Multiple sequence alignment - TraesCS2D01G474800

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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 TraesCS2D01G474800 chr2D 100.000 4603 0 0 1 4603 577582906 577578304 0.000000e+00 8501.0
1 TraesCS2D01G474800 chr2D 93.007 1287 66 12 2400 3678 577442150 577443420 0.000000e+00 1857.0
2 TraesCS2D01G474800 chr2D 90.145 1238 104 9 1172 2398 577440836 577442066 0.000000e+00 1594.0
3 TraesCS2D01G474800 chr2D 84.703 1582 158 38 3005 4539 577537959 577539503 0.000000e+00 1504.0
4 TraesCS2D01G474800 chr2D 86.808 1372 133 24 988 2329 577802853 577801500 0.000000e+00 1487.0
5 TraesCS2D01G474800 chr2D 85.970 1340 146 17 996 2309 577536221 577537544 0.000000e+00 1395.0
6 TraesCS2D01G474800 chr2D 85.176 1221 103 32 2414 3598 577801338 577800160 0.000000e+00 1181.0
7 TraesCS2D01G474800 chr2D 83.948 461 50 11 3172 3614 577827647 577827193 1.980000e-113 420.0
8 TraesCS2D01G474800 chr2D 86.124 209 7 12 940 1134 577440655 577440855 6.040000e-49 206.0
9 TraesCS2D01G474800 chr2D 83.243 185 25 6 2411 2590 578308920 578309103 1.020000e-36 165.0
10 TraesCS2D01G474800 chr2B 92.702 2439 117 23 6 2401 695105854 695108274 0.000000e+00 3461.0
11 TraesCS2D01G474800 chr2B 91.139 2178 116 30 2400 4539 695108389 695110527 0.000000e+00 2881.0
12 TraesCS2D01G474800 chr2B 88.248 1421 132 15 988 2392 695379990 695378589 0.000000e+00 1666.0
13 TraesCS2D01G474800 chr2B 84.756 1581 159 35 3005 4539 695170371 695168827 0.000000e+00 1509.0
14 TraesCS2D01G474800 chr2B 84.833 1345 158 18 996 2309 695172117 695170788 0.000000e+00 1312.0
15 TraesCS2D01G474800 chr2B 81.965 865 132 13 988 1833 695414334 695413475 0.000000e+00 712.0
16 TraesCS2D01G474800 chr2B 87.640 623 50 14 2453 3055 695378393 695377778 0.000000e+00 699.0
17 TraesCS2D01G474800 chr2B 82.976 699 76 20 2953 3621 695410486 695409801 3.970000e-165 592.0
18 TraesCS2D01G474800 chr2B 82.544 676 74 22 2953 3614 695437173 695436528 5.200000e-154 555.0
19 TraesCS2D01G474800 chr2B 86.364 110 9 5 2453 2561 695411640 695411536 1.050000e-21 115.0
20 TraesCS2D01G474800 chr2B 86.364 110 9 5 2453 2561 695438326 695438222 1.050000e-21 115.0
21 TraesCS2D01G474800 chr2B 96.552 58 1 1 2400 2457 695378500 695378444 1.360000e-15 95.3
22 TraesCS2D01G474800 chr2A 92.613 2044 85 18 2 2015 715879643 715881650 0.000000e+00 2878.0
23 TraesCS2D01G474800 chr2A 97.175 1062 15 4 2881 3930 715890376 715891434 0.000000e+00 1781.0
24 TraesCS2D01G474800 chr2A 87.347 1557 144 26 869 2404 715951325 715949801 0.000000e+00 1735.0
25 TraesCS2D01G474800 chr2A 84.426 1586 166 34 3005 4542 715916259 715914707 0.000000e+00 1485.0
26 TraesCS2D01G474800 chr2A 85.471 1349 146 19 996 2309 715917977 715916644 0.000000e+00 1360.0
27 TraesCS2D01G474800 chr2A 86.204 1312 94 31 2400 3678 715949723 715948466 0.000000e+00 1339.0
28 TraesCS2D01G474800 chr2A 82.737 1425 195 31 988 2372 716163640 716165053 0.000000e+00 1221.0
29 TraesCS2D01G474800 chr2A 95.749 494 13 3 2400 2890 715887905 715888393 0.000000e+00 789.0
30 TraesCS2D01G474800 chr2A 87.542 594 45 12 4011 4583 715891474 715892059 0.000000e+00 660.0
31 TraesCS2D01G474800 chr2A 98.056 360 6 1 2042 2401 715881650 715882008 3.910000e-175 625.0
32 TraesCS2D01G474800 chr2A 97.527 364 4 2 2042 2401 715887428 715887790 6.540000e-173 617.0
33 TraesCS2D01G474800 chr2A 79.972 714 88 33 2998 3691 716169254 716169932 4.170000e-130 475.0
34 TraesCS2D01G474800 chr2A 93.810 210 8 1 2400 2609 715882123 715882327 1.240000e-80 311.0
35 TraesCS2D01G474800 chrUn 86.916 107 8 5 2453 2558 476501721 476501822 1.050000e-21 115.0
36 TraesCS2D01G474800 chr7B 78.295 129 25 2 500 626 682924202 682924329 3.820000e-11 80.5


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 TraesCS2D01G474800 chr2D 577578304 577582906 4602 True 8501.000000 8501 100.000000 1 4603 1 chr2D.!!$R1 4602
1 TraesCS2D01G474800 chr2D 577536221 577539503 3282 False 1449.500000 1504 85.336500 996 4539 2 chr2D.!!$F3 3543
2 TraesCS2D01G474800 chr2D 577800160 577802853 2693 True 1334.000000 1487 85.992000 988 3598 2 chr2D.!!$R3 2610
3 TraesCS2D01G474800 chr2D 577440655 577443420 2765 False 1219.000000 1857 89.758667 940 3678 3 chr2D.!!$F2 2738
4 TraesCS2D01G474800 chr2B 695105854 695110527 4673 False 3171.000000 3461 91.920500 6 4539 2 chr2B.!!$F1 4533
5 TraesCS2D01G474800 chr2B 695168827 695172117 3290 True 1410.500000 1509 84.794500 996 4539 2 chr2B.!!$R1 3543
6 TraesCS2D01G474800 chr2B 695377778 695379990 2212 True 820.100000 1666 90.813333 988 3055 3 chr2B.!!$R2 2067
7 TraesCS2D01G474800 chr2B 695409801 695414334 4533 True 473.000000 712 83.768333 988 3621 3 chr2B.!!$R3 2633
8 TraesCS2D01G474800 chr2B 695436528 695438326 1798 True 335.000000 555 84.454000 2453 3614 2 chr2B.!!$R4 1161
9 TraesCS2D01G474800 chr2A 715948466 715951325 2859 True 1537.000000 1735 86.775500 869 3678 2 chr2A.!!$R2 2809
10 TraesCS2D01G474800 chr2A 715914707 715917977 3270 True 1422.500000 1485 84.948500 996 4542 2 chr2A.!!$R1 3546
11 TraesCS2D01G474800 chr2A 715879643 715882327 2684 False 1271.333333 2878 94.826333 2 2609 3 chr2A.!!$F3 2607
12 TraesCS2D01G474800 chr2A 716163640 716165053 1413 False 1221.000000 1221 82.737000 988 2372 1 chr2A.!!$F1 1384
13 TraesCS2D01G474800 chr2A 715887428 715892059 4631 False 961.750000 1781 94.498250 2042 4583 4 chr2A.!!$F4 2541
14 TraesCS2D01G474800 chr2A 716169254 716169932 678 False 475.000000 475 79.972000 2998 3691 1 chr2A.!!$F2 693

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
818 837 0.320771 ACTGCCTAACAACCTGAGCG 60.321 55.000 0.0 0.0 0.00 5.03 F
951 990 0.333312 TCCTCAGTCCTCACTCCTCC 59.667 60.000 0.0 0.0 0.00 4.30 F
952 991 0.334676 CCTCAGTCCTCACTCCTCCT 59.665 60.000 0.0 0.0 0.00 3.69 F
953 992 1.684869 CCTCAGTCCTCACTCCTCCTC 60.685 61.905 0.0 0.0 0.00 3.71 F
2023 3249 1.948104 TGTGTACTTTGCACTTCGCT 58.052 45.000 0.0 0.0 43.06 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2563 4130 5.459107 CACTACTGCAAAACCTAGCTATACG 59.541 44.000 0.00 0.00 0.00 3.06 R
2893 5219 3.995048 GGACTTAACGGATGGCTAATAGC 59.005 47.826 3.17 3.17 41.46 2.97 R
2894 5220 4.235360 CGGACTTAACGGATGGCTAATAG 58.765 47.826 0.00 0.00 0.00 1.73 R
3067 7449 6.237901 TGATACACCACTGCATTCTAAAACT 58.762 36.000 0.00 0.00 0.00 2.66 R
3731 8174 0.325933 TCTCCTGCCAACCAGTCATG 59.674 55.000 0.00 0.00 40.06 3.07 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 1.227438 TCGCCTACGCTAAATGCCC 60.227 57.895 0.00 0.00 39.84 5.36
22 23 1.522806 CGCCTACGCTAAATGCCCA 60.523 57.895 0.00 0.00 38.78 5.36
173 174 4.388165 CCTGCATCGTACTCATCAATCATC 59.612 45.833 0.00 0.00 0.00 2.92
180 181 3.531934 ACTCATCAATCATCGAGTGCA 57.468 42.857 0.00 0.00 37.34 4.57
260 261 3.073503 TGGATCCATCAAGATGTCCATCC 59.926 47.826 11.44 16.39 38.37 3.51
261 262 2.916702 TCCATCAAGATGTCCATCCG 57.083 50.000 9.04 0.00 38.58 4.18
340 343 3.845259 GCCTCGCCCACCATCGTA 61.845 66.667 0.00 0.00 0.00 3.43
373 376 4.717629 TCTGACGCACGAAGCCCG 62.718 66.667 0.00 0.00 41.38 6.13
399 402 0.826715 CACGAGATGTCCTGGTCCAT 59.173 55.000 0.00 0.00 31.04 3.41
459 466 1.372582 CGCGCATATGAATATGGCCT 58.627 50.000 8.75 0.00 40.31 5.19
460 467 1.063027 CGCGCATATGAATATGGCCTG 59.937 52.381 8.75 0.00 40.31 4.85
461 468 1.402968 GCGCATATGAATATGGCCTGG 59.597 52.381 6.97 0.00 40.31 4.45
462 469 2.019249 CGCATATGAATATGGCCTGGG 58.981 52.381 6.97 0.00 40.31 4.45
505 512 3.901844 GGGGTCCTAGATGCACTGTATTA 59.098 47.826 0.00 0.00 0.00 0.98
509 516 6.663953 GGGTCCTAGATGCACTGTATTATCTA 59.336 42.308 0.00 0.00 32.54 1.98
559 566 3.144285 ACGCGAGTCCCCTTTTCA 58.856 55.556 15.93 0.00 44.19 2.69
587 596 1.722464 CAAAGCAACAATGGATGCACG 59.278 47.619 14.09 0.00 44.50 5.34
625 636 3.508840 CCCACGCTCCAAATCGCC 61.509 66.667 0.00 0.00 0.00 5.54
818 837 0.320771 ACTGCCTAACAACCTGAGCG 60.321 55.000 0.00 0.00 0.00 5.03
858 892 3.833070 GAGAACAGGGAGGAGAGTGTTAA 59.167 47.826 0.00 0.00 33.30 2.01
859 893 3.579151 AGAACAGGGAGGAGAGTGTTAAC 59.421 47.826 0.00 0.00 33.30 2.01
951 990 0.333312 TCCTCAGTCCTCACTCCTCC 59.667 60.000 0.00 0.00 0.00 4.30
952 991 0.334676 CCTCAGTCCTCACTCCTCCT 59.665 60.000 0.00 0.00 0.00 3.69
953 992 1.684869 CCTCAGTCCTCACTCCTCCTC 60.685 61.905 0.00 0.00 0.00 3.71
2023 3249 1.948104 TGTGTACTTTGCACTTCGCT 58.052 45.000 0.00 0.00 43.06 4.93
2816 4648 5.928698 ATGTGCACATGATTATCCCAATGGA 60.929 40.000 30.92 0.00 39.15 3.41
2887 5213 6.402222 GCTTTCTAGCTATAGGTGCATACAT 58.598 40.000 14.72 0.00 44.27 2.29
2888 5214 7.548097 GCTTTCTAGCTATAGGTGCATACATA 58.452 38.462 14.72 0.00 44.27 2.29
2889 5215 8.200792 GCTTTCTAGCTATAGGTGCATACATAT 58.799 37.037 14.72 0.00 44.27 1.78
2893 5219 9.355916 TCTAGCTATAGGTGCATACATATTAGG 57.644 37.037 14.72 0.00 35.58 2.69
2894 5220 6.821388 AGCTATAGGTGCATACATATTAGGC 58.179 40.000 3.03 0.00 35.58 3.93
3170 7552 3.733443 AAATTCTGTTCCCTTGCACAC 57.267 42.857 0.00 0.00 0.00 3.82
3453 7843 7.276438 GGAAAATCATTGGTTTAGATGAACTGC 59.724 37.037 0.00 0.00 36.03 4.40
3642 8080 2.480419 AGTGAGTGAGTTATTGTTGCGC 59.520 45.455 0.00 0.00 0.00 6.09
3731 8174 3.563808 TGCGACCATCATTAGTATTTGGC 59.436 43.478 0.00 0.00 0.00 4.52
3857 8306 6.397998 CGAGCGAGTTTGACGATCATATTAAG 60.398 42.308 0.00 0.00 44.53 1.85
3956 8416 2.900122 TCATAACTGCGCTGCTTTTC 57.100 45.000 14.80 0.00 0.00 2.29
4102 8565 2.390599 CGGTGACACGGCAATCTGG 61.391 63.158 0.00 0.00 0.00 3.86
4136 8599 1.095228 ATGTTGTAATCCGGCCGCAG 61.095 55.000 22.85 7.49 0.00 5.18
4313 8796 3.360340 GCAGCAGCACACTGTCCC 61.360 66.667 0.00 0.00 46.30 4.46
4314 8797 2.670934 CAGCAGCACACTGTCCCC 60.671 66.667 0.00 0.00 46.30 4.81
4315 8798 3.170672 AGCAGCACACTGTCCCCA 61.171 61.111 0.00 0.00 46.30 4.96
4316 8799 2.203337 GCAGCACACTGTCCCCAA 60.203 61.111 0.00 0.00 46.30 4.12
4386 8870 1.464608 GCAGCATTGAGTAGTTTGCGA 59.535 47.619 0.00 0.00 40.00 5.10
4495 8990 2.683362 GGATTTCAGGGGACACGATTTC 59.317 50.000 0.00 0.00 0.00 2.17
4568 9063 1.271543 ACTAGCACAGAAGCATTGCCA 60.272 47.619 4.70 0.00 36.91 4.92
4570 9065 0.601558 AGCACAGAAGCATTGCCAAG 59.398 50.000 4.70 0.00 36.91 3.61
4578 9073 1.533625 AGCATTGCCAAGCGAAGTTA 58.466 45.000 4.70 0.00 35.48 2.24
4583 9078 2.024176 TGCCAAGCGAAGTTAGGATC 57.976 50.000 0.00 0.00 0.00 3.36
4584 9079 1.277842 TGCCAAGCGAAGTTAGGATCA 59.722 47.619 0.00 0.00 0.00 2.92
4585 9080 2.290008 TGCCAAGCGAAGTTAGGATCAA 60.290 45.455 0.00 0.00 0.00 2.57
4586 9081 2.945668 GCCAAGCGAAGTTAGGATCAAT 59.054 45.455 0.00 0.00 0.00 2.57
4587 9082 3.002759 GCCAAGCGAAGTTAGGATCAATC 59.997 47.826 0.00 0.00 0.00 2.67
4588 9083 4.191544 CCAAGCGAAGTTAGGATCAATCA 58.808 43.478 0.00 0.00 0.00 2.57
4589 9084 4.818546 CCAAGCGAAGTTAGGATCAATCAT 59.181 41.667 0.00 0.00 0.00 2.45
4590 9085 5.991606 CCAAGCGAAGTTAGGATCAATCATA 59.008 40.000 0.00 0.00 0.00 2.15
4591 9086 6.652481 CCAAGCGAAGTTAGGATCAATCATAT 59.348 38.462 0.00 0.00 0.00 1.78
4592 9087 7.173907 CCAAGCGAAGTTAGGATCAATCATATT 59.826 37.037 0.00 0.00 0.00 1.28
4593 9088 9.208022 CAAGCGAAGTTAGGATCAATCATATTA 57.792 33.333 0.00 0.00 0.00 0.98
4594 9089 8.764524 AGCGAAGTTAGGATCAATCATATTAC 57.235 34.615 0.00 0.00 0.00 1.89
4595 9090 7.819900 AGCGAAGTTAGGATCAATCATATTACC 59.180 37.037 0.00 0.00 0.00 2.85
4596 9091 7.201444 GCGAAGTTAGGATCAATCATATTACCG 60.201 40.741 0.00 0.00 0.00 4.02
4597 9092 7.201444 CGAAGTTAGGATCAATCATATTACCGC 60.201 40.741 0.00 0.00 0.00 5.68
4598 9093 6.407202 AGTTAGGATCAATCATATTACCGCC 58.593 40.000 0.00 0.00 0.00 6.13
4599 9094 4.222124 AGGATCAATCATATTACCGCCC 57.778 45.455 0.00 0.00 0.00 6.13
4600 9095 3.846588 AGGATCAATCATATTACCGCCCT 59.153 43.478 0.00 0.00 0.00 5.19
4601 9096 5.030147 AGGATCAATCATATTACCGCCCTA 58.970 41.667 0.00 0.00 0.00 3.53
4602 9097 5.129485 AGGATCAATCATATTACCGCCCTAG 59.871 44.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.170062 CGCTTCTGGGTGCGCATG 62.170 66.667 15.91 4.74 45.50 4.06
127 128 0.532862 CCGCTGTGAGAGGTGTTTGT 60.533 55.000 0.00 0.00 29.89 2.83
129 130 0.468226 TTCCGCTGTGAGAGGTGTTT 59.532 50.000 0.00 0.00 36.49 2.83
173 174 0.461516 ATCCAGCACATCTGCACTCG 60.462 55.000 0.00 0.00 46.97 4.18
180 181 4.221530 TCTACTCATCATCCAGCACATCT 58.778 43.478 0.00 0.00 0.00 2.90
270 272 1.226491 GCAACTGCCGACATGATGC 60.226 57.895 0.00 0.00 34.31 3.91
275 277 2.434884 CCGAGCAACTGCCGACAT 60.435 61.111 12.26 0.00 43.38 3.06
276 278 3.573772 CTCCGAGCAACTGCCGACA 62.574 63.158 12.26 0.00 43.38 4.35
339 342 2.503765 TCAGAATTCGTGAATGGGGCTA 59.496 45.455 0.00 0.00 0.00 3.93
340 343 1.281867 TCAGAATTCGTGAATGGGGCT 59.718 47.619 0.00 0.00 0.00 5.19
373 376 3.347411 GGACATCTCGTGTGCCTAC 57.653 57.895 0.00 0.00 42.75 3.18
387 390 2.187958 CCTGAACTATGGACCAGGACA 58.812 52.381 13.29 0.00 46.84 4.02
399 402 2.682856 GGCGCATGATTTTCCTGAACTA 59.317 45.455 10.83 0.00 0.00 2.24
413 416 0.248336 TCGACGTTAGTAGGCGCATG 60.248 55.000 10.83 0.00 0.00 4.06
459 466 0.681564 AAAAACAGTGCGTCCACCCA 60.682 50.000 0.00 0.00 43.09 4.51
460 467 2.112029 AAAAACAGTGCGTCCACCC 58.888 52.632 0.00 0.00 43.09 4.61
481 488 1.762460 AGTGCATCTAGGACCCCCG 60.762 63.158 0.00 0.00 39.79 5.73
482 489 0.983378 ACAGTGCATCTAGGACCCCC 60.983 60.000 0.00 0.00 39.79 5.40
483 490 1.789523 TACAGTGCATCTAGGACCCC 58.210 55.000 0.00 0.00 39.79 4.95
491 498 9.486123 AGGATACATAGATAATACAGTGCATCT 57.514 33.333 0.00 0.00 41.41 2.90
505 512 8.588290 AGCGAGAAGAATAAGGATACATAGAT 57.412 34.615 0.00 0.00 41.41 1.98
509 516 7.337184 TCGATAGCGAGAAGAATAAGGATACAT 59.663 37.037 0.00 0.00 42.51 2.29
559 566 6.350906 CATCCATTGTTGCTTTGGGATATTT 58.649 36.000 0.00 0.00 33.57 1.40
587 596 0.469917 TCAGATGAGCCCGAAATCCC 59.530 55.000 0.00 0.00 0.00 3.85
611 622 4.760047 AGCGGCGATTTGGAGCGT 62.760 61.111 12.98 0.00 36.94 5.07
625 636 4.392138 AGAACCGAAGAAAAATAGGAAGCG 59.608 41.667 0.00 0.00 0.00 4.68
712 723 8.844244 GTTCAAATCTGATTGCTCCTATTACAT 58.156 33.333 3.22 0.00 0.00 2.29
713 724 7.828717 TGTTCAAATCTGATTGCTCCTATTACA 59.171 33.333 3.22 0.00 0.00 2.41
714 725 8.213518 TGTTCAAATCTGATTGCTCCTATTAC 57.786 34.615 3.22 0.00 0.00 1.89
715 726 8.806429 TTGTTCAAATCTGATTGCTCCTATTA 57.194 30.769 3.22 0.00 0.00 0.98
818 837 8.474025 CCTGTTCTCTAGGGATGAATGTATATC 58.526 40.741 0.00 0.00 0.00 1.63
845 879 2.608268 GCTTCCGTTAACACTCTCCTC 58.392 52.381 6.39 0.00 0.00 3.71
873 910 2.286365 AGCGAGATAGAGGGAAGGAG 57.714 55.000 0.00 0.00 0.00 3.69
951 990 1.880340 CTAGCCGCGCTTGGAAGAG 60.880 63.158 5.56 0.00 40.44 2.85
952 991 2.184322 CTAGCCGCGCTTGGAAGA 59.816 61.111 5.56 0.00 40.44 2.87
2023 3249 6.903516 ACTGATCCACATAATTCTTCCATGA 58.096 36.000 0.00 0.00 0.00 3.07
2394 3696 9.247861 TCTCAATGCTACTGCTATCATAGATTA 57.752 33.333 0.00 0.00 40.48 1.75
2396 3698 7.715266 TCTCAATGCTACTGCTATCATAGAT 57.285 36.000 0.00 0.00 40.48 1.98
2464 3961 9.311916 CTTTTAAACACCATTGACAAATCAGAA 57.688 29.630 0.00 0.00 35.83 3.02
2465 4018 8.474025 ACTTTTAAACACCATTGACAAATCAGA 58.526 29.630 0.00 0.00 35.83 3.27
2563 4130 5.459107 CACTACTGCAAAACCTAGCTATACG 59.541 44.000 0.00 0.00 0.00 3.06
2893 5219 3.995048 GGACTTAACGGATGGCTAATAGC 59.005 47.826 3.17 3.17 41.46 2.97
2894 5220 4.235360 CGGACTTAACGGATGGCTAATAG 58.765 47.826 0.00 0.00 0.00 1.73
3067 7449 6.237901 TGATACACCACTGCATTCTAAAACT 58.762 36.000 0.00 0.00 0.00 2.66
3170 7552 9.801714 GAATTCAAGTTTTTATGCAGACAAATG 57.198 29.630 0.00 0.00 0.00 2.32
3453 7843 7.022055 AGACACGATCTCTCACAGTTATTAG 57.978 40.000 0.00 0.00 28.16 1.73
3633 8059 1.806542 CTGAAGTACCAGCGCAACAAT 59.193 47.619 11.47 0.00 0.00 2.71
3642 8080 5.701290 CAGAACCTAAAACCTGAAGTACCAG 59.299 44.000 0.00 0.00 0.00 4.00
3731 8174 0.325933 TCTCCTGCCAACCAGTCATG 59.674 55.000 0.00 0.00 40.06 3.07
3759 8203 7.018826 GCAAACGTACATAAATGCACTTCTAA 58.981 34.615 0.00 0.00 34.10 2.10
3760 8204 6.370442 AGCAAACGTACATAAATGCACTTCTA 59.630 34.615 0.00 0.00 36.30 2.10
4102 8565 2.174334 ACATGACTGATGTTGCGGC 58.826 52.632 0.00 0.00 43.20 6.53
4136 8599 1.135689 GGATTGCAACATGACCGACAC 60.136 52.381 0.00 0.00 0.00 3.67
4164 8628 2.126424 GTCACCGTCCTGCTCGTC 60.126 66.667 0.00 0.00 0.00 4.20
4308 8791 2.840753 GCTTGGGGACTTGGGGACA 61.841 63.158 0.00 0.00 39.83 4.02
4309 8792 2.035783 GCTTGGGGACTTGGGGAC 59.964 66.667 0.00 0.00 0.00 4.46
4310 8793 3.646715 CGCTTGGGGACTTGGGGA 61.647 66.667 0.00 0.00 0.00 4.81
4311 8794 3.966543 ACGCTTGGGGACTTGGGG 61.967 66.667 0.00 0.00 0.00 4.96
4312 8795 2.672996 CACGCTTGGGGACTTGGG 60.673 66.667 0.00 0.00 0.00 4.12
4313 8796 2.672996 CCACGCTTGGGGACTTGG 60.673 66.667 0.07 0.00 39.57 3.61
4364 8847 2.350676 CGCAAACTACTCAATGCTGCAA 60.351 45.455 6.36 0.00 36.67 4.08
4421 8905 4.085876 GCACCCAGCATCAACTGT 57.914 55.556 0.00 0.00 44.79 3.55
4495 8990 2.500098 TCATCTAACAGACTTTCGGGGG 59.500 50.000 0.00 0.00 0.00 5.40
4568 9063 9.209175 GTAATATGATTGATCCTAACTTCGCTT 57.791 33.333 0.00 0.00 0.00 4.68
4570 9065 7.201444 CGGTAATATGATTGATCCTAACTTCGC 60.201 40.741 0.00 0.00 0.00 4.70
4578 9073 3.846588 AGGGCGGTAATATGATTGATCCT 59.153 43.478 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.