Multiple sequence alignment - TraesCS2A01G233200

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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 TraesCS2A01G233200 chr2A 100.000 2318 0 0 1 2318 278343103 278345420 0.000000e+00 4281.0
1 TraesCS2A01G233200 chr2A 94.578 2324 115 7 1 2318 278365681 278367999 0.000000e+00 3583.0
2 TraesCS2A01G233200 chr2A 90.359 529 39 11 1797 2318 657831030 657830507 0.000000e+00 684.0
3 TraesCS2A01G233200 chr2A 88.204 568 55 12 1758 2318 625744548 625745110 0.000000e+00 667.0
4 TraesCS2A01G233200 chr2A 92.126 381 24 5 1 376 344747840 344747461 1.220000e-147 532.0
5 TraesCS2A01G233200 chr2A 92.105 380 25 4 1 376 345053980 345053602 4.390000e-147 531.0
6 TraesCS2A01G233200 chr2A 91.864 381 24 6 1 376 344775796 344775418 2.040000e-145 525.0
7 TraesCS2A01G233200 chr2A 91.339 381 27 6 1 376 345079148 345078769 1.230000e-142 516.0
8 TraesCS2A01G233200 chr2A 81.595 652 77 37 1689 2318 165632125 165632755 1.240000e-137 499.0
9 TraesCS2A01G233200 chr2A 86.598 291 35 4 1347 1633 272037693 272037403 3.720000e-83 318.0
10 TraesCS2A01G233200 chr2A 92.237 219 12 4 1057 1273 355234959 355234744 2.890000e-79 305.0
11 TraesCS2A01G233200 chr2A 92.891 211 14 1 1061 1271 530718172 530717963 2.890000e-79 305.0
12 TraesCS2A01G233200 chr2A 92.823 209 14 1 1507 1714 351309074 351308866 3.740000e-78 302.0
13 TraesCS2A01G233200 chr2A 91.071 224 17 3 1363 1583 211531916 211531693 1.350000e-77 300.0
14 TraesCS2A01G233200 chr2A 91.324 219 15 3 1057 1274 562356798 562356583 1.740000e-76 296.0
15 TraesCS2A01G233200 chr2A 84.524 168 26 0 1 168 191690762 191690929 1.420000e-37 167.0
16 TraesCS2A01G233200 chr2A 85.600 125 17 1 561 685 445302198 445302321 1.870000e-26 130.0
17 TraesCS2A01G233200 chr2A 97.059 34 1 0 460 493 493957008 493956975 8.950000e-05 58.4
18 TraesCS2A01G233200 chr4A 92.991 585 38 3 486 1069 421342289 421341707 0.000000e+00 850.0
19 TraesCS2A01G233200 chr4A 91.624 585 47 2 486 1069 421352090 421351507 0.000000e+00 808.0
20 TraesCS2A01G233200 chr4A 91.282 585 48 3 486 1069 421347206 421346624 0.000000e+00 795.0
21 TraesCS2A01G233200 chr4A 92.632 380 23 4 1 376 436097665 436098043 2.030000e-150 542.0
22 TraesCS2A01G233200 chr4A 91.864 381 24 6 1 376 436116117 436116495 2.040000e-145 525.0
23 TraesCS2A01G233200 chr4A 89.790 333 25 9 51 376 375266874 375267204 3.560000e-113 418.0
24 TraesCS2A01G233200 chr4A 90.365 301 23 6 81 376 375279565 375279864 7.770000e-105 390.0
25 TraesCS2A01G233200 chr4A 92.237 219 12 4 1057 1273 313846074 313845859 2.890000e-79 305.0
26 TraesCS2A01G233200 chr4A 91.781 219 13 4 1057 1273 313829884 313829669 1.350000e-77 300.0
27 TraesCS2A01G233200 chr4A 87.121 264 29 5 727 986 450953431 450953169 6.260000e-76 294.0
28 TraesCS2A01G233200 chr4A 90.950 221 15 5 1056 1273 557070827 557071045 2.250000e-75 292.0
29 TraesCS2A01G233200 chr4A 88.800 125 13 1 561 685 512727688 512727811 3.990000e-33 152.0
30 TraesCS2A01G233200 chr4A 79.532 171 31 4 1347 1514 384888039 384887870 4.050000e-23 119.0
31 TraesCS2A01G233200 chr4A 87.952 83 8 2 1278 1358 277564522 277564604 1.900000e-16 97.1
32 TraesCS2A01G233200 chr4A 91.176 68 4 2 1293 1358 426445684 426445617 8.820000e-15 91.6
33 TraesCS2A01G233200 chr4A 97.436 39 0 1 460 497 401999843 401999881 5.350000e-07 65.8
34 TraesCS2A01G233200 chr5A 91.960 597 40 8 1727 2318 675249509 675248916 0.000000e+00 830.0
35 TraesCS2A01G233200 chr5A 85.738 603 69 16 1727 2318 228292195 228291599 2.530000e-174 621.0
36 TraesCS2A01G233200 chr5A 87.613 444 26 10 547 986 201465349 201464931 2.680000e-134 488.0
37 TraesCS2A01G233200 chr5A 85.845 438 47 6 551 986 201492786 201492362 3.510000e-123 451.0
38 TraesCS2A01G233200 chr5A 92.562 242 17 1 793 1034 232012149 232011909 1.700000e-91 346.0
39 TraesCS2A01G233200 chr5A 90.909 242 20 2 793 1034 231972531 231972292 7.990000e-85 324.0
40 TraesCS2A01G233200 chr5A 93.237 207 14 0 1542 1748 675249896 675249690 2.890000e-79 305.0
41 TraesCS2A01G233200 chr5A 95.181 166 7 1 1259 1424 675250061 675249897 6.350000e-66 261.0
42 TraesCS2A01G233200 chr5A 81.081 148 24 4 1347 1491 210075476 210075330 5.230000e-22 115.0
43 TraesCS2A01G233200 chr5A 90.909 88 5 3 480 566 535402966 535402881 5.230000e-22 115.0
44 TraesCS2A01G233200 chr7A 88.699 584 48 14 1751 2318 121119049 121118468 0.000000e+00 697.0
45 TraesCS2A01G233200 chr7A 83.987 612 55 36 1724 2318 70881567 70882152 4.350000e-152 547.0
46 TraesCS2A01G233200 chr7A 92.509 267 17 3 1249 1514 270337537 270337801 1.680000e-101 379.0
47 TraesCS2A01G233200 chr7A 89.513 267 25 3 1249 1514 270329184 270329448 3.690000e-88 335.0
48 TraesCS2A01G233200 chr7A 93.365 211 9 4 1057 1265 404444811 404445018 8.050000e-80 307.0
49 TraesCS2A01G233200 chr7A 91.781 219 13 4 1057 1273 404428596 404428811 1.350000e-77 300.0
50 TraesCS2A01G233200 chr7A 94.382 178 9 1 1572 1748 291885726 291885549 2.930000e-69 272.0
51 TraesCS2A01G233200 chr7A 88.398 181 18 2 1363 1541 318615202 318615023 5.020000e-52 215.0
52 TraesCS2A01G233200 chr7A 90.476 84 7 1 659 742 245145178 245145096 2.440000e-20 110.0
53 TraesCS2A01G233200 chr1A 87.748 604 59 14 1724 2318 338351063 338351660 0.000000e+00 691.0
54 TraesCS2A01G233200 chr1A 93.365 422 27 1 637 1058 284856904 284857324 7.030000e-175 623.0
55 TraesCS2A01G233200 chr1A 92.697 178 12 1 1572 1748 284164233 284164410 2.960000e-64 255.0
56 TraesCS2A01G233200 chr1A 90.551 127 11 1 1507 1632 250696441 250696567 1.420000e-37 167.0
57 TraesCS2A01G233200 chr1A 82.432 148 22 4 1347 1491 393672637 393672783 2.420000e-25 126.0
58 TraesCS2A01G233200 chr1A 81.633 147 23 4 1348 1491 393650496 393650641 4.050000e-23 119.0
59 TraesCS2A01G233200 chr1A 97.436 39 0 1 460 497 318322196 318322234 5.350000e-07 65.8
60 TraesCS2A01G233200 chr3A 91.617 501 39 3 1249 1748 160655893 160655395 0.000000e+00 689.0
61 TraesCS2A01G233200 chr3A 88.174 575 52 14 1752 2318 553465418 553464852 0.000000e+00 671.0
62 TraesCS2A01G233200 chr3A 83.515 643 74 27 1692 2318 655356010 655355384 2.580000e-159 571.0
63 TraesCS2A01G233200 chr3A 83.961 611 70 24 1724 2318 444945982 444945384 5.590000e-156 560.0
64 TraesCS2A01G233200 chr3A 91.484 364 28 3 1259 1620 160638928 160638566 4.450000e-137 497.0
65 TraesCS2A01G233200 chr3A 91.440 257 20 2 1259 1514 329812430 329812685 3.660000e-93 351.0
66 TraesCS2A01G233200 chr3A 90.272 257 23 2 1259 1514 329832738 329832993 3.690000e-88 335.0
67 TraesCS2A01G233200 chr3A 89.062 128 10 4 461 587 263095088 263094964 3.080000e-34 156.0
68 TraesCS2A01G233200 chr3A 89.109 101 8 3 1259 1357 215867122 215867023 3.130000e-24 122.0
69 TraesCS2A01G233200 chr6A 91.930 285 19 4 486 768 295008592 295008874 1.670000e-106 396.0
70 TraesCS2A01G233200 chr6A 93.416 243 15 1 1507 1748 70193335 70193577 2.190000e-95 359.0
71 TraesCS2A01G233200 chr6A 91.525 236 17 2 1507 1742 70138199 70138431 2.870000e-84 322.0
72 TraesCS2A01G233200 chr6A 92.386 197 13 2 1510 1704 509898281 509898085 1.750000e-71 279.0
73 TraesCS2A01G233200 chr6A 91.500 200 15 2 1507 1704 555592228 555592427 8.160000e-70 274.0
74 TraesCS2A01G233200 chr6A 90.816 196 14 3 1572 1766 197127854 197127662 2.280000e-65 259.0
75 TraesCS2A01G233200 chr6A 90.355 197 17 2 1510 1704 509924048 509923852 8.220000e-65 257.0
76 TraesCS2A01G233200 chr6A 90.909 88 6 2 480 566 429521202 429521116 1.460000e-22 117.0
77 TraesCS2A01G233200 chr6A 89.773 88 8 1 480 566 385282575 385282488 6.770000e-21 111.0
78 TraesCS2A01G233200 chr6A 100.000 28 0 0 1293 1320 305859776 305859803 4.000000e-03 52.8


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 TraesCS2A01G233200 chr2A 278343103 278345420 2317 False 4281.000000 4281 100.000000 1 2318 1 chr2A.!!$F3 2317
1 TraesCS2A01G233200 chr2A 278365681 278367999 2318 False 3583.000000 3583 94.578000 1 2318 1 chr2A.!!$F4 2317
2 TraesCS2A01G233200 chr2A 657830507 657831030 523 True 684.000000 684 90.359000 1797 2318 1 chr2A.!!$R12 521
3 TraesCS2A01G233200 chr2A 625744548 625745110 562 False 667.000000 667 88.204000 1758 2318 1 chr2A.!!$F6 560
4 TraesCS2A01G233200 chr2A 165632125 165632755 630 False 499.000000 499 81.595000 1689 2318 1 chr2A.!!$F1 629
5 TraesCS2A01G233200 chr4A 421341707 421342289 582 True 850.000000 850 92.991000 486 1069 1 chr4A.!!$R4 583
6 TraesCS2A01G233200 chr4A 421351507 421352090 583 True 808.000000 808 91.624000 486 1069 1 chr4A.!!$R6 583
7 TraesCS2A01G233200 chr4A 421346624 421347206 582 True 795.000000 795 91.282000 486 1069 1 chr4A.!!$R5 583
8 TraesCS2A01G233200 chr5A 228291599 228292195 596 True 621.000000 621 85.738000 1727 2318 1 chr5A.!!$R4 591
9 TraesCS2A01G233200 chr5A 675248916 675250061 1145 True 465.333333 830 93.459333 1259 2318 3 chr5A.!!$R8 1059
10 TraesCS2A01G233200 chr7A 121118468 121119049 581 True 697.000000 697 88.699000 1751 2318 1 chr7A.!!$R1 567
11 TraesCS2A01G233200 chr7A 70881567 70882152 585 False 547.000000 547 83.987000 1724 2318 1 chr7A.!!$F1 594
12 TraesCS2A01G233200 chr1A 338351063 338351660 597 False 691.000000 691 87.748000 1724 2318 1 chr1A.!!$F5 594
13 TraesCS2A01G233200 chr3A 553464852 553465418 566 True 671.000000 671 88.174000 1752 2318 1 chr3A.!!$R6 566
14 TraesCS2A01G233200 chr3A 655355384 655356010 626 True 571.000000 571 83.515000 1692 2318 1 chr3A.!!$R7 626
15 TraesCS2A01G233200 chr3A 444945384 444945982 598 True 560.000000 560 83.961000 1724 2318 1 chr3A.!!$R5 594

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
878 884 0.179026 CCGAGACCATCCCTCTACGA 60.179 60.0 0.0 0.0 0.0 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 2099 0.464036 ACCGAGCAAGTGACAACTCA 59.536 50.0 0.0 0.0 34.77 3.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.335176 CACACTTGCAAATTATACCAATGC 57.665 37.500 0.00 0.00 37.52 3.56
24 25 5.868258 CACACTTGCAAATTATACCAATGCA 59.132 36.000 0.00 0.00 44.54 3.96
75 76 6.299141 ACCTTGCCATATATTCGTTCATCTT 58.701 36.000 0.00 0.00 0.00 2.40
80 81 8.492673 TGCCATATATTCGTTCATCTTATTCC 57.507 34.615 0.00 0.00 0.00 3.01
227 230 0.599728 TGGAACCAGCGCATTTTTGC 60.600 50.000 11.47 2.71 0.00 3.68
228 231 0.599728 GGAACCAGCGCATTTTTGCA 60.600 50.000 11.47 0.00 34.41 4.08
242 245 2.588027 TTTGCAAGTCCGGGAAAAAC 57.412 45.000 0.00 0.00 0.00 2.43
268 271 1.432807 TCTGCCCAAATTCCTTTCCCT 59.567 47.619 0.00 0.00 0.00 4.20
271 274 3.169908 TGCCCAAATTCCTTTCCCTAAC 58.830 45.455 0.00 0.00 0.00 2.34
339 343 1.569072 GGGAGAGGGAGAAGAGAGTCT 59.431 57.143 0.00 0.00 0.00 3.24
341 345 3.181443 GGGAGAGGGAGAAGAGAGTCTAG 60.181 56.522 0.00 0.00 0.00 2.43
407 411 2.034048 GCCTCCTGCCTACACCTAGC 62.034 65.000 0.00 0.00 0.00 3.42
415 419 1.063942 GCCTACACCTAGCCCCATTTT 60.064 52.381 0.00 0.00 0.00 1.82
416 420 2.623239 GCCTACACCTAGCCCCATTTTT 60.623 50.000 0.00 0.00 0.00 1.94
424 428 0.491371 AGCCCCATTTTTCCCTTGGA 59.509 50.000 0.00 0.00 31.94 3.53
457 461 2.120312 GCTAACCCTAGCCCTTCTCTT 58.880 52.381 0.00 0.00 44.22 2.85
478 482 2.840203 ATCTCCCTTTCCCTCCCGCA 62.840 60.000 0.00 0.00 0.00 5.69
632 638 1.077334 TCCCTCGACCTCTCCTTCTTT 59.923 52.381 0.00 0.00 0.00 2.52
875 881 1.152525 GCCCGAGACCATCCCTCTA 60.153 63.158 0.00 0.00 0.00 2.43
878 884 0.179026 CCGAGACCATCCCTCTACGA 60.179 60.000 0.00 0.00 0.00 3.43
889 895 0.467384 CCTCTACGACTCGGACCCTA 59.533 60.000 2.98 0.00 0.00 3.53
890 896 1.134280 CCTCTACGACTCGGACCCTAA 60.134 57.143 2.98 0.00 0.00 2.69
945 951 3.292500 CTGCCTCTGAGCACGAGCA 62.293 63.158 7.77 2.37 45.49 4.26
1043 1049 4.996434 GCACCTCCACACGCTGCT 62.996 66.667 0.00 0.00 0.00 4.24
1107 1114 0.388520 GTGCTTCATTTTGGGTCGGC 60.389 55.000 0.00 0.00 0.00 5.54
1108 1115 1.215382 GCTTCATTTTGGGTCGGCC 59.785 57.895 0.00 0.00 0.00 6.13
1109 1116 1.531739 GCTTCATTTTGGGTCGGCCA 61.532 55.000 9.07 0.00 36.17 5.36
1110 1117 0.527565 CTTCATTTTGGGTCGGCCAG 59.472 55.000 9.07 0.00 36.17 4.85
1146 1153 2.885644 CGTCGCCGAAGACCCATG 60.886 66.667 0.00 0.00 37.85 3.66
1206 1213 2.015587 ACGACCATCGAGTACCTCTTC 58.984 52.381 5.04 0.00 43.74 2.87
1254 1261 1.674817 CGCCAAGACCGTGGAGTAAAT 60.675 52.381 6.17 0.00 41.65 1.40
1265 1272 5.221581 ACCGTGGAGTAAATGAACAAGTACT 60.222 40.000 0.00 0.00 0.00 2.73
1281 1288 1.378882 TACTCCTACGCGGACGCATT 61.379 55.000 17.35 5.32 45.53 3.56
1361 1368 0.736636 TACGACGCGATGACCAGAAT 59.263 50.000 15.93 0.00 0.00 2.40
1392 1399 3.545124 TTACCTGGTGCACCTGCGG 62.545 63.158 34.75 30.32 45.83 5.69
1426 1433 4.816925 TGGACACAATCAATACGTGTTTCA 59.183 37.500 0.00 0.00 43.65 2.69
1428 1435 5.178623 GGACACAATCAATACGTGTTTCAGA 59.821 40.000 0.00 0.00 43.65 3.27
1450 1457 1.374252 AAGCGCCAAGTACCGTGAG 60.374 57.895 2.29 0.00 0.00 3.51
1461 1468 1.741706 GTACCGTGAGTCCGAAGATCA 59.258 52.381 0.00 0.00 0.00 2.92
1483 1490 0.179000 GATGCACCAAGTCCCTCGAT 59.821 55.000 0.00 0.00 0.00 3.59
1502 1509 3.365220 CGATGACAAGTTCTTCTCCGAAC 59.635 47.826 0.00 0.00 42.73 3.95
1506 1513 1.721926 CAAGTTCTTCTCCGAACGAGC 59.278 52.381 0.00 0.00 46.00 5.03
1518 1525 1.003759 CGAACGAGCACGACTATAGCT 60.004 52.381 11.40 0.00 42.66 3.32
1538 1545 3.784338 CTGGTGTGCATTTTGTCAAGTT 58.216 40.909 0.00 0.00 0.00 2.66
1561 1568 3.604543 CGACTACGACAAACGACTACACA 60.605 47.826 0.00 0.00 45.77 3.72
1565 1572 2.798283 ACGACAAACGACTACACAATGG 59.202 45.455 0.00 0.00 45.77 3.16
1624 1631 6.330278 CGTCAAGTTCCACTATGAGATGTAA 58.670 40.000 0.00 0.00 0.00 2.41
1744 1953 1.274167 CAACTACTTCCACTACCGCCA 59.726 52.381 0.00 0.00 0.00 5.69
1795 2006 1.847890 CGTTCCGCCCGAAACACATT 61.848 55.000 0.00 0.00 30.39 2.71
1876 2099 0.667487 CCGTTGTCTGCATCGTGTCT 60.667 55.000 0.00 0.00 36.42 3.41
1906 2129 0.608640 TTGCTCGGTCCTCCTCTTTC 59.391 55.000 0.00 0.00 0.00 2.62
1907 2130 0.541998 TGCTCGGTCCTCCTCTTTCA 60.542 55.000 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 7.095017 GGAGTCCAAGACTTAAGAGAACAAATG 60.095 40.741 10.09 0.00 43.53 2.32
24 25 6.937465 GGAGTCCAAGACTTAAGAGAACAAAT 59.063 38.462 10.09 0.00 43.53 2.32
95 96 1.605232 ACGTCCAAAAATGTTCGGACC 59.395 47.619 0.00 0.00 44.20 4.46
114 115 6.293698 TGAACTAGGACTTGGTTAAAGGAAC 58.706 40.000 0.00 0.00 40.51 3.62
227 230 2.028876 AGTTGGTTTTTCCCGGACTTG 58.971 47.619 0.73 0.00 34.77 3.16
228 231 2.447408 AGTTGGTTTTTCCCGGACTT 57.553 45.000 0.73 0.00 34.77 3.01
242 245 2.250924 AGGAATTTGGGCAGAAGTTGG 58.749 47.619 0.00 0.00 0.00 3.77
303 307 6.792977 TCCCTCTCCCCTATTTCCTTTAATAG 59.207 42.308 0.00 0.00 37.68 1.73
305 309 5.558379 TCCCTCTCCCCTATTTCCTTTAAT 58.442 41.667 0.00 0.00 0.00 1.40
407 411 1.275666 GGTCCAAGGGAAAAATGGGG 58.724 55.000 0.00 0.00 34.89 4.96
415 419 4.344865 GCGGCTGGTCCAAGGGAA 62.345 66.667 0.00 0.00 31.38 3.97
424 428 2.365105 TTAGCTAGGGCGGCTGGT 60.365 61.111 9.56 7.95 44.37 4.00
457 461 0.691078 CGGGAGGGAAAGGGAGATCA 60.691 60.000 0.00 0.00 0.00 2.92
478 482 3.859414 GAGGGAGATGGCTGCGCT 61.859 66.667 9.73 0.00 32.52 5.92
739 745 2.654877 GTGGTGGTCGTCGATGGT 59.345 61.111 4.48 0.00 0.00 3.55
875 881 1.101331 GACATTAGGGTCCGAGTCGT 58.899 55.000 12.31 0.00 0.00 4.34
878 884 1.673808 GGCGACATTAGGGTCCGAGT 61.674 60.000 0.00 0.00 34.24 4.18
932 938 2.048784 GCAGTGCTCGTGCTCAGA 60.049 61.111 8.18 0.00 40.48 3.27
945 951 1.271982 TGAACGGAGTAGAGGAGCAGT 60.272 52.381 0.00 0.00 45.00 4.40
1107 1114 0.600255 ACTTGGCGTTCTCGTTCTGG 60.600 55.000 0.00 0.00 39.49 3.86
1108 1115 1.719780 GTACTTGGCGTTCTCGTTCTG 59.280 52.381 0.00 0.00 39.49 3.02
1109 1116 1.336609 GGTACTTGGCGTTCTCGTTCT 60.337 52.381 0.00 0.00 39.49 3.01
1110 1117 1.066136 GGTACTTGGCGTTCTCGTTC 58.934 55.000 0.00 0.00 39.49 3.95
1146 1153 2.985139 GTCTTGGCGACAGTAGTTGTAC 59.015 50.000 0.00 0.00 44.54 2.90
1206 1213 0.316772 CGATGGTAGTGGTACTCGCG 60.317 60.000 0.00 0.00 0.00 5.87
1243 1250 6.390987 GAGTACTTGTTCATTTACTCCACG 57.609 41.667 0.00 0.00 36.12 4.94
1254 1261 1.200716 CCGCGTAGGAGTACTTGTTCA 59.799 52.381 4.92 0.00 45.00 3.18
1281 1288 0.690192 TGGCGAAAATCCTGGAGACA 59.310 50.000 1.52 0.00 39.59 3.41
1361 1368 1.070105 AGGTAACAACTTGGCGCGA 59.930 52.632 12.10 0.00 41.41 5.87
1426 1433 0.605589 GGTACTTGGCGCTTGGTTCT 60.606 55.000 7.64 0.00 0.00 3.01
1428 1435 1.964373 CGGTACTTGGCGCTTGGTT 60.964 57.895 7.64 0.00 0.00 3.67
1450 1457 1.869767 GTGCATCCATGATCTTCGGAC 59.130 52.381 0.00 0.00 0.00 4.79
1461 1468 0.257039 GAGGGACTTGGTGCATCCAT 59.743 55.000 8.55 0.00 46.60 3.41
1483 1490 2.359848 TCGTTCGGAGAAGAACTTGTCA 59.640 45.455 12.42 0.00 46.00 3.58
1502 1509 0.663688 ACCAGCTATAGTCGTGCTCG 59.336 55.000 0.81 0.81 34.51 5.03
1506 1513 1.135112 TGCACACCAGCTATAGTCGTG 60.135 52.381 0.84 7.82 34.99 4.35
1518 1525 3.733380 CGAACTTGACAAAATGCACACCA 60.733 43.478 0.00 0.00 0.00 4.17
1538 1545 2.799978 TGTAGTCGTTTGTCGTAGTCGA 59.200 45.455 0.00 0.00 44.12 4.20
1561 1568 2.507407 AATGGTACTTGCGTCCCATT 57.493 45.000 0.00 0.00 42.85 3.16
1565 1572 2.000429 ACGTAATGGTACTTGCGTCC 58.000 50.000 5.39 0.00 42.51 4.79
1579 1586 1.747355 GATCCGAGGACTCCAACGTAA 59.253 52.381 11.77 3.18 0.00 3.18
1585 1592 1.453379 GACGGATCCGAGGACTCCA 60.453 63.158 39.55 0.00 42.83 3.86
1624 1631 4.562963 GGTCTTCGAGGTCAATGGTAGTTT 60.563 45.833 0.00 0.00 0.00 2.66
1744 1953 2.416972 GGGAAGTAGACGTTCTCGCAAT 60.417 50.000 0.00 0.00 41.18 3.56
1814 2027 0.936297 CGTTCTCGGACGGTCGTTTT 60.936 55.000 1.43 0.00 39.27 2.43
1876 2099 0.464036 ACCGAGCAAGTGACAACTCA 59.536 50.000 0.00 0.00 34.77 3.41
1906 2129 4.770874 CCCCACGGGTTAGCGGTG 62.771 72.222 13.85 13.85 38.25 4.94


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

AutoCloner maintained by Alex Coulton.