Multiple sequence alignment - TraesCS4B01G245000

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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 TraesCS4B01G245000 chr4B 100.000 4070 0 0 1 4070 506920176 506924245 0.000000e+00 7516.0
1 TraesCS4B01G245000 chr4B 89.189 74 6 2 1838 1910 237991429 237991501 1.560000e-14 91.6
2 TraesCS4B01G245000 chr4B 100.000 29 0 0 1852 1880 636773293 636773265 2.000000e-03 54.7
3 TraesCS4B01G245000 chr4D 94.184 4075 153 37 21 4070 409148101 409144086 0.000000e+00 6135.0
4 TraesCS4B01G245000 chr4A 93.799 4080 178 33 28 4070 80848037 80843996 0.000000e+00 6063.0
5 TraesCS4B01G245000 chr1A 89.011 91 9 1 1021 1111 297845508 297845597 1.200000e-20 111.0
6 TraesCS4B01G245000 chr2D 94.203 69 3 1 1843 1911 588161582 588161649 2.000000e-18 104.0


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 TraesCS4B01G245000 chr4B 506920176 506924245 4069 False 7516 7516 100.000 1 4070 1 chr4B.!!$F2 4069
1 TraesCS4B01G245000 chr4D 409144086 409148101 4015 True 6135 6135 94.184 21 4070 1 chr4D.!!$R1 4049
2 TraesCS4B01G245000 chr4A 80843996 80848037 4041 True 6063 6063 93.799 28 4070 1 chr4A.!!$R1 4042

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
987 1033 0.173935 CACAGGAGAGCAGAGCAGAG 59.826 60.000 0.00 0.0 0.00 3.35 F
1824 1870 0.391793 TATGCGCCACGGTGATCAAA 60.392 50.000 10.28 0.0 0.00 2.69 F
2007 2053 1.304713 CCAGAAGGTGCAGCCCAAT 60.305 57.895 13.29 0.0 38.26 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2678 2724 0.394080 GCAGGCTTTCTCCATCTGCT 60.394 55.000 0.00 0.0 45.03 4.24 R
3061 3107 1.071699 AGATTGTGCACCTTACACGGT 59.928 47.619 15.69 0.0 41.03 4.83 R
3994 4046 1.096416 TGGAAAGTTCGCCGTTGTTT 58.904 45.000 0.00 0.0 0.00 2.83 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
36 37 5.597813 AAAACGATCATCACTGTGACTTC 57.402 39.130 13.50 9.16 0.00 3.01
49 50 7.090808 TCACTGTGACTTCTACACATAACATC 58.909 38.462 6.36 0.00 45.18 3.06
56 57 9.803315 TGACTTCTACACATAACATCTAATGTC 57.197 33.333 0.00 0.00 44.07 3.06
57 58 8.858003 ACTTCTACACATAACATCTAATGTCG 57.142 34.615 0.00 0.00 44.07 4.35
62 63 7.320443 ACACATAACATCTAATGTCGCATTT 57.680 32.000 9.73 0.00 44.07 2.32
65 66 7.585210 CACATAACATCTAATGTCGCATTTGAG 59.415 37.037 16.46 12.56 44.07 3.02
66 67 7.495606 ACATAACATCTAATGTCGCATTTGAGA 59.504 33.333 16.46 11.99 44.07 3.27
85 86 6.222038 TGAGAGTACCATTACCATCAGAAC 57.778 41.667 0.00 0.00 0.00 3.01
91 92 3.756434 ACCATTACCATCAGAACGGTTTG 59.244 43.478 0.00 0.00 36.69 2.93
94 97 4.822036 TTACCATCAGAACGGTTTGTTG 57.178 40.909 0.00 0.00 42.09 3.33
148 151 9.855021 GGTAAAAACATCAACATATTTGCTACT 57.145 29.630 0.00 0.00 0.00 2.57
158 161 9.582431 TCAACATATTTGCTACTACAAGACTAC 57.418 33.333 0.00 0.00 0.00 2.73
167 170 6.600246 CTACTACAAGACTACGTAGCATCA 57.400 41.667 22.40 2.63 38.96 3.07
168 171 5.487153 ACTACAAGACTACGTAGCATCAG 57.513 43.478 22.40 13.62 38.96 2.90
180 183 4.334203 ACGTAGCATCAGAAACAACAAACA 59.666 37.500 0.00 0.00 0.00 2.83
185 188 6.108015 AGCATCAGAAACAACAAACACAAAT 58.892 32.000 0.00 0.00 0.00 2.32
187 190 6.183360 GCATCAGAAACAACAAACACAAATGT 60.183 34.615 0.00 0.00 42.46 2.71
212 215 2.526888 ACCGTCTCTCCAGTCCATAA 57.473 50.000 0.00 0.00 0.00 1.90
213 216 2.816411 ACCGTCTCTCCAGTCCATAAA 58.184 47.619 0.00 0.00 0.00 1.40
214 217 3.375699 ACCGTCTCTCCAGTCCATAAAT 58.624 45.455 0.00 0.00 0.00 1.40
215 218 3.775316 ACCGTCTCTCCAGTCCATAAATT 59.225 43.478 0.00 0.00 0.00 1.82
216 219 4.960469 ACCGTCTCTCCAGTCCATAAATTA 59.040 41.667 0.00 0.00 0.00 1.40
217 220 5.163437 ACCGTCTCTCCAGTCCATAAATTAC 60.163 44.000 0.00 0.00 0.00 1.89
218 221 5.290386 CGTCTCTCCAGTCCATAAATTACC 58.710 45.833 0.00 0.00 0.00 2.85
219 222 5.069251 CGTCTCTCCAGTCCATAAATTACCT 59.931 44.000 0.00 0.00 0.00 3.08
232 241 7.498900 TCCATAAATTACCTGTGCAGATTGTAG 59.501 37.037 0.02 0.00 0.00 2.74
242 251 2.224744 TGCAGATTGTAGAACTGGGCAA 60.225 45.455 0.00 0.00 33.00 4.52
248 257 3.569194 TGTAGAACTGGGCAACTTTGA 57.431 42.857 0.00 0.00 0.00 2.69
249 258 3.892284 TGTAGAACTGGGCAACTTTGAA 58.108 40.909 0.00 0.00 0.00 2.69
264 273 6.910433 GCAACTTTGAACTAGAAATTCGTCAA 59.090 34.615 0.00 0.00 0.00 3.18
265 274 7.431084 GCAACTTTGAACTAGAAATTCGTCAAA 59.569 33.333 0.00 12.76 0.00 2.69
273 282 6.546395 ACTAGAAATTCGTCAAATGATGCAC 58.454 36.000 0.00 0.00 0.00 4.57
291 300 1.134907 CACCATGCCCTGAAATTCAGC 60.135 52.381 17.03 8.71 42.98 4.26
294 303 0.323725 ATGCCCTGAAATTCAGCCGT 60.324 50.000 17.03 8.73 42.98 5.68
300 309 0.821301 TGAAATTCAGCCGTGTGCCA 60.821 50.000 0.00 0.00 42.71 4.92
303 312 1.382522 AATTCAGCCGTGTGCCATAG 58.617 50.000 0.00 0.00 42.71 2.23
314 324 0.179045 GTGCCATAGGAACCTGCGAT 60.179 55.000 3.36 0.00 0.00 4.58
317 327 1.871080 CCATAGGAACCTGCGATCAC 58.129 55.000 3.36 0.00 0.00 3.06
326 336 1.354337 CCTGCGATCACGGAACACAG 61.354 60.000 0.00 0.00 39.65 3.66
327 337 0.667487 CTGCGATCACGGAACACAGT 60.667 55.000 0.00 0.00 39.65 3.55
356 366 0.528470 AAGCCACTCTCGAGCACTAC 59.472 55.000 7.81 0.00 0.00 2.73
379 389 4.471904 AGCTCCTGAAACACGATTGATA 57.528 40.909 0.00 0.00 0.00 2.15
384 394 2.004017 TGAAACACGATTGATACCGGC 58.996 47.619 0.00 0.00 0.00 6.13
431 441 3.600898 GAACACCTACCGCGCCCTT 62.601 63.158 0.00 0.00 0.00 3.95
465 475 1.006832 CTTCGCCTGGGTAAATCACG 58.993 55.000 0.00 0.00 0.00 4.35
468 478 1.743995 GCCTGGGTAAATCACGCGT 60.744 57.895 5.58 5.58 42.88 6.01
516 529 1.815003 CGCGATCCATCCAGTGCAA 60.815 57.895 0.00 0.00 0.00 4.08
636 649 3.775654 GGTGGGCACGAGAGGAGG 61.776 72.222 0.00 0.00 0.00 4.30
667 680 4.789075 GAGCACGGTAAGCGCGGA 62.789 66.667 8.83 0.00 37.01 5.54
694 707 2.753043 GGCGGGTAGTCGGTGAGA 60.753 66.667 0.00 0.00 0.00 3.27
695 708 2.125961 GGCGGGTAGTCGGTGAGAT 61.126 63.158 0.00 0.00 0.00 2.75
705 718 2.900546 AGTCGGTGAGATTGAGAAGGTT 59.099 45.455 0.00 0.00 0.00 3.50
710 723 1.066143 TGAGATTGAGAAGGTTCCGGC 60.066 52.381 0.00 0.00 0.00 6.13
714 727 4.468689 GAGAAGGTTCCGGCCGGG 62.469 72.222 42.36 24.68 35.59 5.73
804 828 2.353269 CGTGTGTACTTTGGCAGTTTGA 59.647 45.455 0.00 0.00 36.88 2.69
806 830 2.357637 TGTGTACTTTGGCAGTTTGAGC 59.642 45.455 0.00 0.00 36.88 4.26
849 889 4.135153 GCCTCGCCTTCGCTCTGA 62.135 66.667 0.00 0.00 35.26 3.27
850 890 2.202676 CCTCGCCTTCGCTCTGAC 60.203 66.667 0.00 0.00 35.26 3.51
851 891 2.202676 CTCGCCTTCGCTCTGACC 60.203 66.667 0.00 0.00 35.26 4.02
852 892 3.708220 CTCGCCTTCGCTCTGACCC 62.708 68.421 0.00 0.00 35.26 4.46
854 894 3.760035 GCCTTCGCTCTGACCCGA 61.760 66.667 0.00 0.00 0.00 5.14
855 895 2.492090 CCTTCGCTCTGACCCGAG 59.508 66.667 0.00 0.00 34.68 4.63
856 896 2.492090 CTTCGCTCTGACCCGAGG 59.508 66.667 0.00 0.00 34.68 4.63
857 897 3.708220 CTTCGCTCTGACCCGAGGC 62.708 68.421 0.00 0.00 34.68 4.70
862 902 4.458829 TCTGACCCGAGGCCCGAT 62.459 66.667 14.30 3.15 41.76 4.18
863 903 4.227134 CTGACCCGAGGCCCGATG 62.227 72.222 14.30 8.02 41.76 3.84
865 905 3.782443 GACCCGAGGCCCGATGTT 61.782 66.667 14.30 0.00 41.76 2.71
866 906 3.325201 GACCCGAGGCCCGATGTTT 62.325 63.158 14.30 0.00 41.76 2.83
867 907 2.513897 CCCGAGGCCCGATGTTTC 60.514 66.667 14.30 0.00 41.76 2.78
987 1033 0.173935 CACAGGAGAGCAGAGCAGAG 59.826 60.000 0.00 0.00 0.00 3.35
988 1034 1.142314 CAGGAGAGCAGAGCAGAGC 59.858 63.158 0.00 0.00 0.00 4.09
989 1035 1.305129 AGGAGAGCAGAGCAGAGCA 60.305 57.895 0.00 0.00 0.00 4.26
990 1036 1.142314 GGAGAGCAGAGCAGAGCAG 59.858 63.158 0.00 0.00 0.00 4.24
991 1037 1.519898 GAGAGCAGAGCAGAGCAGC 60.520 63.158 0.00 0.00 0.00 5.25
1407 1453 3.204827 GCCGCCATCGTGCTCAAT 61.205 61.111 0.00 0.00 0.00 2.57
1473 1519 2.657237 CTGGAGAACGCCGAGGTT 59.343 61.111 0.00 0.00 0.00 3.50
1761 1807 1.437573 CGAGATGGCACTCCGCTTA 59.562 57.895 10.22 0.00 41.91 3.09
1824 1870 0.391793 TATGCGCCACGGTGATCAAA 60.392 50.000 10.28 0.00 0.00 2.69
1887 1933 2.286365 TTGAGGAAATGAAGGCCGTT 57.714 45.000 0.00 0.00 0.00 4.44
2007 2053 1.304713 CCAGAAGGTGCAGCCCAAT 60.305 57.895 13.29 0.00 38.26 3.16
2376 2422 1.812507 GTGCTACGGTAAAGCGGGG 60.813 63.158 6.52 0.00 43.11 5.73
2400 2446 3.489813 TGACGATGTTGTCAGGTCG 57.510 52.632 0.00 0.00 43.62 4.79
2678 2724 2.377628 GACCTGTGCGTGAACCTGGA 62.378 60.000 0.00 0.00 0.00 3.86
3013 3059 2.142357 CTGGTTCCTGACGACGAGCA 62.142 60.000 0.00 0.00 0.00 4.26
3061 3107 3.060736 AGAAGTCGTCAGAGCTAGTCA 57.939 47.619 0.00 0.00 0.00 3.41
3088 3134 0.543749 AGGTGCACAATCTAGGAGGC 59.456 55.000 20.43 0.00 0.00 4.70
3402 3454 1.967779 TGAGCAGTGTACAACAGGCTA 59.032 47.619 0.00 0.00 39.23 3.93
3611 3663 2.338620 CGCCTCGGTGTTCACTCA 59.661 61.111 2.98 0.00 0.00 3.41
3638 3690 3.194861 TGTTTTCAGGACAGACAACGAG 58.805 45.455 0.00 0.00 32.33 4.18
3685 3737 4.837860 TGCATTCCCCTGTGAAGTTTTTAT 59.162 37.500 0.00 0.00 0.00 1.40
3691 3743 5.414454 TCCCCTGTGAAGTTTTTATTGATCG 59.586 40.000 0.00 0.00 0.00 3.69
3950 4002 6.735556 AGGTCAGATGGATGGAAGTATTTTT 58.264 36.000 0.00 0.00 0.00 1.94
4015 4067 1.314730 ACAACGGCGAACTTTCCATT 58.685 45.000 16.62 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 5.760253 AGAAGTCACAGTGATGATCGTTTTT 59.240 36.000 6.51 0.00 0.00 1.94
14 15 5.300752 AGAAGTCACAGTGATGATCGTTTT 58.699 37.500 6.51 0.00 0.00 2.43
15 16 4.887748 AGAAGTCACAGTGATGATCGTTT 58.112 39.130 6.51 0.00 0.00 3.60
16 17 4.527509 AGAAGTCACAGTGATGATCGTT 57.472 40.909 6.51 0.00 0.00 3.85
17 18 4.459337 TGTAGAAGTCACAGTGATGATCGT 59.541 41.667 6.51 0.00 0.00 3.73
18 19 4.795795 GTGTAGAAGTCACAGTGATGATCG 59.204 45.833 6.51 0.00 36.05 3.69
19 20 5.714047 TGTGTAGAAGTCACAGTGATGATC 58.286 41.667 6.51 5.87 40.26 2.92
25 26 7.093354 AGATGTTATGTGTAGAAGTCACAGTG 58.907 38.462 0.00 0.00 46.54 3.66
26 27 7.233389 AGATGTTATGTGTAGAAGTCACAGT 57.767 36.000 5.11 0.00 46.54 3.55
33 34 7.435192 TGCGACATTAGATGTTATGTGTAGAAG 59.565 37.037 0.00 0.00 45.03 2.85
36 37 7.643528 ATGCGACATTAGATGTTATGTGTAG 57.356 36.000 0.00 0.00 45.03 2.74
49 50 5.109210 TGGTACTCTCAAATGCGACATTAG 58.891 41.667 5.67 3.17 0.00 1.73
56 57 4.188462 TGGTAATGGTACTCTCAAATGCG 58.812 43.478 0.00 0.00 0.00 4.73
57 58 5.822519 TGATGGTAATGGTACTCTCAAATGC 59.177 40.000 0.00 0.00 0.00 3.56
62 63 5.163550 CGTTCTGATGGTAATGGTACTCTCA 60.164 44.000 0.00 0.00 0.00 3.27
65 66 4.142004 ACCGTTCTGATGGTAATGGTACTC 60.142 45.833 0.66 0.00 43.46 2.59
66 67 3.773119 ACCGTTCTGATGGTAATGGTACT 59.227 43.478 0.66 0.00 43.46 2.73
85 86 3.607078 GCTTCAGTTAGCTCAACAAACCG 60.607 47.826 0.00 0.00 39.81 4.44
148 151 6.072342 TGTTTCTGATGCTACGTAGTCTTGTA 60.072 38.462 22.98 3.88 43.93 2.41
149 152 5.162075 GTTTCTGATGCTACGTAGTCTTGT 58.838 41.667 22.98 5.85 43.93 3.16
150 153 5.161358 TGTTTCTGATGCTACGTAGTCTTG 58.839 41.667 22.98 11.02 43.93 3.02
158 161 4.670621 GTGTTTGTTGTTTCTGATGCTACG 59.329 41.667 0.00 0.00 0.00 3.51
167 170 7.721286 TTGAACATTTGTGTTTGTTGTTTCT 57.279 28.000 0.00 0.00 36.25 2.52
168 171 8.677635 GTTTTGAACATTTGTGTTTGTTGTTTC 58.322 29.630 0.00 0.00 36.25 2.78
180 183 4.036380 GGAGAGACGGTTTTGAACATTTGT 59.964 41.667 0.00 0.00 0.00 2.83
185 188 2.169769 ACTGGAGAGACGGTTTTGAACA 59.830 45.455 0.00 0.00 0.00 3.18
187 190 2.224209 GGACTGGAGAGACGGTTTTGAA 60.224 50.000 0.00 0.00 0.00 2.69
195 198 5.069251 AGGTAATTTATGGACTGGAGAGACG 59.931 44.000 0.00 0.00 0.00 4.18
197 200 5.964477 ACAGGTAATTTATGGACTGGAGAGA 59.036 40.000 0.00 0.00 0.00 3.10
212 215 6.372659 CAGTTCTACAATCTGCACAGGTAATT 59.627 38.462 0.00 0.00 0.00 1.40
213 216 5.877012 CAGTTCTACAATCTGCACAGGTAAT 59.123 40.000 0.00 0.00 0.00 1.89
214 217 5.237815 CAGTTCTACAATCTGCACAGGTAA 58.762 41.667 0.00 0.00 0.00 2.85
215 218 4.322725 CCAGTTCTACAATCTGCACAGGTA 60.323 45.833 0.00 0.00 0.00 3.08
216 219 3.557898 CCAGTTCTACAATCTGCACAGGT 60.558 47.826 0.00 0.00 0.00 4.00
217 220 3.005554 CCAGTTCTACAATCTGCACAGG 58.994 50.000 0.00 0.00 0.00 4.00
218 221 3.005554 CCCAGTTCTACAATCTGCACAG 58.994 50.000 0.00 0.00 0.00 3.66
219 222 2.875672 GCCCAGTTCTACAATCTGCACA 60.876 50.000 0.00 0.00 0.00 4.57
232 241 4.134563 TCTAGTTCAAAGTTGCCCAGTTC 58.865 43.478 0.00 0.00 0.00 3.01
242 251 8.836413 TCATTTGACGAATTTCTAGTTCAAAGT 58.164 29.630 13.22 0.00 30.91 2.66
248 257 7.023575 GTGCATCATTTGACGAATTTCTAGTT 58.976 34.615 0.00 0.00 0.00 2.24
249 258 6.403636 GGTGCATCATTTGACGAATTTCTAGT 60.404 38.462 0.00 0.00 0.00 2.57
273 282 0.462789 GGCTGAATTTCAGGGCATGG 59.537 55.000 24.09 2.44 44.43 3.66
300 309 0.389391 CCGTGATCGCAGGTTCCTAT 59.611 55.000 7.12 0.00 35.54 2.57
303 312 1.079405 TTCCGTGATCGCAGGTTCC 60.079 57.895 7.12 0.00 35.54 3.62
314 324 1.887242 GCAGCACTGTGTTCCGTGA 60.887 57.895 9.86 0.00 33.04 4.35
317 327 2.610694 CCTGCAGCACTGTGTTCCG 61.611 63.158 8.66 0.00 0.00 4.30
326 336 1.301677 GAGTGGCTTACCTGCAGCAC 61.302 60.000 8.66 9.96 39.21 4.40
327 337 1.003355 GAGTGGCTTACCTGCAGCA 60.003 57.895 8.66 0.00 39.21 4.41
356 366 2.807967 TCAATCGTGTTTCAGGAGCTTG 59.192 45.455 0.00 0.00 31.81 4.01
384 394 2.202623 CGAGCCCGGAGTTTCTCG 60.203 66.667 0.73 9.23 41.66 4.04
431 441 1.210413 GAAGTCGTCTGCTCTCGCA 59.790 57.895 0.00 0.00 45.60 5.10
433 443 1.865622 GCGAAGTCGTCTGCTCTCG 60.866 63.158 2.25 0.00 42.22 4.04
449 459 3.098555 GCGTGATTTACCCAGGCG 58.901 61.111 0.00 0.00 36.03 5.52
468 478 4.113815 CCATTGCCTGGCCTCGGA 62.114 66.667 17.53 0.00 38.47 4.55
496 506 2.280389 CACTGGATGGATCGCGGG 60.280 66.667 6.13 0.00 0.00 6.13
617 630 4.671590 TCCTCTCGTGCCCACCGA 62.672 66.667 0.00 0.00 0.00 4.69
618 631 4.135153 CTCCTCTCGTGCCCACCG 62.135 72.222 0.00 0.00 0.00 4.94
626 639 4.377760 TTCCCCGCCTCCTCTCGT 62.378 66.667 0.00 0.00 0.00 4.18
654 667 1.793134 CTCCTATCCGCGCTTACCGT 61.793 60.000 5.56 0.00 39.71 4.83
655 668 1.081376 CTCCTATCCGCGCTTACCG 60.081 63.158 5.56 0.00 40.75 4.02
694 707 1.078426 CGGCCGGAACCTTCTCAAT 60.078 57.895 20.10 0.00 0.00 2.57
695 708 2.345991 CGGCCGGAACCTTCTCAA 59.654 61.111 20.10 0.00 0.00 3.02
804 828 3.721706 CCGCTCCCCTCAAAGGCT 61.722 66.667 0.00 0.00 32.73 4.58
846 886 4.227134 CATCGGGCCTCGGGTCAG 62.227 72.222 0.84 0.00 39.77 3.51
848 888 3.325201 AAACATCGGGCCTCGGGTC 62.325 63.158 0.84 0.00 39.77 4.46
849 889 3.325201 GAAACATCGGGCCTCGGGT 62.325 63.158 0.84 4.48 39.77 5.28
850 890 2.513897 GAAACATCGGGCCTCGGG 60.514 66.667 0.84 3.85 39.77 5.14
851 891 2.513897 GGAAACATCGGGCCTCGG 60.514 66.667 0.84 0.00 39.77 4.63
852 892 2.513897 GGGAAACATCGGGCCTCG 60.514 66.667 0.84 4.76 40.90 4.63
853 893 2.124278 GGGGAAACATCGGGCCTC 60.124 66.667 0.84 0.00 0.00 4.70
854 894 2.614013 AGGGGAAACATCGGGCCT 60.614 61.111 0.84 0.00 0.00 5.19
855 895 2.440247 CAGGGGAAACATCGGGCC 60.440 66.667 0.00 0.00 0.00 5.80
856 896 2.440247 CCAGGGGAAACATCGGGC 60.440 66.667 0.00 0.00 0.00 6.13
857 897 2.440247 GCCAGGGGAAACATCGGG 60.440 66.667 0.00 0.00 0.00 5.14
858 898 1.076777 ATGCCAGGGGAAACATCGG 60.077 57.895 0.00 0.00 0.00 4.18
859 899 0.107017 AGATGCCAGGGGAAACATCG 60.107 55.000 0.00 0.00 42.91 3.84
860 900 1.396653 CAGATGCCAGGGGAAACATC 58.603 55.000 0.00 0.00 39.35 3.06
861 901 0.032813 CCAGATGCCAGGGGAAACAT 60.033 55.000 0.00 0.00 0.00 2.71
862 902 1.139498 TCCAGATGCCAGGGGAAACA 61.139 55.000 0.00 0.00 0.00 2.83
863 903 0.681243 GTCCAGATGCCAGGGGAAAC 60.681 60.000 0.00 0.00 0.00 2.78
864 904 1.691219 GTCCAGATGCCAGGGGAAA 59.309 57.895 0.00 0.00 0.00 3.13
865 905 2.308722 GGTCCAGATGCCAGGGGAA 61.309 63.158 0.00 0.00 0.00 3.97
866 906 2.692368 GGTCCAGATGCCAGGGGA 60.692 66.667 0.00 0.00 0.00 4.81
867 907 3.813724 GGGTCCAGATGCCAGGGG 61.814 72.222 0.00 0.00 0.00 4.79
964 1005 0.972983 GCTCTGCTCTCCTGTGGGTA 60.973 60.000 0.00 0.00 0.00 3.69
989 1035 4.463879 AAGCCATCTCGCTGCGCT 62.464 61.111 18.65 4.22 39.64 5.92
990 1036 3.934684 GAAGCCATCTCGCTGCGC 61.935 66.667 18.65 0.00 39.64 6.09
991 1037 3.267860 GGAAGCCATCTCGCTGCG 61.268 66.667 17.25 17.25 39.64 5.18
1473 1519 3.392228 AGGATGACCTTGCTGCGA 58.608 55.556 0.00 0.00 45.36 5.10
1824 1870 4.320456 CCGCTGGTGGAGTGCACT 62.320 66.667 21.88 21.88 0.00 4.40
2185 2231 2.188524 CATGGACGACTTCATGTCTCG 58.811 52.381 0.00 0.29 43.25 4.04
2376 2422 1.217001 TGACAACATCGTCAGTGCAC 58.783 50.000 9.40 9.40 40.94 4.57
2400 2446 0.530870 GGTCCTCTAGCATGCCGAAC 60.531 60.000 15.66 7.40 0.00 3.95
2678 2724 0.394080 GCAGGCTTTCTCCATCTGCT 60.394 55.000 0.00 0.00 45.03 4.24
3039 3085 3.821600 TGACTAGCTCTGACGACTTCTTT 59.178 43.478 0.00 0.00 0.00 2.52
3061 3107 1.071699 AGATTGTGCACCTTACACGGT 59.928 47.619 15.69 0.00 41.03 4.83
3123 3172 1.152963 GAACACCCACAGCCACAGT 60.153 57.895 0.00 0.00 0.00 3.55
3205 3254 6.990939 GGTAAGAGTACTGAAAAGAACTGGTT 59.009 38.462 0.00 0.00 0.00 3.67
3402 3454 7.603784 ACACTGCAAATCTTCTTGTTTTTCTTT 59.396 29.630 0.00 0.00 0.00 2.52
3512 3564 3.245122 TGTCACCCTAATTGAAGGTTCCC 60.245 47.826 0.00 0.00 34.56 3.97
3611 3663 4.780815 TGTCTGTCCTGAAAACAGTTGAT 58.219 39.130 3.45 0.00 43.68 2.57
3638 3690 7.461107 CATGATTTCAGCAATTTTGTCATTCC 58.539 34.615 0.00 0.00 0.00 3.01
3685 3737 2.897326 TGGTCTGGAGTTTCTCGATCAA 59.103 45.455 0.00 0.00 0.00 2.57
3691 3743 2.563179 TGCTACTGGTCTGGAGTTTCTC 59.437 50.000 0.00 0.00 0.00 2.87
3950 4002 5.726980 ACCAAGTATGTTACTGAACCGTA 57.273 39.130 0.00 0.00 39.39 4.02
3987 4039 4.759516 AGTTCGCCGTTGTTTATTCAAT 57.240 36.364 0.00 0.00 0.00 2.57
3988 4040 4.555348 AAGTTCGCCGTTGTTTATTCAA 57.445 36.364 0.00 0.00 0.00 2.69
3989 4041 4.529446 GAAAGTTCGCCGTTGTTTATTCA 58.471 39.130 0.00 0.00 0.00 2.57
3990 4042 3.910170 GGAAAGTTCGCCGTTGTTTATTC 59.090 43.478 0.00 0.00 0.00 1.75
3991 4043 3.315749 TGGAAAGTTCGCCGTTGTTTATT 59.684 39.130 0.00 0.00 0.00 1.40
3992 4044 2.879646 TGGAAAGTTCGCCGTTGTTTAT 59.120 40.909 0.00 0.00 0.00 1.40
3993 4045 2.286872 TGGAAAGTTCGCCGTTGTTTA 58.713 42.857 0.00 0.00 0.00 2.01
3994 4046 1.096416 TGGAAAGTTCGCCGTTGTTT 58.904 45.000 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.