Multiple sequence alignment - TraesCS4A01G268800

Loading Multiple Alignment...

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 TraesCS4A01G268800 chr4A 100.000 2639 0 0 899 3537 581142867 581145505 0.000000e+00 4874.0
1 TraesCS4A01G268800 chr4A 100.000 548 0 0 1 548 581141969 581142516 0.000000e+00 1013.0
2 TraesCS4A01G268800 chr4D 94.330 1852 73 18 902 2744 20566057 20564229 0.000000e+00 2809.0
3 TraesCS4A01G268800 chr4D 88.406 345 28 10 3044 3384 20552374 20552038 4.250000e-109 405.0
4 TraesCS4A01G268800 chr4D 89.688 320 21 8 2741 3056 20564169 20563858 7.110000e-107 398.0
5 TraesCS4A01G268800 chr4D 86.347 271 4 9 299 548 20566358 20566100 7.530000e-67 265.0
6 TraesCS4A01G268800 chr4D 88.983 118 3 4 172 281 20566542 20566427 1.710000e-28 137.0
7 TraesCS4A01G268800 chr4B 93.615 1347 62 9 1406 2744 32497607 32496277 0.000000e+00 1989.0
8 TraesCS4A01G268800 chr4B 89.744 702 36 19 2844 3537 32495347 32494674 0.000000e+00 865.0
9 TraesCS4A01G268800 chr4B 91.897 506 27 7 902 1403 32498149 32497654 0.000000e+00 695.0
10 TraesCS4A01G268800 chr4B 87.594 266 15 7 299 548 32498453 32498190 3.450000e-75 292.0
11 TraesCS4A01G268800 chr4B 92.683 123 7 2 2741 2861 32496226 32496104 3.630000e-40 176.0
12 TraesCS4A01G268800 chr4B 85.987 157 22 0 1 157 32500175 32500019 6.070000e-38 169.0
13 TraesCS4A01G268800 chr4B 90.984 122 5 5 167 282 32498638 32498517 3.650000e-35 159.0
14 TraesCS4A01G268800 chr3B 89.881 168 16 1 1025 1191 626300359 626300526 7.690000e-52 215.0
15 TraesCS4A01G268800 chr5B 89.286 168 17 1 1025 1191 536853409 536853242 3.580000e-50 209.0
16 TraesCS4A01G268800 chr5B 87.654 81 10 0 1185 1265 601330100 601330020 1.050000e-15 95.3
17 TraesCS4A01G268800 chr1D 88.554 166 18 1 1025 1189 416364450 416364285 2.150000e-47 200.0
18 TraesCS4A01G268800 chr7D 87.742 155 17 2 1025 1177 552322772 552322618 2.810000e-41 180.0
19 TraesCS4A01G268800 chrUn 87.179 156 17 3 1025 1177 36550970 36551125 1.310000e-39 174.0
20 TraesCS4A01G268800 chr3A 85.535 159 21 2 1027 1183 700225191 700225033 7.860000e-37 165.0
21 TraesCS4A01G268800 chr1A 84.706 170 18 4 1028 1191 496646545 496646378 2.830000e-36 163.0
22 TraesCS4A01G268800 chr2B 80.861 209 33 5 3311 3514 417655325 417655119 1.310000e-34 158.0
23 TraesCS4A01G268800 chr2D 80.476 210 33 5 3311 3514 351378585 351378378 1.700000e-33 154.0
24 TraesCS4A01G268800 chr5D 87.654 81 10 0 1185 1265 488347732 488347652 1.050000e-15 95.3
25 TraesCS4A01G268800 chr5A 86.420 81 11 0 1185 1265 609203863 609203783 4.860000e-14 89.8
26 TraesCS4A01G268800 chr6B 86.111 72 8 1 3322 3391 146842666 146842737 3.790000e-10 76.8


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 TraesCS4A01G268800 chr4A 581141969 581145505 3536 False 2943.500000 4874 100.000000 1 3537 2 chr4A.!!$F1 3536
1 TraesCS4A01G268800 chr4D 20563858 20566542 2684 True 902.250000 2809 89.837000 172 3056 4 chr4D.!!$R2 2884
2 TraesCS4A01G268800 chr4B 32494674 32500175 5501 True 620.714286 1989 90.357714 1 3537 7 chr4B.!!$R1 3536

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
990 2454 0.165944 GTTGGTTGGTTGATCGCTCG 59.834 55.0 0.0 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2646 4174 0.671781 CAAGAGACAGTGCGAAGGGG 60.672 60.0 0.0 0.0 0.0 4.79 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
19 20 2.468532 GTGGTGTTACTTGCACACAC 57.531 50.000 6.71 7.67 45.49 3.82
30 31 2.024588 CACACACGCAACCAGCAC 59.975 61.111 0.00 0.00 46.13 4.40
38 39 3.049674 CAACCAGCACGCCGACAT 61.050 61.111 0.00 0.00 0.00 3.06
84 85 2.587247 GCTGGTGCAGGACAGGAGA 61.587 63.158 13.10 0.00 39.41 3.71
90 91 1.979693 GCAGGACAGGAGACGAGGT 60.980 63.158 0.00 0.00 0.00 3.85
100 101 1.135257 GGAGACGAGGTCATGACACAG 60.135 57.143 26.47 17.79 34.60 3.66
144 145 1.448540 CACTGTGCGTGAGGATCCC 60.449 63.158 8.55 0.11 46.81 3.85
160 161 4.636435 CCCCCAACCGTCAAGCGT 62.636 66.667 0.00 0.00 39.32 5.07
161 162 3.353836 CCCCAACCGTCAAGCGTG 61.354 66.667 0.00 0.00 39.32 5.34
163 164 3.353836 CCAACCGTCAAGCGTGGG 61.354 66.667 0.00 0.00 39.32 4.61
164 165 3.353836 CAACCGTCAAGCGTGGGG 61.354 66.667 0.00 4.51 39.32 4.96
165 166 4.636435 AACCGTCAAGCGTGGGGG 62.636 66.667 13.28 10.72 39.32 5.40
243 1615 1.884444 GACCACGACCAGTCTCTCC 59.116 63.158 0.00 0.00 0.00 3.71
325 1759 0.321671 CCTCGCACTTCCTCTCCAAA 59.678 55.000 0.00 0.00 0.00 3.28
471 1935 2.434884 CCATTCTGCCTCGTGCGT 60.435 61.111 0.00 0.00 45.60 5.24
472 1936 2.743752 CCATTCTGCCTCGTGCGTG 61.744 63.158 0.00 0.00 45.60 5.34
512 1976 1.971167 CCACCACCACCATCCGTTG 60.971 63.158 0.00 0.00 0.00 4.10
977 2441 3.802852 GAGGGGCGGTTGGTTGGTT 62.803 63.158 0.00 0.00 0.00 3.67
979 2443 3.611674 GGGCGGTTGGTTGGTTGG 61.612 66.667 0.00 0.00 0.00 3.77
981 2445 2.428085 GGCGGTTGGTTGGTTGGTT 61.428 57.895 0.00 0.00 0.00 3.67
983 2447 1.668101 GCGGTTGGTTGGTTGGTTGA 61.668 55.000 0.00 0.00 0.00 3.18
986 2450 1.000717 GGTTGGTTGGTTGGTTGATCG 60.001 52.381 0.00 0.00 0.00 3.69
987 2451 0.671251 TTGGTTGGTTGGTTGATCGC 59.329 50.000 0.00 0.00 0.00 4.58
988 2452 0.179004 TGGTTGGTTGGTTGATCGCT 60.179 50.000 0.00 0.00 0.00 4.93
989 2453 0.521735 GGTTGGTTGGTTGATCGCTC 59.478 55.000 0.00 0.00 0.00 5.03
990 2454 0.165944 GTTGGTTGGTTGATCGCTCG 59.834 55.000 0.00 0.00 0.00 5.03
991 2455 0.953471 TTGGTTGGTTGATCGCTCGG 60.953 55.000 0.00 0.00 0.00 4.63
992 2456 2.750888 GGTTGGTTGATCGCTCGGC 61.751 63.158 0.00 0.00 0.00 5.54
994 2458 4.812476 TGGTTGATCGCTCGGCCG 62.812 66.667 22.12 22.12 0.00 6.13
996 2460 3.255379 GTTGATCGCTCGGCCGAC 61.255 66.667 27.28 19.89 40.40 4.79
1270 2737 2.300433 ACGTCACCAAGGTAAAAACCC 58.700 47.619 0.00 0.00 0.00 4.11
1282 2749 3.192001 GGTAAAAACCCAAACCGATCTCC 59.808 47.826 0.00 0.00 0.00 3.71
1290 2757 2.084546 CAAACCGATCTCCCCTGTTTC 58.915 52.381 0.00 0.00 0.00 2.78
1291 2758 0.618981 AACCGATCTCCCCTGTTTCC 59.381 55.000 0.00 0.00 0.00 3.13
1311 2778 1.069258 CCCCTCGGTAATTCGGAGC 59.931 63.158 6.83 0.00 40.63 4.70
1316 2783 1.069258 CGGTAATTCGGAGCCCCTC 59.931 63.158 0.00 0.00 0.00 4.30
1341 2810 5.508153 CGGTCGATCTGTTATTCTTGGAGAT 60.508 44.000 0.00 0.00 0.00 2.75
1345 2814 7.168972 GTCGATCTGTTATTCTTGGAGATGAAG 59.831 40.741 0.00 0.00 0.00 3.02
1346 2815 6.983307 CGATCTGTTATTCTTGGAGATGAAGT 59.017 38.462 0.00 0.00 0.00 3.01
1347 2816 7.168972 CGATCTGTTATTCTTGGAGATGAAGTC 59.831 40.741 0.00 0.00 0.00 3.01
1508 3021 6.415798 TCGCAATTGTTCGAATATTCTTCA 57.584 33.333 13.45 6.88 0.00 3.02
1547 3060 4.688879 TGCGATTAGAAAGTAACCACACAG 59.311 41.667 0.00 0.00 0.00 3.66
1567 3080 2.041755 AGACTTGGGGAAGCTTTTAGGG 59.958 50.000 0.00 0.00 0.00 3.53
1585 3098 1.893137 GGGTTCCCCAACAAGATTGTC 59.107 52.381 0.00 0.00 44.65 3.18
1607 3121 2.159531 TGCAAGAAAGAAATGCGATCGG 60.160 45.455 18.30 0.00 42.91 4.18
1625 3139 1.521423 CGGCGATCGTTTGTATTCTCC 59.479 52.381 17.81 4.02 0.00 3.71
1676 3194 8.131100 TGTAGCAGAAAGAAAGAAAGAAATGTG 58.869 33.333 0.00 0.00 0.00 3.21
1740 3261 1.095807 GGGCATCAAAGGAGTACGCC 61.096 60.000 7.70 7.70 37.33 5.68
1746 3267 1.080025 AAAGGAGTACGCCACGCTC 60.080 57.895 18.53 0.00 0.00 5.03
1890 3411 1.334054 CAACCGAGTACGTTTCTCCG 58.666 55.000 12.56 9.69 37.88 4.63
1891 3412 0.387750 AACCGAGTACGTTTCTCCGC 60.388 55.000 12.56 0.00 37.88 5.54
1969 3493 2.154798 CTGGCAGCAGCAGCAAATGT 62.155 55.000 12.41 0.00 45.49 2.71
1970 3494 0.894642 TGGCAGCAGCAGCAAATGTA 60.895 50.000 12.41 0.00 45.49 2.29
1971 3495 0.244450 GGCAGCAGCAGCAAATGTAA 59.756 50.000 12.41 0.00 45.49 2.41
1972 3496 1.337074 GGCAGCAGCAGCAAATGTAAA 60.337 47.619 12.41 0.00 45.49 2.01
1973 3497 2.613691 GCAGCAGCAGCAAATGTAAAT 58.386 42.857 4.63 0.00 45.49 1.40
1974 3498 2.347452 GCAGCAGCAGCAAATGTAAATG 59.653 45.455 4.63 0.00 45.49 2.32
2030 3554 8.894409 TCAGTTTGTTGCTAATAAAATCATCG 57.106 30.769 0.00 0.00 0.00 3.84
2069 3593 0.039798 GACGGACGACAGCTTACACA 60.040 55.000 0.00 0.00 0.00 3.72
2083 3607 0.881796 TACACACTCTCTGGCGTCTG 59.118 55.000 0.00 0.00 0.00 3.51
2307 3831 9.823647 ACCTCAACTTATATTCAGTGATACTTG 57.176 33.333 0.00 0.00 0.00 3.16
2363 3891 6.710744 AGACCAATAACGAAATTCTGTCAAGT 59.289 34.615 0.00 0.00 0.00 3.16
2365 3893 8.029642 ACCAATAACGAAATTCTGTCAAGTAG 57.970 34.615 0.00 0.00 0.00 2.57
2390 3918 9.381038 AGCTTGACTTGTCTAGGGATATTATTA 57.619 33.333 12.52 0.00 0.00 0.98
2416 3944 9.606631 AGTAGACCAATAATGAAATTCTGTCTC 57.393 33.333 0.00 0.00 37.87 3.36
2729 4257 3.677121 GCGGTTCTAGTATGATCATGCTG 59.323 47.826 29.90 20.83 35.40 4.41
2744 4272 3.943381 TCATGCTGTTCTTATGCTTCCTG 59.057 43.478 0.00 0.00 0.00 3.86
2893 5260 9.447157 TTGGGAATGAAAACCAATATGAATTTC 57.553 29.630 0.00 0.00 39.22 2.17
2968 5335 2.627699 GGAGCTGGGTTGTGAATTTTCA 59.372 45.455 0.00 0.00 34.20 2.69
3123 5494 3.372025 GGAGACCAAGGCTTGAATACCAT 60.372 47.826 28.18 6.77 0.00 3.55
3125 5496 4.273318 AGACCAAGGCTTGAATACCATTC 58.727 43.478 28.18 10.39 0.00 2.67
3134 5505 7.227156 AGGCTTGAATACCATTCTAATCGATT 58.773 34.615 16.15 16.15 0.00 3.34
3135 5506 8.375506 AGGCTTGAATACCATTCTAATCGATTA 58.624 33.333 16.69 16.69 0.00 1.75
3136 5507 8.660373 GGCTTGAATACCATTCTAATCGATTAG 58.340 37.037 30.96 30.96 40.79 1.73
3137 5508 9.209175 GCTTGAATACCATTCTAATCGATTAGT 57.791 33.333 33.42 22.21 40.41 2.24
3178 5549 7.769044 GGTGAATAGACTAGTGAGCCAAAAATA 59.231 37.037 0.00 0.00 0.00 1.40
3183 5554 6.769512 AGACTAGTGAGCCAAAAATAGACAA 58.230 36.000 0.00 0.00 0.00 3.18
3276 5650 5.975988 ATTTTGCTAGAGGATAGGGAACA 57.024 39.130 0.00 0.00 0.00 3.18
3277 5651 5.772393 TTTTGCTAGAGGATAGGGAACAA 57.228 39.130 0.00 0.00 0.00 2.83
3281 5655 5.497474 TGCTAGAGGATAGGGAACAAAAAC 58.503 41.667 0.00 0.00 0.00 2.43
3283 5657 5.586643 GCTAGAGGATAGGGAACAAAAACAG 59.413 44.000 0.00 0.00 0.00 3.16
3284 5658 5.584551 AGAGGATAGGGAACAAAAACAGT 57.415 39.130 0.00 0.00 0.00 3.55
3285 5659 6.697641 AGAGGATAGGGAACAAAAACAGTA 57.302 37.500 0.00 0.00 0.00 2.74
3335 5710 6.480320 AGAGTATAAGCAGCGGAAAGTAAATG 59.520 38.462 0.00 0.00 0.00 2.32
3394 5769 1.106944 AAACAAGGGTTGGCTCGGTG 61.107 55.000 0.00 0.00 37.30 4.94
3413 5788 4.559153 GGTGAAGATTTTTCATGTGGTGG 58.441 43.478 0.00 0.00 0.00 4.61
3439 5814 8.687292 ATAGTTGACACTATCTTACATCCGTA 57.313 34.615 0.00 0.00 41.73 4.02
3471 5846 4.323868 GGCTTTGACTCAAGAAGGGTCTAT 60.324 45.833 0.00 0.00 32.16 1.98
3472 5847 4.633565 GCTTTGACTCAAGAAGGGTCTATG 59.366 45.833 0.00 0.00 32.16 2.23
3482 5857 9.094578 CTCAAGAAGGGTCTATGATTATAAGGA 57.905 37.037 0.00 0.00 32.16 3.36
3484 5859 9.883142 CAAGAAGGGTCTATGATTATAAGGATC 57.117 37.037 0.00 0.00 32.16 3.36
3488 5863 6.836527 AGGGTCTATGATTATAAGGATCTCGG 59.163 42.308 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.768834 TGCGTGTGTGCAAGTAACA 58.231 47.368 0.00 0.00 43.02 2.41
44 45 2.584064 CATAGCCACACGCCTCCA 59.416 61.111 0.00 0.00 38.78 3.86
71 72 1.979155 CCTCGTCTCCTGTCCTGCA 60.979 63.158 0.00 0.00 0.00 4.41
79 80 1.178276 GTGTCATGACCTCGTCTCCT 58.822 55.000 22.85 0.00 33.15 3.69
84 85 1.040646 ACACTGTGTCATGACCTCGT 58.959 50.000 22.85 13.26 0.00 4.18
90 91 0.035317 GGAGGCACACTGTGTCATGA 59.965 55.000 16.03 0.00 41.04 3.07
165 166 4.353437 AACTCGGACGCGGTGGTC 62.353 66.667 12.47 0.00 36.18 4.02
185 1557 0.392595 GGGGGAGTAGAAAAGCGGTG 60.393 60.000 0.00 0.00 0.00 4.94
189 1561 2.160205 GTGTTGGGGGAGTAGAAAAGC 58.840 52.381 0.00 0.00 0.00 3.51
243 1615 3.064931 GTCCTAAACTGAAACCAGACGG 58.935 50.000 0.00 0.00 35.67 4.79
282 1680 3.328382 AATCGTCCAGGATTTTCGTGA 57.672 42.857 0.00 0.00 34.44 4.35
325 1759 0.407918 GATCGGAGGAGGAGAGGGAT 59.592 60.000 0.00 0.00 0.00 3.85
900 2364 2.041265 TTGCTCCTCCCCCTCCTC 59.959 66.667 0.00 0.00 0.00 3.71
907 2371 4.475135 GAGGCCGTTGCTCCTCCC 62.475 72.222 0.00 0.00 42.30 4.30
975 2439 2.750888 GGCCGAGCGATCAACCAAC 61.751 63.158 0.00 0.00 0.00 3.77
977 2441 4.812476 CGGCCGAGCGATCAACCA 62.812 66.667 24.07 0.00 0.00 3.67
979 2443 3.255379 GTCGGCCGAGCGATCAAC 61.255 66.667 31.97 11.34 0.00 3.18
989 2453 2.094659 GCCATCATATCGTCGGCCG 61.095 63.158 22.12 22.12 36.73 6.13
990 2454 2.094659 CGCCATCATATCGTCGGCC 61.095 63.158 0.00 0.00 39.69 6.13
991 2455 0.944311 AACGCCATCATATCGTCGGC 60.944 55.000 0.00 0.00 39.45 5.54
992 2456 1.060713 GAACGCCATCATATCGTCGG 58.939 55.000 0.00 0.00 35.18 4.79
994 2458 2.061773 CCTGAACGCCATCATATCGTC 58.938 52.381 0.00 0.00 35.18 4.20
996 2460 1.432514 CCCTGAACGCCATCATATCG 58.567 55.000 0.00 0.00 0.00 2.92
1270 2737 2.084546 GAAACAGGGGAGATCGGTTTG 58.915 52.381 0.00 0.00 33.90 2.93
1296 2763 1.069258 GGGGCTCCGAATTACCGAG 59.931 63.158 0.00 0.00 0.00 4.63
1297 2764 1.382146 AGGGGCTCCGAATTACCGA 60.382 57.895 0.00 0.00 38.33 4.69
1316 2783 3.123804 CCAAGAATAACAGATCGACCGG 58.876 50.000 0.00 0.00 0.00 5.28
1319 2786 6.507900 TCATCTCCAAGAATAACAGATCGAC 58.492 40.000 0.00 0.00 0.00 4.20
1341 2810 1.397343 CGGAATCTCGAGACGACTTCA 59.603 52.381 19.30 0.00 29.60 3.02
1345 2814 0.029567 ATGCGGAATCTCGAGACGAC 59.970 55.000 23.33 14.98 0.00 4.34
1346 2815 0.029433 CATGCGGAATCTCGAGACGA 59.971 55.000 23.33 11.53 0.00 4.20
1347 2816 0.936764 CCATGCGGAATCTCGAGACG 60.937 60.000 19.30 17.89 0.00 4.18
1508 3021 8.437360 TCTAATCGCAATGAGAACAATTGTAT 57.563 30.769 12.39 3.51 0.00 2.29
1547 3060 2.225041 ACCCTAAAAGCTTCCCCAAGTC 60.225 50.000 0.00 0.00 31.45 3.01
1567 3080 2.029918 GCAGACAATCTTGTTGGGGAAC 60.030 50.000 0.00 0.00 42.43 3.62
1585 3098 3.096461 CGATCGCATTTCTTTCTTGCAG 58.904 45.455 0.26 0.00 36.15 4.41
1602 3116 3.050619 AGAATACAAACGATCGCCGATC 58.949 45.455 16.95 16.95 41.76 3.69
1607 3121 4.859629 AAAGGAGAATACAAACGATCGC 57.140 40.909 16.60 0.00 0.00 4.58
1617 3131 4.143179 CGTGACCGAACAAAAGGAGAATAC 60.143 45.833 0.00 0.00 35.63 1.89
1740 3261 1.354337 CCAGGATGTCGTTGAGCGTG 61.354 60.000 0.00 0.00 42.13 5.34
1890 3411 3.257393 ACGAATGAATGAGTGAGTGAGC 58.743 45.455 0.00 0.00 0.00 4.26
1891 3412 4.328440 GGAACGAATGAATGAGTGAGTGAG 59.672 45.833 0.00 0.00 0.00 3.51
1974 3498 1.730064 CCATTGATTGCTGCACAAAGC 59.270 47.619 0.00 0.00 42.86 3.51
2030 3554 2.452006 CGTATGTTGGCGGAATCAAC 57.548 50.000 0.00 0.00 43.29 3.18
2069 3593 3.244215 TGAAAAATCAGACGCCAGAGAGT 60.244 43.478 0.00 0.00 0.00 3.24
2083 3607 1.809869 GAGCCGCCCCTGAAAAATC 59.190 57.895 0.00 0.00 0.00 2.17
2340 3868 6.877611 ACTTGACAGAATTTCGTTATTGGT 57.122 33.333 0.00 0.00 0.00 3.67
2341 3869 6.961554 GCTACTTGACAGAATTTCGTTATTGG 59.038 38.462 0.00 0.00 0.00 3.16
2363 3891 8.958060 ATAATATCCCTAGACAAGTCAAGCTA 57.042 34.615 2.72 0.00 0.00 3.32
2365 3893 9.646427 CTAATAATATCCCTAGACAAGTCAAGC 57.354 37.037 2.72 0.00 0.00 4.01
2390 3918 9.606631 GAGACAGAATTTCATTATTGGTCTACT 57.393 33.333 0.00 0.00 32.90 2.57
2416 3944 3.102515 GCAATCTGCAAGCACACAG 57.897 52.632 0.00 0.00 44.26 3.66
2646 4174 0.671781 CAAGAGACAGTGCGAAGGGG 60.672 60.000 0.00 0.00 0.00 4.79
2863 5230 7.610865 TCATATTGGTTTTCATTCCCAACTTC 58.389 34.615 0.00 0.00 40.81 3.01
2864 5231 7.552050 TCATATTGGTTTTCATTCCCAACTT 57.448 32.000 0.00 0.00 40.81 2.66
2865 5232 7.552050 TTCATATTGGTTTTCATTCCCAACT 57.448 32.000 0.00 0.00 40.81 3.16
2866 5233 8.791327 AATTCATATTGGTTTTCATTCCCAAC 57.209 30.769 0.00 0.00 40.81 3.77
2867 5234 9.447157 GAAATTCATATTGGTTTTCATTCCCAA 57.553 29.630 0.00 0.00 42.12 4.12
2868 5235 8.600668 TGAAATTCATATTGGTTTTCATTCCCA 58.399 29.630 0.00 0.00 32.88 4.37
2869 5236 9.447157 TTGAAATTCATATTGGTTTTCATTCCC 57.553 29.630 0.00 0.00 36.50 3.97
2893 5260 8.938906 ACTATGGCATCAAAAGCTTTTTAATTG 58.061 29.630 21.70 16.05 0.00 2.32
2902 5269 3.370840 TGGACTATGGCATCAAAAGCT 57.629 42.857 1.65 0.00 0.00 3.74
2968 5335 8.722394 GTTCTTTCTTTTGGAATACTTCTCGAT 58.278 33.333 0.00 0.00 33.53 3.59
3011 5379 4.194640 AGTACGCCGTCTTCTAGTATGAA 58.805 43.478 0.00 0.00 0.00 2.57
3027 5396 2.202756 CCGCCTTGGAGAGTACGC 60.203 66.667 0.00 0.00 42.00 4.42
3134 5505 5.476950 TCACCCCCTCTCTAAACATACTA 57.523 43.478 0.00 0.00 0.00 1.82
3135 5506 4.348020 TCACCCCCTCTCTAAACATACT 57.652 45.455 0.00 0.00 0.00 2.12
3136 5507 5.632034 ATTCACCCCCTCTCTAAACATAC 57.368 43.478 0.00 0.00 0.00 2.39
3137 5508 6.553852 GTCTATTCACCCCCTCTCTAAACATA 59.446 42.308 0.00 0.00 0.00 2.29
3138 5509 5.367060 GTCTATTCACCCCCTCTCTAAACAT 59.633 44.000 0.00 0.00 0.00 2.71
3139 5510 4.715297 GTCTATTCACCCCCTCTCTAAACA 59.285 45.833 0.00 0.00 0.00 2.83
3140 5511 4.963628 AGTCTATTCACCCCCTCTCTAAAC 59.036 45.833 0.00 0.00 0.00 2.01
3141 5512 5.222278 AGTCTATTCACCCCCTCTCTAAA 57.778 43.478 0.00 0.00 0.00 1.85
3142 5513 4.901785 AGTCTATTCACCCCCTCTCTAA 57.098 45.455 0.00 0.00 0.00 2.10
3143 5514 4.982956 ACTAGTCTATTCACCCCCTCTCTA 59.017 45.833 0.00 0.00 0.00 2.43
3144 5515 3.794971 ACTAGTCTATTCACCCCCTCTCT 59.205 47.826 0.00 0.00 0.00 3.10
3145 5516 3.892588 CACTAGTCTATTCACCCCCTCTC 59.107 52.174 0.00 0.00 0.00 3.20
3151 5522 3.031736 TGGCTCACTAGTCTATTCACCC 58.968 50.000 0.00 0.00 0.00 4.61
3227 5601 6.483307 GCATGTGTAAGGTGCTTGATAGAATA 59.517 38.462 0.00 0.00 36.02 1.75
3272 5646 7.938563 TGGCATGTATTTACTGTTTTTGTTC 57.061 32.000 0.00 0.00 0.00 3.18
3335 5710 5.043248 ACTTGTTTACTTTCACTTGCATGC 58.957 37.500 11.82 11.82 0.00 4.06
3373 5748 1.007387 CGAGCCAACCCTTGTTTGC 60.007 57.895 0.00 0.00 42.00 3.68
3394 5769 7.396540 ACTATCCACCACATGAAAAATCTTC 57.603 36.000 0.00 0.00 0.00 2.87
3437 5812 4.517285 TGAGTCAAAGCCTCCATCAATAC 58.483 43.478 0.00 0.00 0.00 1.89
3439 5814 3.726557 TGAGTCAAAGCCTCCATCAAT 57.273 42.857 0.00 0.00 0.00 2.57
3471 5846 6.549736 TCTCACAACCGAGATCCTTATAATCA 59.450 38.462 0.00 0.00 37.12 2.57
3472 5847 6.982852 TCTCACAACCGAGATCCTTATAATC 58.017 40.000 0.00 0.00 37.12 1.75
3484 5859 1.550524 TCCTGGAATCTCACAACCGAG 59.449 52.381 0.00 0.00 0.00 4.63
3488 5863 3.703001 TCCTTCCTGGAATCTCACAAC 57.297 47.619 10.03 0.00 42.94 3.32
3500 5875 0.107831 TTGTGGACCGTTCCTTCCTG 59.892 55.000 0.00 0.00 43.31 3.86


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

AutoCloner maintained by Alex Coulton.