Multiple sequence alignment - TraesCS3A01G092200

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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 TraesCS3A01G092200 chr3A 100.000 3785 0 0 1 3785 57903723 57907507 0.000000e+00 6990.0
1 TraesCS3A01G092200 chr3A 90.440 1046 90 3 1391 2427 57981158 57980114 0.000000e+00 1369.0
2 TraesCS3A01G092200 chr3A 85.643 599 60 15 314 898 57915627 57916213 1.160000e-169 606.0
3 TraesCS3A01G092200 chr3A 87.467 383 40 7 2595 2975 57968394 57968018 5.810000e-118 435.0
4 TraesCS3A01G092200 chr3A 77.570 321 58 12 3471 3785 57966328 57966016 8.350000e-42 182.0
5 TraesCS3A01G092200 chr3A 95.775 71 3 0 2435 2505 57975401 57975331 8.590000e-22 115.0
6 TraesCS3A01G092200 chr3B 92.285 3357 150 32 1 3293 72714450 72717761 0.000000e+00 4663.0
7 TraesCS3A01G092200 chr3B 88.075 1543 125 27 1480 2975 72923088 72924618 0.000000e+00 1775.0
8 TraesCS3A01G092200 chr3B 89.085 1191 82 20 314 1483 72921765 72922928 0.000000e+00 1435.0
9 TraesCS3A01G092200 chr3B 93.595 484 21 3 3303 3785 72718311 72718785 0.000000e+00 713.0
10 TraesCS3A01G092200 chr3B 86.316 95 9 4 3471 3561 72927028 72927122 2.410000e-17 100.0
11 TraesCS3A01G092200 chr3D 92.356 2538 128 31 2 2505 46484801 46487306 0.000000e+00 3552.0
12 TraesCS3A01G092200 chr3D 87.881 3053 254 69 1 2975 46523971 46526985 0.000000e+00 3482.0
13 TraesCS3A01G092200 chr3D 91.374 1252 65 12 2540 3785 46487379 46488593 0.000000e+00 1674.0
14 TraesCS3A01G092200 chr3D 85.507 69 10 0 3706 3774 560259878 560259810 5.240000e-09 73.1
15 TraesCS3A01G092200 chr6B 76.176 1360 285 26 994 2329 120317174 120315830 0.000000e+00 680.0
16 TraesCS3A01G092200 chr7A 76.187 1369 279 30 994 2337 631984736 631986082 0.000000e+00 678.0
17 TraesCS3A01G092200 chr7B 76.149 1371 276 33 994 2337 591461942 591463288 0.000000e+00 673.0
18 TraesCS3A01G092200 chr7D 76.076 1371 277 32 994 2337 548231394 548232740 0.000000e+00 667.0
19 TraesCS3A01G092200 chr7D 87.500 80 9 1 3400 3478 185135511 185135590 1.450000e-14 91.6
20 TraesCS3A01G092200 chr6D 75.857 1371 286 28 994 2337 51068504 51069856 0.000000e+00 656.0
21 TraesCS3A01G092200 chr1B 75.817 1377 288 28 994 2344 4597252 4595895 0.000000e+00 656.0
22 TraesCS3A01G092200 chr5B 80.592 608 106 10 1767 2368 141148174 141147573 3.450000e-125 459.0
23 TraesCS3A01G092200 chr5B 100.000 29 0 0 3708 3736 660654567 660654595 2.000000e-03 54.7
24 TraesCS3A01G092200 chr5A 80.395 607 109 8 1767 2368 143658944 143658343 1.600000e-123 453.0
25 TraesCS3A01G092200 chr5D 80.066 607 111 8 1767 2368 128642658 128642057 3.470000e-120 442.0
26 TraesCS3A01G092200 chr1A 100.000 28 0 0 3708 3735 314855098 314855125 7.000000e-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 TraesCS3A01G092200 chr3A 57903723 57907507 3784 False 6990.000000 6990 100.000000 1 3785 1 chr3A.!!$F1 3784
1 TraesCS3A01G092200 chr3A 57980114 57981158 1044 True 1369.000000 1369 90.440000 1391 2427 1 chr3A.!!$R2 1036
2 TraesCS3A01G092200 chr3A 57915627 57916213 586 False 606.000000 606 85.643000 314 898 1 chr3A.!!$F2 584
3 TraesCS3A01G092200 chr3A 57966016 57968394 2378 True 308.500000 435 82.518500 2595 3785 2 chr3A.!!$R3 1190
4 TraesCS3A01G092200 chr3B 72714450 72718785 4335 False 2688.000000 4663 92.940000 1 3785 2 chr3B.!!$F1 3784
5 TraesCS3A01G092200 chr3B 72921765 72927122 5357 False 1103.333333 1775 87.825333 314 3561 3 chr3B.!!$F2 3247
6 TraesCS3A01G092200 chr3D 46523971 46526985 3014 False 3482.000000 3482 87.881000 1 2975 1 chr3D.!!$F1 2974
7 TraesCS3A01G092200 chr3D 46484801 46488593 3792 False 2613.000000 3552 91.865000 2 3785 2 chr3D.!!$F2 3783
8 TraesCS3A01G092200 chr6B 120315830 120317174 1344 True 680.000000 680 76.176000 994 2329 1 chr6B.!!$R1 1335
9 TraesCS3A01G092200 chr7A 631984736 631986082 1346 False 678.000000 678 76.187000 994 2337 1 chr7A.!!$F1 1343
10 TraesCS3A01G092200 chr7B 591461942 591463288 1346 False 673.000000 673 76.149000 994 2337 1 chr7B.!!$F1 1343
11 TraesCS3A01G092200 chr7D 548231394 548232740 1346 False 667.000000 667 76.076000 994 2337 1 chr7D.!!$F2 1343
12 TraesCS3A01G092200 chr6D 51068504 51069856 1352 False 656.000000 656 75.857000 994 2337 1 chr6D.!!$F1 1343
13 TraesCS3A01G092200 chr1B 4595895 4597252 1357 True 656.000000 656 75.817000 994 2344 1 chr1B.!!$R1 1350
14 TraesCS3A01G092200 chr5B 141147573 141148174 601 True 459.000000 459 80.592000 1767 2368 1 chr5B.!!$R1 601
15 TraesCS3A01G092200 chr5A 143658343 143658944 601 True 453.000000 453 80.395000 1767 2368 1 chr5A.!!$R1 601
16 TraesCS3A01G092200 chr5D 128642057 128642658 601 True 442.000000 442 80.066000 1767 2368 1 chr5D.!!$R1 601

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
91 100 0.673956 GCCCTTTCCTCTGTTCCGTC 60.674 60.0 0.00 0.0 0.00 4.79 F
1397 1473 1.051812 CTCAGGTTGACCTCCACACT 58.948 55.0 0.00 0.0 46.65 3.55 F
2513 2784 0.181114 AAGGTGTTGCTGACTGCTGA 59.819 50.0 5.87 0.0 43.37 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2019 2275 0.390340 ACGTGTACATGGCAGAGCAG 60.390 55.000 19.05 0.0 0.00 4.24 R
2600 2915 0.108472 CCTGCAGATTCTCTCGCACA 60.108 55.000 17.39 0.0 31.08 4.57 R
3586 6884 1.134670 CAGATTCCCAGTCGAGGAACC 60.135 57.143 6.76 0.0 45.93 3.62 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
60 61 1.335689 CGTTCTTCTCTCCCGTTCGTT 60.336 52.381 0.00 0.00 0.00 3.85
89 98 1.741770 CGCCCTTTCCTCTGTTCCG 60.742 63.158 0.00 0.00 0.00 4.30
90 99 1.375326 GCCCTTTCCTCTGTTCCGT 59.625 57.895 0.00 0.00 0.00 4.69
91 100 0.673956 GCCCTTTCCTCTGTTCCGTC 60.674 60.000 0.00 0.00 0.00 4.79
135 144 1.340405 ACCTCGGTTCGTTAGCTCCTA 60.340 52.381 0.00 0.00 0.00 2.94
167 177 5.489792 TGCTTATAGGATCATGTCTTCCC 57.510 43.478 0.00 0.00 32.05 3.97
173 183 4.769345 AGGATCATGTCTTCCCTTCTTC 57.231 45.455 0.00 0.00 32.05 2.87
203 213 5.953548 TGGATGGTTGATTGACAGATGAAAT 59.046 36.000 0.00 0.00 0.00 2.17
210 231 7.965107 GGTTGATTGACAGATGAAATTGTAGTC 59.035 37.037 0.00 0.00 0.00 2.59
217 238 6.951971 ACAGATGAAATTGTAGTCCTTAGCT 58.048 36.000 0.00 0.00 0.00 3.32
226 247 8.685838 AATTGTAGTCCTTAGCTTTGTTGTTA 57.314 30.769 0.00 0.00 0.00 2.41
249 270 4.767928 ACGGTTAATTTTTATGCCCAGTCA 59.232 37.500 0.00 0.00 0.00 3.41
381 420 4.826274 ATGTCCGAGATTTCTTCCTTGA 57.174 40.909 0.00 0.00 0.00 3.02
397 436 4.419282 TCCTTGATTTCATTTTCCCAGCT 58.581 39.130 0.00 0.00 0.00 4.24
415 454 5.954752 CCCAGCTATTCCAGATATGTCTCTA 59.045 44.000 0.00 0.00 30.42 2.43
430 469 9.197694 GATATGTCTCTACATTATTGTGTGACC 57.802 37.037 0.48 0.00 44.07 4.02
632 687 7.553044 ACTTAATGTCCAAAGGAGTATGTTAGC 59.447 37.037 0.00 0.00 29.39 3.09
717 782 3.058914 GGAGGTTTTCATGTGTTCAGTCG 60.059 47.826 0.00 0.00 0.00 4.18
733 798 6.769134 TTCAGTCGGAACAGTATTATCTCA 57.231 37.500 0.00 0.00 0.00 3.27
791 857 7.394923 TCCCTTCTTTCTTTATTATTTCGGCAA 59.605 33.333 0.00 0.00 0.00 4.52
894 970 5.913514 TCTTTATCGCTATCGCTAAAGTGAC 59.086 40.000 17.07 0.00 46.27 3.67
931 1007 7.440556 TGCTATGCTTAACTCTGATTCTCATTC 59.559 37.037 0.00 0.00 0.00 2.67
940 1016 7.612668 ACTCTGATTCTCATTCATTTCTGTG 57.387 36.000 0.00 0.00 0.00 3.66
1397 1473 1.051812 CTCAGGTTGACCTCCACACT 58.948 55.000 0.00 0.00 46.65 3.55
1423 1500 2.464157 AACTTCAAGAGGGCTTCTCG 57.536 50.000 0.00 0.00 46.82 4.04
1726 1966 9.112725 TGAATATGTATGATTTCAGTTGTGAGG 57.887 33.333 0.00 0.00 32.98 3.86
2019 2275 4.217118 AGTGTTGATCTCACATTTTCAGGC 59.783 41.667 18.44 0.00 38.16 4.85
2071 2327 1.535687 ACACGGAAGGGCCTAGTGT 60.536 57.895 26.47 26.47 40.69 3.55
2098 2354 2.288961 TAAGTCTTGCCCGATTCGTC 57.711 50.000 5.20 0.00 0.00 4.20
2100 2356 1.471119 AGTCTTGCCCGATTCGTCTA 58.529 50.000 5.20 0.00 0.00 2.59
2101 2357 1.822990 AGTCTTGCCCGATTCGTCTAA 59.177 47.619 5.20 0.00 0.00 2.10
2401 2665 4.021104 CCAGATCAGTTCAAGTCTGTACCA 60.021 45.833 0.00 0.00 37.08 3.25
2413 2677 0.457509 CTGTACCACTCAGCGAGCTG 60.458 60.000 18.20 18.20 44.86 4.24
2420 2684 1.069636 CACTCAGCGAGCTGGAAAAAC 60.070 52.381 22.93 0.00 43.75 2.43
2483 2754 5.993748 TTTGTCAGTTCAAAACCCTCTTT 57.006 34.783 0.00 0.00 34.90 2.52
2507 2778 2.498167 AGTGATCAAGGTGTTGCTGAC 58.502 47.619 0.00 0.00 33.23 3.51
2513 2784 0.181114 AAGGTGTTGCTGACTGCTGA 59.819 50.000 5.87 0.00 43.37 4.26
2514 2785 0.250209 AGGTGTTGCTGACTGCTGAG 60.250 55.000 5.87 0.00 43.37 3.35
2516 2787 0.585357 GTGTTGCTGACTGCTGAGTG 59.415 55.000 5.87 0.00 43.37 3.51
2517 2788 1.162181 TGTTGCTGACTGCTGAGTGC 61.162 55.000 5.87 0.00 43.37 4.40
2518 2789 0.883814 GTTGCTGACTGCTGAGTGCT 60.884 55.000 5.87 0.00 43.37 4.40
2519 2790 0.883370 TTGCTGACTGCTGAGTGCTG 60.883 55.000 5.87 0.00 44.70 4.41
2520 2791 2.033755 GCTGACTGCTGAGTGCTGG 61.034 63.158 0.00 0.00 43.66 4.85
2537 2850 1.137872 CTGGCTCCGTTATGCTTCTCT 59.862 52.381 0.00 0.00 0.00 3.10
2550 2863 4.792521 TGCTTCTCTGTCTTCTCCTTAC 57.207 45.455 0.00 0.00 0.00 2.34
2559 2872 4.337145 TGTCTTCTCCTTACCTCTCTGAC 58.663 47.826 0.00 0.00 0.00 3.51
2573 2888 4.498682 CCTCTCTGACCTTGTTTTTGCTTG 60.499 45.833 0.00 0.00 0.00 4.01
2583 2898 4.278975 TGTTTTTGCTTGGACCTTTTGT 57.721 36.364 0.00 0.00 0.00 2.83
2600 2915 3.460857 TTGTTGCCGTTATTTGCCTTT 57.539 38.095 0.00 0.00 0.00 3.11
2677 2994 6.655003 TGCTCTTGTAGTTTATTTTCCTCAGG 59.345 38.462 0.00 0.00 0.00 3.86
2746 3063 6.072008 GGTTTTTGCTGCCCAAATTATCAAAT 60.072 34.615 0.00 0.00 42.63 2.32
2820 3143 7.458409 AGTAGTTTTCGAGACTTATGTACCA 57.542 36.000 8.55 0.00 0.00 3.25
2821 3144 7.536855 AGTAGTTTTCGAGACTTATGTACCAG 58.463 38.462 8.55 0.00 0.00 4.00
2822 3145 6.342338 AGTTTTCGAGACTTATGTACCAGT 57.658 37.500 0.00 0.00 0.00 4.00
2823 3146 7.458409 AGTTTTCGAGACTTATGTACCAGTA 57.542 36.000 0.00 0.00 0.00 2.74
2824 3147 7.311408 AGTTTTCGAGACTTATGTACCAGTAC 58.689 38.462 0.86 0.86 36.63 2.73
2825 3148 7.176340 AGTTTTCGAGACTTATGTACCAGTACT 59.824 37.037 9.24 0.00 37.00 2.73
2826 3149 8.454106 GTTTTCGAGACTTATGTACCAGTACTA 58.546 37.037 9.24 0.00 37.00 1.82
2827 3150 8.565896 TTTCGAGACTTATGTACCAGTACTAA 57.434 34.615 9.24 5.11 37.00 2.24
2887 3210 8.504815 CACATGAATTATCAAAAATTGTTGGCA 58.495 29.630 8.51 0.00 39.49 4.92
2939 3263 3.135712 TCAGAGTTTTGTTGGCCTCTACA 59.864 43.478 3.32 2.74 33.13 2.74
2979 3335 1.743958 TCGCCCGTTTTGTTTCTTTCA 59.256 42.857 0.00 0.00 0.00 2.69
2989 3345 3.577649 TGTTTCTTTCAAAACGGCACA 57.422 38.095 0.00 0.00 41.12 4.57
3013 3369 3.649073 CAGTGTACCGTCACTTGATTCA 58.351 45.455 3.08 0.00 44.92 2.57
3022 3378 3.815401 CGTCACTTGATTCAGAAAACCCT 59.185 43.478 0.00 0.00 0.00 4.34
3023 3379 4.319766 CGTCACTTGATTCAGAAAACCCTG 60.320 45.833 0.00 0.00 35.55 4.45
3024 3380 4.821805 GTCACTTGATTCAGAAAACCCTGA 59.178 41.667 0.00 0.00 41.06 3.86
3158 4479 6.981762 TTCAATTGCACAAATGAAACAACT 57.018 29.167 10.62 0.00 37.30 3.16
3177 4498 8.974060 AACAACTCAGATAACAAAGGTTTCTA 57.026 30.769 0.00 0.00 38.45 2.10
3283 6034 2.866762 GCGTTCTAAGGGCATCTACAAG 59.133 50.000 0.00 0.00 0.00 3.16
3288 6039 3.641906 TCTAAGGGCATCTACAAGGCTAC 59.358 47.826 0.00 0.00 0.00 3.58
3298 6049 0.036306 ACAAGGCTACCCCTCAAACG 59.964 55.000 0.00 0.00 45.62 3.60
3299 6050 0.676782 CAAGGCTACCCCTCAAACGG 60.677 60.000 0.00 0.00 45.62 4.44
3429 6723 9.682465 CAATCAAAGATAGATACCATGATCCAT 57.318 33.333 0.00 0.00 0.00 3.41
3430 6724 9.902684 AATCAAAGATAGATACCATGATCCATC 57.097 33.333 0.00 0.00 0.00 3.51
3431 6725 8.439964 TCAAAGATAGATACCATGATCCATCA 57.560 34.615 0.00 0.00 41.70 3.07
3432 6726 8.883302 TCAAAGATAGATACCATGATCCATCAA 58.117 33.333 0.00 0.00 40.69 2.57
3433 6727 9.682465 CAAAGATAGATACCATGATCCATCAAT 57.318 33.333 0.00 0.00 40.69 2.57
3564 6862 2.019249 CGTCCACAAATGCTCCATCAT 58.981 47.619 0.00 0.00 0.00 2.45
3566 6864 3.002656 CGTCCACAAATGCTCCATCATAC 59.997 47.826 0.00 0.00 0.00 2.39
3586 6884 8.879342 TCATACCATTTTAAAGTTGTGTTTGG 57.121 30.769 0.00 0.00 0.00 3.28
3596 6894 1.332686 GTTGTGTTTGGGTTCCTCGAC 59.667 52.381 0.00 0.00 0.00 4.20
3609 6907 3.595190 TCCTCGACTGGGAATCTGATA 57.405 47.619 0.00 0.00 0.00 2.15
3618 6916 3.678289 TGGGAATCTGATAATGCATCCG 58.322 45.455 0.00 0.00 32.09 4.18
3672 6970 4.256920 CTCAAGAAACCGGACAAGATCAT 58.743 43.478 9.46 0.00 0.00 2.45
3721 7019 0.547471 TTGCCTCACCCTCATCCTCA 60.547 55.000 0.00 0.00 0.00 3.86
3750 7048 5.123661 TCATGTTGTGCGTGATCACATAAAT 59.876 36.000 24.93 6.59 45.26 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 98 2.476997 GCTGTTTTCTTCAGACGGAGAC 59.523 50.000 0.00 0.00 35.20 3.36
90 99 2.365617 AGCTGTTTTCTTCAGACGGAGA 59.634 45.455 0.00 0.00 35.20 3.71
91 100 2.734079 GAGCTGTTTTCTTCAGACGGAG 59.266 50.000 0.00 0.00 35.20 4.63
135 144 8.216423 ACATGATCCTATAAGCATCTGAAGTTT 58.784 33.333 0.00 0.00 0.00 2.66
173 183 3.443329 TGTCAATCAACCATCCAAATCGG 59.557 43.478 0.00 0.00 0.00 4.18
203 213 6.201425 CGTAACAACAAAGCTAAGGACTACAA 59.799 38.462 0.00 0.00 0.00 2.41
210 231 4.823790 AACCGTAACAACAAAGCTAAGG 57.176 40.909 0.00 0.00 0.00 2.69
217 238 8.762426 GGCATAAAAATTAACCGTAACAACAAA 58.238 29.630 0.00 0.00 0.00 2.83
226 247 4.767928 TGACTGGGCATAAAAATTAACCGT 59.232 37.500 0.00 0.00 0.00 4.83
277 298 1.613925 TCTGCTGAGCGACACTAAAGT 59.386 47.619 0.00 0.00 0.00 2.66
381 420 6.197168 TCTGGAATAGCTGGGAAAATGAAAT 58.803 36.000 0.00 0.00 0.00 2.17
415 454 5.450818 ACCCATAGGTCACACAATAATGT 57.549 39.130 0.00 0.00 46.45 2.71
430 469 4.074970 AGCAGACAACAAAGAACCCATAG 58.925 43.478 0.00 0.00 0.00 2.23
475 514 3.842007 TGGAAAGAACAAAGGTACCGA 57.158 42.857 6.18 0.00 0.00 4.69
717 782 8.101654 ACGAGTCTATGAGATAATACTGTTCC 57.898 38.462 0.00 0.00 0.00 3.62
733 798 9.436957 AAACAACAATCAGAAATACGAGTCTAT 57.563 29.630 0.00 0.00 0.00 1.98
931 1007 2.613730 CAGAGCACTGCACAGAAATG 57.386 50.000 4.31 0.00 37.33 2.32
1263 1339 5.163571 GCAGTGAGATGATAACACAGAGAGA 60.164 44.000 0.00 0.00 37.05 3.10
1397 1473 6.779860 AGAAGCCCTCTTGAAGTTATGTTTA 58.220 36.000 0.00 0.00 31.48 2.01
1423 1500 2.353030 GCAACGAACAACCACGGC 60.353 61.111 0.00 0.00 0.00 5.68
1430 1507 3.938963 AGAAAGACTCTTGCAACGAACAA 59.061 39.130 0.00 0.00 0.00 2.83
1687 1927 6.501805 TCATACATATTCAGGCTATGAGGGTT 59.498 38.462 2.12 0.00 39.68 4.11
1726 1966 3.879892 GCCAACCTCAAGTCCTTCATATC 59.120 47.826 0.00 0.00 0.00 1.63
2019 2275 0.390340 ACGTGTACATGGCAGAGCAG 60.390 55.000 19.05 0.00 0.00 4.24
2071 2327 3.096852 TCGGGCAAGACTTAATGAGAGA 58.903 45.455 0.00 0.00 0.00 3.10
2098 2354 1.583054 GCACCCCTTAGCACGATTAG 58.417 55.000 0.00 0.00 0.00 1.73
2100 2356 1.077716 GGCACCCCTTAGCACGATT 60.078 57.895 0.00 0.00 0.00 3.34
2101 2357 1.847798 TTGGCACCCCTTAGCACGAT 61.848 55.000 0.00 0.00 0.00 3.73
2401 2665 1.202698 AGTTTTTCCAGCTCGCTGAGT 60.203 47.619 19.78 0.13 46.30 3.41
2413 2677 5.500131 GCACGAAATTGTGAACAGTTTTTCC 60.500 40.000 4.96 0.00 42.55 3.13
2420 2684 3.338818 ACTGCACGAAATTGTGAACAG 57.661 42.857 4.96 6.05 42.55 3.16
2483 2754 3.316029 CAGCAACACCTTGATCACTTCAA 59.684 43.478 0.00 0.00 42.09 2.69
2513 2784 1.450312 GCATAACGGAGCCAGCACT 60.450 57.895 0.00 0.00 0.00 4.40
2514 2785 1.026718 AAGCATAACGGAGCCAGCAC 61.027 55.000 0.00 0.00 0.00 4.40
2516 2787 0.462759 AGAAGCATAACGGAGCCAGC 60.463 55.000 0.00 0.00 0.00 4.85
2517 2788 1.137872 AGAGAAGCATAACGGAGCCAG 59.862 52.381 0.00 0.00 0.00 4.85
2518 2789 1.134699 CAGAGAAGCATAACGGAGCCA 60.135 52.381 0.00 0.00 0.00 4.75
2519 2790 1.134670 ACAGAGAAGCATAACGGAGCC 60.135 52.381 0.00 0.00 0.00 4.70
2520 2791 2.159170 AGACAGAGAAGCATAACGGAGC 60.159 50.000 0.00 0.00 0.00 4.70
2537 2850 4.337145 GTCAGAGAGGTAAGGAGAAGACA 58.663 47.826 0.00 0.00 0.00 3.41
2550 2863 3.217626 AGCAAAAACAAGGTCAGAGAGG 58.782 45.455 0.00 0.00 0.00 3.69
2559 2872 3.541996 AAGGTCCAAGCAAAAACAAGG 57.458 42.857 0.00 0.00 0.00 3.61
2573 2888 3.653539 AATAACGGCAACAAAAGGTCC 57.346 42.857 0.00 0.00 0.00 4.46
2583 2898 2.748605 CACAAAGGCAAATAACGGCAA 58.251 42.857 0.00 0.00 0.00 4.52
2600 2915 0.108472 CCTGCAGATTCTCTCGCACA 60.108 55.000 17.39 0.00 31.08 4.57
2677 2994 6.581166 GGTAACTGAATTTCGGAAACATCAAC 59.419 38.462 12.18 13.27 0.00 3.18
2746 3063 7.715657 ACTTCTGCAATATCAGTTTCACAAAA 58.284 30.769 0.00 0.00 35.63 2.44
2871 3194 4.135306 TGTGCATGCCAACAATTTTTGAT 58.865 34.783 16.68 0.00 0.00 2.57
2878 3201 4.114073 CGATTTATGTGCATGCCAACAAT 58.886 39.130 16.68 13.71 0.00 2.71
2887 3210 7.929159 TCAATGTAATGTCGATTTATGTGCAT 58.071 30.769 0.00 0.00 0.00 3.96
2995 3351 4.594123 TTCTGAATCAAGTGACGGTACA 57.406 40.909 0.00 0.00 0.00 2.90
3238 5989 6.363577 TCGCTTGTCAAAGGAAATCATATC 57.636 37.500 0.00 0.00 33.68 1.63
3283 6034 1.078637 GTCCGTTTGAGGGGTAGCC 60.079 63.158 1.07 1.07 0.00 3.93
3288 6039 1.900545 GAGGGAGTCCGTTTGAGGGG 61.901 65.000 5.71 0.00 38.33 4.79
3298 6049 0.613777 ACGGACATTTGAGGGAGTCC 59.386 55.000 0.00 0.00 45.46 3.85
3299 6050 1.676014 CCACGGACATTTGAGGGAGTC 60.676 57.143 0.00 0.00 0.00 3.36
3403 6697 9.682465 ATGGATCATGGTATCTATCTTTGATTG 57.318 33.333 0.00 0.00 0.00 2.67
3564 6862 7.184067 ACCCAAACACAACTTTAAAATGGTA 57.816 32.000 5.84 0.00 0.00 3.25
3566 6864 6.037720 GGAACCCAAACACAACTTTAAAATGG 59.962 38.462 5.84 0.00 0.00 3.16
3586 6884 1.134670 CAGATTCCCAGTCGAGGAACC 60.135 57.143 6.76 0.00 45.93 3.62
3596 6894 3.688185 CGGATGCATTATCAGATTCCCAG 59.312 47.826 0.00 0.00 37.54 4.45
3609 6907 2.762327 AGCAATTTTCTCCGGATGCATT 59.238 40.909 23.47 9.65 36.30 3.56
3618 6916 3.182372 GCAACGTTTGAGCAATTTTCTCC 59.818 43.478 0.00 0.00 0.00 3.71
3658 6956 6.267699 TGAATAGATGTATGATCTTGTCCGGT 59.732 38.462 0.00 0.00 0.00 5.28
3660 6958 8.593492 TTTGAATAGATGTATGATCTTGTCCG 57.407 34.615 0.00 0.00 0.00 4.79
3750 7048 4.040829 AGACAATGTGAGAGGTGATGACAA 59.959 41.667 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.