Multiple sequence alignment - TraesCS7A01G406300

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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 TraesCS7A01G406300 chr7A 100.000 3144 0 0 1 3144 591551927 591555070 0.000000e+00 5806
1 TraesCS7A01G406300 chr7D 93.758 3172 109 48 1 3141 516971132 516974245 0.000000e+00 4678
2 TraesCS7A01G406300 chr7B 93.156 3200 127 52 1 3144 549349485 549352648 0.000000e+00 4612
3 TraesCS7A01G406300 chr3B 84.343 198 23 7 1354 1550 786970547 786970357 1.490000e-43 187


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 TraesCS7A01G406300 chr7A 591551927 591555070 3143 False 5806 5806 100.000 1 3144 1 chr7A.!!$F1 3143
1 TraesCS7A01G406300 chr7D 516971132 516974245 3113 False 4678 4678 93.758 1 3141 1 chr7D.!!$F1 3140
2 TraesCS7A01G406300 chr7B 549349485 549352648 3163 False 4612 4612 93.156 1 3144 1 chr7B.!!$F1 3143

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
687 701 0.533308 GCTGTCAACACCCGTAACCA 60.533 55.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2435 2479 0.096802 CGTGCTGCATGCGAAATGTA 59.903 50.0 14.09 0.0 46.63 2.29 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
30 31 9.165035 CACAAACAGCCCATAAAAATCAAATAT 57.835 29.630 0.00 0.00 0.00 1.28
181 183 1.265236 AGACAGAGAGGGAAGCACAG 58.735 55.000 0.00 0.00 0.00 3.66
197 199 2.674380 AGCTGCGCAAGGAAAGGG 60.674 61.111 13.05 0.00 37.09 3.95
213 215 2.805290 AGGGGGAGAGATAAGGAAGG 57.195 55.000 0.00 0.00 0.00 3.46
452 454 1.693103 CCTTACCCCACTCCCTCCC 60.693 68.421 0.00 0.00 0.00 4.30
453 455 1.396594 CTTACCCCACTCCCTCCCT 59.603 63.158 0.00 0.00 0.00 4.20
454 456 0.691413 CTTACCCCACTCCCTCCCTC 60.691 65.000 0.00 0.00 0.00 4.30
455 457 2.190904 TTACCCCACTCCCTCCCTCC 62.191 65.000 0.00 0.00 0.00 4.30
494 499 5.013547 TCCTCCTAGTGAGAAGAGAACAAG 58.986 45.833 9.16 0.00 44.42 3.16
687 701 0.533308 GCTGTCAACACCCGTAACCA 60.533 55.000 0.00 0.00 0.00 3.67
926 944 1.555533 GTTTGTAGGAGGTGAGAGGGG 59.444 57.143 0.00 0.00 0.00 4.79
1444 1462 4.389576 GCCGCGGCTTCAACTGTG 62.390 66.667 41.71 4.32 38.26 3.66
1650 1668 3.296709 GATGGTCGACGCCACCACT 62.297 63.158 10.31 1.49 46.90 4.00
1666 1684 2.187958 CCACTTCCTCAGGTATGTGGA 58.812 52.381 20.49 1.09 45.37 4.02
1701 1719 7.754851 TTACAGTCTACAGTACAATCAGTCA 57.245 36.000 0.00 0.00 0.00 3.41
1711 1729 4.524714 AGTACAATCAGTCACTGCAGTACT 59.475 41.667 21.20 21.38 37.74 2.73
1909 1927 1.452108 GTTCAAGGGGATCCTGCGG 60.452 63.158 12.58 0.00 44.07 5.69
2168 2186 5.128033 TCAATTCCTGCCATGAATTCCTA 57.872 39.130 5.14 0.00 39.71 2.94
2195 2213 6.899393 AGTTTCATTTACTGCCAAAGATGA 57.101 33.333 0.00 0.00 0.00 2.92
2196 2214 7.472334 AGTTTCATTTACTGCCAAAGATGAT 57.528 32.000 0.00 0.00 0.00 2.45
2198 2216 5.840243 TCATTTACTGCCAAAGATGATGG 57.160 39.130 0.00 0.00 41.08 3.51
2199 2217 5.263599 TCATTTACTGCCAAAGATGATGGT 58.736 37.500 0.00 0.00 40.23 3.55
2224 2264 4.401022 AGTTGCATTGATCCAAGTCAAGA 58.599 39.130 0.00 0.00 41.05 3.02
2242 2282 4.469227 TCAAGAAGATCCAAGAAGAGGAGG 59.531 45.833 0.00 0.00 38.83 4.30
2243 2283 3.383223 AGAAGATCCAAGAAGAGGAGGG 58.617 50.000 0.00 0.00 38.83 4.30
2244 2284 2.188818 AGATCCAAGAAGAGGAGGGG 57.811 55.000 0.00 0.00 38.83 4.79
2245 2285 1.135960 GATCCAAGAAGAGGAGGGGG 58.864 60.000 0.00 0.00 38.83 5.40
2256 2296 0.477597 AGGAGGGGGATTGTTGTCCA 60.478 55.000 0.00 0.00 40.17 4.02
2258 2298 1.410224 GGAGGGGGATTGTTGTCCATC 60.410 57.143 0.00 0.00 40.17 3.51
2261 2301 1.615919 GGGGGATTGTTGTCCATCGTT 60.616 52.381 0.00 0.00 40.17 3.85
2267 2307 4.437390 GGATTGTTGTCCATCGTTGATGAC 60.437 45.833 8.32 5.65 42.09 3.06
2337 2378 8.708378 GGATCCTTCCATGAATTTTAATTTCCT 58.292 33.333 3.84 0.00 42.12 3.36
2435 2479 7.718314 ACTCCCTTTTGAAATCGTTTACTACTT 59.282 33.333 0.00 0.00 0.00 2.24
2520 2564 8.092521 TCTATGTTACTCCTAAGTACGTATGC 57.907 38.462 0.00 0.00 37.72 3.14
2521 2565 5.160699 TGTTACTCCTAAGTACGTATGCG 57.839 43.478 0.19 0.19 37.72 4.73
2538 2582 6.450276 CGTATGCGTTAGATCGATTACATTG 58.550 40.000 0.00 0.00 0.00 2.82
2550 2596 4.336153 TCGATTACATTGCGTACTCCTACA 59.664 41.667 0.00 0.00 0.00 2.74
2551 2597 5.009310 TCGATTACATTGCGTACTCCTACAT 59.991 40.000 0.00 0.00 0.00 2.29
2552 2598 5.117135 CGATTACATTGCGTACTCCTACATG 59.883 44.000 0.00 0.00 0.00 3.21
2553 2599 3.179443 ACATTGCGTACTCCTACATGG 57.821 47.619 0.00 0.00 37.10 3.66
2558 2604 2.035449 TGCGTACTCCTACATGGTATGC 59.965 50.000 13.32 13.32 44.14 3.14
2565 2611 6.102897 ACTCCTACATGGTATGCTATTGTC 57.897 41.667 0.00 0.00 37.07 3.18
2729 2781 3.287222 ACTTCTGTTTAAGCAGCCAACA 58.713 40.909 13.99 3.11 36.49 3.33
2764 2816 1.854939 TCCTTGGGATGGATGAGCAAT 59.145 47.619 0.00 0.00 0.00 3.56
2785 2837 1.578423 GCTTCTGCTTGCTCCACAC 59.422 57.895 0.00 0.00 36.03 3.82
2807 2859 3.573967 CCACAAGGGAAAGTACAGCAATT 59.426 43.478 0.00 0.00 40.01 2.32
2834 2886 5.481105 TGCAATTCTTTGGCTAATCTTTGG 58.519 37.500 0.00 0.00 33.22 3.28
2836 2888 5.809051 GCAATTCTTTGGCTAATCTTTGGAG 59.191 40.000 0.00 0.00 33.22 3.86
2841 2893 6.407202 TCTTTGGCTAATCTTTGGAGTACTC 58.593 40.000 14.87 14.87 0.00 2.59
2851 2903 6.134535 TCTTTGGAGTACTCTCTCTCTCTT 57.865 41.667 21.88 0.00 40.29 2.85
2854 2906 5.772393 TGGAGTACTCTCTCTCTCTTTCT 57.228 43.478 21.88 0.00 40.29 2.52
2855 2907 6.877668 TGGAGTACTCTCTCTCTCTTTCTA 57.122 41.667 21.88 0.00 40.29 2.10
2856 2908 7.446106 TGGAGTACTCTCTCTCTCTTTCTAT 57.554 40.000 21.88 0.00 40.29 1.98
2858 2910 6.935208 GGAGTACTCTCTCTCTCTTTCTATCC 59.065 46.154 21.88 0.00 40.29 2.59
2859 2911 7.202102 GGAGTACTCTCTCTCTCTTTCTATCCT 60.202 44.444 21.88 0.00 40.29 3.24
2901 2959 0.393808 ACCTTGTCACGCCACTGTTT 60.394 50.000 0.00 0.00 0.00 2.83
2909 2967 1.264288 CACGCCACTGTTTCTCCTTTC 59.736 52.381 0.00 0.00 0.00 2.62
2911 2969 1.813862 CGCCACTGTTTCTCCTTTCCA 60.814 52.381 0.00 0.00 0.00 3.53
2917 2975 3.916989 ACTGTTTCTCCTTTCCATAGGGT 59.083 43.478 0.00 0.00 35.90 4.34
2957 3015 8.675705 TTCTTTGTTGAAGTGACATAGATCAA 57.324 30.769 0.00 0.00 35.83 2.57
2961 3019 7.368480 TGTTGAAGTGACATAGATCAATGTG 57.632 36.000 0.00 0.00 40.17 3.21
2963 3021 6.053632 TGAAGTGACATAGATCAATGTGGT 57.946 37.500 0.00 0.00 40.17 4.16
3002 3060 7.553881 AATGAGAAATACCGACCAATACAAG 57.446 36.000 0.00 0.00 0.00 3.16
3005 3063 5.116882 AGAAATACCGACCAATACAAGCTC 58.883 41.667 0.00 0.00 0.00 4.09
3006 3064 4.755266 AATACCGACCAATACAAGCTCT 57.245 40.909 0.00 0.00 0.00 4.09
3007 3065 5.864418 AATACCGACCAATACAAGCTCTA 57.136 39.130 0.00 0.00 0.00 2.43
3008 3066 3.802948 ACCGACCAATACAAGCTCTAG 57.197 47.619 0.00 0.00 0.00 2.43
3009 3067 3.097614 ACCGACCAATACAAGCTCTAGT 58.902 45.455 0.00 0.00 0.00 2.57
3010 3068 3.130693 ACCGACCAATACAAGCTCTAGTC 59.869 47.826 0.00 0.00 0.00 2.59
3057 3115 8.649841 CCAACAATGTGCATGATTTACTTTTAG 58.350 33.333 0.00 0.00 0.00 1.85
3062 3120 9.995003 AATGTGCATGATTTACTTTTAGGAAAA 57.005 25.926 0.00 0.00 0.00 2.29
3063 3121 8.810652 TGTGCATGATTTACTTTTAGGAAAAC 57.189 30.769 0.00 0.00 0.00 2.43
3065 3123 8.915654 GTGCATGATTTACTTTTAGGAAAACTG 58.084 33.333 0.00 0.00 0.00 3.16
3066 3124 7.598493 TGCATGATTTACTTTTAGGAAAACTGC 59.402 33.333 0.00 0.00 0.00 4.40
3067 3125 7.598493 GCATGATTTACTTTTAGGAAAACTGCA 59.402 33.333 0.00 0.00 0.00 4.41
3068 3126 9.474920 CATGATTTACTTTTAGGAAAACTGCAA 57.525 29.630 0.00 0.00 0.00 4.08
3070 3128 9.308318 TGATTTACTTTTAGGAAAACTGCAAAC 57.692 29.630 0.00 0.00 0.00 2.93
3071 3129 9.529325 GATTTACTTTTAGGAAAACTGCAAACT 57.471 29.630 0.00 0.00 0.00 2.66
3072 3130 9.884636 ATTTACTTTTAGGAAAACTGCAAACTT 57.115 25.926 0.00 0.00 0.00 2.66
3096 3156 9.606631 CTTAATCTAAGCCTAGCCATTATTAGG 57.393 37.037 0.00 0.00 39.56 2.69
3097 3157 7.814693 AATCTAAGCCTAGCCATTATTAGGA 57.185 36.000 1.86 0.00 39.02 2.94
3098 3158 6.607004 TCTAAGCCTAGCCATTATTAGGAC 57.393 41.667 1.86 0.00 39.02 3.85
3099 3159 4.642466 AAGCCTAGCCATTATTAGGACC 57.358 45.455 1.86 0.00 39.02 4.46
3100 3160 3.875571 AGCCTAGCCATTATTAGGACCT 58.124 45.455 0.00 0.00 39.02 3.85
3102 3162 3.328050 GCCTAGCCATTATTAGGACCTGT 59.672 47.826 3.53 0.00 39.02 4.00
3104 3164 5.337652 GCCTAGCCATTATTAGGACCTGTAG 60.338 48.000 3.53 0.00 39.02 2.74
3105 3165 5.780793 CCTAGCCATTATTAGGACCTGTAGT 59.219 44.000 3.53 0.00 39.02 2.73
3106 3166 6.952358 CCTAGCCATTATTAGGACCTGTAGTA 59.048 42.308 3.53 0.00 39.02 1.82
3107 3167 7.620094 CCTAGCCATTATTAGGACCTGTAGTAT 59.380 40.741 3.53 0.00 39.02 2.12
3108 3168 7.246171 AGCCATTATTAGGACCTGTAGTATG 57.754 40.000 3.53 1.79 0.00 2.39
3109 3169 5.875359 GCCATTATTAGGACCTGTAGTATGC 59.125 44.000 3.53 0.00 0.00 3.14
3110 3170 6.520061 GCCATTATTAGGACCTGTAGTATGCA 60.520 42.308 3.53 0.00 0.00 3.96
3111 3171 7.624549 CCATTATTAGGACCTGTAGTATGCAT 58.375 38.462 3.53 3.79 0.00 3.96
3112 3172 7.550551 CCATTATTAGGACCTGTAGTATGCATG 59.449 40.741 10.16 0.00 0.00 4.06
3113 3173 2.918712 AGGACCTGTAGTATGCATGC 57.081 50.000 11.82 11.82 0.00 4.06
3114 3174 1.069204 AGGACCTGTAGTATGCATGCG 59.931 52.381 14.09 0.00 0.00 4.73
3116 3176 2.128035 GACCTGTAGTATGCATGCGTC 58.872 52.381 17.45 8.24 0.00 5.19
3118 3178 2.103094 ACCTGTAGTATGCATGCGTCAT 59.897 45.455 17.45 8.84 0.00 3.06
3119 3179 3.133691 CCTGTAGTATGCATGCGTCATT 58.866 45.455 17.45 5.84 0.00 2.57
3125 3185 1.999048 ATGCATGCGTCATTTTGTGG 58.001 45.000 14.09 0.00 0.00 4.17
3130 3190 0.310543 TGCGTCATTTTGTGGACAGC 59.689 50.000 0.00 0.00 35.59 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 3.628487 AGTAGCTGCTAGCAGTAGTACAC 59.372 47.826 37.91 26.11 45.56 2.90
70 72 5.850557 ATGGAGAGAGAATGTGTGTCTAG 57.149 43.478 0.00 0.00 0.00 2.43
197 199 2.632512 CTGCTCCTTCCTTATCTCTCCC 59.367 54.545 0.00 0.00 0.00 4.30
452 454 0.560688 AGGGAGGAGGAGCTTAGGAG 59.439 60.000 0.00 0.00 0.00 3.69
453 455 0.558712 GAGGGAGGAGGAGCTTAGGA 59.441 60.000 0.00 0.00 0.00 2.94
454 456 0.471022 GGAGGGAGGAGGAGCTTAGG 60.471 65.000 0.00 0.00 0.00 2.69
455 457 0.560688 AGGAGGGAGGAGGAGCTTAG 59.439 60.000 0.00 0.00 0.00 2.18
494 499 2.203549 AGACTGCCTAAGGCTTGGCC 62.204 60.000 26.82 16.96 44.41 5.36
687 701 2.192263 GCTAGCATATCTAGGGGGCTT 58.808 52.381 10.63 0.00 43.95 4.35
897 913 2.949644 ACCTCCTACAAACACAAACAGC 59.050 45.455 0.00 0.00 0.00 4.40
926 944 3.333804 CTTGCTCACTTTCTCCTTCCTC 58.666 50.000 0.00 0.00 0.00 3.71
1035 1053 3.528370 CCGCTACCTCCACCTCCG 61.528 72.222 0.00 0.00 0.00 4.63
1038 1056 4.798682 CCCCCGCTACCTCCACCT 62.799 72.222 0.00 0.00 0.00 4.00
1041 1059 2.365105 CTTCCCCCGCTACCTCCA 60.365 66.667 0.00 0.00 0.00 3.86
1443 1461 2.425592 CTCTTGACGTGGGTGGCA 59.574 61.111 0.00 0.00 0.00 4.92
1444 1462 3.050275 GCTCTTGACGTGGGTGGC 61.050 66.667 0.00 0.00 0.00 5.01
1650 1668 2.551270 AGCTTCCACATACCTGAGGAA 58.449 47.619 4.99 4.77 46.07 3.36
1666 1684 7.469537 ACTGTAGACTGTAATTGAGTAGCTT 57.530 36.000 0.00 0.00 0.00 3.74
2168 2186 4.935352 TTGGCAGTAAATGAAACTTGCT 57.065 36.364 0.00 0.00 0.00 3.91
2195 2213 2.292267 GGATCAATGCAACTCGACCAT 58.708 47.619 0.00 0.00 0.00 3.55
2196 2214 1.003003 TGGATCAATGCAACTCGACCA 59.997 47.619 0.00 0.00 0.00 4.02
2198 2216 2.744202 ACTTGGATCAATGCAACTCGAC 59.256 45.455 0.00 0.00 34.36 4.20
2199 2217 3.002791 GACTTGGATCAATGCAACTCGA 58.997 45.455 0.00 0.00 34.36 4.04
2224 2264 2.486716 CCCCTCCTCTTCTTGGATCTT 58.513 52.381 0.00 0.00 32.56 2.40
2242 2282 1.472480 CAACGATGGACAACAATCCCC 59.528 52.381 0.00 0.00 38.06 4.81
2243 2283 2.432444 TCAACGATGGACAACAATCCC 58.568 47.619 0.00 0.00 38.06 3.85
2244 2284 3.689161 TCATCAACGATGGACAACAATCC 59.311 43.478 4.24 0.00 40.15 3.01
2245 2285 4.651994 GTCATCAACGATGGACAACAATC 58.348 43.478 4.24 0.00 40.15 2.67
2261 2301 2.003196 TGCATTAGCGTTCGTCATCA 57.997 45.000 0.00 0.00 46.23 3.07
2267 2307 1.200483 ACGAGATGCATTAGCGTTCG 58.800 50.000 14.11 12.31 46.23 3.95
2412 2453 8.776470 TGTAAGTAGTAAACGATTTCAAAAGGG 58.224 33.333 0.00 0.00 0.00 3.95
2435 2479 0.096802 CGTGCTGCATGCGAAATGTA 59.903 50.000 14.09 0.00 46.63 2.29
2496 2540 7.014115 CGCATACGTACTTAGGAGTAACATAG 58.986 42.308 0.00 0.00 39.95 2.23
2515 2559 6.234213 GCAATGTAATCGATCTAACGCATAC 58.766 40.000 0.00 0.00 0.00 2.39
2518 2562 3.181575 CGCAATGTAATCGATCTAACGCA 59.818 43.478 0.00 0.00 0.00 5.24
2519 2563 3.181774 ACGCAATGTAATCGATCTAACGC 59.818 43.478 0.00 0.00 0.00 4.84
2520 2564 4.948864 ACGCAATGTAATCGATCTAACG 57.051 40.909 0.00 0.00 0.00 3.18
2521 2565 6.087820 GGAGTACGCAATGTAATCGATCTAAC 59.912 42.308 0.00 0.00 46.49 2.34
2522 2566 6.016527 AGGAGTACGCAATGTAATCGATCTAA 60.017 38.462 0.00 0.00 46.49 2.10
2523 2567 5.472478 AGGAGTACGCAATGTAATCGATCTA 59.528 40.000 0.00 0.00 46.49 1.98
2524 2568 4.278669 AGGAGTACGCAATGTAATCGATCT 59.721 41.667 0.00 0.00 46.49 2.75
2525 2569 4.547532 AGGAGTACGCAATGTAATCGATC 58.452 43.478 0.00 0.00 46.49 3.69
2526 2570 4.585955 AGGAGTACGCAATGTAATCGAT 57.414 40.909 0.00 0.00 46.49 3.59
2527 2571 4.336153 TGTAGGAGTACGCAATGTAATCGA 59.664 41.667 0.00 0.00 46.49 3.59
2528 2572 4.603985 TGTAGGAGTACGCAATGTAATCG 58.396 43.478 0.00 0.00 46.49 3.34
2529 2573 5.405571 CCATGTAGGAGTACGCAATGTAATC 59.594 44.000 0.00 0.00 45.18 1.75
2538 2582 2.296471 AGCATACCATGTAGGAGTACGC 59.704 50.000 0.00 0.00 41.22 4.42
2550 2596 4.139786 CCAAGCAGACAATAGCATACCAT 58.860 43.478 0.00 0.00 0.00 3.55
2551 2597 3.199727 TCCAAGCAGACAATAGCATACCA 59.800 43.478 0.00 0.00 0.00 3.25
2552 2598 3.808728 TCCAAGCAGACAATAGCATACC 58.191 45.455 0.00 0.00 0.00 2.73
2553 2599 6.204359 CAAATCCAAGCAGACAATAGCATAC 58.796 40.000 0.00 0.00 0.00 2.39
2558 2604 4.978083 AGCAAATCCAAGCAGACAATAG 57.022 40.909 0.00 0.00 0.00 1.73
2565 2611 3.246699 CACACAAAAGCAAATCCAAGCAG 59.753 43.478 0.00 0.00 0.00 4.24
2656 2708 5.798934 GCATAGAAGAACAAGACATGCAAAG 59.201 40.000 0.00 0.00 37.74 2.77
2729 2781 7.946776 CCATCCCAAGGAACAAGAGAATATATT 59.053 37.037 0.00 0.00 34.34 1.28
2785 2837 2.270352 TGCTGTACTTTCCCTTGTGG 57.730 50.000 0.00 0.00 0.00 4.17
2807 2859 7.886629 AAGATTAGCCAAAGAATTGCATAGA 57.113 32.000 0.00 0.00 35.10 1.98
2815 2867 7.406104 AGTACTCCAAAGATTAGCCAAAGAAT 58.594 34.615 0.00 0.00 0.00 2.40
2834 2886 7.736893 AGGATAGAAAGAGAGAGAGAGTACTC 58.263 42.308 15.41 15.41 42.90 2.59
2836 2888 8.211629 AGAAGGATAGAAAGAGAGAGAGAGTAC 58.788 40.741 0.00 0.00 0.00 2.73
2841 2893 7.512992 AGAGAGAAGGATAGAAAGAGAGAGAG 58.487 42.308 0.00 0.00 0.00 3.20
2882 2940 0.393808 AAACAGTGGCGTGACAAGGT 60.394 50.000 0.00 0.00 0.00 3.50
2901 2959 8.401955 AAAAATAGTACCCTATGGAAAGGAGA 57.598 34.615 0.00 0.00 39.15 3.71
2973 3031 9.321562 GTATTGGTCGGTATTTCTCATTTTCTA 57.678 33.333 0.00 0.00 0.00 2.10
2982 3040 5.099042 AGCTTGTATTGGTCGGTATTTCT 57.901 39.130 0.00 0.00 0.00 2.52
3002 3060 4.662468 TCATTCCATGTGAGACTAGAGC 57.338 45.455 0.00 0.00 0.00 4.09
3005 3063 5.541953 TCCATCATTCCATGTGAGACTAG 57.458 43.478 0.00 0.00 0.00 2.57
3006 3064 5.955961 TTCCATCATTCCATGTGAGACTA 57.044 39.130 0.00 0.00 0.00 2.59
3007 3065 4.849813 TTCCATCATTCCATGTGAGACT 57.150 40.909 0.00 0.00 0.00 3.24
3008 3066 4.261489 GCATTCCATCATTCCATGTGAGAC 60.261 45.833 0.00 0.00 0.00 3.36
3009 3067 3.887110 GCATTCCATCATTCCATGTGAGA 59.113 43.478 0.00 0.00 0.00 3.27
3010 3068 3.005472 GGCATTCCATCATTCCATGTGAG 59.995 47.826 0.00 0.00 0.00 3.51
3031 3089 7.424227 AAAAGTAAATCATGCACATTGTTGG 57.576 32.000 0.00 0.00 0.00 3.77
3057 3115 6.586463 GGCTTAGATTAAGTTTGCAGTTTTCC 59.414 38.462 0.00 0.00 38.07 3.13
3062 3120 5.586643 GCTAGGCTTAGATTAAGTTTGCAGT 59.413 40.000 7.11 0.00 38.07 4.40
3063 3121 5.008118 GGCTAGGCTTAGATTAAGTTTGCAG 59.992 44.000 9.46 0.00 38.07 4.41
3065 3123 4.881850 TGGCTAGGCTTAGATTAAGTTTGC 59.118 41.667 18.18 0.00 38.07 3.68
3066 3124 7.573968 AATGGCTAGGCTTAGATTAAGTTTG 57.426 36.000 18.18 0.00 38.07 2.93
3067 3125 9.868160 AATAATGGCTAGGCTTAGATTAAGTTT 57.132 29.630 18.18 2.54 38.07 2.66
3070 3128 9.606631 CCTAATAATGGCTAGGCTTAGATTAAG 57.393 37.037 18.18 7.97 38.80 1.85
3071 3129 9.333961 TCCTAATAATGGCTAGGCTTAGATTAA 57.666 33.333 18.18 0.00 35.57 1.40
3072 3130 8.759782 GTCCTAATAATGGCTAGGCTTAGATTA 58.240 37.037 18.18 12.66 35.57 1.75
3073 3131 7.311360 GGTCCTAATAATGGCTAGGCTTAGATT 60.311 40.741 18.18 15.09 35.57 2.40
3095 3155 1.202533 ACGCATGCATACTACAGGTCC 60.203 52.381 19.57 0.00 0.00 4.46
3096 3156 2.128035 GACGCATGCATACTACAGGTC 58.872 52.381 19.57 9.51 0.00 3.85
3097 3157 1.480545 TGACGCATGCATACTACAGGT 59.519 47.619 19.57 3.43 0.00 4.00
3098 3158 2.223537 TGACGCATGCATACTACAGG 57.776 50.000 19.57 0.00 0.00 4.00
3099 3159 4.801147 AAATGACGCATGCATACTACAG 57.199 40.909 19.57 0.50 0.00 2.74
3100 3160 4.394610 ACAAAATGACGCATGCATACTACA 59.605 37.500 19.57 8.06 0.00 2.74
3102 3162 4.201901 CCACAAAATGACGCATGCATACTA 60.202 41.667 19.57 0.00 0.00 1.82
3104 3164 2.853594 CCACAAAATGACGCATGCATAC 59.146 45.455 19.57 8.58 0.00 2.39
3105 3165 2.751806 TCCACAAAATGACGCATGCATA 59.248 40.909 19.57 2.99 0.00 3.14
3106 3166 1.545136 TCCACAAAATGACGCATGCAT 59.455 42.857 19.57 0.36 0.00 3.96
3107 3167 0.957362 TCCACAAAATGACGCATGCA 59.043 45.000 19.57 0.00 0.00 3.96
3108 3168 1.335780 TGTCCACAAAATGACGCATGC 60.336 47.619 7.91 7.91 34.18 4.06
3109 3169 2.587956 CTGTCCACAAAATGACGCATG 58.412 47.619 0.00 0.00 34.18 4.06
3110 3170 1.068333 GCTGTCCACAAAATGACGCAT 60.068 47.619 0.00 0.00 34.18 4.73
3111 3171 0.310543 GCTGTCCACAAAATGACGCA 59.689 50.000 0.00 0.00 34.18 5.24
3112 3172 0.593128 AGCTGTCCACAAAATGACGC 59.407 50.000 0.00 0.00 34.18 5.19
3113 3173 2.290367 TCAAGCTGTCCACAAAATGACG 59.710 45.455 0.00 0.00 34.18 4.35
3114 3174 3.988379 TCAAGCTGTCCACAAAATGAC 57.012 42.857 0.00 0.00 0.00 3.06
3116 3176 3.054878 GCTTCAAGCTGTCCACAAAATG 58.945 45.455 0.71 0.00 38.45 2.32
3118 3178 2.869233 GCTTCAAGCTGTCCACAAAA 57.131 45.000 0.71 0.00 38.45 2.44


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

AutoCloner maintained by Alex Coulton.