Multiple sequence alignment - TraesCS6D01G323400

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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 TraesCS6D01G323400 chr6D 100.000 2549 0 0 1 2549 429974949 429977497 0.000000e+00 4708.0
1 TraesCS6D01G323400 chr6D 92.593 243 12 4 2307 2549 278149353 278149117 6.750000e-91 344.0
2 TraesCS6D01G323400 chr6D 90.347 259 23 1 2 260 212301990 212302246 3.140000e-89 339.0
3 TraesCS6D01G323400 chr6D 89.922 258 25 1 3 260 4183249 4182993 5.260000e-87 331.0
4 TraesCS6D01G323400 chr5D 92.283 1542 74 13 257 1781 113748971 113747458 0.000000e+00 2146.0
5 TraesCS6D01G323400 chr5D 87.970 532 57 3 1779 2303 259229883 259229352 2.790000e-174 621.0
6 TraesCS6D01G323400 chr5D 87.337 537 61 3 1779 2308 397829122 397829658 2.170000e-170 608.0
7 TraesCS6D01G323400 chr5D 88.803 259 27 2 3 260 545136055 545136312 1.470000e-82 316.0
8 TraesCS6D01G323400 chr5D 82.240 366 44 14 1410 1766 367408021 367407668 1.920000e-76 296.0
9 TraesCS6D01G323400 chr5D 83.224 304 44 5 1057 1355 525465152 525465453 3.230000e-69 272.0
10 TraesCS6D01G323400 chr1B 91.376 1461 92 19 336 1779 368077899 368076456 0.000000e+00 1969.0
11 TraesCS6D01G323400 chr1B 83.198 369 39 13 1410 1766 533404579 533404222 1.470000e-82 316.0
12 TraesCS6D01G323400 chr1A 91.626 1421 103 11 369 1778 427507038 427505623 0.000000e+00 1951.0
13 TraesCS6D01G323400 chr1A 90.654 535 43 3 1779 2306 506266630 506267164 0.000000e+00 704.0
14 TraesCS6D01G323400 chr1A 84.282 369 42 7 1408 1766 23163861 23164223 1.880000e-91 346.0
15 TraesCS6D01G323400 chr1A 91.250 80 6 1 256 335 427518630 427518552 9.640000e-20 108.0
16 TraesCS6D01G323400 chr4A 89.732 1529 77 18 261 1770 567035799 567037266 0.000000e+00 1881.0
17 TraesCS6D01G323400 chr4A 89.105 257 26 2 4 260 551916679 551916933 4.090000e-83 318.0
18 TraesCS6D01G323400 chr2B 80.479 1419 175 60 396 1758 583670283 583671655 0.000000e+00 992.0
19 TraesCS6D01G323400 chr2B 91.402 535 39 2 1779 2306 306903522 306904056 0.000000e+00 726.0
20 TraesCS6D01G323400 chr2B 90.385 260 25 0 1 260 306903271 306903530 2.430000e-90 342.0
21 TraesCS6D01G323400 chr3D 84.125 989 105 30 396 1357 591724933 591723970 0.000000e+00 909.0
22 TraesCS6D01G323400 chr3D 89.098 532 51 4 1779 2303 588884318 588883787 0.000000e+00 654.0
23 TraesCS6D01G323400 chr3D 88.512 531 49 6 1779 2300 336866125 336866652 1.290000e-177 632.0
24 TraesCS6D01G323400 chr3D 89.130 46 5 0 1733 1778 308824223 308824178 9.850000e-05 58.4
25 TraesCS6D01G323400 chr3B 83.571 980 110 34 399 1357 727053726 727054675 0.000000e+00 870.0
26 TraesCS6D01G323400 chr7B 82.508 989 115 29 394 1357 60373633 60374588 0.000000e+00 815.0
27 TraesCS6D01G323400 chr5B 90.093 535 46 5 1779 2306 614989059 614988525 0.000000e+00 688.0
28 TraesCS6D01G323400 chr5B 83.198 369 40 13 1410 1766 451178260 451177902 4.090000e-83 318.0
29 TraesCS6D01G323400 chr5B 88.760 258 29 0 3 260 614989308 614989051 1.470000e-82 316.0
30 TraesCS6D01G323400 chr7D 88.346 532 52 4 1779 2303 605489912 605490440 4.630000e-177 630.0
31 TraesCS6D01G323400 chr7D 84.282 369 44 7 1407 1766 228439659 228439296 5.220000e-92 348.0
32 TraesCS6D01G323400 chr7D 84.615 364 40 8 1408 1761 612285581 612285224 5.220000e-92 348.0
33 TraesCS6D01G323400 chr3A 87.406 532 60 3 1779 2303 35120565 35121096 2.810000e-169 604.0
34 TraesCS6D01G323400 chr3A 91.200 250 18 4 2302 2548 738753822 738754070 1.130000e-88 337.0
35 TraesCS6D01G323400 chr3A 90.800 250 19 4 2302 2548 484549733 484549981 5.260000e-87 331.0
36 TraesCS6D01G323400 chr3A 90.800 250 20 3 2302 2548 601658486 601658735 5.260000e-87 331.0
37 TraesCS6D01G323400 chr3A 90.800 250 20 3 2302 2548 601659206 601659455 5.260000e-87 331.0
38 TraesCS6D01G323400 chr3A 88.235 187 19 3 786 970 722291077 722291262 1.190000e-53 220.0
39 TraesCS6D01G323400 chr3A 91.111 45 4 0 1722 1766 667350075 667350119 7.610000e-06 62.1
40 TraesCS6D01G323400 chr5A 92.248 258 20 0 1 258 7449090 7449347 1.440000e-97 366.0
41 TraesCS6D01G323400 chr5A 84.774 243 27 5 1057 1290 651810615 651810856 4.240000e-58 235.0
42 TraesCS6D01G323400 chr4D 84.824 369 41 7 1408 1766 28996399 28996762 8.670000e-95 357.0
43 TraesCS6D01G323400 chr1D 84.426 366 42 8 1407 1764 400973381 400973023 1.880000e-91 346.0
44 TraesCS6D01G323400 chr1D 91.803 244 17 3 2307 2549 232159967 232160208 1.130000e-88 337.0
45 TraesCS6D01G323400 chr1D 89.922 258 26 0 3 260 132218987 132218730 1.460000e-87 333.0
46 TraesCS6D01G323400 chr1D 83.060 366 41 12 1410 1766 204385965 204386318 1.900000e-81 313.0
47 TraesCS6D01G323400 chr1D 81.067 375 42 17 1412 1766 345276797 345277162 3.230000e-69 272.0
48 TraesCS6D01G323400 chr2A 91.600 250 18 3 2302 2548 191976953 191976704 2.430000e-90 342.0
49 TraesCS6D01G323400 chr6A 89.922 258 26 0 3 260 295795900 295796157 1.460000e-87 333.0
50 TraesCS6D01G323400 chr7A 90.438 251 20 4 2302 2548 217687640 217687890 6.800000e-86 327.0
51 TraesCS6D01G323400 chr7A 90.438 251 20 4 2302 2548 441747760 441747510 6.800000e-86 327.0
52 TraesCS6D01G323400 chr2D 97.059 34 1 0 1733 1766 45098986 45099019 9.850000e-05 58.4


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 TraesCS6D01G323400 chr6D 429974949 429977497 2548 False 4708 4708 100.0000 1 2549 1 chr6D.!!$F2 2548
1 TraesCS6D01G323400 chr5D 113747458 113748971 1513 True 2146 2146 92.2830 257 1781 1 chr5D.!!$R1 1524
2 TraesCS6D01G323400 chr5D 259229352 259229883 531 True 621 621 87.9700 1779 2303 1 chr5D.!!$R2 524
3 TraesCS6D01G323400 chr5D 397829122 397829658 536 False 608 608 87.3370 1779 2308 1 chr5D.!!$F1 529
4 TraesCS6D01G323400 chr1B 368076456 368077899 1443 True 1969 1969 91.3760 336 1779 1 chr1B.!!$R1 1443
5 TraesCS6D01G323400 chr1A 427505623 427507038 1415 True 1951 1951 91.6260 369 1778 1 chr1A.!!$R1 1409
6 TraesCS6D01G323400 chr1A 506266630 506267164 534 False 704 704 90.6540 1779 2306 1 chr1A.!!$F2 527
7 TraesCS6D01G323400 chr4A 567035799 567037266 1467 False 1881 1881 89.7320 261 1770 1 chr4A.!!$F2 1509
8 TraesCS6D01G323400 chr2B 583670283 583671655 1372 False 992 992 80.4790 396 1758 1 chr2B.!!$F1 1362
9 TraesCS6D01G323400 chr2B 306903271 306904056 785 False 534 726 90.8935 1 2306 2 chr2B.!!$F2 2305
10 TraesCS6D01G323400 chr3D 591723970 591724933 963 True 909 909 84.1250 396 1357 1 chr3D.!!$R3 961
11 TraesCS6D01G323400 chr3D 588883787 588884318 531 True 654 654 89.0980 1779 2303 1 chr3D.!!$R2 524
12 TraesCS6D01G323400 chr3D 336866125 336866652 527 False 632 632 88.5120 1779 2300 1 chr3D.!!$F1 521
13 TraesCS6D01G323400 chr3B 727053726 727054675 949 False 870 870 83.5710 399 1357 1 chr3B.!!$F1 958
14 TraesCS6D01G323400 chr7B 60373633 60374588 955 False 815 815 82.5080 394 1357 1 chr7B.!!$F1 963
15 TraesCS6D01G323400 chr5B 614988525 614989308 783 True 502 688 89.4265 3 2306 2 chr5B.!!$R2 2303
16 TraesCS6D01G323400 chr7D 605489912 605490440 528 False 630 630 88.3460 1779 2303 1 chr7D.!!$F1 524
17 TraesCS6D01G323400 chr3A 35120565 35121096 531 False 604 604 87.4060 1779 2303 1 chr3A.!!$F1 524
18 TraesCS6D01G323400 chr3A 601658486 601659455 969 False 331 331 90.8000 2302 2548 2 chr3A.!!$F6 246

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
99 100 0.035152 TCATTGCGACAGAATGGGCT 60.035 50.0 0.0 0.0 43.62 5.19 F
468 491 0.252284 TTCTTTCCTCTCCCCTCGCT 60.252 55.0 0.0 0.0 0.00 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1453 1636 1.133976 GTTGCATCCATGGTAGCTCCT 60.134 52.381 24.38 0.0 37.07 3.69 R
2346 2556 0.039180 GGGGAGGTGGGACGAAAATT 59.961 55.000 0.00 0.0 0.00 1.82 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
21 22 3.386543 GGAATCGACCCATGTGAGG 57.613 57.895 0.00 0.00 0.00 3.86
26 27 1.052617 TCGACCCATGTGAGGAACAA 58.947 50.000 0.00 0.00 43.61 2.83
36 37 7.147567 ACCCATGTGAGGAACAAAAATACTTTT 60.148 33.333 0.00 0.00 43.61 2.27
46 47 9.895894 GGAACAAAAATACTTTTTCTTTCGAAC 57.104 29.630 0.00 0.00 40.65 3.95
99 100 0.035152 TCATTGCGACAGAATGGGCT 60.035 50.000 0.00 0.00 43.62 5.19
151 152 7.178983 TGGAGAGATGGCAAAACAAAATTAGAT 59.821 33.333 0.00 0.00 0.00 1.98
161 162 7.412891 GCAAAACAAAATTAGATATTTGCGGCT 60.413 33.333 0.00 0.00 40.87 5.52
239 240 9.942850 TGAGAGACTGACACAAATTATTAATGA 57.057 29.630 0.00 0.00 0.00 2.57
255 256 8.894409 TTATTAATGAACTTGATGTGAAAGCG 57.106 30.769 0.00 0.00 0.00 4.68
256 257 3.837213 ATGAACTTGATGTGAAAGCGG 57.163 42.857 0.00 0.00 0.00 5.52
257 258 2.844946 TGAACTTGATGTGAAAGCGGA 58.155 42.857 0.00 0.00 0.00 5.54
258 259 3.210227 TGAACTTGATGTGAAAGCGGAA 58.790 40.909 0.00 0.00 0.00 4.30
259 260 3.820467 TGAACTTGATGTGAAAGCGGAAT 59.180 39.130 0.00 0.00 0.00 3.01
265 266 3.438781 TGATGTGAAAGCGGAATGGTAAC 59.561 43.478 0.00 0.00 0.00 2.50
331 332 1.602311 ACGCGTAGATCCTACGGAAT 58.398 50.000 22.68 2.20 40.86 3.01
468 491 0.252284 TTCTTTCCTCTCCCCTCGCT 60.252 55.000 0.00 0.00 0.00 4.93
509 532 1.620323 GATTTGGCCTTCAAGCACCTT 59.380 47.619 3.32 0.00 36.62 3.50
529 555 4.075793 TCCCCTCCGTCCCCTCTG 62.076 72.222 0.00 0.00 0.00 3.35
688 750 1.087202 CGTGCGGCTATGGCTTTGTA 61.087 55.000 0.00 0.00 38.73 2.41
766 828 3.366883 GCCGGTTGTAGCAATTTTCATCA 60.367 43.478 1.90 0.00 0.00 3.07
827 890 2.159142 CCCGTCGGTAGTAGCTTTTCAT 60.159 50.000 11.06 0.00 0.00 2.57
912 977 8.177119 ACTTTTTGATTCATAGGTTGTAGCAA 57.823 30.769 0.00 0.00 30.45 3.91
1333 1478 5.010213 ACCGGCTAAAATTTTGCTTCAACTA 59.990 36.000 13.76 0.00 0.00 2.24
1360 1506 4.576216 TTTCATTTTCTTAGTTGCGGCA 57.424 36.364 0.00 0.00 0.00 5.69
1453 1636 4.273257 TGTTGCAGTCGACGCCGA 62.273 61.111 23.01 10.99 43.35 5.54
1729 1923 1.945819 GCTATATCGTGTGGCCCATGG 60.946 57.143 4.14 4.14 0.00 3.66
1848 2045 2.300437 AGCCGAGAAGAAGTTACAAGCT 59.700 45.455 0.00 0.00 0.00 3.74
1878 2075 0.849417 AGGAGGAGATGAAATGGGCC 59.151 55.000 0.00 0.00 0.00 5.80
1912 2109 4.717280 AGGTTTCTAAGATCGTCCAAGGAT 59.283 41.667 0.00 0.00 0.00 3.24
2074 2276 0.034896 TGGAGCACCCGAAGAAAGTC 59.965 55.000 0.00 0.00 37.93 3.01
2081 2283 3.119101 GCACCCGAAGAAAGTCTCATAGA 60.119 47.826 0.00 0.00 0.00 1.98
2086 2288 6.263617 ACCCGAAGAAAGTCTCATAGATCTAC 59.736 42.308 4.10 0.00 0.00 2.59
2122 2324 3.680754 CGGGGACATACCTCAACTTAACC 60.681 52.174 0.00 0.00 39.61 2.85
2167 2369 2.029828 GCTCCGTTCACTGAGAAAGAGA 60.030 50.000 15.49 6.24 39.52 3.10
2308 2517 6.103997 TGTTCGATGGTCACTTAAACCTATC 58.896 40.000 0.00 0.00 37.69 2.08
2322 2531 9.369672 ACTTAAACCTATCTCTACTCCTAATGG 57.630 37.037 0.00 0.00 0.00 3.16
2332 2541 3.882131 TCCTAATGGAGCAGTTGGC 57.118 52.632 0.00 0.00 45.30 4.52
2346 2556 2.575893 TTGGCAGTCTCCGCGGTTA 61.576 57.895 27.15 11.91 0.00 2.85
2362 2572 2.417586 CGGTTAATTTTCGTCCCACCTC 59.582 50.000 0.00 0.00 0.00 3.85
2365 2575 0.039180 AATTTTCGTCCCACCTCCCC 59.961 55.000 0.00 0.00 0.00 4.81
2373 2583 1.002242 TCCCACCTCCCCTGGTTTTT 61.002 55.000 0.00 0.00 38.45 1.94
2404 2615 2.608623 CTCCCACCTCCCAATTTTGTT 58.391 47.619 0.00 0.00 0.00 2.83
2548 3480 8.154649 ACGGATGGTAATCAATCTTCAAATAC 57.845 34.615 0.00 0.00 34.17 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 2.235016 CTCCCTCTCGAACCATCCTAG 58.765 57.143 0.00 0.00 0.00 3.02
99 100 0.790993 AAGTCCCACCAGAGTCCCTA 59.209 55.000 0.00 0.00 0.00 3.53
151 152 3.476552 CCCTCAAGAATAGCCGCAAATA 58.523 45.455 0.00 0.00 0.00 1.40
159 160 1.546548 GCCCATCCCCTCAAGAATAGC 60.547 57.143 0.00 0.00 0.00 2.97
161 162 1.149101 GGCCCATCCCCTCAAGAATA 58.851 55.000 0.00 0.00 0.00 1.75
213 214 9.942850 TCATTAATAATTTGTGTCAGTCTCTCA 57.057 29.630 0.00 0.00 0.00 3.27
237 238 2.844946 TCCGCTTTCACATCAAGTTCA 58.155 42.857 0.00 0.00 0.00 3.18
238 239 3.896648 TTCCGCTTTCACATCAAGTTC 57.103 42.857 0.00 0.00 0.00 3.01
239 240 3.057315 CCATTCCGCTTTCACATCAAGTT 60.057 43.478 0.00 0.00 0.00 2.66
240 241 2.489329 CCATTCCGCTTTCACATCAAGT 59.511 45.455 0.00 0.00 0.00 3.16
241 242 2.489329 ACCATTCCGCTTTCACATCAAG 59.511 45.455 0.00 0.00 0.00 3.02
242 243 2.513753 ACCATTCCGCTTTCACATCAA 58.486 42.857 0.00 0.00 0.00 2.57
243 244 2.198827 ACCATTCCGCTTTCACATCA 57.801 45.000 0.00 0.00 0.00 3.07
244 245 3.181500 GGTTACCATTCCGCTTTCACATC 60.181 47.826 0.00 0.00 0.00 3.06
245 246 2.752903 GGTTACCATTCCGCTTTCACAT 59.247 45.455 0.00 0.00 0.00 3.21
246 247 2.156098 GGTTACCATTCCGCTTTCACA 58.844 47.619 0.00 0.00 0.00 3.58
247 248 1.129811 CGGTTACCATTCCGCTTTCAC 59.870 52.381 1.13 0.00 40.28 3.18
248 249 1.444836 CGGTTACCATTCCGCTTTCA 58.555 50.000 1.13 0.00 40.28 2.69
255 256 3.181504 CGATTGGAAACGGTTACCATTCC 60.182 47.826 21.97 21.97 38.71 3.01
256 257 3.181504 CCGATTGGAAACGGTTACCATTC 60.182 47.826 1.13 5.33 43.53 2.67
257 258 2.750712 CCGATTGGAAACGGTTACCATT 59.249 45.455 1.13 0.00 43.53 3.16
258 259 2.361789 CCGATTGGAAACGGTTACCAT 58.638 47.619 1.13 0.00 43.53 3.55
259 260 1.810959 CCGATTGGAAACGGTTACCA 58.189 50.000 1.13 0.00 43.53 3.25
357 358 2.753452 GAGAGATAAGGTGGTCACGTGA 59.247 50.000 15.76 15.76 0.00 4.35
358 359 2.492088 TGAGAGATAAGGTGGTCACGTG 59.508 50.000 9.94 9.94 0.00 4.49
359 360 2.492484 GTGAGAGATAAGGTGGTCACGT 59.508 50.000 0.00 0.00 0.00 4.49
360 361 2.159226 GGTGAGAGATAAGGTGGTCACG 60.159 54.545 0.00 0.00 36.07 4.35
361 362 3.100671 AGGTGAGAGATAAGGTGGTCAC 58.899 50.000 0.00 0.00 34.77 3.67
362 363 3.099905 CAGGTGAGAGATAAGGTGGTCA 58.900 50.000 0.00 0.00 0.00 4.02
363 364 3.131400 GTCAGGTGAGAGATAAGGTGGTC 59.869 52.174 0.00 0.00 0.00 4.02
364 365 3.100671 GTCAGGTGAGAGATAAGGTGGT 58.899 50.000 0.00 0.00 0.00 4.16
365 366 2.432510 GGTCAGGTGAGAGATAAGGTGG 59.567 54.545 0.00 0.00 0.00 4.61
366 367 3.370104 AGGTCAGGTGAGAGATAAGGTG 58.630 50.000 0.00 0.00 0.00 4.00
367 368 3.767309 AGGTCAGGTGAGAGATAAGGT 57.233 47.619 0.00 0.00 0.00 3.50
368 369 5.245075 GGATAAGGTCAGGTGAGAGATAAGG 59.755 48.000 0.00 0.00 0.00 2.69
369 370 6.074648 AGGATAAGGTCAGGTGAGAGATAAG 58.925 44.000 0.00 0.00 0.00 1.73
370 371 6.031964 AGGATAAGGTCAGGTGAGAGATAA 57.968 41.667 0.00 0.00 0.00 1.75
371 372 5.374154 AGAGGATAAGGTCAGGTGAGAGATA 59.626 44.000 0.00 0.00 0.00 1.98
372 373 4.169856 AGAGGATAAGGTCAGGTGAGAGAT 59.830 45.833 0.00 0.00 0.00 2.75
373 374 3.529734 AGAGGATAAGGTCAGGTGAGAGA 59.470 47.826 0.00 0.00 0.00 3.10
468 491 0.908910 ATGGCGGTGTGGAGTTCATA 59.091 50.000 0.00 0.00 0.00 2.15
529 555 1.144057 CATGTCGGCAGGGAGGTAC 59.856 63.158 0.00 0.00 0.00 3.34
579 605 2.202623 GCTCGTCGTCGCCTCAAT 60.203 61.111 0.00 0.00 36.96 2.57
688 750 8.675705 AAGTTGCAACTGGCTAAAAATAAAAT 57.324 26.923 31.73 8.11 45.15 1.82
766 828 3.120199 CGAATCAAAGATTGGTGCTCGTT 60.120 43.478 0.00 0.00 0.00 3.85
827 890 1.403679 CAAAAGTTGGAACCAGCGACA 59.596 47.619 2.33 0.00 32.33 4.35
1151 1219 1.450134 GTCGCCATCACCAGCATGA 60.450 57.895 0.00 0.00 39.69 3.07
1302 1425 1.182667 AATTTTAGCCGGTTCCAGCC 58.817 50.000 1.90 0.00 0.00 4.85
1453 1636 1.133976 GTTGCATCCATGGTAGCTCCT 60.134 52.381 24.38 0.00 37.07 3.69
1561 1744 2.522923 AACCATGCCCGTTTGCCA 60.523 55.556 0.00 0.00 0.00 4.92
1589 1772 2.733301 CTCAGCCGCCGATGATCT 59.267 61.111 0.00 0.00 0.00 2.75
1591 1774 2.839632 TCCTCAGCCGCCGATGAT 60.840 61.111 0.00 0.00 0.00 2.45
1729 1923 1.940883 GAAAATTTCGGCCGGTCCCC 61.941 60.000 27.83 5.21 0.00 4.81
1770 1967 2.409870 GGATTCCGCTTGGGCACTG 61.410 63.158 0.00 0.00 38.60 3.66
1773 1970 2.361104 GTGGATTCCGCTTGGGCA 60.361 61.111 9.06 0.00 38.60 5.36
1820 2017 3.685139 ACTTCTTCTCGGCTTCATTCA 57.315 42.857 0.00 0.00 0.00 2.57
1827 2024 2.300437 AGCTTGTAACTTCTTCTCGGCT 59.700 45.455 0.00 0.00 0.00 5.52
1848 2045 5.921153 TCATCTCCTCCTCTCTCATAAGA 57.079 43.478 0.00 0.00 0.00 2.10
1912 2109 9.546428 CATGTGGAAGAACTGTGTATTATCATA 57.454 33.333 0.00 0.00 0.00 2.15
2081 2283 2.227626 CCGATCGCACTCTCATGTAGAT 59.772 50.000 10.32 0.00 32.41 1.98
2086 2288 1.300465 CCCCGATCGCACTCTCATG 60.300 63.158 10.32 0.00 0.00 3.07
2122 2324 6.098679 CAGACAACACCTCATTCTCTTCTAG 58.901 44.000 0.00 0.00 0.00 2.43
2167 2369 5.868258 TCATTTGCGTTATTGCATCAAACAT 59.132 32.000 0.00 0.00 45.78 2.71
2229 2438 5.644977 ATGATATGCCAGCATTTCTGATG 57.355 39.130 19.33 0.00 45.72 3.07
2322 2531 1.739562 CGGAGACTGCCAACTGCTC 60.740 63.158 0.00 0.00 42.00 4.26
2332 2541 2.222729 CGAAAATTAACCGCGGAGACTG 60.223 50.000 35.90 3.66 0.00 3.51
2335 2544 1.994779 GACGAAAATTAACCGCGGAGA 59.005 47.619 35.90 16.70 0.00 3.71
2339 2548 0.797542 TGGGACGAAAATTAACCGCG 59.202 50.000 0.00 0.00 0.00 6.46
2340 2549 1.135603 GGTGGGACGAAAATTAACCGC 60.136 52.381 0.00 0.00 0.00 5.68
2346 2556 0.039180 GGGGAGGTGGGACGAAAATT 59.961 55.000 0.00 0.00 0.00 1.82
2373 2583 1.916181 GAGGTGGGAGGGAGAATGAAA 59.084 52.381 0.00 0.00 0.00 2.69
2376 2586 1.348775 GGGAGGTGGGAGGGAGAATG 61.349 65.000 0.00 0.00 0.00 2.67
2377 2587 1.004891 GGGAGGTGGGAGGGAGAAT 59.995 63.158 0.00 0.00 0.00 2.40
2378 2588 2.056099 TTGGGAGGTGGGAGGGAGAA 62.056 60.000 0.00 0.00 0.00 2.87
2380 2590 0.921256 AATTGGGAGGTGGGAGGGAG 60.921 60.000 0.00 0.00 0.00 4.30
2381 2591 0.479589 AAATTGGGAGGTGGGAGGGA 60.480 55.000 0.00 0.00 0.00 4.20
2383 2593 1.203174 ACAAAATTGGGAGGTGGGAGG 60.203 52.381 0.00 0.00 0.00 4.30
2445 2657 2.108568 AAACGTTGGGTTTGTCCGG 58.891 52.632 0.00 0.00 46.81 5.14
2516 3448 6.650120 AGATTGATTACCATCCGTTAGTTGT 58.350 36.000 0.00 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.