Multiple sequence alignment - TraesCS2B01G618500

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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 TraesCS2B01G618500 chr2B 100.000 5159 0 0 1 5159 794505081 794499923 0.000000e+00 9527.0
1 TraesCS2B01G618500 chr2B 88.478 460 44 4 1916 2375 784750685 784751135 9.770000e-152 547.0
2 TraesCS2B01G618500 chr2B 79.032 496 98 3 2741 3235 583680731 583680241 8.280000e-88 335.0
3 TraesCS2B01G618500 chr2D 90.854 2471 146 33 2718 5159 636601425 636599006 0.000000e+00 3238.0
4 TraesCS2B01G618500 chr2D 93.586 686 38 4 1917 2599 636602160 636601478 0.000000e+00 1018.0
5 TraesCS2B01G618500 chr2D 89.069 677 32 27 2970 3613 637092093 637092760 0.000000e+00 802.0
6 TraesCS2B01G618500 chr2D 92.037 540 24 4 1331 1869 636602678 636602157 0.000000e+00 741.0
7 TraesCS2B01G618500 chr2D 91.429 455 37 2 4693 5147 637092831 637093283 1.580000e-174 623.0
8 TraesCS2B01G618500 chr2D 89.189 444 40 6 2348 2785 637091592 637092033 9.770000e-152 547.0
9 TraesCS2B01G618500 chr2D 81.453 771 38 43 600 1337 636603405 636602707 7.600000e-148 534.0
10 TraesCS2B01G618500 chr2D 84.568 486 32 21 1400 1869 637090761 637091219 4.740000e-120 442.0
11 TraesCS2B01G618500 chr2D 82.609 506 62 15 3712 4213 636584884 636584401 1.720000e-114 424.0
12 TraesCS2B01G618500 chr2D 89.968 309 28 3 1946 2253 637091271 637091577 3.740000e-106 396.0
13 TraesCS2B01G618500 chr2D 78.486 502 101 4 2741 3241 497369249 497368754 6.440000e-84 322.0
14 TraesCS2B01G618500 chr2D 86.056 251 22 7 219 467 636603669 636603430 1.840000e-64 257.0
15 TraesCS2B01G618500 chr2A 93.286 1683 81 7 2718 4389 763046366 763048027 0.000000e+00 2453.0
16 TraesCS2B01G618500 chr2A 89.901 1317 47 27 573 1867 763044370 763045622 0.000000e+00 1616.0
17 TraesCS2B01G618500 chr2A 92.453 689 39 10 1918 2599 763045624 763046306 0.000000e+00 972.0
18 TraesCS2B01G618500 chr2A 86.618 553 54 14 4556 5097 763030605 763030062 1.240000e-165 593.0
19 TraesCS2B01G618500 chr2A 79.477 497 94 5 2741 3235 641959410 641958920 3.820000e-91 346.0
20 TraesCS2B01G618500 chr2A 88.281 256 24 4 1 253 763043293 763043545 8.400000e-78 302.0
21 TraesCS2B01G618500 chr2A 76.457 446 74 21 2163 2588 641960435 641960001 4.050000e-51 213.0
22 TraesCS2B01G618500 chr2A 89.881 168 9 4 372 531 763044119 763044286 5.230000e-50 209.0
23 TraesCS2B01G618500 chr2A 95.000 40 1 1 1864 1903 173360087 173360049 1.550000e-05 62.1
24 TraesCS2B01G618500 chr4D 84.883 1151 110 35 2880 3997 221309630 221310749 0.000000e+00 1103.0
25 TraesCS2B01G618500 chr4D 89.359 686 64 4 1916 2600 24259871 24259194 0.000000e+00 854.0
26 TraesCS2B01G618500 chr4D 88.395 517 50 3 1916 2432 221309118 221309624 9.490000e-172 614.0
27 TraesCS2B01G618500 chr4D 95.604 91 3 1 1566 1655 24260127 24260037 1.500000e-30 145.0
28 TraesCS2B01G618500 chr4D 94.872 39 1 1 1865 1903 466748231 466748268 5.580000e-05 60.2
29 TraesCS2B01G618500 chr3B 84.521 898 63 38 980 1867 65705350 65704519 0.000000e+00 819.0
30 TraesCS2B01G618500 chr3B 91.743 218 14 2 3709 3923 94475440 94475656 3.020000e-77 300.0
31 TraesCS2B01G618500 chr3B 93.976 83 5 0 3916 3998 94480039 94480121 5.420000e-25 126.0
32 TraesCS2B01G618500 chr3B 91.071 56 2 1 1868 1920 672525949 672526004 7.170000e-09 73.1
33 TraesCS2B01G618500 chr1B 87.518 697 62 15 1916 2599 65776292 65775608 0.000000e+00 782.0
34 TraesCS2B01G618500 chr1B 92.834 307 19 1 3694 3997 532158073 532157767 4.740000e-120 442.0
35 TraesCS2B01G618500 chr1B 100.000 30 0 0 3651 3680 532158100 532158071 7.220000e-04 56.5
36 TraesCS2B01G618500 chr6B 90.841 535 41 3 1916 2450 95452970 95453496 0.000000e+00 710.0
37 TraesCS2B01G618500 chr6B 92.763 304 21 1 3694 3997 39817967 39818269 6.130000e-119 438.0
38 TraesCS2B01G618500 chr6B 83.893 298 21 8 1566 1863 95452696 95452966 5.120000e-65 259.0
39 TraesCS2B01G618500 chr6B 97.917 48 0 1 1608 1654 52097392 52097345 1.190000e-11 82.4
40 TraesCS2B01G618500 chr6B 94.340 53 3 0 2398 2450 134282107 134282159 1.190000e-11 82.4
41 TraesCS2B01G618500 chr6B 95.000 40 2 0 3508 3547 42332251 42332212 4.310000e-06 63.9
42 TraesCS2B01G618500 chr6B 100.000 34 0 0 1864 1897 551189592 551189559 4.310000e-06 63.9
43 TraesCS2B01G618500 chr6B 96.970 33 1 0 3648 3680 39817937 39817969 7.220000e-04 56.5
44 TraesCS2B01G618500 chr6D 88.417 259 21 5 1916 2174 429432128 429431879 2.330000e-78 303.0
45 TraesCS2B01G618500 chr6D 93.421 76 4 1 1581 1655 429432369 429432294 1.520000e-20 111.0
46 TraesCS2B01G618500 chr7B 84.839 310 29 14 1291 1593 141621121 141621419 3.910000e-76 296.0
47 TraesCS2B01G618500 chr7B 95.062 81 1 2 980 1060 141621043 141621120 1.950000e-24 124.0
48 TraesCS2B01G618500 chr7D 81.651 218 31 5 2119 2332 105792875 105792663 6.870000e-39 172.0
49 TraesCS2B01G618500 chr7D 90.000 60 5 1 1868 1927 34739694 34739636 5.540000e-10 76.8
50 TraesCS2B01G618500 chr1D 88.462 78 5 4 1865 1941 10816051 10816125 1.980000e-14 91.6
51 TraesCS2B01G618500 chrUn 97.917 48 0 1 1608 1654 274236279 274236326 1.190000e-11 82.4
52 TraesCS2B01G618500 chr5B 91.667 60 1 3 1867 1924 116416069 116416126 4.280000e-11 80.5
53 TraesCS2B01G618500 chr5B 89.831 59 6 0 1001 1059 534598477 534598535 5.540000e-10 76.8
54 TraesCS2B01G618500 chr5B 89.831 59 6 0 1001 1059 534637915 534637973 5.540000e-10 76.8
55 TraesCS2B01G618500 chr7A 86.765 68 9 0 3580 3647 609371865 609371932 5.540000e-10 76.8
56 TraesCS2B01G618500 chr4A 100.000 34 0 0 1867 1900 330311469 330311436 4.310000e-06 63.9
57 TraesCS2B01G618500 chr6A 100.000 33 0 0 1865 1897 227965594 227965562 1.550000e-05 62.1


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G618500 chr2B 794499923 794505081 5158 True 9527.0 9527 100.0000 1 5159 1 chr2B.!!$R2 5158
1 TraesCS2B01G618500 chr2D 636599006 636603669 4663 True 1157.6 3238 88.7972 219 5159 5 chr2D.!!$R3 4940
2 TraesCS2B01G618500 chr2D 637090761 637093283 2522 False 562.0 802 88.8446 1400 5147 5 chr2D.!!$F1 3747
3 TraesCS2B01G618500 chr2A 763043293 763048027 4734 False 1110.4 2453 90.7604 1 4389 5 chr2A.!!$F1 4388
4 TraesCS2B01G618500 chr2A 763030062 763030605 543 True 593.0 593 86.6180 4556 5097 1 chr2A.!!$R2 541
5 TraesCS2B01G618500 chr2A 641958920 641960435 1515 True 279.5 346 77.9670 2163 3235 2 chr2A.!!$R3 1072
6 TraesCS2B01G618500 chr4D 221309118 221310749 1631 False 858.5 1103 86.6390 1916 3997 2 chr4D.!!$F2 2081
7 TraesCS2B01G618500 chr4D 24259194 24260127 933 True 499.5 854 92.4815 1566 2600 2 chr4D.!!$R1 1034
8 TraesCS2B01G618500 chr3B 65704519 65705350 831 True 819.0 819 84.5210 980 1867 1 chr3B.!!$R1 887
9 TraesCS2B01G618500 chr1B 65775608 65776292 684 True 782.0 782 87.5180 1916 2599 1 chr1B.!!$R1 683
10 TraesCS2B01G618500 chr6B 95452696 95453496 800 False 484.5 710 87.3670 1566 2450 2 chr6B.!!$F3 884

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
719 1240 0.859760 CCCTCCCATCTCTCTCCTCT 59.140 60.0 0.0 0.0 0.00 3.69 F
1543 2162 1.012841 GCTTCTAGGACAGCACATGC 58.987 55.0 0.0 0.0 42.49 4.06 F
2565 3257 0.108281 GGCCGGTCAGTTTCCTCTAC 60.108 60.0 0.0 0.0 0.00 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2143 2809 0.824759 ACTGGTACCCGAGAATCTGC 59.175 55.0 10.07 0.00 0.0 4.26 R
2864 3995 0.036010 CAAGCTCTTCCACCGGTGAT 60.036 55.0 36.07 3.78 0.0 3.06 R
4242 5451 0.229500 CAAAAGAAAACAAGCGCGGC 59.771 50.0 8.83 0.00 0.0 6.53 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
24 25 1.048601 ATCCGTCGGATGCCTATTGT 58.951 50.000 25.86 0.00 41.43 2.71
36 37 5.392380 GGATGCCTATTGTGTTTGTTCTCTG 60.392 44.000 0.00 0.00 0.00 3.35
41 42 4.536364 ATTGTGTTTGTTCTCTGTGACG 57.464 40.909 0.00 0.00 0.00 4.35
47 48 4.634004 TGTTTGTTCTCTGTGACGTTTGAT 59.366 37.500 0.00 0.00 0.00 2.57
48 49 4.794248 TTGTTCTCTGTGACGTTTGATG 57.206 40.909 0.00 0.00 0.00 3.07
50 51 3.802139 TGTTCTCTGTGACGTTTGATGTC 59.198 43.478 0.00 0.00 34.78 3.06
66 67 9.605955 CGTTTGATGTCACTTTGTATTTATTGA 57.394 29.630 0.00 0.00 0.00 2.57
105 106 4.310357 ACATTTTTAAACTTTCCCGCGT 57.690 36.364 4.92 0.00 0.00 6.01
195 196 8.696043 ATGCAATGTCTTATATTCTTTAGCCA 57.304 30.769 0.00 0.00 0.00 4.75
217 221 8.860088 AGCCAGTTCTAAAATTTATGTGAAGTT 58.140 29.630 0.00 0.00 0.00 2.66
335 439 6.977213 ACAGTAGTTGTTTTGTGTTGACTTT 58.023 32.000 0.00 0.00 36.31 2.66
336 440 6.861055 ACAGTAGTTGTTTTGTGTTGACTTTG 59.139 34.615 0.00 0.00 36.31 2.77
337 441 7.081349 CAGTAGTTGTTTTGTGTTGACTTTGA 58.919 34.615 0.00 0.00 0.00 2.69
338 442 7.593273 CAGTAGTTGTTTTGTGTTGACTTTGAA 59.407 33.333 0.00 0.00 0.00 2.69
339 443 8.303876 AGTAGTTGTTTTGTGTTGACTTTGAAT 58.696 29.630 0.00 0.00 0.00 2.57
340 444 7.350110 AGTTGTTTTGTGTTGACTTTGAATG 57.650 32.000 0.00 0.00 0.00 2.67
341 445 6.928492 AGTTGTTTTGTGTTGACTTTGAATGT 59.072 30.769 0.00 0.00 0.00 2.71
342 446 8.085296 AGTTGTTTTGTGTTGACTTTGAATGTA 58.915 29.630 0.00 0.00 0.00 2.29
343 447 8.704234 GTTGTTTTGTGTTGACTTTGAATGTAA 58.296 29.630 0.00 0.00 0.00 2.41
344 448 8.818141 TGTTTTGTGTTGACTTTGAATGTAAA 57.182 26.923 0.00 0.00 0.00 2.01
345 449 9.261180 TGTTTTGTGTTGACTTTGAATGTAAAA 57.739 25.926 0.00 0.00 0.00 1.52
348 452 9.645059 TTTGTGTTGACTTTGAATGTAAAATGA 57.355 25.926 0.00 0.00 0.00 2.57
349 453 8.627487 TGTGTTGACTTTGAATGTAAAATGAC 57.373 30.769 0.00 0.00 0.00 3.06
366 470 2.840511 TGACTACATTGCTAAGGGGGA 58.159 47.619 0.00 0.00 0.00 4.81
369 473 4.043561 TGACTACATTGCTAAGGGGGAAAA 59.956 41.667 0.00 0.00 0.00 2.29
370 474 5.201243 GACTACATTGCTAAGGGGGAAAAT 58.799 41.667 0.00 0.00 0.00 1.82
371 475 4.956075 ACTACATTGCTAAGGGGGAAAATG 59.044 41.667 0.00 0.00 0.00 2.32
372 476 2.501316 ACATTGCTAAGGGGGAAAATGC 59.499 45.455 0.00 0.00 0.00 3.56
374 478 1.851304 TGCTAAGGGGGAAAATGCAG 58.149 50.000 0.00 0.00 0.00 4.41
375 479 1.357420 TGCTAAGGGGGAAAATGCAGA 59.643 47.619 0.00 0.00 0.00 4.26
376 480 2.027385 GCTAAGGGGGAAAATGCAGAG 58.973 52.381 0.00 0.00 0.00 3.35
377 481 2.621668 GCTAAGGGGGAAAATGCAGAGT 60.622 50.000 0.00 0.00 0.00 3.24
491 957 8.128322 AGACATTTCACTATCAGTCTACTTGT 57.872 34.615 0.00 0.00 34.83 3.16
514 982 3.525268 AACAAAAACAACAGAGGCTGG 57.475 42.857 0.00 0.00 35.51 4.85
531 999 5.329399 AGGCTGGAAGATACTCCATACTAG 58.671 45.833 0.00 0.00 44.59 2.57
533 1001 6.045695 AGGCTGGAAGATACTCCATACTAGTA 59.954 42.308 4.77 4.77 44.59 1.82
536 1004 8.102047 GCTGGAAGATACTCCATACTAGTACTA 58.898 40.741 4.31 1.89 44.59 1.82
537 1005 9.439500 CTGGAAGATACTCCATACTAGTACTAC 57.561 40.741 4.31 0.00 44.59 2.73
538 1006 8.942033 TGGAAGATACTCCATACTAGTACTACA 58.058 37.037 4.31 0.00 40.71 2.74
555 1053 8.819643 AGTACTACAGTAGAAAAGAAGCTTTG 57.180 34.615 14.94 0.00 0.00 2.77
568 1066 0.918310 AGCTTTGGGCCTCTCCATCT 60.918 55.000 4.53 0.00 43.05 2.90
570 1068 1.760192 CTTTGGGCCTCTCCATCTTG 58.240 55.000 4.53 0.00 36.58 3.02
575 1073 2.647299 TGGGCCTCTCCATCTTGTTTAA 59.353 45.455 4.53 0.00 36.21 1.52
576 1074 3.269381 TGGGCCTCTCCATCTTGTTTAAT 59.731 43.478 4.53 0.00 36.21 1.40
579 1077 5.891551 GGGCCTCTCCATCTTGTTTAATTAA 59.108 40.000 0.84 0.00 36.21 1.40
583 1081 9.875691 GCCTCTCCATCTTGTTTAATTAATTTT 57.124 29.630 5.91 0.00 0.00 1.82
586 1084 9.651913 TCTCCATCTTGTTTAATTAATTTTGCC 57.348 29.630 5.91 0.00 0.00 4.52
587 1085 8.785329 TCCATCTTGTTTAATTAATTTTGCCC 57.215 30.769 5.91 0.00 0.00 5.36
588 1086 8.378565 TCCATCTTGTTTAATTAATTTTGCCCA 58.621 29.630 5.91 0.00 0.00 5.36
589 1087 9.007901 CCATCTTGTTTAATTAATTTTGCCCAA 57.992 29.630 5.91 2.94 0.00 4.12
719 1240 0.859760 CCCTCCCATCTCTCTCCTCT 59.140 60.000 0.00 0.00 0.00 3.69
756 1277 2.644798 CCCTCTCCCTCTCCAAAAGAAA 59.355 50.000 0.00 0.00 32.23 2.52
757 1278 3.560239 CCCTCTCCCTCTCCAAAAGAAAC 60.560 52.174 0.00 0.00 32.23 2.78
879 1404 7.418368 GGTCTCAGAGATTCATTCATACCAAGA 60.418 40.741 2.64 0.00 0.00 3.02
882 1407 9.170734 CTCAGAGATTCATTCATACCAAGAAAA 57.829 33.333 0.00 0.00 0.00 2.29
962 1489 4.460731 CCAATCTTTCTCTTTTCCCCTGTC 59.539 45.833 0.00 0.00 0.00 3.51
1063 1609 2.042979 AGTGAGCTCCTCCTCTTCTTCT 59.957 50.000 12.15 0.00 33.02 2.85
1065 1611 3.096092 TGAGCTCCTCCTCTTCTTCTTC 58.904 50.000 12.15 0.00 33.02 2.87
1258 1824 5.526846 CAGTATGAGATGCCTTTCTTTCTCC 59.473 44.000 0.00 0.00 39.69 3.71
1307 1873 6.763355 AGTATCTCATTCAGACTTGTGTGTT 58.237 36.000 0.00 0.00 32.26 3.32
1433 2034 7.712639 GCAGTTATTCAGATATTCAGAGTTCCA 59.287 37.037 0.00 0.00 0.00 3.53
1503 2122 3.177920 GCTCGCTGCTCTGTGTCG 61.178 66.667 0.00 0.00 38.95 4.35
1528 2147 5.582269 TCTGCACAGATTAGTTACATGCTTC 59.418 40.000 0.00 0.00 31.41 3.86
1543 2162 1.012841 GCTTCTAGGACAGCACATGC 58.987 55.000 0.00 0.00 42.49 4.06
1568 2187 7.361713 GCAAATTTACATCTGGCTTGTACTGTA 60.362 37.037 0.00 0.00 29.60 2.74
1673 2292 9.717942 AGATTCAGAGTTCAATATATACTTGCC 57.282 33.333 0.00 0.00 0.00 4.52
1754 2373 4.771590 TCTGCACAGATTGGTTTCATTC 57.228 40.909 0.00 0.00 31.41 2.67
1760 2379 5.618640 GCACAGATTGGTTTCATTCTCAGAC 60.619 44.000 0.00 0.00 32.98 3.51
1776 2395 6.225981 TCTCAGACTATCTGCATTTGCTAA 57.774 37.500 3.94 0.00 43.95 3.09
1863 2482 4.392921 ACCTGGAATATGAAGTCTGACG 57.607 45.455 0.00 0.00 0.00 4.35
1865 2484 4.651503 ACCTGGAATATGAAGTCTGACGAT 59.348 41.667 0.00 0.00 0.00 3.73
1866 2485 4.987285 CCTGGAATATGAAGTCTGACGATG 59.013 45.833 1.52 0.00 0.00 3.84
1867 2486 5.452496 CCTGGAATATGAAGTCTGACGATGT 60.452 44.000 1.52 0.00 0.00 3.06
1868 2487 6.239036 CCTGGAATATGAAGTCTGACGATGTA 60.239 42.308 1.52 0.00 0.00 2.29
1869 2488 6.504398 TGGAATATGAAGTCTGACGATGTAC 58.496 40.000 1.52 0.00 0.00 2.90
1870 2489 6.321435 TGGAATATGAAGTCTGACGATGTACT 59.679 38.462 1.52 0.00 0.00 2.73
1871 2490 6.858993 GGAATATGAAGTCTGACGATGTACTC 59.141 42.308 1.52 0.00 0.00 2.59
1872 2491 4.640789 ATGAAGTCTGACGATGTACTCC 57.359 45.455 1.52 0.00 0.00 3.85
1873 2492 2.753452 TGAAGTCTGACGATGTACTCCC 59.247 50.000 1.52 0.00 0.00 4.30
1874 2493 2.810870 AGTCTGACGATGTACTCCCT 57.189 50.000 1.52 0.00 0.00 4.20
1875 2494 2.645802 AGTCTGACGATGTACTCCCTC 58.354 52.381 1.52 0.00 0.00 4.30
1876 2495 1.677052 GTCTGACGATGTACTCCCTCC 59.323 57.143 0.00 0.00 0.00 4.30
1877 2496 1.283905 TCTGACGATGTACTCCCTCCA 59.716 52.381 0.00 0.00 0.00 3.86
1878 2497 2.091830 TCTGACGATGTACTCCCTCCAT 60.092 50.000 0.00 0.00 0.00 3.41
1879 2498 2.695666 CTGACGATGTACTCCCTCCATT 59.304 50.000 0.00 0.00 0.00 3.16
1880 2499 2.693591 TGACGATGTACTCCCTCCATTC 59.306 50.000 0.00 0.00 0.00 2.67
1881 2500 2.036089 GACGATGTACTCCCTCCATTCC 59.964 54.545 0.00 0.00 0.00 3.01
1882 2501 2.039418 CGATGTACTCCCTCCATTCCA 58.961 52.381 0.00 0.00 0.00 3.53
1883 2502 2.434336 CGATGTACTCCCTCCATTCCAA 59.566 50.000 0.00 0.00 0.00 3.53
1884 2503 3.118408 CGATGTACTCCCTCCATTCCAAA 60.118 47.826 0.00 0.00 0.00 3.28
1885 2504 4.444876 CGATGTACTCCCTCCATTCCAAAT 60.445 45.833 0.00 0.00 0.00 2.32
1886 2505 4.946160 TGTACTCCCTCCATTCCAAATT 57.054 40.909 0.00 0.00 0.00 1.82
1887 2506 6.590656 ATGTACTCCCTCCATTCCAAATTA 57.409 37.500 0.00 0.00 0.00 1.40
1888 2507 5.751586 TGTACTCCCTCCATTCCAAATTAC 58.248 41.667 0.00 0.00 0.00 1.89
1889 2508 5.491078 TGTACTCCCTCCATTCCAAATTACT 59.509 40.000 0.00 0.00 0.00 2.24
1890 2509 5.117406 ACTCCCTCCATTCCAAATTACTC 57.883 43.478 0.00 0.00 0.00 2.59
1891 2510 4.130118 CTCCCTCCATTCCAAATTACTCG 58.870 47.826 0.00 0.00 0.00 4.18
1892 2511 3.521937 TCCCTCCATTCCAAATTACTCGT 59.478 43.478 0.00 0.00 0.00 4.18
1893 2512 3.877508 CCCTCCATTCCAAATTACTCGTC 59.122 47.826 0.00 0.00 0.00 4.20
1894 2513 3.555956 CCTCCATTCCAAATTACTCGTCG 59.444 47.826 0.00 0.00 0.00 5.12
1895 2514 4.181578 CTCCATTCCAAATTACTCGTCGT 58.818 43.478 0.00 0.00 0.00 4.34
1896 2515 3.930229 TCCATTCCAAATTACTCGTCGTG 59.070 43.478 0.00 0.00 0.00 4.35
1897 2516 3.930229 CCATTCCAAATTACTCGTCGTGA 59.070 43.478 0.56 0.00 0.00 4.35
1909 2528 4.563524 CTCGTCGTGAGTAATTTGGAAC 57.436 45.455 0.00 0.00 40.03 3.62
1910 2529 2.981805 TCGTCGTGAGTAATTTGGAACG 59.018 45.455 0.00 0.00 0.00 3.95
1911 2530 2.091588 CGTCGTGAGTAATTTGGAACGG 59.908 50.000 0.00 0.00 0.00 4.44
1912 2531 3.319755 GTCGTGAGTAATTTGGAACGGA 58.680 45.455 0.00 0.00 0.00 4.69
1913 2532 3.367025 GTCGTGAGTAATTTGGAACGGAG 59.633 47.826 0.00 0.00 0.00 4.63
1914 2533 2.671396 CGTGAGTAATTTGGAACGGAGG 59.329 50.000 0.00 0.00 0.00 4.30
2047 2700 1.630369 TGGCCAGCATCTCTTGTAGTT 59.370 47.619 0.00 0.00 0.00 2.24
2073 2729 5.068198 CACTGCCAGGCATAATTCTTGTAAT 59.932 40.000 16.64 0.00 38.13 1.89
2074 2730 6.262944 CACTGCCAGGCATAATTCTTGTAATA 59.737 38.462 16.64 0.00 38.13 0.98
2075 2731 6.833416 ACTGCCAGGCATAATTCTTGTAATAA 59.167 34.615 16.64 0.00 38.13 1.40
2097 2755 4.729552 ATCTATTATGCAAGGAAGCCCA 57.270 40.909 0.00 0.00 33.88 5.36
2130 2796 2.417379 CCCACTACCGATGAACTCTGTG 60.417 54.545 0.00 0.00 0.00 3.66
2143 2809 1.806542 ACTCTGTGCCTGCATTTTACG 59.193 47.619 0.00 0.00 0.00 3.18
2565 3257 0.108281 GGCCGGTCAGTTTCCTCTAC 60.108 60.000 0.00 0.00 0.00 2.59
2567 3259 2.097825 GCCGGTCAGTTTCCTCTACTA 58.902 52.381 1.90 0.00 0.00 1.82
2599 3291 8.505625 ACGTGTTTCTGTTAAGTCAAAACTTTA 58.494 29.630 0.00 0.00 43.28 1.85
2630 3328 5.459536 TCCTTGATGAGTATCGGATCTTG 57.540 43.478 0.00 0.00 38.61 3.02
2680 3380 5.679734 ATATAAGCATTGAACTTGAGGCG 57.320 39.130 0.00 0.00 0.00 5.52
2688 3388 0.723981 GAACTTGAGGCGTGAGATGC 59.276 55.000 0.00 0.00 0.00 3.91
2710 3410 5.163824 TGCGCTGTAAAAGAATCAGAATCAG 60.164 40.000 9.73 0.00 0.00 2.90
2779 3910 4.947388 GCTAATGGTGGTTTTCTGGTATCA 59.053 41.667 0.00 0.00 0.00 2.15
2782 3913 6.530019 AATGGTGGTTTTCTGGTATCATTC 57.470 37.500 0.00 0.00 0.00 2.67
2816 3947 1.028330 CGCAGTCACATGCTTGGGAT 61.028 55.000 7.92 0.00 44.24 3.85
2825 3956 1.475280 CATGCTTGGGATTCACTGGTG 59.525 52.381 0.00 0.00 0.00 4.17
2864 3995 0.601558 GTGTCACTCGTCCTAAGCCA 59.398 55.000 0.00 0.00 0.00 4.75
2868 3999 1.476891 TCACTCGTCCTAAGCCATCAC 59.523 52.381 0.00 0.00 0.00 3.06
2878 4009 1.488705 AAGCCATCACCGGTGGAAGA 61.489 55.000 33.40 15.67 39.12 2.87
2891 4022 3.674682 CGGTGGAAGAGCTTGTAGAAGAG 60.675 52.174 3.33 0.00 0.00 2.85
2924 4055 8.609176 TCCATATTGCACGAAGAAAAGTTATAC 58.391 33.333 0.00 0.00 0.00 1.47
2978 4109 6.547510 ACCTGCTTTATCATAATGAAACTCCC 59.452 38.462 0.00 0.00 0.00 4.30
3050 4181 3.119173 ACTCGAAATCAGCAGAGGAAGAG 60.119 47.826 0.00 0.00 35.22 2.85
3279 4411 1.588082 CATTGGTTGCTGCCCTGTC 59.412 57.895 0.00 0.00 0.00 3.51
3452 4648 1.404986 CGACCTACGAATGCCTTTGGA 60.405 52.381 0.00 0.00 45.77 3.53
3510 4706 9.029368 CCTGACTGAGTGGATATTTATCTATCA 57.971 37.037 0.00 0.66 33.28 2.15
3617 4814 1.312815 GCAAAGCTTCACAGGTCAGT 58.687 50.000 0.00 0.00 0.00 3.41
3620 4817 2.464157 AAGCTTCACAGGTCAGTAGC 57.536 50.000 0.00 0.00 0.00 3.58
3645 4842 0.604780 TTCCTCTGCTTCTGCACTGC 60.605 55.000 0.00 0.00 45.31 4.40
3646 4843 1.302271 CCTCTGCTTCTGCACTGCA 60.302 57.895 3.11 3.11 45.31 4.41
3647 4844 1.575576 CCTCTGCTTCTGCACTGCAC 61.576 60.000 0.00 0.00 45.31 4.57
3648 4845 0.603172 CTCTGCTTCTGCACTGCACT 60.603 55.000 0.00 0.00 45.31 4.40
3649 4846 0.883370 TCTGCTTCTGCACTGCACTG 60.883 55.000 0.00 0.00 45.31 3.66
3650 4847 2.254651 GCTTCTGCACTGCACTGC 59.745 61.111 10.99 10.99 39.41 4.40
3651 4848 2.549198 GCTTCTGCACTGCACTGCA 61.549 57.895 18.27 18.27 45.06 4.41
3652 4849 1.281960 CTTCTGCACTGCACTGCAC 59.718 57.895 15.89 0.00 42.36 4.57
3653 4850 1.153107 TTCTGCACTGCACTGCACT 60.153 52.632 15.89 0.00 42.36 4.40
3697 4894 5.179929 TCTGCACATCTGAAAATGTACACTG 59.820 40.000 0.00 0.00 37.78 3.66
3789 4986 5.581126 TTTGTTCTGTTTGTGAAGATGCT 57.419 34.783 0.00 0.00 0.00 3.79
3815 5012 2.834549 TGAGAGGAGGAACCATGAGAAC 59.165 50.000 0.00 0.00 42.04 3.01
3865 5068 4.406648 TCTTGTCAGTTGAGAAGAAGCA 57.593 40.909 16.55 0.00 46.93 3.91
3879 5082 3.665745 AGAAGCACATTTTTGCCGAAT 57.334 38.095 0.00 0.00 44.14 3.34
4010 5213 2.686835 GCTGCTGGAGGTCCCTCT 60.687 66.667 12.88 0.00 42.38 3.69
4417 5626 1.808411 GCTACTTGCTGTAGGTGCAA 58.192 50.000 15.56 0.00 46.52 4.08
4439 5648 1.623811 ACTATCAGACAAAGCCCGTGT 59.376 47.619 0.00 0.00 0.00 4.49
4500 5710 2.366480 CTGAGGAGATCTGGCTGCGG 62.366 65.000 0.00 0.00 0.00 5.69
4518 5728 1.666011 GAGAGGCCCGCGATTATCA 59.334 57.895 8.23 0.00 0.00 2.15
4533 5743 0.684479 TATCAGAGCAGCACCCTCGT 60.684 55.000 0.00 0.00 34.56 4.18
4573 5787 1.750930 CCATCCTCCGACTCATGGG 59.249 63.158 0.00 0.00 33.37 4.00
4574 5788 1.050988 CCATCCTCCGACTCATGGGT 61.051 60.000 0.00 0.00 33.37 4.51
4616 5831 2.568956 TCCACATGGAGAAGTTGAGGAG 59.431 50.000 0.00 0.00 39.78 3.69
4653 5868 3.365265 CGCTGCCCCAACTTCACC 61.365 66.667 0.00 0.00 0.00 4.02
4668 5883 0.179067 TCACCGGCGACAAAGAACTT 60.179 50.000 9.30 0.00 0.00 2.66
4669 5884 0.041312 CACCGGCGACAAAGAACTTG 60.041 55.000 9.30 0.00 41.19 3.16
4679 5894 5.448089 GCGACAAAGAACTTGAAACACCTAA 60.448 40.000 0.00 0.00 38.50 2.69
4811 6036 7.311360 CCTCCTACTCTCAAACCCTAGAAAAAT 60.311 40.741 0.00 0.00 0.00 1.82
4824 6049 6.822170 ACCCTAGAAAAATCGATTTGTAGTCC 59.178 38.462 23.38 6.75 35.49 3.85
4829 6054 8.335532 AGAAAAATCGATTTGTAGTCCATTCA 57.664 30.769 23.38 0.00 0.00 2.57
4922 6147 9.119418 TCAATTGTAAGAGTTTGAAGACATTCA 57.881 29.630 5.13 0.00 43.72 2.57
4967 6192 0.178975 AACACCGCTGGATTTCCCAA 60.179 50.000 1.50 0.00 46.07 4.12
4974 6199 2.420022 CGCTGGATTTCCCAAGTAACTG 59.580 50.000 0.00 0.00 46.07 3.16
4998 6223 5.982516 GTCTTGGCAAACAAACATATGTCAA 59.017 36.000 9.23 5.59 38.91 3.18
5081 6307 8.970691 ATTAAATTTGTTGTGAGATGTGTAGC 57.029 30.769 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.651987 AACACAATAGGCATCCGACG 58.348 50.000 0.00 0.00 0.00 5.12
24 25 3.997681 TCAAACGTCACAGAGAACAAACA 59.002 39.130 0.00 0.00 0.00 2.83
85 86 5.644902 AAACGCGGGAAAGTTTAAAAATG 57.355 34.783 12.47 0.00 38.61 2.32
111 112 3.007398 GTGAGGAGAAATGTGTGACCTCT 59.993 47.826 0.00 0.00 42.73 3.69
113 114 2.705658 TGTGAGGAGAAATGTGTGACCT 59.294 45.455 0.00 0.00 0.00 3.85
121 122 0.379669 GCGCCATGTGAGGAGAAATG 59.620 55.000 0.00 0.00 0.00 2.32
217 221 9.398538 ACACACACTAAGTTTTCCTATTTTGTA 57.601 29.630 0.00 0.00 0.00 2.41
336 440 9.722056 CCTTAGCAATGTAGTCATTTTACATTC 57.278 33.333 7.46 4.51 45.26 2.67
337 441 8.686334 CCCTTAGCAATGTAGTCATTTTACATT 58.314 33.333 5.13 5.13 46.97 2.71
338 442 7.285401 CCCCTTAGCAATGTAGTCATTTTACAT 59.715 37.037 0.00 0.00 41.66 2.29
339 443 6.601613 CCCCTTAGCAATGTAGTCATTTTACA 59.398 38.462 0.00 0.00 41.66 2.41
340 444 6.039382 CCCCCTTAGCAATGTAGTCATTTTAC 59.961 42.308 0.00 0.00 41.66 2.01
341 445 6.069323 TCCCCCTTAGCAATGTAGTCATTTTA 60.069 38.462 0.00 0.00 41.66 1.52
342 446 4.956075 CCCCCTTAGCAATGTAGTCATTTT 59.044 41.667 0.00 0.00 41.66 1.82
343 447 4.229582 TCCCCCTTAGCAATGTAGTCATTT 59.770 41.667 0.00 0.00 41.66 2.32
344 448 3.785887 TCCCCCTTAGCAATGTAGTCATT 59.214 43.478 0.00 0.00 44.02 2.57
345 449 3.393687 TCCCCCTTAGCAATGTAGTCAT 58.606 45.455 0.00 0.00 35.59 3.06
346 450 2.840511 TCCCCCTTAGCAATGTAGTCA 58.159 47.619 0.00 0.00 0.00 3.41
347 451 3.926058 TTCCCCCTTAGCAATGTAGTC 57.074 47.619 0.00 0.00 0.00 2.59
348 452 4.668138 TTTTCCCCCTTAGCAATGTAGT 57.332 40.909 0.00 0.00 0.00 2.73
349 453 4.202151 GCATTTTCCCCCTTAGCAATGTAG 60.202 45.833 0.00 0.00 0.00 2.74
371 475 2.294233 TCAATTTTGTCAGGCACTCTGC 59.706 45.455 0.00 0.00 43.06 4.26
372 476 3.304928 GGTCAATTTTGTCAGGCACTCTG 60.305 47.826 0.00 0.00 44.68 3.35
374 478 2.622942 TGGTCAATTTTGTCAGGCACTC 59.377 45.455 0.00 0.00 34.60 3.51
375 479 2.362077 GTGGTCAATTTTGTCAGGCACT 59.638 45.455 0.00 0.00 43.88 4.40
376 480 2.362077 AGTGGTCAATTTTGTCAGGCAC 59.638 45.455 0.00 0.00 0.00 5.01
377 481 2.665165 AGTGGTCAATTTTGTCAGGCA 58.335 42.857 0.00 0.00 0.00 4.75
464 930 9.429359 CAAGTAGACTGATAGTGAAATGTCTTT 57.571 33.333 0.00 0.00 36.39 2.52
491 957 5.186021 TCCAGCCTCTGTTGTTTTTGTTAAA 59.814 36.000 0.00 0.00 0.00 1.52
503 969 2.769095 GGAGTATCTTCCAGCCTCTGTT 59.231 50.000 0.00 0.00 37.20 3.16
531 999 7.117956 CCCAAAGCTTCTTTTCTACTGTAGTAC 59.882 40.741 14.11 0.00 0.00 2.73
533 1001 5.998363 CCCAAAGCTTCTTTTCTACTGTAGT 59.002 40.000 14.11 0.00 0.00 2.73
536 1004 3.570125 GCCCAAAGCTTCTTTTCTACTGT 59.430 43.478 0.00 0.00 38.99 3.55
537 1005 3.057245 GGCCCAAAGCTTCTTTTCTACTG 60.057 47.826 0.00 0.00 43.05 2.74
538 1006 3.157881 GGCCCAAAGCTTCTTTTCTACT 58.842 45.455 0.00 0.00 43.05 2.57
541 1009 2.242926 GAGGCCCAAAGCTTCTTTTCT 58.757 47.619 0.00 0.00 44.01 2.52
542 1010 2.732412 GAGGCCCAAAGCTTCTTTTC 57.268 50.000 0.00 0.00 44.01 2.29
550 1048 0.033699 AAGATGGAGAGGCCCAAAGC 60.034 55.000 0.00 0.00 40.04 3.51
555 1053 3.366052 TTAAACAAGATGGAGAGGCCC 57.634 47.619 0.00 0.00 34.97 5.80
568 1066 7.060421 TGGGTTGGGCAAAATTAATTAAACAA 58.940 30.769 1.21 1.19 0.00 2.83
570 1068 7.511959 TTGGGTTGGGCAAAATTAATTAAAC 57.488 32.000 1.21 0.00 0.00 2.01
575 1073 5.250313 TGAGATTGGGTTGGGCAAAATTAAT 59.750 36.000 0.00 0.00 0.00 1.40
576 1074 4.594920 TGAGATTGGGTTGGGCAAAATTAA 59.405 37.500 0.00 0.00 0.00 1.40
579 1077 2.618794 TGAGATTGGGTTGGGCAAAAT 58.381 42.857 0.00 0.00 0.00 1.82
583 1081 1.002069 AGATGAGATTGGGTTGGGCA 58.998 50.000 0.00 0.00 0.00 5.36
584 1082 1.213926 AGAGATGAGATTGGGTTGGGC 59.786 52.381 0.00 0.00 0.00 5.36
585 1083 2.240667 ACAGAGATGAGATTGGGTTGGG 59.759 50.000 0.00 0.00 0.00 4.12
586 1084 3.641434 ACAGAGATGAGATTGGGTTGG 57.359 47.619 0.00 0.00 0.00 3.77
587 1085 5.972107 AAAACAGAGATGAGATTGGGTTG 57.028 39.130 0.00 0.00 0.00 3.77
588 1086 9.566432 GATATAAAACAGAGATGAGATTGGGTT 57.434 33.333 0.00 0.00 0.00 4.11
589 1087 8.717717 TGATATAAAACAGAGATGAGATTGGGT 58.282 33.333 0.00 0.00 0.00 4.51
626 1131 5.546526 AGGAAGAGTCTTTAGAAGTTGCAG 58.453 41.667 6.88 0.00 0.00 4.41
635 1140 7.303998 CAGATTTGCAAAGGAAGAGTCTTTAG 58.696 38.462 18.19 0.00 33.62 1.85
719 1240 1.854280 GAGGGAGAGGAAGAGGGTAGA 59.146 57.143 0.00 0.00 0.00 2.59
879 1404 7.346751 TCAACAAGCAACTATTTCCTCTTTT 57.653 32.000 0.00 0.00 0.00 2.27
882 1407 6.944862 AGATTCAACAAGCAACTATTTCCTCT 59.055 34.615 0.00 0.00 0.00 3.69
1063 1609 7.623278 AGGGGAAAATTTGAGCTTTATATGGAA 59.377 33.333 0.00 0.00 0.00 3.53
1065 1611 7.365497 AGGGGAAAATTTGAGCTTTATATGG 57.635 36.000 0.00 0.00 0.00 2.74
1258 1824 4.811555 TTTGTTCAGAGTTTCACATCCG 57.188 40.909 0.00 0.00 0.00 4.18
1307 1873 2.497107 GCAGCAAGCAGAGTCAAAAA 57.503 45.000 0.00 0.00 44.79 1.94
1433 2034 5.491070 TCTGAAACTGCAGCAAGTATGTAT 58.509 37.500 15.27 0.00 35.86 2.29
1503 2122 4.872691 AGCATGTAACTAATCTGTGCAGAC 59.127 41.667 3.80 0.00 40.75 3.51
1528 2147 4.445452 AAATTTGCATGTGCTGTCCTAG 57.555 40.909 6.55 0.00 42.66 3.02
1543 2162 6.913170 ACAGTACAAGCCAGATGTAAATTTG 58.087 36.000 0.00 0.00 35.21 2.32
1568 2187 7.283625 TGCTTGTTTTCAATGGTTAGTACAT 57.716 32.000 0.00 0.00 39.22 2.29
1673 2292 4.604843 TGAAGCATTTTCTGTATCTGCG 57.395 40.909 0.00 0.00 37.88 5.18
1760 2379 8.566260 AGAATAAAGCTTAGCAAATGCAGATAG 58.434 33.333 7.07 0.67 45.16 2.08
1812 2431 8.512138 GTTTTCAATGGTTAGTACATACAAGCT 58.488 33.333 0.00 0.00 0.00 3.74
1863 2482 4.503714 TTTGGAATGGAGGGAGTACATC 57.496 45.455 0.00 0.00 0.00 3.06
1865 2484 4.946160 AATTTGGAATGGAGGGAGTACA 57.054 40.909 0.00 0.00 0.00 2.90
1866 2485 6.002653 AGTAATTTGGAATGGAGGGAGTAC 57.997 41.667 0.00 0.00 0.00 2.73
1867 2486 5.163343 CGAGTAATTTGGAATGGAGGGAGTA 60.163 44.000 0.00 0.00 0.00 2.59
1868 2487 4.384208 CGAGTAATTTGGAATGGAGGGAGT 60.384 45.833 0.00 0.00 0.00 3.85
1869 2488 4.130118 CGAGTAATTTGGAATGGAGGGAG 58.870 47.826 0.00 0.00 0.00 4.30
1870 2489 3.521937 ACGAGTAATTTGGAATGGAGGGA 59.478 43.478 0.00 0.00 0.00 4.20
1871 2490 3.877508 GACGAGTAATTTGGAATGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1872 2491 3.555956 CGACGAGTAATTTGGAATGGAGG 59.444 47.826 0.00 0.00 0.00 4.30
1873 2492 4.032900 CACGACGAGTAATTTGGAATGGAG 59.967 45.833 0.00 0.00 0.00 3.86
1874 2493 3.930229 CACGACGAGTAATTTGGAATGGA 59.070 43.478 0.00 0.00 0.00 3.41
1875 2494 3.930229 TCACGACGAGTAATTTGGAATGG 59.070 43.478 0.00 0.00 0.00 3.16
1876 2495 5.131168 CTCACGACGAGTAATTTGGAATG 57.869 43.478 0.00 0.00 36.94 2.67
1889 2508 2.981805 CGTTCCAAATTACTCACGACGA 59.018 45.455 0.00 0.00 0.00 4.20
1890 2509 2.091588 CCGTTCCAAATTACTCACGACG 59.908 50.000 0.00 0.00 0.00 5.12
1891 2510 3.319755 TCCGTTCCAAATTACTCACGAC 58.680 45.455 0.00 0.00 0.00 4.34
1892 2511 3.581755 CTCCGTTCCAAATTACTCACGA 58.418 45.455 0.00 0.00 0.00 4.35
1893 2512 2.671396 CCTCCGTTCCAAATTACTCACG 59.329 50.000 0.00 0.00 0.00 4.35
1894 2513 3.007635 CCCTCCGTTCCAAATTACTCAC 58.992 50.000 0.00 0.00 0.00 3.51
1895 2514 2.640826 ACCCTCCGTTCCAAATTACTCA 59.359 45.455 0.00 0.00 0.00 3.41
1896 2515 3.007635 CACCCTCCGTTCCAAATTACTC 58.992 50.000 0.00 0.00 0.00 2.59
1897 2516 2.374170 ACACCCTCCGTTCCAAATTACT 59.626 45.455 0.00 0.00 0.00 2.24
1898 2517 2.786777 ACACCCTCCGTTCCAAATTAC 58.213 47.619 0.00 0.00 0.00 1.89
1899 2518 4.472108 AGATACACCCTCCGTTCCAAATTA 59.528 41.667 0.00 0.00 0.00 1.40
1900 2519 3.265995 AGATACACCCTCCGTTCCAAATT 59.734 43.478 0.00 0.00 0.00 1.82
1901 2520 2.844348 AGATACACCCTCCGTTCCAAAT 59.156 45.455 0.00 0.00 0.00 2.32
1902 2521 2.262637 AGATACACCCTCCGTTCCAAA 58.737 47.619 0.00 0.00 0.00 3.28
1903 2522 1.946984 AGATACACCCTCCGTTCCAA 58.053 50.000 0.00 0.00 0.00 3.53
1904 2523 2.832643 TAGATACACCCTCCGTTCCA 57.167 50.000 0.00 0.00 0.00 3.53
1905 2524 3.228453 TCATAGATACACCCTCCGTTCC 58.772 50.000 0.00 0.00 0.00 3.62
1906 2525 4.142790 TCTCATAGATACACCCTCCGTTC 58.857 47.826 0.00 0.00 0.00 3.95
1907 2526 4.141228 TCTCTCATAGATACACCCTCCGTT 60.141 45.833 0.00 0.00 0.00 4.44
1908 2527 3.394940 TCTCTCATAGATACACCCTCCGT 59.605 47.826 0.00 0.00 0.00 4.69
1909 2528 4.022413 TCTCTCATAGATACACCCTCCG 57.978 50.000 0.00 0.00 0.00 4.63
1910 2529 7.179269 AGTAATCTCTCATAGATACACCCTCC 58.821 42.308 0.00 0.00 44.56 4.30
1911 2530 8.644374 AAGTAATCTCTCATAGATACACCCTC 57.356 38.462 0.00 0.00 44.56 4.30
2027 2680 1.279496 ACTACAAGAGATGCTGGCCA 58.721 50.000 4.71 4.71 0.00 5.36
2047 2700 3.370840 AGAATTATGCCTGGCAGTGAA 57.629 42.857 27.20 19.61 43.65 3.18
2073 2729 6.609876 TGGGCTTCCTTGCATAATAGATTTA 58.390 36.000 0.00 0.00 34.04 1.40
2074 2730 5.457686 TGGGCTTCCTTGCATAATAGATTT 58.542 37.500 0.00 0.00 34.04 2.17
2075 2731 5.065613 TGGGCTTCCTTGCATAATAGATT 57.934 39.130 0.00 0.00 34.04 2.40
2097 2755 2.119495 GGTAGTGGGTCCATCAGTCAT 58.881 52.381 0.00 0.00 0.00 3.06
2143 2809 0.824759 ACTGGTACCCGAGAATCTGC 59.175 55.000 10.07 0.00 0.00 4.26
2321 2987 1.333931 TCACTAGCGCCAGTATCTTCG 59.666 52.381 8.51 0.00 0.00 3.79
2603 3295 7.512992 AGATCCGATACTCATCAAGGATTTTT 58.487 34.615 0.00 0.00 33.78 1.94
2604 3296 7.072263 AGATCCGATACTCATCAAGGATTTT 57.928 36.000 0.00 0.00 33.78 1.82
2605 3297 6.678568 AGATCCGATACTCATCAAGGATTT 57.321 37.500 0.00 0.00 33.78 2.17
2607 3299 5.541868 ACAAGATCCGATACTCATCAAGGAT 59.458 40.000 0.00 0.00 35.35 3.24
2609 3301 5.207110 ACAAGATCCGATACTCATCAAGG 57.793 43.478 0.00 0.00 0.00 3.61
2611 3303 7.524717 TCATACAAGATCCGATACTCATCAA 57.475 36.000 0.00 0.00 0.00 2.57
2626 3319 9.474920 GTTTGAATTGAACCAAATCATACAAGA 57.525 29.630 10.99 0.00 36.22 3.02
2680 3380 4.093408 TGATTCTTTTACAGCGCATCTCAC 59.907 41.667 11.47 0.00 0.00 3.51
2688 3388 6.653273 TCTGATTCTGATTCTTTTACAGCG 57.347 37.500 0.00 0.00 0.00 5.18
2710 3410 3.394719 AGTCGTCCAAAAAGAGAGCTTC 58.605 45.455 0.00 0.00 31.82 3.86
2779 3910 2.557924 TGCGCTGAACCTGAATTTGAAT 59.442 40.909 9.73 0.00 0.00 2.57
2782 3913 1.267806 ACTGCGCTGAACCTGAATTTG 59.732 47.619 21.92 0.00 0.00 2.32
2816 3947 2.655090 TTCTTGATGGCACCAGTGAA 57.345 45.000 0.99 0.00 0.00 3.18
2825 3956 4.202151 ACACAACTCCTTTTTCTTGATGGC 60.202 41.667 0.00 0.00 0.00 4.40
2864 3995 0.036010 CAAGCTCTTCCACCGGTGAT 60.036 55.000 36.07 3.78 0.00 3.06
2868 3999 0.895530 TCTACAAGCTCTTCCACCGG 59.104 55.000 0.00 0.00 0.00 5.28
2891 4022 2.279741 TCGTGCAATATGGAGTTGAGC 58.720 47.619 0.00 0.00 0.00 4.26
2957 4088 6.619801 ACGGGAGTTTCATTATGATAAAGC 57.380 37.500 0.00 0.00 43.33 3.51
2978 4109 1.002366 CGATCTCAAAGGAGCCAACG 58.998 55.000 0.00 0.00 41.13 4.10
3050 4181 3.249559 CAGGAACAGAGTTTGCTTCTGAC 59.750 47.826 9.06 3.36 35.62 3.51
3279 4411 1.447838 CGAATGTGGGACCGTGGAG 60.448 63.158 0.00 0.00 0.00 3.86
3617 4814 1.279271 GAAGCAGAGGAACCAAGGCTA 59.721 52.381 0.00 0.00 0.00 3.93
3620 4817 1.818642 CAGAAGCAGAGGAACCAAGG 58.181 55.000 0.00 0.00 0.00 3.61
3645 4842 3.564235 AAATGTATGTGCAGTGCAGTG 57.436 42.857 20.42 17.56 40.08 3.66
3646 4843 3.318839 ACAAAATGTATGTGCAGTGCAGT 59.681 39.130 20.42 13.09 40.08 4.40
3647 4844 3.904571 ACAAAATGTATGTGCAGTGCAG 58.095 40.909 20.42 5.01 40.08 4.41
3648 4845 4.759183 TCTACAAAATGTATGTGCAGTGCA 59.241 37.500 15.37 15.37 31.66 4.57
3649 4846 5.295431 TCTACAAAATGTATGTGCAGTGC 57.705 39.130 8.58 8.58 31.66 4.40
3650 4847 7.695201 CAGAATCTACAAAATGTATGTGCAGTG 59.305 37.037 0.00 0.00 31.66 3.66
3651 4848 7.627088 GCAGAATCTACAAAATGTATGTGCAGT 60.627 37.037 0.00 0.00 31.66 4.40
3652 4849 6.690098 GCAGAATCTACAAAATGTATGTGCAG 59.310 38.462 0.00 0.00 31.66 4.41
3653 4850 6.150809 TGCAGAATCTACAAAATGTATGTGCA 59.849 34.615 9.14 9.14 31.66 4.57
3697 4894 9.952341 GAAATTGCAAAAACTATACGAAAATCC 57.048 29.630 1.71 0.00 0.00 3.01
3789 4986 2.398754 TGGTTCCTCCTCTCACTTCA 57.601 50.000 0.00 0.00 37.07 3.02
3815 5012 0.249238 CCCGGATCTCGAAGAAGCTG 60.249 60.000 0.73 0.00 42.43 4.24
4242 5451 0.229500 CAAAAGAAAACAAGCGCGGC 59.771 50.000 8.83 0.00 0.00 6.53
4417 5626 1.623811 ACGGGCTTTGTCTGATAGTGT 59.376 47.619 0.00 0.00 0.00 3.55
4500 5710 0.389166 CTGATAATCGCGGGCCTCTC 60.389 60.000 6.13 0.00 0.00 3.20
4533 5743 2.634600 GAACACACCACCTACAACACA 58.365 47.619 0.00 0.00 0.00 3.72
4573 5787 3.461843 CTTTCCTCAAAGTGCGCAC 57.538 52.632 32.79 32.79 35.20 5.34
4592 5806 3.054875 CCTCAACTTCTCCATGTGGATGA 60.055 47.826 1.54 2.50 44.46 2.92
4610 5825 3.328931 GGGATGAGAATAATGGCTCCTCA 59.671 47.826 0.00 0.00 38.12 3.86
4616 5831 3.077359 CGAAGGGGATGAGAATAATGGC 58.923 50.000 0.00 0.00 0.00 4.40
4653 5868 2.223157 TGTTTCAAGTTCTTTGTCGCCG 60.223 45.455 0.00 0.00 38.01 6.46
4657 5872 6.459710 CCCTTAGGTGTTTCAAGTTCTTTGTC 60.460 42.308 0.00 0.00 38.01 3.18
4668 5883 3.935818 TTGTGTCCCTTAGGTGTTTCA 57.064 42.857 0.00 0.00 0.00 2.69
4669 5884 3.317149 GGTTTGTGTCCCTTAGGTGTTTC 59.683 47.826 0.00 0.00 0.00 2.78
4679 5894 1.147600 GTGTCGGGTTTGTGTCCCT 59.852 57.895 0.00 0.00 42.56 4.20
4811 6036 9.613428 AAAATATCTGAATGGACTACAAATCGA 57.387 29.630 0.00 0.00 0.00 3.59
4829 6054 8.566109 ACTTCCATACACCCCTTTAAAATATCT 58.434 33.333 0.00 0.00 0.00 1.98
4922 6147 8.138712 TGCTTTTGAATTGTTTCTACGGTTTAT 58.861 29.630 0.00 0.00 32.78 1.40
4967 6192 4.461081 TGTTTGTTTGCCAAGACAGTTACT 59.539 37.500 0.00 0.00 33.75 2.24
4974 6199 5.527951 TGACATATGTTTGTTTGCCAAGAC 58.472 37.500 10.30 0.00 33.75 3.01
5081 6307 4.298332 GCATATCGCTTTTAAACCCCATG 58.702 43.478 0.00 0.00 37.77 3.66
5112 6338 9.549078 TTTAACAATAAATGGTTGTTTCCTTCC 57.451 29.630 9.20 0.00 44.84 3.46


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

AutoCloner maintained by Alex Coulton.