Multiple sequence alignment - TraesCS3A01G440600

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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 TraesCS3A01G440600 chr3A 100.000 2435 0 0 1 2435 683238399 683240833 0.000000e+00 4497.0
1 TraesCS3A01G440600 chr3A 100.000 1235 0 0 2903 4137 683241301 683242535 0.000000e+00 2281.0
2 TraesCS3A01G440600 chr3A 90.230 174 14 3 3753 3924 42000163 41999991 1.500000e-54 224.0
3 TraesCS3A01G440600 chr3A 91.667 120 10 0 3994 4113 41999987 41999868 2.560000e-37 167.0
4 TraesCS3A01G440600 chr3D 95.541 1996 55 6 1 1990 546468157 546470124 0.000000e+00 3162.0
5 TraesCS3A01G440600 chr3D 95.719 1238 25 9 2903 4137 546470492 546471704 0.000000e+00 1967.0
6 TraesCS3A01G440600 chr3D 95.143 350 11 1 2092 2435 546470122 546470471 7.820000e-152 547.0
7 TraesCS3A01G440600 chr3D 83.014 365 49 11 3758 4121 30241111 30240759 6.670000e-83 318.0
8 TraesCS3A01G440600 chr3D 91.860 172 8 3 2192 2362 87925999 87926165 6.910000e-58 235.0
9 TraesCS3A01G440600 chr3B 94.927 1991 64 11 1 1990 723498821 723500775 0.000000e+00 3083.0
10 TraesCS3A01G440600 chr3B 96.898 548 15 2 3336 3881 723501693 723502240 0.000000e+00 917.0
11 TraesCS3A01G440600 chr3B 98.394 436 7 0 2903 3338 723501135 723501570 0.000000e+00 767.0
12 TraesCS3A01G440600 chr3B 96.765 340 9 1 2092 2431 723500773 723501110 2.160000e-157 566.0
13 TraesCS3A01G440600 chr3B 96.386 249 8 1 3865 4113 723502812 723503059 3.850000e-110 409.0
14 TraesCS3A01G440600 chr3B 87.879 231 25 3 3885 4113 51819587 51819358 6.820000e-68 268.0
15 TraesCS3A01G440600 chr3B 93.684 95 5 1 4027 4121 52769425 52769518 1.550000e-29 141.0
16 TraesCS3A01G440600 chr3B 100.000 35 0 0 4031 4065 723503142 723503176 9.600000e-07 65.8
17 TraesCS3A01G440600 chr5A 92.000 175 8 3 2190 2363 320214241 320214410 1.490000e-59 241.0
18 TraesCS3A01G440600 chr5A 92.442 172 7 3 2192 2361 558675659 558675492 1.490000e-59 241.0
19 TraesCS3A01G440600 chr5A 97.872 47 1 0 2048 2094 33119860 33119906 9.530000e-12 82.4
20 TraesCS3A01G440600 chr5D 91.954 174 9 2 2188 2360 204324442 204324611 5.340000e-59 239.0
21 TraesCS3A01G440600 chr5D 97.826 46 1 0 2049 2094 43299758 43299803 3.430000e-11 80.5
22 TraesCS3A01G440600 chr4D 91.111 180 9 4 2180 2357 334164378 334164552 1.920000e-58 237.0
23 TraesCS3A01G440600 chr4B 91.860 172 8 3 2192 2361 406389458 406389291 6.910000e-58 235.0
24 TraesCS3A01G440600 chr4B 89.305 187 14 4 2178 2361 143895768 143895585 3.220000e-56 230.0
25 TraesCS3A01G440600 chr4B 86.726 113 7 5 1986 2094 111788065 111787957 7.270000e-23 119.0
26 TraesCS3A01G440600 chr1B 91.667 84 6 1 1857 1939 588448625 588448708 9.400000e-22 115.0
27 TraesCS3A01G440600 chr1A 92.500 80 5 1 1861 1939 532673065 532673144 3.380000e-21 113.0
28 TraesCS3A01G440600 chr1A 90.476 84 7 1 1857 1939 532714388 532714471 4.370000e-20 110.0
29 TraesCS3A01G440600 chr6A 93.846 65 4 0 1983 2047 601226016 601226080 9.460000e-17 99.0
30 TraesCS3A01G440600 chr6A 94.915 59 3 0 1987 2045 606033270 606033328 4.400000e-15 93.5
31 TraesCS3A01G440600 chr6A 93.443 61 4 0 1987 2047 19837612 19837552 1.580000e-14 91.6
32 TraesCS3A01G440600 chr6A 97.500 40 1 0 2055 2094 51755366 51755405 7.420000e-08 69.4
33 TraesCS3A01G440600 chr2B 94.737 57 3 0 1989 2045 494265085 494265141 5.700000e-14 89.8
34 TraesCS3A01G440600 chr2B 95.556 45 2 0 2051 2095 184971438 184971394 5.740000e-09 73.1
35 TraesCS3A01G440600 chr2A 94.737 57 3 0 1989 2045 28818851 28818795 5.700000e-14 89.8
36 TraesCS3A01G440600 chr2A 93.333 60 4 0 1988 2047 752101641 752101582 5.700000e-14 89.8
37 TraesCS3A01G440600 chrUn 80.909 110 15 6 1989 2094 284001398 284001291 9.530000e-12 82.4
38 TraesCS3A01G440600 chr7A 80.531 113 16 6 1986 2094 1755741 1755851 9.530000e-12 82.4
39 TraesCS3A01G440600 chr5B 97.872 47 1 0 2048 2094 40979538 40979584 9.530000e-12 82.4
40 TraesCS3A01G440600 chr4A 89.362 47 4 1 2054 2099 274736215 274736261 1.610000e-04 58.4


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 TraesCS3A01G440600 chr3A 683238399 683242535 4136 False 3389.000000 4497 100.000000 1 4137 2 chr3A.!!$F1 4136
1 TraesCS3A01G440600 chr3D 546468157 546471704 3547 False 1892.000000 3162 95.467667 1 4137 3 chr3D.!!$F2 4136
2 TraesCS3A01G440600 chr3B 723498821 723503176 4355 False 967.966667 3083 97.228333 1 4113 6 chr3B.!!$F2 4112

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
769 773 2.408565 TCCTGAGGGTATGGGTCATTC 58.591 52.381 0.00 0.00 0.0 2.67 F
1116 1121 0.520404 GTGATGCTGCTGTCAACCTG 59.480 55.000 9.29 0.00 0.0 4.00 F
1136 1141 0.836606 TGCTCTCCAAACACCAGTGA 59.163 50.000 4.48 0.00 0.0 3.41 F
1366 1374 1.189446 GGCTACGATATTGTGAACGCG 59.811 52.381 3.53 3.53 0.0 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1753 1761 1.425066 TGGGAATCAGGTTCTGCAGTT 59.575 47.619 14.67 0.00 37.01 3.16 R
2915 2933 0.394565 TCCCCCGTTTTGCCAAATTG 59.605 50.000 0.00 0.00 0.00 2.32 R
3122 3140 1.145738 ACCAGTTCATTCTTGGGCTGT 59.854 47.619 0.00 0.00 0.00 4.40 R
3511 3654 8.224437 GTGCTAAATCTCTCTTTGTCAAAGTAC 58.776 37.037 21.81 2.84 39.52 2.73 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
33 34 7.734924 TCTGCATCTTAATTAATACCAGCTG 57.265 36.000 6.78 6.78 0.00 4.24
76 77 8.114290 ACAAAACGCGTTTATCATACTTGATAG 58.886 33.333 34.89 12.98 43.82 2.08
77 78 7.766219 AAACGCGTTTATCATACTTGATAGT 57.234 32.000 34.04 5.19 43.82 2.12
78 79 7.766219 AACGCGTTTATCATACTTGATAGTT 57.234 32.000 20.79 0.00 43.82 2.24
79 80 7.161829 ACGCGTTTATCATACTTGATAGTTG 57.838 36.000 5.58 0.00 43.82 3.16
80 81 6.976349 ACGCGTTTATCATACTTGATAGTTGA 59.024 34.615 5.58 0.00 43.82 3.18
81 82 7.652105 ACGCGTTTATCATACTTGATAGTTGAT 59.348 33.333 5.58 0.00 43.82 2.57
82 83 9.124807 CGCGTTTATCATACTTGATAGTTGATA 57.875 33.333 0.00 0.00 43.82 2.15
284 288 4.391830 TGAAGTACTCGCAAAATGTGGATC 59.608 41.667 0.00 0.00 0.00 3.36
336 340 7.377398 TCACATGATGTAACAAATTTCCCTTG 58.623 34.615 0.00 0.00 0.00 3.61
366 370 8.715191 TTGAATCAACTGTTGCAAAGTTTTAT 57.285 26.923 15.52 13.90 35.70 1.40
485 489 8.336801 ACTATGTCCACTCCAAATTTTCTTAC 57.663 34.615 0.00 0.00 0.00 2.34
510 514 2.794760 TGGCCACCCCCTAATCATTTAT 59.205 45.455 0.00 0.00 0.00 1.40
769 773 2.408565 TCCTGAGGGTATGGGTCATTC 58.591 52.381 0.00 0.00 0.00 2.67
778 782 3.134081 GGTATGGGTCATTCCTCGAAGAA 59.866 47.826 0.00 0.00 34.09 2.52
796 800 5.522824 CGAAGAAATAAACTAGTACCCTGCC 59.477 44.000 0.00 0.00 0.00 4.85
816 820 4.142071 TGCCTAGTTGTCATTCTGCTCTAG 60.142 45.833 0.00 0.00 0.00 2.43
877 881 5.245301 TGAAAAGATTCTCTGGGAACGTAGA 59.755 40.000 0.00 0.00 36.70 2.59
1116 1121 0.520404 GTGATGCTGCTGTCAACCTG 59.480 55.000 9.29 0.00 0.00 4.00
1136 1141 0.836606 TGCTCTCCAAACACCAGTGA 59.163 50.000 4.48 0.00 0.00 3.41
1363 1371 4.443394 CGGTAAGGCTACGATATTGTGAAC 59.557 45.833 5.81 0.00 0.00 3.18
1366 1374 1.189446 GGCTACGATATTGTGAACGCG 59.811 52.381 3.53 3.53 0.00 6.01
1372 1380 3.181534 ACGATATTGTGAACGCGAAGTTG 60.182 43.478 15.93 0.00 44.35 3.16
1399 1407 7.284034 TGCATCCTCTCTTGAAATAAATCCTTC 59.716 37.037 0.00 0.00 0.00 3.46
1451 1459 2.615912 GTTTGCAGGTATCAGATGCTCC 59.384 50.000 0.00 0.00 40.62 4.70
1541 1549 4.633126 CAGCTCGGAAGAAGATTTGATTGA 59.367 41.667 0.00 0.00 41.32 2.57
1667 1675 6.020599 CGGTTATGTTACTCTTGTTCTGATCG 60.021 42.308 0.00 0.00 0.00 3.69
1675 1683 6.227298 ACTCTTGTTCTGATCGTGGAATAT 57.773 37.500 0.00 0.00 0.00 1.28
1753 1761 5.420421 AGAGGATCAACGAGAAATTGAGAGA 59.580 40.000 0.00 0.00 39.36 3.10
1761 1769 4.240888 CGAGAAATTGAGAGAACTGCAGA 58.759 43.478 23.35 0.00 0.00 4.26
1798 1806 4.141482 TGGAACCAAAGTAAGCTCTCACTT 60.141 41.667 3.22 3.22 36.56 3.16
1939 1947 5.560966 GCAGCTGCAAATAAAGGTAGTAA 57.439 39.130 33.36 0.00 41.59 2.24
2006 2018 8.541899 AAAAATGTACTTCCCCTGTAAAGAAA 57.458 30.769 0.00 0.00 0.00 2.52
2007 2019 8.721133 AAAATGTACTTCCCCTGTAAAGAAAT 57.279 30.769 0.00 0.00 0.00 2.17
2008 2020 9.816787 AAAATGTACTTCCCCTGTAAAGAAATA 57.183 29.630 0.00 0.00 0.00 1.40
2009 2021 9.990868 AAATGTACTTCCCCTGTAAAGAAATAT 57.009 29.630 0.00 0.00 0.00 1.28
2015 2027 7.993758 ACTTCCCCTGTAAAGAAATATAAGAGC 59.006 37.037 0.00 0.00 0.00 4.09
2016 2028 6.522054 TCCCCTGTAAAGAAATATAAGAGCG 58.478 40.000 0.00 0.00 0.00 5.03
2017 2029 6.099269 TCCCCTGTAAAGAAATATAAGAGCGT 59.901 38.462 0.00 0.00 0.00 5.07
2018 2030 6.766467 CCCCTGTAAAGAAATATAAGAGCGTT 59.234 38.462 0.00 0.00 0.00 4.84
2019 2031 7.282450 CCCCTGTAAAGAAATATAAGAGCGTTT 59.718 37.037 0.00 0.00 0.00 3.60
2020 2032 9.321562 CCCTGTAAAGAAATATAAGAGCGTTTA 57.678 33.333 0.00 0.00 0.00 2.01
2027 2039 9.654663 AAGAAATATAAGAGCGTTTAGAACACT 57.345 29.630 0.00 0.00 0.00 3.55
2034 2046 7.870588 AAGAGCGTTTAGAACACTAAAGTAG 57.129 36.000 0.00 0.00 36.97 2.57
2035 2047 6.979465 AGAGCGTTTAGAACACTAAAGTAGT 58.021 36.000 0.00 0.00 36.97 2.73
2088 2100 8.888579 AACACTCATATATTTCTTTACGGAGG 57.111 34.615 0.00 0.00 0.00 4.30
2089 2101 7.442656 ACACTCATATATTTCTTTACGGAGGG 58.557 38.462 0.00 0.00 0.00 4.30
2090 2102 7.289317 ACACTCATATATTTCTTTACGGAGGGA 59.711 37.037 0.00 0.00 0.00 4.20
2098 2110 3.499338 TCTTTACGGAGGGAGTAACACA 58.501 45.455 0.00 0.00 34.25 3.72
2431 2449 9.918630 CTTCAGATTTGAACAGAATACCAAAAT 57.081 29.630 0.00 0.00 38.37 1.82
3122 3140 3.196469 CAGCCTGAGTCTGAGAATTACCA 59.804 47.826 0.00 0.00 33.54 3.25
3251 3269 3.685139 TGCTTCTTGTGACTTAGAGGG 57.315 47.619 0.00 0.00 0.00 4.30
3323 3341 3.137176 AGTTGGAGCATGCCATATGTAGT 59.863 43.478 15.66 0.00 37.86 2.73
3404 3547 8.180267 AGTGATTTTCTTATCATCGAAGCAAAG 58.820 33.333 0.00 0.00 36.94 2.77
3666 3810 2.423185 TCAAGCTCACCATTTATTGCGG 59.577 45.455 0.00 0.00 0.00 5.69
3697 3841 2.902486 CCCTAAGCTCTGGCATCTGATA 59.098 50.000 0.00 0.00 41.70 2.15
3919 4651 4.581409 GGGTTTTTGCTAGAACTGGTGTAA 59.419 41.667 0.00 0.00 0.00 2.41
3925 4657 8.453238 TTTTGCTAGAACTGGTGTAATTAACA 57.547 30.769 0.00 0.00 35.06 2.41
4003 4735 5.415389 TGTGCATACATGTAGCTTTCACAAT 59.585 36.000 20.56 0.00 0.00 2.71
4095 4830 1.581934 TGTGGTTCTTGAGTTGAGCG 58.418 50.000 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 0.895100 TGTGCAAGGGTCAGCATTCC 60.895 55.000 0.00 0.00 43.44 3.01
76 77 6.091123 AGACGTGCTTAAATTCGTATCAAC 57.909 37.500 0.00 0.00 36.67 3.18
77 78 6.366604 TCAAGACGTGCTTAAATTCGTATCAA 59.633 34.615 0.00 0.00 36.67 2.57
78 79 5.865013 TCAAGACGTGCTTAAATTCGTATCA 59.135 36.000 0.00 0.00 36.67 2.15
79 80 6.327177 TCAAGACGTGCTTAAATTCGTATC 57.673 37.500 0.00 0.00 36.67 2.24
80 81 5.220416 GCTCAAGACGTGCTTAAATTCGTAT 60.220 40.000 0.00 0.00 36.67 3.06
81 82 4.090930 GCTCAAGACGTGCTTAAATTCGTA 59.909 41.667 0.00 0.00 36.67 3.43
82 83 3.120649 GCTCAAGACGTGCTTAAATTCGT 60.121 43.478 0.00 0.00 39.21 3.85
257 261 4.905866 CACATTTTGCGAGTACTTCAACTG 59.094 41.667 10.01 11.95 0.00 3.16
284 288 1.394917 GTTGCGTGAAGGCTATCTGTG 59.605 52.381 0.00 0.00 0.00 3.66
336 340 6.366877 ACTTTGCAACAGTTGATTCAATATGC 59.633 34.615 17.99 15.64 0.00 3.14
485 489 1.697754 ATTAGGGGGTGGCCAGGAG 60.698 63.158 5.11 0.00 0.00 3.69
539 543 9.995003 TTATAAAGTTGCAAAATTCCACAAGAT 57.005 25.926 0.00 0.00 30.03 2.40
769 773 6.979238 CAGGGTACTAGTTTATTTCTTCGAGG 59.021 42.308 0.00 0.00 0.00 4.63
796 800 8.462811 TCTTAACTAGAGCAGAATGACAACTAG 58.537 37.037 0.00 0.00 39.69 2.57
816 820 5.479724 ACTGAGGTTACACCCTACTCTTAAC 59.520 44.000 0.00 0.00 39.75 2.01
877 881 6.062095 GCAGGTAGGGACATGTACATTTATT 58.938 40.000 10.99 0.00 39.59 1.40
1116 1121 0.947244 CACTGGTGTTTGGAGAGCAC 59.053 55.000 0.00 0.00 38.61 4.40
1205 1213 0.318614 GTTCACCATTGGCGTTGTGG 60.319 55.000 1.54 0.00 38.96 4.17
1363 1371 1.016130 AGAGGATGCACAACTTCGCG 61.016 55.000 0.00 0.00 0.00 5.87
1366 1374 3.668447 TCAAGAGAGGATGCACAACTTC 58.332 45.455 0.00 0.00 0.00 3.01
1372 1380 6.545298 AGGATTTATTTCAAGAGAGGATGCAC 59.455 38.462 0.00 0.00 0.00 4.57
1451 1459 4.026804 CGTTATCAGCTAGGCTTAAACACG 60.027 45.833 0.00 0.00 36.40 4.49
1541 1549 2.026822 ACAAAGGATTCCTCAGATGCGT 60.027 45.455 5.48 0.00 30.89 5.24
1675 1683 6.037786 ACCGTCAGAGAACAGAAATATTCA 57.962 37.500 0.00 0.00 0.00 2.57
1753 1761 1.425066 TGGGAATCAGGTTCTGCAGTT 59.575 47.619 14.67 0.00 37.01 3.16
1846 1854 3.258123 ACCTGGAAACGCATAAAATTGCT 59.742 39.130 0.00 0.00 40.54 3.91
1938 1946 8.565416 GCTTAACTGGAACATAAACAAGTACTT 58.435 33.333 1.12 1.12 38.20 2.24
1939 1947 7.174426 GGCTTAACTGGAACATAAACAAGTACT 59.826 37.037 0.00 0.00 38.20 2.73
1989 2001 7.993758 GCTCTTATATTTCTTTACAGGGGAAGT 59.006 37.037 0.00 0.00 0.00 3.01
1990 2002 7.171678 CGCTCTTATATTTCTTTACAGGGGAAG 59.828 40.741 0.00 0.00 0.00 3.46
1991 2003 6.990349 CGCTCTTATATTTCTTTACAGGGGAA 59.010 38.462 0.00 0.00 0.00 3.97
1992 2004 6.099269 ACGCTCTTATATTTCTTTACAGGGGA 59.901 38.462 0.00 0.00 0.00 4.81
1993 2005 6.289064 ACGCTCTTATATTTCTTTACAGGGG 58.711 40.000 0.00 0.00 0.00 4.79
1994 2006 7.787725 AACGCTCTTATATTTCTTTACAGGG 57.212 36.000 0.00 0.00 0.00 4.45
2062 2074 9.326413 CCTCCGTAAAGAAATATATGAGTGTTT 57.674 33.333 0.00 0.00 0.00 2.83
2063 2075 7.931948 CCCTCCGTAAAGAAATATATGAGTGTT 59.068 37.037 0.00 0.00 0.00 3.32
2064 2076 7.289317 TCCCTCCGTAAAGAAATATATGAGTGT 59.711 37.037 0.00 0.00 0.00 3.55
2065 2077 7.667557 TCCCTCCGTAAAGAAATATATGAGTG 58.332 38.462 0.00 0.00 0.00 3.51
2066 2078 7.509659 ACTCCCTCCGTAAAGAAATATATGAGT 59.490 37.037 0.00 0.00 0.00 3.41
2067 2079 7.897864 ACTCCCTCCGTAAAGAAATATATGAG 58.102 38.462 0.00 0.00 0.00 2.90
2068 2080 7.850935 ACTCCCTCCGTAAAGAAATATATGA 57.149 36.000 0.00 0.00 0.00 2.15
2069 2081 9.420551 GTTACTCCCTCCGTAAAGAAATATATG 57.579 37.037 0.00 0.00 0.00 1.78
2070 2082 9.151177 TGTTACTCCCTCCGTAAAGAAATATAT 57.849 33.333 0.00 0.00 0.00 0.86
2071 2083 8.416329 GTGTTACTCCCTCCGTAAAGAAATATA 58.584 37.037 0.00 0.00 0.00 0.86
2072 2084 7.093201 TGTGTTACTCCCTCCGTAAAGAAATAT 60.093 37.037 0.00 0.00 0.00 1.28
2073 2085 6.211184 TGTGTTACTCCCTCCGTAAAGAAATA 59.789 38.462 0.00 0.00 0.00 1.40
2074 2086 5.012354 TGTGTTACTCCCTCCGTAAAGAAAT 59.988 40.000 0.00 0.00 0.00 2.17
2075 2087 4.344679 TGTGTTACTCCCTCCGTAAAGAAA 59.655 41.667 0.00 0.00 0.00 2.52
2076 2088 3.896888 TGTGTTACTCCCTCCGTAAAGAA 59.103 43.478 0.00 0.00 0.00 2.52
2077 2089 3.499338 TGTGTTACTCCCTCCGTAAAGA 58.501 45.455 0.00 0.00 0.00 2.52
2078 2090 3.508793 TCTGTGTTACTCCCTCCGTAAAG 59.491 47.826 0.00 0.00 0.00 1.85
2079 2091 3.499338 TCTGTGTTACTCCCTCCGTAAA 58.501 45.455 0.00 0.00 0.00 2.01
2080 2092 3.159213 TCTGTGTTACTCCCTCCGTAA 57.841 47.619 0.00 0.00 0.00 3.18
2081 2093 2.885135 TCTGTGTTACTCCCTCCGTA 57.115 50.000 0.00 0.00 0.00 4.02
2082 2094 2.005370 TTCTGTGTTACTCCCTCCGT 57.995 50.000 0.00 0.00 0.00 4.69
2083 2095 3.056107 TGAATTCTGTGTTACTCCCTCCG 60.056 47.826 7.05 0.00 0.00 4.63
2084 2096 4.553330 TGAATTCTGTGTTACTCCCTCC 57.447 45.455 7.05 0.00 0.00 4.30
2085 2097 4.806247 CGATGAATTCTGTGTTACTCCCTC 59.194 45.833 7.05 0.00 0.00 4.30
2086 2098 4.466370 TCGATGAATTCTGTGTTACTCCCT 59.534 41.667 7.05 0.00 0.00 4.20
2087 2099 4.755411 TCGATGAATTCTGTGTTACTCCC 58.245 43.478 7.05 0.00 0.00 4.30
2088 2100 5.063564 GGTTCGATGAATTCTGTGTTACTCC 59.936 44.000 7.05 0.00 0.00 3.85
2089 2101 5.220228 CGGTTCGATGAATTCTGTGTTACTC 60.220 44.000 7.05 0.00 0.00 2.59
2090 2102 4.625742 CGGTTCGATGAATTCTGTGTTACT 59.374 41.667 7.05 0.00 0.00 2.24
2098 2110 4.992319 TGTTGTAACGGTTCGATGAATTCT 59.008 37.500 7.05 0.00 0.00 2.40
2245 2257 6.721571 TGATTCACTCATTTTTCTCCGTAC 57.278 37.500 0.00 0.00 0.00 3.67
2298 2310 7.815068 AGAGATTCAATATGAACTACATACGGC 59.185 37.037 0.00 0.00 43.12 5.68
2326 2338 9.043079 CCCTCCGTTTCTAAATATAAGTCTTTC 57.957 37.037 0.00 0.00 0.00 2.62
2915 2933 0.394565 TCCCCCGTTTTGCCAAATTG 59.605 50.000 0.00 0.00 0.00 2.32
2928 2946 2.623416 GAGGATTAAGCAATTTCCCCCG 59.377 50.000 0.00 0.00 0.00 5.73
3022 3040 3.395941 AGACCTGTTCAGAACAAGGGAAT 59.604 43.478 22.58 11.10 41.61 3.01
3122 3140 1.145738 ACCAGTTCATTCTTGGGCTGT 59.854 47.619 0.00 0.00 0.00 4.40
3511 3654 8.224437 GTGCTAAATCTCTCTTTGTCAAAGTAC 58.776 37.037 21.81 2.84 39.52 2.73
3666 3810 3.817647 CCAGAGCTTAGGGATGTAAATGC 59.182 47.826 0.00 0.00 0.00 3.56
3697 3841 3.636300 TGAGCAGCACAAACCAAATTACT 59.364 39.130 0.00 0.00 0.00 2.24
3807 3951 5.461078 GCATACAAAATGGCAACTCATGATC 59.539 40.000 0.00 0.00 37.61 2.92
4003 4735 9.751542 GTAAAGCAGAAGATATCTTGTTAGCTA 57.248 33.333 22.61 7.77 35.73 3.32
4095 4830 1.113788 TTAAATGCCTGCCAGATGCC 58.886 50.000 0.00 0.00 40.16 4.40


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

AutoCloner maintained by Alex Coulton.