Multiple sequence alignment - TraesCS6A01G382000

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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 TraesCS6A01G382000 chr6A 100.000 2369 0 0 1 2369 601242326 601239958 0.000000e+00 4375.0
1 TraesCS6A01G382000 chr6A 86.521 1328 94 34 331 1591 601257352 601256043 0.000000e+00 1382.0
2 TraesCS6A01G382000 chr6A 91.304 253 16 4 17 266 601257617 601257368 8.110000e-90 340.0
3 TraesCS6A01G382000 chr6B 89.379 1883 120 32 331 2157 692045034 692043176 0.000000e+00 2296.0
4 TraesCS6A01G382000 chr6B 89.356 1879 121 35 331 2154 691975870 691977724 0.000000e+00 2289.0
5 TraesCS6A01G382000 chr6B 81.586 1097 137 41 511 1557 691944768 691945849 0.000000e+00 846.0
6 TraesCS6A01G382000 chr6B 86.192 717 74 17 880 1586 692094540 692093839 0.000000e+00 752.0
7 TraesCS6A01G382000 chr6B 78.983 1042 130 47 511 1489 692574315 692575330 1.550000e-176 628.0
8 TraesCS6A01G382000 chr6B 93.229 192 13 0 2178 2369 692043108 692042917 1.390000e-72 283.0
9 TraesCS6A01G382000 chr6B 95.172 145 4 1 2225 2369 691977860 691978001 2.370000e-55 226.0
10 TraesCS6A01G382000 chr6B 81.707 246 26 12 19 254 691975604 691975840 1.120000e-43 187.0
11 TraesCS6A01G382000 chr6B 84.541 207 12 6 59 254 692045261 692045064 1.120000e-43 187.0
12 TraesCS6A01G382000 chr6B 78.369 282 32 15 511 780 692570582 692570846 3.150000e-34 156.0
13 TraesCS6A01G382000 chr6B 87.500 80 9 1 1885 1964 692074561 692074483 9.020000e-15 91.6
14 TraesCS6A01G382000 chr6D 91.416 1631 109 11 553 2155 454962837 454961210 0.000000e+00 2207.0
15 TraesCS6A01G382000 chr6D 88.207 1874 147 33 331 2154 454968340 454966491 0.000000e+00 2169.0
16 TraesCS6A01G382000 chr6D 82.259 1133 133 32 511 1591 454996670 454995554 0.000000e+00 917.0
17 TraesCS6A01G382000 chr6D 91.416 233 18 1 70 302 454968566 454968336 3.800000e-83 318.0
18 TraesCS6A01G382000 chr6D 79.078 282 32 10 511 780 455421753 455422019 4.050000e-38 169.0
19 TraesCS6A01G382000 chr6D 87.500 80 6 2 1885 1964 454995135 454995060 3.240000e-14 89.8
20 TraesCS6A01G382000 chr6D 83.333 84 7 2 1888 1964 454960412 454960329 1.170000e-08 71.3
21 TraesCS6A01G382000 chrUn 85.840 911 64 36 19 880 79445375 79444481 0.000000e+00 907.0
22 TraesCS6A01G382000 chrUn 87.291 716 69 15 912 1619 79450182 79449481 0.000000e+00 798.0
23 TraesCS6A01G382000 chrUn 90.000 80 7 1 1885 1964 79448989 79448911 4.170000e-18 102.0
24 TraesCS6A01G382000 chr3B 81.720 93 17 0 2250 2342 117314961 117315053 7.020000e-11 78.7


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 TraesCS6A01G382000 chr6A 601239958 601242326 2368 True 4375.000000 4375 100.000000 1 2369 1 chr6A.!!$R1 2368
1 TraesCS6A01G382000 chr6A 601256043 601257617 1574 True 861.000000 1382 88.912500 17 1591 2 chr6A.!!$R2 1574
2 TraesCS6A01G382000 chr6B 692042917 692045261 2344 True 922.000000 2296 89.049667 59 2369 3 chr6B.!!$R3 2310
3 TraesCS6A01G382000 chr6B 691975604 691978001 2397 False 900.666667 2289 88.745000 19 2369 3 chr6B.!!$F2 2350
4 TraesCS6A01G382000 chr6B 691944768 691945849 1081 False 846.000000 846 81.586000 511 1557 1 chr6B.!!$F1 1046
5 TraesCS6A01G382000 chr6B 692093839 692094540 701 True 752.000000 752 86.192000 880 1586 1 chr6B.!!$R2 706
6 TraesCS6A01G382000 chr6B 692570582 692575330 4748 False 392.000000 628 78.676000 511 1489 2 chr6B.!!$F3 978
7 TraesCS6A01G382000 chr6D 454960329 454968566 8237 True 1191.325000 2207 88.593000 70 2155 4 chr6D.!!$R1 2085
8 TraesCS6A01G382000 chr6D 454995060 454996670 1610 True 503.400000 917 84.879500 511 1964 2 chr6D.!!$R2 1453
9 TraesCS6A01G382000 chrUn 79444481 79450182 5701 True 602.333333 907 87.710333 19 1964 3 chrUn.!!$R1 1945

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
379 5252 0.106708 ACCACCGATCGAATGGATGG 59.893 55.0 32.51 22.8 36.94 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2062 16182 0.321653 GGCTGGAAATGAGACCACGT 60.322 55.0 0.0 0.0 32.44 4.49 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
47 4837 1.905215 ACAAGGGGTCTCAGTCTCATG 59.095 52.381 0.00 0.00 0.00 3.07
53 4843 2.762887 GGGTCTCAGTCTCATGACATGA 59.237 50.000 17.09 17.09 45.20 3.07
86 4877 1.073923 AGGTCAGACAATTCCACCACC 59.926 52.381 2.17 0.00 30.27 4.61
87 4878 1.156736 GTCAGACAATTCCACCACCG 58.843 55.000 0.00 0.00 0.00 4.94
88 4879 0.762418 TCAGACAATTCCACCACCGT 59.238 50.000 0.00 0.00 0.00 4.83
105 4896 3.933332 CACCGTTGGTTCTATTCTTCTCC 59.067 47.826 0.00 0.00 31.02 3.71
166 4964 4.640771 AGTCAGAAGCCACAGGAAAATA 57.359 40.909 0.00 0.00 0.00 1.40
227 5031 4.401022 TCTGATCCAAATGAACAGCTTGT 58.599 39.130 0.00 0.00 42.10 3.16
279 5103 6.388435 AACAGCTATAAGGTCTAAGTACGG 57.612 41.667 0.00 0.00 0.00 4.02
282 5106 7.230027 ACAGCTATAAGGTCTAAGTACGGTAT 58.770 38.462 0.00 0.00 0.00 2.73
297 5170 4.131649 ACGGTATAAACTAGCATGTGCA 57.868 40.909 7.83 0.00 45.16 4.57
298 5171 4.509616 ACGGTATAAACTAGCATGTGCAA 58.490 39.130 7.83 0.00 45.16 4.08
299 5172 4.331717 ACGGTATAAACTAGCATGTGCAAC 59.668 41.667 7.83 0.00 45.16 4.17
300 5173 4.570772 CGGTATAAACTAGCATGTGCAACT 59.429 41.667 7.83 0.00 45.16 3.16
301 5174 5.276868 CGGTATAAACTAGCATGTGCAACTC 60.277 44.000 7.83 0.00 45.16 3.01
302 5175 5.007724 GGTATAAACTAGCATGTGCAACTCC 59.992 44.000 7.83 0.00 45.16 3.85
303 5176 2.867109 AACTAGCATGTGCAACTCCT 57.133 45.000 7.83 0.00 45.16 3.69
304 5177 2.393271 ACTAGCATGTGCAACTCCTC 57.607 50.000 7.83 0.00 45.16 3.71
305 5178 1.065854 ACTAGCATGTGCAACTCCTCC 60.066 52.381 7.83 0.00 45.16 4.30
306 5179 0.253044 TAGCATGTGCAACTCCTCCC 59.747 55.000 7.83 0.00 45.16 4.30
307 5180 1.303561 GCATGTGCAACTCCTCCCA 60.304 57.895 0.00 0.00 41.59 4.37
308 5181 1.589716 GCATGTGCAACTCCTCCCAC 61.590 60.000 0.00 0.00 41.59 4.61
309 5182 1.003355 ATGTGCAACTCCTCCCACG 60.003 57.895 0.00 0.00 38.04 4.94
310 5183 1.480212 ATGTGCAACTCCTCCCACGA 61.480 55.000 0.00 0.00 38.04 4.35
311 5184 1.374758 GTGCAACTCCTCCCACGAG 60.375 63.158 0.00 0.00 35.72 4.18
319 5192 2.808315 CTCCCACGAGGACGATGG 59.192 66.667 0.00 0.00 40.93 3.51
320 5193 1.753078 CTCCCACGAGGACGATGGA 60.753 63.158 0.00 0.00 40.93 3.41
321 5194 1.729470 CTCCCACGAGGACGATGGAG 61.729 65.000 0.00 13.67 45.49 3.86
322 5195 1.753078 CCCACGAGGACGATGGAGA 60.753 63.158 0.00 0.00 40.40 3.71
323 5196 1.433879 CCACGAGGACGATGGAGAC 59.566 63.158 0.00 0.00 40.40 3.36
324 5197 1.433879 CACGAGGACGATGGAGACC 59.566 63.158 0.00 0.00 42.66 3.85
325 5198 1.753463 ACGAGGACGATGGAGACCC 60.753 63.158 0.00 0.00 42.66 4.46
326 5199 2.494777 ACGAGGACGATGGAGACCCA 62.495 60.000 0.00 0.00 44.11 4.51
327 5200 3.960702 ACGAGGACGATGGAGACCCAA 62.961 57.143 0.00 0.00 43.61 4.12
368 5241 3.578716 CTCCAACAGGATATACCACCGAT 59.421 47.826 0.00 0.00 42.04 4.18
369 5242 3.576982 TCCAACAGGATATACCACCGATC 59.423 47.826 0.00 0.00 42.04 3.69
378 5251 2.812358 TACCACCGATCGAATGGATG 57.188 50.000 32.51 13.11 36.94 3.51
379 5252 0.106708 ACCACCGATCGAATGGATGG 59.893 55.000 32.51 22.80 36.94 3.51
380 5253 0.392706 CCACCGATCGAATGGATGGA 59.607 55.000 25.78 0.00 34.82 3.41
381 5254 1.002430 CCACCGATCGAATGGATGGAT 59.998 52.381 25.78 0.00 34.82 3.41
382 5255 2.341257 CACCGATCGAATGGATGGATC 58.659 52.381 18.66 0.00 34.82 3.36
383 5256 1.970640 ACCGATCGAATGGATGGATCA 59.029 47.619 18.66 0.00 37.10 2.92
384 5257 2.568956 ACCGATCGAATGGATGGATCAT 59.431 45.455 18.66 0.00 37.10 2.45
385 5258 2.934553 CCGATCGAATGGATGGATCATG 59.065 50.000 18.66 0.00 37.10 3.07
452 5329 6.371809 CAAGGAGTGCAAAAACAACTAGTA 57.628 37.500 0.00 0.00 0.00 1.82
455 5332 8.730680 CAAGGAGTGCAAAAACAACTAGTATAT 58.269 33.333 0.00 0.00 0.00 0.86
458 5335 9.983804 GGAGTGCAAAAACAACTAGTATATTAC 57.016 33.333 0.00 0.00 0.00 1.89
535 5450 1.693606 TGAGATGGCGATGCTATCCAA 59.306 47.619 10.93 0.00 45.55 3.53
541 5456 2.288666 GGCGATGCTATCCAAAGTTCA 58.711 47.619 0.00 0.00 0.00 3.18
549 5464 6.741992 TGCTATCCAAAGTTCAATACACAG 57.258 37.500 0.00 0.00 0.00 3.66
655 9301 0.389426 GCAAGACAGCATTGGCCAAG 60.389 55.000 24.94 16.34 42.56 3.61
918 14893 1.984570 CGGTCTCAAGAGGGCTGGA 60.985 63.158 0.00 0.00 0.00 3.86
991 14966 1.373435 CCTGGGGTGAACACGCTTA 59.627 57.895 18.40 9.51 42.97 3.09
1017 14992 0.601046 CCATGGCACGCATCGACTAT 60.601 55.000 0.00 0.00 0.00 2.12
1077 15052 1.471676 GCCACCGAGATCATCTTCGTT 60.472 52.381 0.00 0.00 0.00 3.85
1140 15115 3.825014 ACAAGCTCTTCACTAAGACCGTA 59.175 43.478 0.00 0.00 36.80 4.02
1592 15575 9.378551 TGTCACTGATTTCTTTATGTGTATACC 57.621 33.333 0.00 0.00 0.00 2.73
1633 15616 3.956848 TCCATGACATTTGTGAACCAACA 59.043 39.130 0.00 0.00 31.20 3.33
1666 15649 4.929146 AGTTAGAAGGGCAGTGGTATTT 57.071 40.909 0.00 0.00 0.00 1.40
1696 15705 2.236395 CCAGGTTAAGTCCCGATGTTCT 59.764 50.000 0.00 0.00 0.00 3.01
1703 15712 6.403309 GGTTAAGTCCCGATGTTCTCATTTTC 60.403 42.308 0.00 0.00 34.06 2.29
1706 15715 4.697352 AGTCCCGATGTTCTCATTTTCTTG 59.303 41.667 0.00 0.00 34.06 3.02
1709 15718 5.181245 TCCCGATGTTCTCATTTTCTTGAAC 59.819 40.000 0.00 0.00 39.18 3.18
1765 15780 5.547276 AGGTACTCGTAGGGATAGAGTATGT 59.453 44.000 7.65 0.00 45.54 2.29
1784 15799 5.756950 ATGTGTGTGCGCGTATATATAAC 57.243 39.130 8.43 0.23 0.00 1.89
1788 15803 2.827322 TGTGCGCGTATATATAACCCCT 59.173 45.455 8.43 0.00 0.00 4.79
1789 15804 3.184541 GTGCGCGTATATATAACCCCTG 58.815 50.000 8.43 0.00 0.00 4.45
1790 15805 2.199236 GCGCGTATATATAACCCCTGC 58.801 52.381 8.43 0.00 0.00 4.85
1791 15806 2.417651 GCGCGTATATATAACCCCTGCA 60.418 50.000 8.43 0.00 0.00 4.41
1794 15809 4.202121 CGCGTATATATAACCCCTGCATCT 60.202 45.833 0.00 0.00 0.00 2.90
1795 15810 5.050490 GCGTATATATAACCCCTGCATCTG 58.950 45.833 0.00 0.00 0.00 2.90
1797 15812 6.183360 GCGTATATATAACCCCTGCATCTGTA 60.183 42.308 0.00 0.00 0.00 2.74
1798 15813 7.201145 CGTATATATAACCCCTGCATCTGTAC 58.799 42.308 0.00 0.00 0.00 2.90
1799 15814 7.147966 CGTATATATAACCCCTGCATCTGTACA 60.148 40.741 0.00 0.00 0.00 2.90
1800 15815 3.845781 ATAACCCCTGCATCTGTACAG 57.154 47.619 17.17 17.17 0.00 2.74
1855 15880 2.163613 CGCCAAATCTTACCCTGAAACC 59.836 50.000 0.00 0.00 0.00 3.27
1968 16088 6.435292 ACAACAAAAGTCTACTCTATGGGT 57.565 37.500 0.00 0.00 0.00 4.51
2007 16127 2.807967 TCCGCTCATGTCTGTTTTTGAG 59.192 45.455 0.00 0.00 38.86 3.02
2050 16170 1.464608 CAACGTGGCGACTCATTTCAT 59.535 47.619 0.00 0.00 0.00 2.57
2061 16181 4.084589 CGACTCATTTCATGTTTCGTGTCA 60.085 41.667 0.00 0.00 33.80 3.58
2062 16182 5.558083 CGACTCATTTCATGTTTCGTGTCAA 60.558 40.000 0.00 0.00 33.80 3.18
2109 16229 1.673920 GACTTTTGGTTTGCGTCCTCA 59.326 47.619 0.00 0.00 0.00 3.86
2171 16326 7.762615 TGTCCATCCTAGTACTTTTAAATGTCG 59.237 37.037 9.79 0.00 0.00 4.35
2183 16350 1.163420 AAATGTCGCACGTGAAGGCA 61.163 50.000 22.23 19.93 0.00 4.75
2190 16357 1.961277 CACGTGAAGGCACCCACTC 60.961 63.158 10.90 0.00 42.09 3.51
2242 16427 3.989698 CTAGCCCACCACTGTCGCG 62.990 68.421 0.00 0.00 0.00 5.87
2328 16663 2.027625 CGGCCTCGTTCACCTTGAC 61.028 63.158 0.00 0.00 0.00 3.18
2329 16664 2.027625 GGCCTCGTTCACCTTGACG 61.028 63.158 0.00 0.00 0.00 4.35
2330 16665 2.668280 GCCTCGTTCACCTTGACGC 61.668 63.158 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 4837 3.196685 ACCTAGTCTTCCAAGCTCATGTC 59.803 47.826 0.00 0.00 0.00 3.06
53 4843 2.829120 GTCTGACCTAGTCTTCCAAGCT 59.171 50.000 0.00 0.00 33.15 3.74
61 4851 3.515901 GGTGGAATTGTCTGACCTAGTCT 59.484 47.826 5.17 0.00 33.15 3.24
86 4877 3.846360 ACGGAGAAGAATAGAACCAACG 58.154 45.455 0.00 0.00 0.00 4.10
87 4878 4.797349 CGTACGGAGAAGAATAGAACCAAC 59.203 45.833 7.57 0.00 0.00 3.77
88 4879 4.701651 TCGTACGGAGAAGAATAGAACCAA 59.298 41.667 16.52 0.00 0.00 3.67
105 4896 3.587095 TGGGACAGCTCTCGTACG 58.413 61.111 9.53 9.53 0.00 3.67
117 4908 4.828925 GCGAGGCTGAGCTGGGAC 62.829 72.222 3.72 0.00 0.00 4.46
166 4964 7.286316 GGTCAATGACTCCATGAAATTATCCTT 59.714 37.037 13.53 0.00 32.36 3.36
227 5031 2.647299 TGAGCTTATTTCTTGGGGGTGA 59.353 45.455 0.00 0.00 0.00 4.02
266 5090 7.056635 TGCTAGTTTATACCGTACTTAGACCT 58.943 38.462 0.00 0.00 0.00 3.85
279 5103 5.817816 AGGAGTTGCACATGCTAGTTTATAC 59.182 40.000 5.31 0.00 42.66 1.47
282 5106 4.253685 GAGGAGTTGCACATGCTAGTTTA 58.746 43.478 5.31 0.00 42.66 2.01
289 5162 1.303561 TGGGAGGAGTTGCACATGC 60.304 57.895 0.00 0.00 42.50 4.06
302 5175 1.729470 CTCCATCGTCCTCGTGGGAG 61.729 65.000 3.23 12.52 46.10 4.30
303 5176 1.753078 CTCCATCGTCCTCGTGGGA 60.753 63.158 3.23 0.00 42.77 4.37
304 5177 1.753078 TCTCCATCGTCCTCGTGGG 60.753 63.158 3.23 0.00 38.12 4.61
305 5178 1.433879 GTCTCCATCGTCCTCGTGG 59.566 63.158 0.00 0.00 38.55 4.94
306 5179 1.433879 GGTCTCCATCGTCCTCGTG 59.566 63.158 0.00 0.00 38.33 4.35
307 5180 1.753463 GGGTCTCCATCGTCCTCGT 60.753 63.158 0.00 0.00 38.33 4.18
308 5181 1.320344 TTGGGTCTCCATCGTCCTCG 61.320 60.000 0.00 0.00 43.63 4.63
309 5182 0.461961 CTTGGGTCTCCATCGTCCTC 59.538 60.000 0.00 0.00 43.63 3.71
310 5183 0.041238 TCTTGGGTCTCCATCGTCCT 59.959 55.000 0.00 0.00 43.63 3.85
311 5184 0.902531 TTCTTGGGTCTCCATCGTCC 59.097 55.000 0.00 0.00 43.63 4.79
312 5185 2.028020 AGTTTCTTGGGTCTCCATCGTC 60.028 50.000 0.00 0.00 43.63 4.20
313 5186 1.978580 AGTTTCTTGGGTCTCCATCGT 59.021 47.619 0.00 0.00 43.63 3.73
314 5187 2.744202 CAAGTTTCTTGGGTCTCCATCG 59.256 50.000 2.01 0.00 43.63 3.84
315 5188 3.084786 CCAAGTTTCTTGGGTCTCCATC 58.915 50.000 17.70 0.00 43.63 3.51
316 5189 3.160679 CCAAGTTTCTTGGGTCTCCAT 57.839 47.619 17.70 0.00 43.63 3.41
317 5190 2.656947 CCAAGTTTCTTGGGTCTCCA 57.343 50.000 17.70 0.00 42.25 3.86
324 5197 3.023832 ACAACAGACCCAAGTTTCTTGG 58.976 45.455 18.32 18.32 39.25 3.61
325 5198 3.947834 AGACAACAGACCCAAGTTTCTTG 59.052 43.478 2.90 2.90 0.00 3.02
326 5199 4.200092 GAGACAACAGACCCAAGTTTCTT 58.800 43.478 0.00 0.00 0.00 2.52
327 5200 3.433740 GGAGACAACAGACCCAAGTTTCT 60.434 47.826 0.00 0.00 0.00 2.52
328 5201 2.879026 GGAGACAACAGACCCAAGTTTC 59.121 50.000 0.00 0.00 0.00 2.78
329 5202 2.241176 TGGAGACAACAGACCCAAGTTT 59.759 45.455 0.00 0.00 37.44 2.66
368 5241 2.934886 TGCATGATCCATCCATTCGA 57.065 45.000 0.00 0.00 0.00 3.71
369 5242 2.163613 CCATGCATGATCCATCCATTCG 59.836 50.000 28.31 2.27 0.00 3.34
378 5251 3.340928 TGAATCGATCCATGCATGATCC 58.659 45.455 28.31 14.01 0.00 3.36
379 5252 4.694037 TCTTGAATCGATCCATGCATGATC 59.306 41.667 28.31 23.36 0.00 2.92
380 5253 4.648651 TCTTGAATCGATCCATGCATGAT 58.351 39.130 28.31 18.12 0.00 2.45
381 5254 4.075963 TCTTGAATCGATCCATGCATGA 57.924 40.909 28.31 14.16 0.00 3.07
382 5255 4.534168 GTTCTTGAATCGATCCATGCATG 58.466 43.478 20.19 20.19 0.00 4.06
383 5256 3.249320 CGTTCTTGAATCGATCCATGCAT 59.751 43.478 0.00 0.00 0.00 3.96
384 5257 2.609002 CGTTCTTGAATCGATCCATGCA 59.391 45.455 0.00 0.00 0.00 3.96
385 5258 2.600792 GCGTTCTTGAATCGATCCATGC 60.601 50.000 0.00 0.00 0.00 4.06
450 5327 7.068348 TGGAGCCAATCGATCCTAGTAATATAC 59.932 40.741 0.00 0.00 34.04 1.47
452 5329 5.958380 TGGAGCCAATCGATCCTAGTAATAT 59.042 40.000 0.00 0.00 34.04 1.28
455 5332 3.572642 TGGAGCCAATCGATCCTAGTAA 58.427 45.455 0.00 0.00 34.04 2.24
458 5335 3.134458 GTTTGGAGCCAATCGATCCTAG 58.866 50.000 0.00 0.00 35.70 3.02
459 5336 2.771943 AGTTTGGAGCCAATCGATCCTA 59.228 45.455 0.00 0.00 35.70 2.94
460 5337 1.561542 AGTTTGGAGCCAATCGATCCT 59.438 47.619 0.00 0.00 35.70 3.24
461 5338 2.044123 AGTTTGGAGCCAATCGATCC 57.956 50.000 0.00 0.00 35.70 3.36
462 5339 2.478539 GCAAGTTTGGAGCCAATCGATC 60.479 50.000 0.00 0.00 35.70 3.69
463 5340 1.474077 GCAAGTTTGGAGCCAATCGAT 59.526 47.619 2.29 0.00 35.70 3.59
464 5341 0.881118 GCAAGTTTGGAGCCAATCGA 59.119 50.000 2.29 0.00 35.70 3.59
465 5342 0.454957 CGCAAGTTTGGAGCCAATCG 60.455 55.000 2.29 0.00 35.70 3.34
466 5343 3.406682 CGCAAGTTTGGAGCCAATC 57.593 52.632 2.29 2.55 35.70 2.67
535 5450 4.816385 CAGTGTGGTCTGTGTATTGAACTT 59.184 41.667 0.00 0.00 0.00 2.66
541 5456 1.699634 AGGCAGTGTGGTCTGTGTATT 59.300 47.619 0.00 0.00 37.70 1.89
549 5464 3.449737 TGGTACTTATAGGCAGTGTGGTC 59.550 47.826 0.00 0.00 0.00 4.02
655 9301 1.206072 GAAGCATCGCCATGATCGC 59.794 57.895 0.00 0.00 34.13 4.58
880 14835 0.736672 GCGAAGAAGAAGTCGTCCCC 60.737 60.000 0.00 0.00 39.46 4.81
918 14893 0.249405 CTGCCGCATTGTTGGTGTTT 60.249 50.000 0.00 0.00 0.00 2.83
1077 15052 0.033405 CCTCGAGGACTCCTTGGGTA 60.033 60.000 28.21 0.00 33.68 3.69
1335 15310 0.811616 CCTTGATAGCGTCCACCTGC 60.812 60.000 0.00 0.00 0.00 4.85
1633 15616 5.190925 TGCCCTTCTAACTATACAACCACAT 59.809 40.000 0.00 0.00 0.00 3.21
1645 15628 4.929146 AAATACCACTGCCCTTCTAACT 57.071 40.909 0.00 0.00 0.00 2.24
1666 15649 1.073284 GACTTAACCTGGTGGGCTGAA 59.927 52.381 0.00 0.00 39.10 3.02
1737 15746 4.229639 TCTATCCCTACGAGTACCTCTGA 58.770 47.826 0.00 0.00 0.00 3.27
1738 15747 4.040706 ACTCTATCCCTACGAGTACCTCTG 59.959 50.000 0.00 0.00 36.33 3.35
1739 15748 4.233729 ACTCTATCCCTACGAGTACCTCT 58.766 47.826 0.00 0.00 36.33 3.69
1765 15780 3.577667 GGGTTATATATACGCGCACACA 58.422 45.455 5.73 0.00 0.00 3.72
1784 15799 0.615331 ACACTGTACAGATGCAGGGG 59.385 55.000 29.30 3.09 45.67 4.79
1788 15803 3.402110 CTTTGGACACTGTACAGATGCA 58.598 45.455 29.30 22.42 0.00 3.96
1789 15804 2.160417 GCTTTGGACACTGTACAGATGC 59.840 50.000 29.30 20.28 0.00 3.91
1790 15805 3.402110 TGCTTTGGACACTGTACAGATG 58.598 45.455 29.30 22.70 0.00 2.90
1791 15806 3.769739 TGCTTTGGACACTGTACAGAT 57.230 42.857 29.30 16.26 0.00 2.90
1794 15809 5.222079 TCTTATGCTTTGGACACTGTACA 57.778 39.130 0.00 0.00 0.00 2.90
1795 15810 4.093556 GCTCTTATGCTTTGGACACTGTAC 59.906 45.833 0.00 0.00 0.00 2.90
1797 15812 3.077359 GCTCTTATGCTTTGGACACTGT 58.923 45.455 0.00 0.00 0.00 3.55
1798 15813 3.076621 TGCTCTTATGCTTTGGACACTG 58.923 45.455 0.00 0.00 0.00 3.66
1799 15814 3.423539 TGCTCTTATGCTTTGGACACT 57.576 42.857 0.00 0.00 0.00 3.55
1800 15815 3.944015 AGATGCTCTTATGCTTTGGACAC 59.056 43.478 0.00 0.00 0.00 3.67
1968 16088 3.066621 GCGGATGAAATGCATTGGAGTTA 59.933 43.478 13.82 0.00 37.34 2.24
2007 16127 1.713830 GTGGTTTCTATCCACGCGC 59.286 57.895 5.73 0.00 44.34 6.86
2061 16181 1.523758 GCTGGAAATGAGACCACGTT 58.476 50.000 0.00 0.00 32.44 3.99
2062 16182 0.321653 GGCTGGAAATGAGACCACGT 60.322 55.000 0.00 0.00 32.44 4.49
2109 16229 2.073252 TGCGTCTGTCTCCTATCCAT 57.927 50.000 0.00 0.00 0.00 3.41
2139 16259 6.875972 AAAGTACTAGGATGGACATCAAGT 57.124 37.500 17.81 17.81 39.54 3.16
2171 16326 3.660111 GTGGGTGCCTTCACGTGC 61.660 66.667 11.67 0.00 44.03 5.34
2206 16373 1.065997 AGGGTTACTGTTGGCTGGGT 61.066 55.000 0.00 0.00 0.00 4.51
2210 16377 0.618981 GGCTAGGGTTACTGTTGGCT 59.381 55.000 0.00 0.00 0.00 4.75
2242 16427 2.224523 TGGAGTCCACTTCCACAACATC 60.225 50.000 8.12 0.00 0.00 3.06
2315 16500 2.355363 CGGCGTCAAGGTGAACGA 60.355 61.111 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.