Multiple sequence alignment - TraesCS2B01G137200

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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 TraesCS2B01G137200 chr2B 100.000 2423 0 0 1 2423 104081616 104079194 0.000000e+00 4475.0
1 TraesCS2B01G137200 chr2B 92.118 1053 70 6 653 1702 103440339 103441381 0.000000e+00 1472.0
2 TraesCS2B01G137200 chr2B 88.433 268 20 6 353 611 103440070 103440335 1.810000e-81 313.0
3 TraesCS2B01G137200 chr2B 84.120 233 23 5 2191 2423 103475212 103475430 1.890000e-51 213.0
4 TraesCS2B01G137200 chr2B 95.745 94 4 0 119 212 103439976 103440069 4.170000e-33 152.0
5 TraesCS2B01G137200 chr2A 95.166 1717 57 11 3 1702 67093155 67091448 0.000000e+00 2687.0
6 TraesCS2B01G137200 chr2A 81.974 233 27 6 2191 2423 67090872 67090655 1.480000e-42 183.0
7 TraesCS2B01G137200 chr2D 93.566 1492 54 11 30 1495 67426422 67427897 0.000000e+00 2185.0
8 TraesCS2B01G137200 chr2D 87.829 304 14 10 1716 2018 67428718 67428999 3.860000e-88 335.0
9 TraesCS2B01G137200 chr2D 92.991 214 12 1 1492 1702 67428286 67428499 2.340000e-80 309.0
10 TraesCS2B01G137200 chr5A 85.139 397 29 8 158 552 56732298 56731930 1.760000e-101 379.0
11 TraesCS2B01G137200 chr5A 80.471 425 54 17 923 1344 56731598 56731200 5.060000e-77 298.0
12 TraesCS2B01G137200 chr5A 87.179 78 2 2 557 626 56731846 56731769 5.550000e-12 82.4
13 TraesCS2B01G137200 chr5B 83.457 405 40 10 158 560 73405320 73405699 3.830000e-93 351.0
14 TraesCS2B01G137200 chr5D 97.619 42 1 0 1 42 455323380 455323421 3.340000e-09 73.1
15 TraesCS2B01G137200 chr5D 100.000 36 0 0 2 37 219300004 219300039 1.550000e-07 67.6
16 TraesCS2B01G137200 chr1B 92.000 50 4 0 2 51 518259034 518258985 1.200000e-08 71.3
17 TraesCS2B01G137200 chr1B 95.455 44 1 1 2 44 115142241 115142284 4.320000e-08 69.4
18 TraesCS2B01G137200 chr7B 95.455 44 1 1 2 44 629223281 629223324 4.320000e-08 69.4
19 TraesCS2B01G137200 chr3A 89.474 57 2 4 3 57 144449106 144449052 4.320000e-08 69.4
20 TraesCS2B01G137200 chr3A 95.455 44 1 1 3 45 490617863 490617820 4.320000e-08 69.4
21 TraesCS2B01G137200 chr4B 100.000 36 0 0 2 37 149500528 149500563 1.550000e-07 67.6


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 TraesCS2B01G137200 chr2B 104079194 104081616 2422 True 4475.000000 4475 100.000000 1 2423 1 chr2B.!!$R1 2422
1 TraesCS2B01G137200 chr2B 103439976 103441381 1405 False 645.666667 1472 92.098667 119 1702 3 chr2B.!!$F2 1583
2 TraesCS2B01G137200 chr2A 67090655 67093155 2500 True 1435.000000 2687 88.570000 3 2423 2 chr2A.!!$R1 2420
3 TraesCS2B01G137200 chr2D 67426422 67428999 2577 False 943.000000 2185 91.462000 30 2018 3 chr2D.!!$F1 1988
4 TraesCS2B01G137200 chr5A 56731200 56732298 1098 True 253.133333 379 84.263000 158 1344 3 chr5A.!!$R1 1186

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
502 507 0.821301 TGCACCAGCGGATTTGACAA 60.821 50.0 1.5 0.0 46.23 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2222 3036 0.101399 CACTGGAGGAAGGATCGACG 59.899 60.0 0.0 0.0 0.0 5.12 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
241 243 5.427378 GCATATGGCCTTTTGTGGTTTAAT 58.573 37.500 3.32 0.00 36.11 1.40
502 507 0.821301 TGCACCAGCGGATTTGACAA 60.821 50.000 1.50 0.00 46.23 3.18
771 893 9.827411 GATTTTTACTAAGTTGTTCTGCTTAGG 57.173 33.333 13.61 0.22 44.94 2.69
772 894 7.739498 TTTTACTAAGTTGTTCTGCTTAGGG 57.261 36.000 13.61 0.00 44.94 3.53
841 963 7.872061 TCCTGCTGAATTCCCTTCTATATTA 57.128 36.000 2.27 0.00 34.75 0.98
1053 1198 2.433970 AGTCTTGCTATGCCTCTTCTCC 59.566 50.000 0.00 0.00 0.00 3.71
1092 1237 1.228367 CCCCTTGTCTGCTGCAACT 60.228 57.895 3.02 0.00 0.00 3.16
1435 1584 9.349713 TGGGTGGTGATTGATAATTATAAGTTC 57.650 33.333 0.00 0.00 0.00 3.01
1439 1588 9.349713 TGGTGATTGATAATTATAAGTTCACCC 57.650 33.333 26.24 17.05 46.33 4.61
1449 1602 6.610075 TTATAAGTTCACCCGGTTTCTAGT 57.390 37.500 0.00 0.00 0.00 2.57
1532 2077 9.642312 CGTCTTAATGTCAATTTCACATATGAG 57.358 33.333 10.38 0.87 35.83 2.90
1549 2094 6.992123 ACATATGAGTTGAGTCTGTGTTGAAA 59.008 34.615 10.38 0.00 0.00 2.69
1602 2147 3.785859 GGAGCGGCAGGGATGTGA 61.786 66.667 1.45 0.00 0.00 3.58
1671 2224 4.974368 ACGAACACAAAGTTTTCATGGA 57.026 36.364 0.00 0.00 41.51 3.41
1680 2233 7.065683 ACACAAAGTTTTCATGGAAATTCAACC 59.934 33.333 1.62 0.00 31.34 3.77
1702 2255 4.328983 CCGTGAATTAGCTAACGTTGATGT 59.671 41.667 11.99 0.00 34.30 3.06
1703 2256 5.248087 CGTGAATTAGCTAACGTTGATGTG 58.752 41.667 11.99 0.00 0.00 3.21
1705 2258 6.237835 CGTGAATTAGCTAACGTTGATGTGAT 60.238 38.462 11.99 0.00 0.00 3.06
1707 2260 8.765219 GTGAATTAGCTAACGTTGATGTGATAT 58.235 33.333 11.99 0.00 0.00 1.63
1708 2261 8.978539 TGAATTAGCTAACGTTGATGTGATATC 58.021 33.333 11.99 0.00 0.00 1.63
1709 2262 8.887036 AATTAGCTAACGTTGATGTGATATCA 57.113 30.769 11.99 0.00 0.00 2.15
1710 2263 7.694388 TTAGCTAACGTTGATGTGATATCAC 57.306 36.000 25.95 25.95 46.59 3.06
1739 2497 4.456911 AGTTTGTCATCACAAGGCATACTG 59.543 41.667 0.00 0.00 43.54 2.74
1769 2527 0.037232 GCATCCTGTATCTACCGCCC 60.037 60.000 0.00 0.00 0.00 6.13
1777 2535 1.002087 GTATCTACCGCCCCTTGATGG 59.998 57.143 0.00 0.00 0.00 3.51
1784 2542 2.757099 CCCCTTGATGGCACCAGC 60.757 66.667 0.00 0.00 41.10 4.85
1785 2543 3.136123 CCCTTGATGGCACCAGCG 61.136 66.667 0.00 0.00 43.41 5.18
1787 2545 1.973281 CCTTGATGGCACCAGCGTT 60.973 57.895 0.00 0.00 43.41 4.84
1789 2547 1.518056 CTTGATGGCACCAGCGTTGT 61.518 55.000 0.00 0.00 43.41 3.32
1790 2548 1.106351 TTGATGGCACCAGCGTTGTT 61.106 50.000 0.00 0.00 43.41 2.83
1791 2549 1.081242 GATGGCACCAGCGTTGTTG 60.081 57.895 0.00 0.00 43.41 3.33
1792 2550 3.211564 ATGGCACCAGCGTTGTTGC 62.212 57.895 13.32 13.32 43.41 4.17
1799 2557 3.969802 AGCGTTGTTGCTGCTGCC 61.970 61.111 13.47 0.00 45.28 4.85
1803 2561 4.268939 TTGTTGCTGCTGCCGCAC 62.269 61.111 18.38 13.45 42.25 5.34
1805 2563 4.988486 GTTGCTGCTGCCGCACAC 62.988 66.667 18.38 14.80 42.25 3.82
1819 2577 1.740043 CGCACACCTGATGATGCAGTA 60.740 52.381 0.00 0.00 36.00 2.74
1849 2607 1.005805 TGGTCATCCAGGGGACATTTG 59.994 52.381 12.56 0.00 39.03 2.32
1857 2616 1.688197 CAGGGGACATTTGCACAAACT 59.312 47.619 0.00 0.00 32.51 2.66
1880 2639 5.607119 AAATCACAACTAGTACGGCTTTG 57.393 39.130 0.00 0.00 0.00 2.77
1881 2640 3.034721 TCACAACTAGTACGGCTTTGG 57.965 47.619 0.00 0.00 0.00 3.28
1882 2641 2.073816 CACAACTAGTACGGCTTTGGG 58.926 52.381 0.00 0.00 0.00 4.12
1938 2697 5.645497 GCTGATGATGTAAAAGTTCCTCAGT 59.355 40.000 0.00 0.00 35.70 3.41
1948 2707 4.713792 AAGTTCCTCAGTTGTCCAGATT 57.286 40.909 0.00 0.00 0.00 2.40
1951 2710 4.288105 AGTTCCTCAGTTGTCCAGATTCAT 59.712 41.667 0.00 0.00 0.00 2.57
1955 2714 3.076621 TCAGTTGTCCAGATTCATGCAC 58.923 45.455 0.00 0.00 0.00 4.57
1956 2715 3.079578 CAGTTGTCCAGATTCATGCACT 58.920 45.455 0.00 0.00 0.00 4.40
2019 2778 9.813446 ATCAAAGGCTGATTTAAATTTCTGATC 57.187 29.630 1.43 0.00 42.46 2.92
2020 2779 8.805175 TCAAAGGCTGATTTAAATTTCTGATCA 58.195 29.630 1.43 0.00 0.00 2.92
2021 2780 9.595823 CAAAGGCTGATTTAAATTTCTGATCAT 57.404 29.630 1.43 0.00 0.00 2.45
2022 2781 9.813446 AAAGGCTGATTTAAATTTCTGATCATC 57.187 29.630 1.43 0.00 0.00 2.92
2023 2782 8.529424 AGGCTGATTTAAATTTCTGATCATCA 57.471 30.769 1.43 0.00 0.00 3.07
2024 2783 9.144298 AGGCTGATTTAAATTTCTGATCATCAT 57.856 29.630 1.43 0.00 0.00 2.45
2042 2801 7.316393 TCATCATAATACAAACTAGGGAGGG 57.684 40.000 0.00 0.00 0.00 4.30
2051 2810 0.723289 ACTAGGGAGGGGCTAACCTT 59.277 55.000 0.00 0.00 42.10 3.50
2052 2811 1.344189 ACTAGGGAGGGGCTAACCTTC 60.344 57.143 0.00 0.00 44.32 3.46
2053 2812 1.024536 TAGGGAGGGGCTAACCTTCT 58.975 55.000 0.00 0.00 44.46 2.85
2073 2835 6.703607 CCTTCTACATTCATCATGTACTGACC 59.296 42.308 0.00 0.00 45.00 4.02
2081 2843 1.343142 TCATGTACTGACCGTTGCACT 59.657 47.619 0.00 0.00 0.00 4.40
2083 2845 3.006003 TCATGTACTGACCGTTGCACTAA 59.994 43.478 0.00 0.00 0.00 2.24
2094 2856 2.412325 CGTTGCACTAACCGATTTGTCC 60.412 50.000 0.00 0.00 35.84 4.02
2097 2859 1.392510 GCACTAACCGATTTGTCCGAC 59.607 52.381 0.00 0.00 0.00 4.79
2100 2862 2.824341 ACTAACCGATTTGTCCGACTCT 59.176 45.455 0.00 0.00 0.00 3.24
2101 2863 2.080286 AACCGATTTGTCCGACTCTG 57.920 50.000 0.00 0.00 0.00 3.35
2150 2925 2.828661 ACCCTAGCCCTCCAATTTTC 57.171 50.000 0.00 0.00 0.00 2.29
2156 2931 1.948721 GCCCTCCAATTTTCCCAGCG 61.949 60.000 0.00 0.00 0.00 5.18
2161 2936 1.309499 CCAATTTTCCCAGCGCCGTA 61.309 55.000 2.29 0.00 0.00 4.02
2171 2946 2.355481 GCGCCGTACCCGATTAGG 60.355 66.667 0.00 0.00 40.63 2.69
2174 2949 2.799452 GCCGTACCCGATTAGGCCA 61.799 63.158 5.01 0.00 41.81 5.36
2179 2954 0.031917 TACCCGATTAGGCCAGGTCA 60.032 55.000 5.01 0.00 39.21 4.02
2187 3001 1.367346 TAGGCCAGGTCAATGAACCA 58.633 50.000 5.01 0.00 42.12 3.67
2189 3003 1.106285 GGCCAGGTCAATGAACCATC 58.894 55.000 0.00 0.00 42.12 3.51
2194 3008 4.194640 CCAGGTCAATGAACCATCAGTAG 58.805 47.826 0.00 0.00 42.12 2.57
2196 3010 3.521126 AGGTCAATGAACCATCAGTAGCT 59.479 43.478 0.00 0.00 42.12 3.32
2200 3014 3.834489 ATGAACCATCAGTAGCTCCTG 57.166 47.619 0.00 0.00 39.39 3.86
2202 3016 3.173151 TGAACCATCAGTAGCTCCTGAA 58.827 45.455 13.48 0.00 44.21 3.02
2208 3022 4.404073 CCATCAGTAGCTCCTGAACTAGTT 59.596 45.833 13.48 8.13 44.21 2.24
2213 3027 6.211584 TCAGTAGCTCCTGAACTAGTTTTCAT 59.788 38.462 6.52 0.00 38.49 2.57
2215 3029 5.234466 AGCTCCTGAACTAGTTTTCATGT 57.766 39.130 10.02 0.00 34.96 3.21
2216 3030 5.625150 AGCTCCTGAACTAGTTTTCATGTT 58.375 37.500 10.02 0.00 34.96 2.71
2222 3036 6.073003 CCTGAACTAGTTTTCATGTTGAGGAC 60.073 42.308 10.02 0.00 43.25 3.85
2226 3040 2.800544 AGTTTTCATGTTGAGGACGTCG 59.199 45.455 9.92 0.00 0.00 5.12
2238 3052 1.035932 GGACGTCGATCCTTCCTCCA 61.036 60.000 9.92 0.00 35.68 3.86
2239 3053 0.382515 GACGTCGATCCTTCCTCCAG 59.617 60.000 0.00 0.00 0.00 3.86
2245 3059 1.067821 CGATCCTTCCTCCAGTGTAGC 59.932 57.143 0.00 0.00 0.00 3.58
2250 3064 1.002087 CTTCCTCCAGTGTAGCGGTTT 59.998 52.381 0.00 0.00 0.00 3.27
2259 3073 1.725164 GTGTAGCGGTTTCTTCTTCGG 59.275 52.381 0.00 0.00 0.00 4.30
2262 3076 0.391597 AGCGGTTTCTTCTTCGGTCA 59.608 50.000 0.00 0.00 0.00 4.02
2266 3080 2.000447 GGTTTCTTCTTCGGTCATCGG 59.000 52.381 0.00 0.00 39.77 4.18
2267 3081 1.393883 GTTTCTTCTTCGGTCATCGGC 59.606 52.381 0.00 0.00 39.77 5.54
2269 3083 0.895530 TCTTCTTCGGTCATCGGCTT 59.104 50.000 0.00 0.00 39.77 4.35
2270 3084 1.135083 TCTTCTTCGGTCATCGGCTTC 60.135 52.381 0.00 0.00 39.77 3.86
2271 3085 0.457853 TTCTTCGGTCATCGGCTTCG 60.458 55.000 0.00 0.00 39.77 3.79
2302 3116 2.231478 TCCTGACATCTCAGTTCCGAAC 59.769 50.000 2.81 2.81 42.36 3.95
2313 3127 3.071023 TCAGTTCCGAACAGATCTTTGGT 59.929 43.478 13.69 0.00 0.00 3.67
2314 3128 3.433615 CAGTTCCGAACAGATCTTTGGTC 59.566 47.826 13.69 0.00 0.00 4.02
2315 3129 2.742589 GTTCCGAACAGATCTTTGGTCC 59.257 50.000 6.38 0.00 30.89 4.46
2316 3130 1.067142 TCCGAACAGATCTTTGGTCCG 60.067 52.381 0.00 0.00 30.89 4.79
2317 3131 1.067142 CCGAACAGATCTTTGGTCCGA 60.067 52.381 0.00 0.00 30.89 4.55
2318 3132 2.263077 CGAACAGATCTTTGGTCCGAG 58.737 52.381 0.00 0.00 30.89 4.63
2319 3133 2.622436 GAACAGATCTTTGGTCCGAGG 58.378 52.381 0.00 0.00 0.00 4.63
2320 3134 1.938585 ACAGATCTTTGGTCCGAGGA 58.061 50.000 0.00 0.00 0.00 3.71
2321 3135 1.550976 ACAGATCTTTGGTCCGAGGAC 59.449 52.381 13.61 13.61 43.87 3.85
2322 3136 1.827969 CAGATCTTTGGTCCGAGGACT 59.172 52.381 20.27 0.88 44.04 3.85
2323 3137 2.104170 AGATCTTTGGTCCGAGGACTC 58.896 52.381 20.27 11.80 44.04 3.36
2324 3138 1.137282 GATCTTTGGTCCGAGGACTCC 59.863 57.143 20.27 7.00 44.04 3.85
2325 3139 0.178944 TCTTTGGTCCGAGGACTCCA 60.179 55.000 20.27 9.50 44.04 3.86
2326 3140 0.685097 CTTTGGTCCGAGGACTCCAA 59.315 55.000 20.27 14.56 44.04 3.53
2340 3154 1.555533 ACTCCAATCCGAGGTCCTTTC 59.444 52.381 0.00 0.00 33.93 2.62
2345 3159 1.961180 ATCCGAGGTCCTTTCTGCCG 61.961 60.000 0.00 0.00 0.00 5.69
2352 3166 2.028020 AGGTCCTTTCTGCCGAAGTTAG 60.028 50.000 0.00 0.00 0.00 2.34
2358 3172 3.314541 TTCTGCCGAAGTTAGTTCCTC 57.685 47.619 0.00 0.00 0.00 3.71
2359 3173 2.244695 TCTGCCGAAGTTAGTTCCTCA 58.755 47.619 0.00 0.00 0.00 3.86
2365 3179 2.288825 CGAAGTTAGTTCCTCACAGGCA 60.289 50.000 0.00 0.00 34.61 4.75
2391 3205 1.343075 TGCTCCTCCGAGGACCTTTAT 60.343 52.381 13.54 0.00 40.06 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 7.402071 ACAAACTGATAATAAGTACTCCCTCCA 59.598 37.037 0.00 0.00 0.00 3.86
241 243 8.523915 AATTATCAGATTGTTGCATGAGGTAA 57.476 30.769 0.00 0.00 0.00 2.85
502 507 6.183360 CGGCAATTCAATAACCTAGAACACAT 60.183 38.462 0.00 0.00 0.00 3.21
611 703 8.752005 AAGGAATACACTATTACACATGCAAT 57.248 30.769 0.00 0.00 31.16 3.56
841 963 4.087182 TGGAACAGAGGAAGTAGATCGTT 58.913 43.478 0.00 0.00 0.00 3.85
898 1021 9.920946 ATACTCCACAATATAAGATGTTTTGGT 57.079 29.630 2.36 0.00 34.18 3.67
960 1087 1.812571 GATGTTGCGGAACCTGTCATT 59.187 47.619 17.64 0.00 0.00 2.57
1344 1489 1.626321 TCCAGCATTTCAACCTCGGTA 59.374 47.619 0.00 0.00 0.00 4.02
1435 1584 0.682852 TCCACACTAGAAACCGGGTG 59.317 55.000 6.32 5.46 35.99 4.61
1439 1588 4.778534 TTACTCTCCACACTAGAAACCG 57.221 45.455 0.00 0.00 0.00 4.44
1449 1602 5.484715 CCGTTTAATCCTTTACTCTCCACA 58.515 41.667 0.00 0.00 0.00 4.17
1537 2082 7.931407 AGGGGATTTTAAAATTTCAACACAGAC 59.069 33.333 14.45 0.00 0.00 3.51
1549 2094 8.480501 CATCACATCAAGAGGGGATTTTAAAAT 58.519 33.333 13.24 13.24 32.25 1.82
1602 2147 0.831711 GACCCATTTGCCAACCCACT 60.832 55.000 0.00 0.00 0.00 4.00
1680 2233 5.061684 TCACATCAACGTTAGCTAATTCACG 59.938 40.000 9.88 11.62 38.62 4.35
1702 2255 7.118245 GTGATGACAAACTGAACTGTGATATCA 59.882 37.037 0.00 0.00 0.00 2.15
1703 2256 7.118245 TGTGATGACAAACTGAACTGTGATATC 59.882 37.037 0.00 0.00 0.00 1.63
1705 2258 6.287525 TGTGATGACAAACTGAACTGTGATA 58.712 36.000 0.00 0.00 0.00 2.15
1707 2260 4.512484 TGTGATGACAAACTGAACTGTGA 58.488 39.130 0.00 0.00 0.00 3.58
1708 2261 4.880886 TGTGATGACAAACTGAACTGTG 57.119 40.909 0.00 0.00 0.00 3.66
1709 2262 4.336433 CCTTGTGATGACAAACTGAACTGT 59.664 41.667 0.00 0.00 41.62 3.55
1710 2263 4.790766 GCCTTGTGATGACAAACTGAACTG 60.791 45.833 0.00 0.00 41.62 3.16
1711 2264 3.316308 GCCTTGTGATGACAAACTGAACT 59.684 43.478 0.00 0.00 41.62 3.01
1712 2265 3.066621 TGCCTTGTGATGACAAACTGAAC 59.933 43.478 0.00 0.00 41.62 3.18
1713 2266 3.286353 TGCCTTGTGATGACAAACTGAA 58.714 40.909 0.00 0.00 41.62 3.02
1714 2267 2.929641 TGCCTTGTGATGACAAACTGA 58.070 42.857 0.00 0.00 41.62 3.41
1739 2497 2.393271 ACAGGATGCTTACTGTCAGC 57.607 50.000 11.62 7.02 44.08 4.26
1769 2527 1.973281 AACGCTGGTGCCATCAAGG 60.973 57.895 0.00 0.00 41.84 3.61
1782 2540 3.969802 GGCAGCAGCAACAACGCT 61.970 61.111 2.65 0.00 45.21 5.07
1795 2553 1.450848 ATCATCAGGTGTGCGGCAG 60.451 57.895 1.18 0.00 0.00 4.85
1796 2554 1.746239 CATCATCAGGTGTGCGGCA 60.746 57.895 0.00 0.00 0.00 5.69
1798 2556 1.712018 CTGCATCATCAGGTGTGCGG 61.712 60.000 0.00 3.55 37.54 5.69
1799 2557 1.022982 ACTGCATCATCAGGTGTGCG 61.023 55.000 0.00 2.88 37.54 5.34
1801 2559 2.353889 GCTTACTGCATCATCAGGTGTG 59.646 50.000 0.00 0.00 42.31 3.82
1819 2577 3.181436 CCCTGGATGACCATCTATTGCTT 60.181 47.826 9.56 0.00 45.87 3.91
1827 2585 1.143813 ATGTCCCCTGGATGACCATC 58.856 55.000 12.02 1.50 45.87 3.51
1849 2607 7.007697 CGTACTAGTTGTGATTTAGTTTGTGC 58.992 38.462 0.00 0.00 0.00 4.57
1857 2616 5.640357 CCAAAGCCGTACTAGTTGTGATTTA 59.360 40.000 0.00 0.00 0.00 1.40
1880 2639 8.856153 ATTTGTAAAATGAACATTAAACCCCC 57.144 30.769 0.37 0.00 0.00 5.40
1909 2668 6.094603 AGGAACTTTTACATCATCAGCATGTC 59.905 38.462 0.00 0.00 32.89 3.06
1938 2697 3.076621 GACAGTGCATGAATCTGGACAA 58.923 45.455 0.00 0.00 39.68 3.18
1948 2707 1.536940 CATGTTGGGACAGTGCATGA 58.463 50.000 0.00 0.00 42.66 3.07
1951 2710 1.151221 AGCATGTTGGGACAGTGCA 59.849 52.632 12.76 0.00 42.39 4.57
1955 2714 2.014857 CTCATCAGCATGTTGGGACAG 58.985 52.381 9.87 0.00 38.57 3.51
1956 2715 1.629861 TCTCATCAGCATGTTGGGACA 59.370 47.619 9.87 0.00 40.20 4.02
2018 2777 6.272324 CCCCTCCCTAGTTTGTATTATGATGA 59.728 42.308 0.00 0.00 0.00 2.92
2019 2778 6.476378 CCCCTCCCTAGTTTGTATTATGATG 58.524 44.000 0.00 0.00 0.00 3.07
2020 2779 5.014228 GCCCCTCCCTAGTTTGTATTATGAT 59.986 44.000 0.00 0.00 0.00 2.45
2021 2780 4.349930 GCCCCTCCCTAGTTTGTATTATGA 59.650 45.833 0.00 0.00 0.00 2.15
2022 2781 4.351111 AGCCCCTCCCTAGTTTGTATTATG 59.649 45.833 0.00 0.00 0.00 1.90
2023 2782 4.578128 AGCCCCTCCCTAGTTTGTATTAT 58.422 43.478 0.00 0.00 0.00 1.28
2024 2783 4.016962 AGCCCCTCCCTAGTTTGTATTA 57.983 45.455 0.00 0.00 0.00 0.98
2025 2784 2.859951 AGCCCCTCCCTAGTTTGTATT 58.140 47.619 0.00 0.00 0.00 1.89
2026 2785 2.588925 AGCCCCTCCCTAGTTTGTAT 57.411 50.000 0.00 0.00 0.00 2.29
2027 2786 3.109928 GTTAGCCCCTCCCTAGTTTGTA 58.890 50.000 0.00 0.00 0.00 2.41
2028 2787 1.914108 GTTAGCCCCTCCCTAGTTTGT 59.086 52.381 0.00 0.00 0.00 2.83
2029 2788 1.212195 GGTTAGCCCCTCCCTAGTTTG 59.788 57.143 0.00 0.00 0.00 2.93
2042 2801 6.551385 CATGATGAATGTAGAAGGTTAGCC 57.449 41.667 0.00 0.00 0.00 3.93
2073 2835 2.412325 GGACAAATCGGTTAGTGCAACG 60.412 50.000 0.00 0.00 45.86 4.10
2081 2843 2.821378 TCAGAGTCGGACAAATCGGTTA 59.179 45.455 11.27 0.00 0.00 2.85
2083 2845 1.202582 CTCAGAGTCGGACAAATCGGT 59.797 52.381 11.27 0.00 0.00 4.69
2094 2856 4.930405 TCCGTCTTATATAGCTCAGAGTCG 59.070 45.833 0.00 0.00 0.00 4.18
2097 2859 5.062934 CGACTCCGTCTTATATAGCTCAGAG 59.937 48.000 0.00 0.00 0.00 3.35
2156 2931 2.030113 GGCCTAATCGGGTACGGC 59.970 66.667 0.00 0.00 41.39 5.68
2161 2936 0.912487 TTGACCTGGCCTAATCGGGT 60.912 55.000 3.32 0.00 45.81 5.28
2171 2946 1.747355 CTGATGGTTCATTGACCTGGC 59.253 52.381 0.00 0.00 40.47 4.85
2174 2949 3.521126 AGCTACTGATGGTTCATTGACCT 59.479 43.478 0.00 0.00 40.47 3.85
2179 2954 3.776969 TCAGGAGCTACTGATGGTTCATT 59.223 43.478 25.36 0.00 42.26 2.57
2187 3001 6.211584 TGAAAACTAGTTCAGGAGCTACTGAT 59.788 38.462 29.21 17.80 46.07 2.90
2189 3003 5.784177 TGAAAACTAGTTCAGGAGCTACTG 58.216 41.667 20.84 20.84 39.84 2.74
2194 3008 5.470098 TCAACATGAAAACTAGTTCAGGAGC 59.530 40.000 14.42 0.80 40.81 4.70
2196 3010 5.997746 CCTCAACATGAAAACTAGTTCAGGA 59.002 40.000 14.42 4.38 40.81 3.86
2200 3014 5.465724 ACGTCCTCAACATGAAAACTAGTTC 59.534 40.000 8.95 0.00 0.00 3.01
2202 3016 4.957296 ACGTCCTCAACATGAAAACTAGT 58.043 39.130 0.00 0.00 0.00 2.57
2208 3022 2.804697 TCGACGTCCTCAACATGAAA 57.195 45.000 10.58 0.00 0.00 2.69
2213 3027 2.957060 AGGATCGACGTCCTCAACA 58.043 52.632 10.58 0.00 45.51 3.33
2222 3036 0.101399 CACTGGAGGAAGGATCGACG 59.899 60.000 0.00 0.00 0.00 5.12
2226 3040 1.067821 CGCTACACTGGAGGAAGGATC 59.932 57.143 0.00 0.00 0.00 3.36
2235 3049 1.968493 AGAAGAAACCGCTACACTGGA 59.032 47.619 0.00 0.00 0.00 3.86
2238 3052 2.609737 CCGAAGAAGAAACCGCTACACT 60.610 50.000 0.00 0.00 0.00 3.55
2239 3053 1.725164 CCGAAGAAGAAACCGCTACAC 59.275 52.381 0.00 0.00 0.00 2.90
2245 3059 1.654105 CGATGACCGAAGAAGAAACCG 59.346 52.381 0.00 0.00 41.76 4.44
2250 3064 0.895530 AAGCCGATGACCGAAGAAGA 59.104 50.000 0.00 0.00 41.76 2.87
2259 3073 0.454600 TCACCTACGAAGCCGATGAC 59.545 55.000 0.00 0.00 39.50 3.06
2262 3076 1.134560 GAACTCACCTACGAAGCCGAT 59.865 52.381 0.00 0.00 39.50 4.18
2266 3080 1.544691 TCAGGAACTCACCTACGAAGC 59.455 52.381 0.00 0.00 38.32 3.86
2267 3081 2.557056 TGTCAGGAACTCACCTACGAAG 59.443 50.000 0.00 0.00 38.32 3.79
2269 3083 2.281539 TGTCAGGAACTCACCTACGA 57.718 50.000 0.00 0.00 38.32 3.43
2270 3084 2.755655 AGATGTCAGGAACTCACCTACG 59.244 50.000 0.00 0.00 38.32 3.51
2271 3085 3.764434 TGAGATGTCAGGAACTCACCTAC 59.236 47.826 0.00 0.00 38.32 3.18
2302 3116 1.827969 AGTCCTCGGACCAAAGATCTG 59.172 52.381 12.30 0.00 45.59 2.90
2313 3127 0.752009 CTCGGATTGGAGTCCTCGGA 60.752 60.000 11.33 9.31 36.07 4.55
2314 3128 1.736586 CTCGGATTGGAGTCCTCGG 59.263 63.158 11.33 5.24 36.07 4.63
2315 3129 1.038130 ACCTCGGATTGGAGTCCTCG 61.038 60.000 11.33 9.26 36.07 4.63
2316 3130 0.747852 GACCTCGGATTGGAGTCCTC 59.252 60.000 11.33 0.00 36.07 3.71
2317 3131 0.688087 GGACCTCGGATTGGAGTCCT 60.688 60.000 11.33 0.00 36.07 3.85
2318 3132 0.688087 AGGACCTCGGATTGGAGTCC 60.688 60.000 0.73 0.73 35.89 3.85
2319 3133 1.196012 AAGGACCTCGGATTGGAGTC 58.804 55.000 0.00 0.00 31.98 3.36
2320 3134 1.555533 GAAAGGACCTCGGATTGGAGT 59.444 52.381 0.00 0.00 31.98 3.85
2321 3135 1.834263 AGAAAGGACCTCGGATTGGAG 59.166 52.381 0.00 0.00 0.00 3.86
2322 3136 1.555075 CAGAAAGGACCTCGGATTGGA 59.445 52.381 0.00 0.00 0.00 3.53
2323 3137 2.014068 GCAGAAAGGACCTCGGATTGG 61.014 57.143 0.00 0.00 0.00 3.16
2324 3138 1.373570 GCAGAAAGGACCTCGGATTG 58.626 55.000 0.00 0.00 0.00 2.67
2325 3139 0.253327 GGCAGAAAGGACCTCGGATT 59.747 55.000 0.00 0.00 0.00 3.01
2326 3140 1.908483 GGCAGAAAGGACCTCGGAT 59.092 57.895 0.00 0.00 0.00 4.18
2340 3154 2.288825 TGTGAGGAACTAACTTCGGCAG 60.289 50.000 0.00 0.00 41.46 4.85
2345 3159 3.402628 TGCCTGTGAGGAACTAACTTC 57.597 47.619 0.00 0.00 41.46 3.01
2352 3166 1.068055 CATGCTTTGCCTGTGAGGAAC 60.068 52.381 0.00 0.00 37.67 3.62
2365 3179 1.222936 CCTCGGAGGAGCATGCTTT 59.777 57.895 23.61 13.66 36.27 3.51
2391 3205 1.118838 CCCAAGTTGCCAGAAACCAA 58.881 50.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.