879 AGCGAGAGACATACTACCTGTATAAA 59.003 38.462 0.00 0.00 39.66 1.40
84 85 6.531923 AGCGAGAGACATACTACCTGTATAA 58.468 40.000 0.00 0.00 39.66 0.98
85 86 6.111669 AGCGAGAGACATACTACCTGTATA 57.888 41.667 0.00 0.00 39.66 1.47
86 87 4.975631 AGCGAGAGACATACTACCTGTAT 58.024 43.478 0.00 0.00 42.18 2.29
87 88 4.418973 AGCGAGAGACATACTACCTGTA 57.581 45.455 0.00 0.00 35.37 2.74
88 89 3.284793 AGCGAGAGACATACTACCTGT 57.715 47.619 0.00 0.00 0.00 4.00
89 90 4.382291 ACTAGCGAGAGACATACTACCTG 58.618 47.826 0.00 0.00 0.00 4.00
90 91 4.693042 ACTAGCGAGAGACATACTACCT 57.307 45.455 0.00 0.00 0.00 3.08
91 92 8.721019 ATATAACTAGCGAGAGACATACTACC 57.279 38.462 0.00 0.00 0.00 3.18
148 150 8.556194 TGCGTAAAATATGATGGTTATTGAGTC 58.444 33.333 0.00 0.00 0.00 3.36
184 186 6.269769 ACATAAAAAGCAGAAGGGAAAATCCA 59.730 34.615 0.00 0.00 38.64 3.41
186 188 8.607441 AAACATAAAAAGCAGAAGGGAAAATC 57.393 30.769 0.00 0.00 0.00 2.17
187 189 8.978874 AAAACATAAAAAGCAGAAGGGAAAAT 57.021 26.923 0.00 0.00 0.00 1.82
188 190 8.800370 AAAAACATAAAAAGCAGAAGGGAAAA 57.200 26.923 0.00 0.00 0.00 2.29
194 196 7.306574 GGAACGGAAAAACATAAAAAGCAGAAG 60.307 37.037 0.00 0.00 0.00 2.85
195 197 6.477360 GGAACGGAAAAACATAAAAAGCAGAA 59.523 34.615 0.00 0.00 0.00 3.02
196 198 5.980715 GGAACGGAAAAACATAAAAAGCAGA 59.019 36.000 0.00 0.00 0.00 4.26
197 199 5.983118 AGGAACGGAAAAACATAAAAAGCAG 59.017 36.000 0.00 0.00 0.00 4.24
198 200 5.908341 AGGAACGGAAAAACATAAAAAGCA 58.092 33.333 0.00 0.00 0.00 3.91
199 201 6.477360 TCAAGGAACGGAAAAACATAAAAAGC 59.523 34.615 0.00 0.00 0.00 3.51
200 202 7.995463 TCAAGGAACGGAAAAACATAAAAAG 57.005 32.000 0.00 0.00 0.00 2.27
201 203 7.042389 GCATCAAGGAACGGAAAAACATAAAAA 60.042 33.333 0.00 0.00 0.00 1.94
202 204 6.422400 GCATCAAGGAACGGAAAAACATAAAA 59.578 34.615 0.00 0.00 0.00 1.52
206 208 3.320541 TGCATCAAGGAACGGAAAAACAT 59.679 39.130 0.00 0.00 0.00 2.71
214 216 3.244976 GAAAATGTGCATCAAGGAACGG 58.755 45.455 0.00 0.00 0.00 4.44
224 226 8.419922 AAAATAAAAATGGGGAAAATGTGCAT 57.580 26.923 0.00 0.00 0.00 3.96
234 236 7.016366 ACCCGTAAAAGAAAATAAAAATGGGGA 59.984 33.333 0.00 0.00 34.69 4.81
235 237 7.162761 ACCCGTAAAAGAAAATAAAAATGGGG 58.837 34.615 0.00 0.00 34.69 4.96
256 258 6.472163 GTGTGCAAAAATATATTGAAGACCCG 59.528 38.462 0.00 0.00 0.00 5.28
261 263 5.552472 GCGCGTGTGCAAAAATATATTGAAG 60.552 40.000 8.43 0.00 42.97 3.02
276 314 2.500369 CTTCACATGCGCGTGTGC 60.500 61.111 43.52 2.90 46.97 4.57
306 344 1.859302 AAAACCTGCACCAAGGAACA 58.141 45.000 0.00 0.00 40.02 3.18
307 345 2.287368 CGTAAAACCTGCACCAAGGAAC 60.287 50.000 0.00 0.00 40.02 3.62
310 348 1.314730 ACGTAAAACCTGCACCAAGG 58.685 50.000 0.00 0.00 43.57 3.61
311 349 2.356382 TCAACGTAAAACCTGCACCAAG 59.644 45.455 0.00 0.00 0.00 3.61
312 350 2.097791 GTCAACGTAAAACCTGCACCAA 59.902 45.455 0.00 0.00 0.00 3.67
314 352 1.944709 AGTCAACGTAAAACCTGCACC 59.055 47.619 0.00 0.00 0.00 5.01
315 353 3.685836 AAGTCAACGTAAAACCTGCAC 57.314 42.857 0.00 0.00 0.00 4.57
316 354 5.761234 AGATAAAGTCAACGTAAAACCTGCA 59.239 36.000 0.00 0.00 0.00 4.41
317 355 6.237313 AGATAAAGTCAACGTAAAACCTGC 57.763 37.500 0.00 0.00 0.00 4.85
318 356 7.295930 GGAAGATAAAGTCAACGTAAAACCTG 58.704 38.462 0.00 0.00 0.00 4.00
319 357 6.429078 GGGAAGATAAAGTCAACGTAAAACCT 59.571 38.462 0.00 0.00 0.00 3.50
320 358 6.205270 TGGGAAGATAAAGTCAACGTAAAACC 59.795 38.462 0.00 0.00 0.00 3.27
321 359 7.193377 TGGGAAGATAAAGTCAACGTAAAAC 57.807 36.000 0.00 0.00 0.00 2.43
323 361 7.989416 AATGGGAAGATAAAGTCAACGTAAA 57.011 32.000 0.00 0.00 0.00 2.01
326 364 5.414765 GGAAATGGGAAGATAAAGTCAACGT 59.585 40.000 0.00 0.00 0.00 3.99
327 365 5.648092 AGGAAATGGGAAGATAAAGTCAACG 59.352 40.000 0.00 0.00 0.00 4.10
328 366 7.468141 AAGGAAATGGGAAGATAAAGTCAAC 57.532 36.000 0.00 0.00 0.00 3.18
329 367 8.491045 AAAAGGAAATGGGAAGATAAAGTCAA 57.509 30.769 0.00 0.00 0.00 3.18
330 368 8.367156 CAAAAAGGAAATGGGAAGATAAAGTCA 58.633 33.333 0.00 0.00 0.00 3.41
331 369 8.367911 ACAAAAAGGAAATGGGAAGATAAAGTC 58.632 33.333 0.00 0.00 0.00 3.01
332 370 8.262601 ACAAAAAGGAAATGGGAAGATAAAGT 57.737 30.769 0.00 0.00 0.00 2.66
333 371 9.559732 AAACAAAAAGGAAATGGGAAGATAAAG 57.440 29.630 0.00 0.00 0.00 1.85
334 372 9.913310 AAAACAAAAAGGAAATGGGAAGATAAA 57.087 25.926 0.00 0.00 0.00 1.40
335 373 9.554395 GAAAACAAAAAGGAAATGGGAAGATAA 57.446 29.630 0.00 0.00 0.00 1.75
336 374 8.709308 TGAAAACAAAAAGGAAATGGGAAGATA 58.291 29.630 0.00 0.00 0.00 1.98
337 375 7.498900 GTGAAAACAAAAAGGAAATGGGAAGAT 59.501 33.333 0.00 0.00 0.00 2.40
338 376 6.821160 GTGAAAACAAAAAGGAAATGGGAAGA 59.179 34.615 0.00 0.00 0.00 2.87
339 377 6.823182 AGTGAAAACAAAAAGGAAATGGGAAG 59.177 34.615 0.00 0.00 0.00 3.46
340 378 6.716284 AGTGAAAACAAAAAGGAAATGGGAA 58.284 32.000 0.00 0.00 0.00 3.97
341 379 6.306643 AGTGAAAACAAAAAGGAAATGGGA 57.693 33.333 0.00 0.00 0.00 4.37
342 380 7.389803 AAAGTGAAAACAAAAAGGAAATGGG 57.610 32.000 0.00 0.00 0.00 4.00
343 381 8.296000 ACAAAAGTGAAAACAAAAAGGAAATGG 58.704 29.630 0.00 0.00 0.00 3.16
344 382 9.676195 AACAAAAGTGAAAACAAAAAGGAAATG 57.324 25.926 0.00 0.00 0.00 2.32
345 383 9.891828 GAACAAAAGTGAAAACAAAAAGGAAAT 57.108 25.926 0.00 0.00 0.00 2.17
346 384 9.114952 AGAACAAAAGTGAAAACAAAAAGGAAA 57.885 25.926 0.00 0.00 0.00 3.13
347 385 8.669946 AGAACAAAAGTGAAAACAAAAAGGAA 57.330 26.923 0.00 0.00 0.00 3.36
348 386 8.669946 AAGAACAAAAGTGAAAACAAAAAGGA 57.330 26.923 0.00 0.00 0.00 3.36
349 387 9.729023 AAAAGAACAAAAGTGAAAACAAAAAGG 57.271 25.926 0.00 0.00 0.00 3.11
378 416 1.536766 CAGAGAAATGAAACTGGCGCA 59.463 47.619 10.83 0.00 0.00 6.09
379 417 1.806542 TCAGAGAAATGAAACTGGCGC 59.193 47.619 0.00 0.00 0.00 6.53
403 441 1.679944 GCATGCCTGTATGTGAGGTGT 60.680 52.381 6.36 0.00 32.60 4.16
404 442 1.019673 GCATGCCTGTATGTGAGGTG 58.980 55.000 6.36 0.00 32.60 4.00
442 519 1.539712 GGACACGACGTCTTCCCTTTT 60.540 52.381 14.70 0.00 44.70 2.27
451 528 1.063951 CACGCTAAGGACACGACGTC 61.064 60.000 5.18 5.18 44.57 4.34
623 703 6.882610 TCACAATAGTTTGACTTGAAGCAT 57.117 33.333 0.00 0.00 36.64 3.79
625 705 7.138692 AGATCACAATAGTTTGACTTGAAGC 57.861 36.000 0.00 0.00 36.64 3.86
778 864 6.995511 TTCGGGATAGAAAACGAATCAAAT 57.004 33.333 0.00 0.00 40.00 2.32
829 915 7.115378 GGTGACAACTAGCTTTGAAATGAAATG 59.885 37.037 5.15 0.00 0.00 2.32
965 1483 1.471684 CTCAAAATGCCTCACCTGCTC 59.528 52.381 0.00 0.00 0.00 4.26
982 1500 4.020617 CCCCACGCCTTGCTCTCA 62.021 66.667 0.00 0.00 0.00 3.27
1135 1664 4.025401 GCGGCGGTGGTTGAACTG 62.025 66.667 9.78 0.00 0.00 3.16
1266 1816 3.011369 TGGTCATGGTAGAGTAGGACAGT 59.989 47.826 0.00 0.00 0.00 3.55
1490 2040 1.509923 CCACGTTCGACTAGACCCC 59.490 63.158 0.00 0.00 0.00 4.95
1503 2053 1.985116 GAGAGGGAAGAGGCCACGT 60.985 63.158 5.01 0.00 0.00 4.49
1540 2128 6.729187 ACATGTTCTTGCTAGTTGAAGAAAC 58.271 36.000 12.49 9.19 39.34 2.78
1541 2129 6.942532 ACATGTTCTTGCTAGTTGAAGAAA 57.057 33.333 12.49 6.75 39.34 2.52
1542 2130 6.318648 ACAACATGTTCTTGCTAGTTGAAGAA 59.681 34.615 8.48 8.71 38.80 2.52
1543 2131 5.822519 ACAACATGTTCTTGCTAGTTGAAGA 59.177 36.000 8.48 0.00 38.80 2.87
1544 2132 5.911280 CACAACATGTTCTTGCTAGTTGAAG 59.089 40.000 8.48 0.00 38.80 3.02
1545 2133 5.356751 ACACAACATGTTCTTGCTAGTTGAA 59.643 36.000 8.48 0.00 38.98 2.69
1546 2134 4.881273 ACACAACATGTTCTTGCTAGTTGA 59.119 37.500 8.48 0.00 38.98 3.18
1547 2135 4.971830 CACACAACATGTTCTTGCTAGTTG 59.028 41.667 8.48 0.00 40.64 3.16
1548 2136 4.036734 CCACACAACATGTTCTTGCTAGTT 59.963 41.667 8.48 0.00 40.64 2.24
1549 2137 3.565482 CCACACAACATGTTCTTGCTAGT 59.435 43.478 8.48 0.00 40.64 2.57
1550 2138 3.565482 ACCACACAACATGTTCTTGCTAG 59.435 43.478 8.48 0.00 40.64 3.42
1551 2139 3.550820 ACCACACAACATGTTCTTGCTA 58.449 40.909 8.48 0.00 40.64 3.49
1552 2140 2.358898 GACCACACAACATGTTCTTGCT 59.641 45.455 8.48 0.00 40.64 3.91
1553 2141 2.358898 AGACCACACAACATGTTCTTGC 59.641 45.455 8.48 0.00 40.64 4.01
1554 2142 3.879295 AGAGACCACACAACATGTTCTTG 59.121 43.478 8.48 11.34 40.64 3.02
1555 2143 4.130118 GAGAGACCACACAACATGTTCTT 58.870 43.478 8.48 0.00 40.64 2.52
1556 2144 3.389329 AGAGAGACCACACAACATGTTCT 59.611 43.478 8.48 0.22 40.64 3.01
1557 2145 3.733337 AGAGAGACCACACAACATGTTC 58.267 45.455 8.48 0.00 40.64 3.18
1558 2146 3.495100 GGAGAGAGACCACACAACATGTT 60.495 47.826 4.92 4.92 40.64 2.71
1559 2147 2.037772 GGAGAGAGACCACACAACATGT 59.962 50.000 0.00 0.00 44.81 3.21
1560 2148 2.301296 AGGAGAGAGACCACACAACATG 59.699 50.000 0.00 0.00 0.00 3.21
1561 2149 2.301296 CAGGAGAGAGACCACACAACAT 59.699 50.000 0.00 0.00 0.00 2.71
1562 2150 1.688735 CAGGAGAGAGACCACACAACA 59.311 52.381 0.00 0.00 0.00 3.33
1563 2151 1.001406 CCAGGAGAGAGACCACACAAC 59.999 57.143 0.00 0.00 0.00 3.32
1564 2152 1.342074 CCAGGAGAGAGACCACACAA 58.658 55.000 0.00 0.00 0.00 3.33
1565 2153 0.542938 CCCAGGAGAGAGACCACACA 60.543 60.000 0.00 0.00 0.00 3.72
1566 2154 0.543174 ACCCAGGAGAGAGACCACAC 60.543 60.000 0.00 0.00 0.00 3.82
1567 2155 0.191064 AACCCAGGAGAGAGACCACA 59.809 55.000 0.00 0.00 0.00 4.17
1568 2156 2.233305 TAACCCAGGAGAGAGACCAC 57.767 55.000 0.00 0.00 0.00 4.16
1569 2157 2.904434 GTTTAACCCAGGAGAGAGACCA 59.096 50.000 0.00 0.00 0.00 4.02
1570 2158 2.904434 TGTTTAACCCAGGAGAGAGACC 59.096 50.000 0.00 0.00 0.00 3.85
1571 2159 4.020128 ACATGTTTAACCCAGGAGAGAGAC 60.020 45.833 0.00 0.00 0.00 3.36
1572 2160 4.168101 ACATGTTTAACCCAGGAGAGAGA 58.832 43.478 0.00 0.00 0.00 3.10
1620 2208 4.214986 TCTGATGCAATAAACCGAGGAA 57.785 40.909 0.00 0.00 0.00 3.36
1625 2213 7.072177 TCTAAAGTTCTGATGCAATAAACCG 57.928 36.000 0.00 0.00 0.00 4.44
1688 2391 3.549625 GCCTCTTCTGCACAAACAAGAAG 60.550 47.826 5.49 5.49 37.80 2.85
1697 2400 2.357881 CTGCGCCTCTTCTGCACA 60.358 61.111 4.18 0.00 34.42 4.57
1711 2414 3.129287 CCAAGTATCCATTGGTCAACTGC 59.871 47.826 1.86 0.00 41.94 4.40
1736 2439 3.650139 ACGGTATCCAGTTTATGATCGC 58.350 45.455 0.00 0.00 0.00 4.58
2173 2876 1.435577 GCCGTACGTTCCACAAGAAT 58.564 50.000 15.21 0.00 36.69 2.40
2617 3322 2.215191 CAGCAGCACCTCCTGGATA 58.785 57.895 0.00 0.00 37.04 2.59
2673 3385 1.261885 CGTTACGATGCACACAACCAA 59.738 47.619 0.00 0.00 0.00 3.67
2798 3547 6.952935 ACGACTCAAACTATGACTGAAATC 57.047 37.500 0.00 0.00 33.47 2.17
2847 3633 8.800370 AAAAAGAAGCTTTTTCCACCATTAAA 57.200 26.923 11.03 0.00 30.33 1.52
3029 3823 8.868522 TTCAAGGAGAAACAGTAATCATGAAT 57.131 30.769 0.00 0.00 32.05 2.57
3060 3868 5.370880 ACCTTCCACTCAAGGAATATAGCAT 59.629 40.000 6.24 0.00 46.05 3.79
3069 3877 1.056660 GTCCACCTTCCACTCAAGGA 58.943 55.000 6.24 0.00 45.41 3.36
3137 3945 7.581213 ATTTCAAACATCAAGTACTCACCAA 57.419 32.000 0.00 0.00 0.00 3.67
3205 4013 8.593492 TGTTGTTCCTCATCGATCTATTAATG 57.407 34.615 0.00 0.00 0.00 1.90
3407 4221 6.795098 TTGCTACGAAGTTTATGTTGACAT 57.205 33.333 1.84 1.84 37.78 3.06
3616 4430 2.350484 GGAAACTGAAGGCGCTAACAAC 60.350 50.000 7.64 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.