Multiple sequence alignment - TraesCS6B01G414200

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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 TraesCS6B01G414200 chr6B 100.000 4442 0 0 1 4442 687304723 687309164 0.000000e+00 8203.0
1 TraesCS6B01G414200 chr6B 95.340 2811 103 14 767 3565 687135560 687132766 0.000000e+00 4440.0
2 TraesCS6B01G414200 chr6B 87.175 3150 337 34 505 3619 687099522 687096405 0.000000e+00 3517.0
3 TraesCS6B01G414200 chr6B 84.383 1652 219 27 1983 3607 687101488 687099849 0.000000e+00 1585.0
4 TraesCS6B01G414200 chr6B 90.293 886 69 12 3568 4442 687131911 687131032 0.000000e+00 1144.0
5 TraesCS6B01G414200 chr6B 94.357 319 16 2 505 822 687135873 687135556 5.160000e-134 488.0
6 TraesCS6B01G414200 chr6B 80.224 268 43 8 516 778 687103055 687102793 4.530000e-45 193.0
7 TraesCS6B01G414200 chr6B 74.220 481 92 22 1090 1551 688080557 688080090 5.910000e-39 172.0
8 TraesCS6B01G414200 chr6D 94.221 3236 161 17 485 3715 452585244 452588458 0.000000e+00 4916.0
9 TraesCS6B01G414200 chr6D 86.690 3148 343 40 505 3619 452471257 452468153 0.000000e+00 3422.0
10 TraesCS6B01G414200 chr6D 85.672 1340 177 11 1996 3329 452473652 452472322 0.000000e+00 1397.0
11 TraesCS6B01G414200 chr6D 85.010 507 70 4 3941 4441 452588672 452589178 1.100000e-140 510.0
12 TraesCS6B01G414200 chr6D 94.393 321 18 0 166 486 452584578 452584898 1.110000e-135 494.0
13 TraesCS6B01G414200 chr6D 95.745 141 6 0 1 141 452584441 452584581 1.240000e-55 228.0
14 TraesCS6B01G414200 chr6D 88.587 184 19 2 4201 4382 452468018 452467835 5.780000e-54 222.0
15 TraesCS6B01G414200 chr6D 80.952 252 40 7 530 778 452475264 452475018 4.530000e-45 193.0
16 TraesCS6B01G414200 chr6A 94.752 3068 136 16 664 3720 598188821 598191874 0.000000e+00 4750.0
17 TraesCS6B01G414200 chr6A 88.235 1751 175 19 1996 3724 598057874 598056133 0.000000e+00 2063.0
18 TraesCS6B01G414200 chr6A 84.152 1628 221 27 1996 3607 598066265 598064659 0.000000e+00 1543.0
19 TraesCS6B01G414200 chr6A 81.214 873 147 8 505 1375 598059693 598058836 0.000000e+00 688.0
20 TraesCS6B01G414200 chr6A 78.292 1101 187 37 847 1928 598067466 598066399 0.000000e+00 662.0
21 TraesCS6B01G414200 chr6A 86.471 510 64 4 3937 4442 598055967 598055459 5.020000e-154 555.0
22 TraesCS6B01G414200 chr6A 80.831 626 84 23 3727 4347 598191913 598192507 4.050000e-125 459.0
23 TraesCS6B01G414200 chr6A 80.146 549 93 11 1378 1924 598058506 598057972 3.220000e-106 396.0
24 TraesCS6B01G414200 chr6A 93.082 159 10 1 485 643 598188673 598188830 9.610000e-57 231.0
25 TraesCS6B01G414200 chr5A 84.746 59 9 0 1091 1149 32710596 32710654 4.800000e-05 60.2


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 TraesCS6B01G414200 chr6B 687304723 687309164 4441 False 8203.000000 8203 100.000000 1 4442 1 chr6B.!!$F1 4441
1 TraesCS6B01G414200 chr6B 687131032 687135873 4841 True 2024.000000 4440 93.330000 505 4442 3 chr6B.!!$R3 3937
2 TraesCS6B01G414200 chr6B 687096405 687103055 6650 True 1765.000000 3517 83.927333 505 3619 3 chr6B.!!$R2 3114
3 TraesCS6B01G414200 chr6D 452584441 452589178 4737 False 1537.000000 4916 92.342250 1 4441 4 chr6D.!!$F1 4440
4 TraesCS6B01G414200 chr6D 452467835 452475264 7429 True 1308.500000 3422 85.475250 505 4382 4 chr6D.!!$R1 3877
5 TraesCS6B01G414200 chr6A 598188673 598192507 3834 False 1813.333333 4750 89.555000 485 4347 3 chr6A.!!$F1 3862
6 TraesCS6B01G414200 chr6A 598064659 598067466 2807 True 1102.500000 1543 81.222000 847 3607 2 chr6A.!!$R2 2760
7 TraesCS6B01G414200 chr6A 598055459 598059693 4234 True 925.500000 2063 84.016500 505 4442 4 chr6A.!!$R1 3937

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
154 155 0.032615 TTGGTCATGGCATAACCCCC 60.033 55.000 17.27 5.39 37.83 5.40 F
789 4362 0.036306 CCAAAGCTCCGGTAGGTGTT 59.964 55.000 0.00 0.00 35.65 3.32 F
996 4626 0.249447 CAAGGATGGCGATCGCACTA 60.249 55.000 38.00 24.77 44.11 2.74 F
1201 4858 0.671472 CCAGCTCGAGTGCAATGACA 60.671 55.000 15.13 0.00 34.99 3.58 F
1503 5487 1.526917 GCCACAGCAGTTCACCACT 60.527 57.895 0.00 0.00 39.53 4.00 F
2562 6650 2.801111 GGTCAAGAAGTCAAAGACGACC 59.199 50.000 0.00 5.74 37.67 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1792 5776 0.320050 TGGCACGCATAGTCAGTTGA 59.680 50.000 0.00 0.00 0.00 3.18 R
1849 5833 1.002624 AGTTGCACCGGTACCCATG 60.003 57.895 6.87 5.98 0.00 3.66 R
2820 6908 0.107017 CTCCATGGAGAATTGGCGGT 60.107 55.000 34.54 0.00 44.53 5.68 R
3126 7214 0.251341 CTTGGTGCTGGCCTACCTTT 60.251 55.000 20.20 0.00 37.84 3.11 R
3213 7301 4.201920 CCACTCATGTTCAAGCATCTCATG 60.202 45.833 0.00 0.00 37.71 3.07 R
3942 8973 0.630673 TGGCATACATTGGGAGGCTT 59.369 50.000 0.00 0.00 0.00 4.35 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
37 38 7.932491 CAGGTGAGATACTTGATGATCTTTGAT 59.068 37.037 0.00 0.00 38.57 2.57
46 47 8.884124 ACTTGATGATCTTTGATAAGGGAAAA 57.116 30.769 0.00 0.00 32.02 2.29
142 143 4.078537 TCCATCGACAAACAATTGGTCAT 58.921 39.130 10.83 0.00 41.01 3.06
143 144 4.082841 TCCATCGACAAACAATTGGTCATG 60.083 41.667 10.83 12.25 41.01 3.07
145 146 2.030363 TCGACAAACAATTGGTCATGGC 60.030 45.455 10.83 0.04 41.01 4.40
146 147 2.288091 CGACAAACAATTGGTCATGGCA 60.288 45.455 10.83 0.00 41.01 4.92
147 148 3.614630 CGACAAACAATTGGTCATGGCAT 60.615 43.478 10.83 0.00 41.01 4.40
148 149 4.380339 CGACAAACAATTGGTCATGGCATA 60.380 41.667 10.83 0.00 41.01 3.14
149 150 5.477510 GACAAACAATTGGTCATGGCATAA 58.522 37.500 10.83 0.00 41.01 1.90
150 151 5.237048 ACAAACAATTGGTCATGGCATAAC 58.763 37.500 10.83 0.00 41.01 1.89
151 152 4.470334 AACAATTGGTCATGGCATAACC 57.530 40.909 13.23 13.23 39.84 2.85
152 153 2.765699 ACAATTGGTCATGGCATAACCC 59.234 45.455 17.27 9.49 37.83 4.11
153 154 2.086610 ATTGGTCATGGCATAACCCC 57.913 50.000 17.27 7.09 37.83 4.95
154 155 0.032615 TTGGTCATGGCATAACCCCC 60.033 55.000 17.27 5.39 37.83 5.40
155 156 1.217747 TGGTCATGGCATAACCCCCA 61.218 55.000 17.27 7.83 37.83 4.96
156 157 0.755327 GGTCATGGCATAACCCCCAC 60.755 60.000 8.78 0.00 37.83 4.61
157 158 1.101049 GTCATGGCATAACCCCCACG 61.101 60.000 0.00 0.00 37.83 4.94
158 159 2.123897 ATGGCATAACCCCCACGC 60.124 61.111 0.00 0.00 37.83 5.34
159 160 2.689691 ATGGCATAACCCCCACGCT 61.690 57.895 0.00 0.00 37.83 5.07
160 161 2.828549 GGCATAACCCCCACGCTG 60.829 66.667 0.00 0.00 0.00 5.18
161 162 3.518068 GCATAACCCCCACGCTGC 61.518 66.667 0.00 0.00 0.00 5.25
163 164 1.819632 CATAACCCCCACGCTGCTC 60.820 63.158 0.00 0.00 0.00 4.26
165 166 2.257409 ATAACCCCCACGCTGCTCAG 62.257 60.000 0.00 0.00 0.00 3.35
321 322 2.997075 ATTCCGTACCTGCGACGCA 61.997 57.895 22.99 22.99 38.99 5.24
325 326 1.154169 CGTACCTGCGACGCAACTA 60.154 57.895 24.51 12.56 38.41 2.24
339 340 1.201647 GCAACTACTGTCGAGCCTGTA 59.798 52.381 0.00 0.00 0.00 2.74
352 353 1.625315 AGCCTGTATGCACTCTCAACA 59.375 47.619 0.00 0.00 0.00 3.33
356 357 1.278985 TGTATGCACTCTCAACAGGGG 59.721 52.381 0.00 0.00 0.00 4.79
374 375 1.412343 GGGCAGAGATTCAGAGAGACC 59.588 57.143 0.00 0.00 0.00 3.85
448 449 7.708752 GTCCAGGTCAGTAAGAAGAAATATGAG 59.291 40.741 0.00 0.00 0.00 2.90
545 4116 4.262938 GGATTAGGTGGCTGTAGTAATCCC 60.263 50.000 7.83 0.00 41.50 3.85
573 4144 7.642978 GTCAGCTAAATTGCACAGATAATGAAG 59.357 37.037 0.00 0.00 34.99 3.02
638 4210 5.012664 TCCACTAGCATTAACAGACCAAAGA 59.987 40.000 0.00 0.00 0.00 2.52
716 4289 2.494073 TGTACTGACATGTGGCGACATA 59.506 45.455 14.40 0.00 46.14 2.29
749 4322 0.251341 AGGGCTGCCTGGTTAAACAG 60.251 55.000 19.68 13.90 38.21 3.16
789 4362 0.036306 CCAAAGCTCCGGTAGGTGTT 59.964 55.000 0.00 0.00 35.65 3.32
874 4498 4.202233 GGTAATTGACCTGGTCCTAGCTAC 60.202 50.000 23.42 15.72 45.89 3.58
896 4520 4.259356 CTGAACAGATTCTTCAGCATCCA 58.741 43.478 3.11 0.00 38.57 3.41
959 4589 3.076092 CACTTCCTCAGCAGCCCT 58.924 61.111 0.00 0.00 0.00 5.19
996 4626 0.249447 CAAGGATGGCGATCGCACTA 60.249 55.000 38.00 24.77 44.11 2.74
1201 4858 0.671472 CCAGCTCGAGTGCAATGACA 60.671 55.000 15.13 0.00 34.99 3.58
1503 5487 1.526917 GCCACAGCAGTTCACCACT 60.527 57.895 0.00 0.00 39.53 4.00
1726 5710 3.181450 CCTCAACTGGACCAAAGACTTCT 60.181 47.826 0.00 0.00 0.00 2.85
1776 5760 4.609018 AACGTCGGCAGCTGCAGT 62.609 61.111 37.63 26.94 44.36 4.40
2358 6446 4.762289 ATTCTTCGAGCTAAATGGAGGT 57.238 40.909 0.00 0.00 0.00 3.85
2562 6650 2.801111 GGTCAAGAAGTCAAAGACGACC 59.199 50.000 0.00 5.74 37.67 4.79
2706 6794 4.386049 GAGTTCGTCTCAAATGGTACACTG 59.614 45.833 0.00 0.00 41.84 3.66
2820 6908 4.891260 CATATATGCACTCTTCAGCCTCA 58.109 43.478 0.00 0.00 0.00 3.86
3069 7157 3.214328 TCTGACAAGGAAAAAGGCACTC 58.786 45.455 0.00 0.00 38.49 3.51
3126 7214 5.651576 TGTTTTATGCTTCATGATGGCAGTA 59.348 36.000 22.21 13.39 39.38 2.74
3213 7301 2.729467 CGAAGAGATCACACACCTCGTC 60.729 54.545 0.00 0.00 33.92 4.20
3477 7566 5.479724 TGTTCCATCTTTTGTTGCATATCCA 59.520 36.000 0.00 0.00 0.00 3.41
3546 7641 8.453320 CACATATGATAGTTGCAGAAAAGTGAA 58.547 33.333 10.38 0.00 0.00 3.18
3638 8596 8.103305 CAGATATACCCATTAGCTGGTTAATGT 58.897 37.037 13.32 2.66 44.30 2.71
3689 8657 7.721286 AAAGCAATAGGATGTAAAGAGATCG 57.279 36.000 0.00 0.00 0.00 3.69
3690 8658 5.788450 AGCAATAGGATGTAAAGAGATCGG 58.212 41.667 0.00 0.00 0.00 4.18
3695 8663 5.012328 AGGATGTAAAGAGATCGGACAAC 57.988 43.478 0.00 0.00 0.00 3.32
3728 8730 9.632807 TTAGGATGGAAAATTACAAAACGATTG 57.367 29.630 0.00 0.00 0.00 2.67
3740 8742 4.219033 CAAAACGATTGTTGACTAGGCAC 58.781 43.478 0.00 0.00 38.62 5.01
3758 8760 5.063880 AGGCACCTACTACAAAAGAAACTG 58.936 41.667 0.00 0.00 0.00 3.16
3828 8832 3.988379 TGTGCCAAAACTCAGATTGTC 57.012 42.857 0.00 0.00 0.00 3.18
3832 8836 3.316029 TGCCAAAACTCAGATTGTCACTG 59.684 43.478 0.00 0.00 36.80 3.66
3871 8875 5.510430 ACCTTTTCATTTGGAGGGATAGTC 58.490 41.667 0.00 0.00 33.51 2.59
3874 8878 6.387192 TTTTCATTTGGAGGGATAGTCTGA 57.613 37.500 0.00 0.00 0.00 3.27
3884 8888 5.452636 GGAGGGATAGTCTGACATGAACTTC 60.453 48.000 10.88 2.49 0.00 3.01
3938 8969 2.821969 GCTTCCCAATGTATGCCATAGG 59.178 50.000 0.00 0.00 31.97 2.57
3939 8970 3.424703 CTTCCCAATGTATGCCATAGGG 58.575 50.000 1.19 1.19 36.15 3.53
3940 8971 2.712384 TCCCAATGTATGCCATAGGGA 58.288 47.619 0.00 5.55 41.33 4.20
3942 8973 4.443658 TCCCAATGTATGCCATAGGGATA 58.556 43.478 0.00 0.00 38.84 2.59
3943 8974 4.855018 TCCCAATGTATGCCATAGGGATAA 59.145 41.667 0.00 0.00 37.73 1.75
3944 8975 5.044919 TCCCAATGTATGCCATAGGGATAAG 60.045 44.000 0.00 0.00 37.73 1.73
3945 8976 4.641989 CCAATGTATGCCATAGGGATAAGC 59.358 45.833 0.00 0.00 37.73 3.09
3946 8977 4.510167 ATGTATGCCATAGGGATAAGCC 57.490 45.455 0.00 0.00 37.73 4.35
3947 8978 3.531059 TGTATGCCATAGGGATAAGCCT 58.469 45.455 0.00 0.00 37.73 4.58
3948 8979 3.519510 TGTATGCCATAGGGATAAGCCTC 59.480 47.826 0.00 0.00 37.73 4.70
3949 8980 1.362224 TGCCATAGGGATAAGCCTCC 58.638 55.000 0.00 0.00 35.59 4.30
3959 8990 3.084786 GGATAAGCCTCCCAATGTATGC 58.915 50.000 0.00 0.00 0.00 3.14
3960 8991 2.656947 TAAGCCTCCCAATGTATGCC 57.343 50.000 0.00 0.00 0.00 4.40
3961 8992 0.630673 AAGCCTCCCAATGTATGCCA 59.369 50.000 0.00 0.00 0.00 4.92
3962 8993 0.855598 AGCCTCCCAATGTATGCCAT 59.144 50.000 0.00 0.00 34.36 4.40
3963 8994 2.065007 AGCCTCCCAATGTATGCCATA 58.935 47.619 0.00 0.00 31.97 2.74
3964 8995 2.040813 AGCCTCCCAATGTATGCCATAG 59.959 50.000 0.00 0.00 31.97 2.23
3965 8996 2.440409 CCTCCCAATGTATGCCATAGC 58.560 52.381 0.00 0.00 40.48 2.97
3996 9027 2.232452 CCCATGATAAACCGTTTGCCAA 59.768 45.455 6.77 0.00 0.00 4.52
4029 9060 1.956043 GCAAATCCCACTGCGAACA 59.044 52.632 0.00 0.00 0.00 3.18
4042 9073 3.062763 CTGCGAACAGTCATTCTTCAGT 58.937 45.455 0.00 0.00 39.22 3.41
4068 9099 5.886960 ATGGAGAGCAAATTGTGTTAGAC 57.113 39.130 0.00 0.00 0.00 2.59
4073 9104 3.825308 AGCAAATTGTGTTAGACATGCG 58.175 40.909 0.00 0.00 41.22 4.73
4086 9117 1.153289 CATGCGCTAGACTGGCCTT 60.153 57.895 9.73 0.00 0.00 4.35
4198 9231 6.165577 GGTTTATGCTGATGGTTCAAAATGT 58.834 36.000 0.00 0.00 0.00 2.71
4245 9294 5.759763 TGATTAGTCGCACATAATCAGCAAT 59.240 36.000 9.30 0.00 41.28 3.56
4357 9412 5.011943 AGAGCTTGAGAAAGAGACATGTCTT 59.988 40.000 28.46 13.93 40.61 3.01
4383 9439 3.225940 TGTAGAGATGATGTGCTCGGAT 58.774 45.455 0.00 0.00 36.29 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 9.973661 TTTTCCCTTATCAAAGATCATCAAGTA 57.026 29.630 0.00 0.00 34.37 2.24
37 38 3.068560 CCAATCGTCGTGTTTTCCCTTA 58.931 45.455 0.00 0.00 0.00 2.69
142 143 3.334891 AGCGTGGGGGTTATGCCA 61.335 61.111 0.00 0.00 39.65 4.92
143 144 2.828549 CAGCGTGGGGGTTATGCC 60.829 66.667 0.00 0.00 0.00 4.40
145 146 1.819632 GAGCAGCGTGGGGGTTATG 60.820 63.158 0.00 0.00 0.00 1.90
146 147 2.257409 CTGAGCAGCGTGGGGGTTAT 62.257 60.000 0.00 0.00 0.00 1.89
147 148 2.925706 TGAGCAGCGTGGGGGTTA 60.926 61.111 0.00 0.00 0.00 2.85
148 149 4.335647 CTGAGCAGCGTGGGGGTT 62.336 66.667 0.00 0.00 0.00 4.11
151 152 4.335647 AACCTGAGCAGCGTGGGG 62.336 66.667 6.38 1.77 0.00 4.96
152 153 3.052082 CAACCTGAGCAGCGTGGG 61.052 66.667 6.38 3.34 0.00 4.61
153 154 2.281070 ACAACCTGAGCAGCGTGG 60.281 61.111 0.00 0.68 0.00 4.94
154 155 2.941333 CACAACCTGAGCAGCGTG 59.059 61.111 0.00 0.00 0.00 5.34
155 156 2.974698 GCACAACCTGAGCAGCGT 60.975 61.111 0.00 0.00 34.08 5.07
156 157 2.667536 AGCACAACCTGAGCAGCG 60.668 61.111 0.00 0.00 36.40 5.18
157 158 1.168407 TTGAGCACAACCTGAGCAGC 61.168 55.000 0.00 0.00 36.40 5.25
158 159 1.266175 CTTTGAGCACAACCTGAGCAG 59.734 52.381 0.00 0.00 36.40 4.24
159 160 1.311859 CTTTGAGCACAACCTGAGCA 58.688 50.000 0.00 0.00 36.40 4.26
160 161 0.039708 GCTTTGAGCACAACCTGAGC 60.040 55.000 0.00 0.00 41.89 4.26
161 162 0.236711 CGCTTTGAGCACAACCTGAG 59.763 55.000 0.00 0.00 42.58 3.35
163 164 0.236711 CTCGCTTTGAGCACAACCTG 59.763 55.000 0.00 0.00 42.58 4.00
217 218 3.119245 TGCTGTGTATTACCGTCCTCTTC 60.119 47.826 0.00 0.00 0.00 2.87
321 322 2.159226 GCATACAGGCTCGACAGTAGTT 60.159 50.000 0.00 0.00 0.00 2.24
325 326 0.108615 GTGCATACAGGCTCGACAGT 60.109 55.000 0.00 0.00 34.04 3.55
331 332 2.275318 GTTGAGAGTGCATACAGGCTC 58.725 52.381 0.00 0.00 34.04 4.70
339 340 1.001641 GCCCCTGTTGAGAGTGCAT 60.002 57.895 0.00 0.00 0.00 3.96
352 353 1.290431 TCTCTCTGAATCTCTGCCCCT 59.710 52.381 0.00 0.00 0.00 4.79
356 357 3.883830 TTGGTCTCTCTGAATCTCTGC 57.116 47.619 0.00 0.00 0.00 4.26
374 375 5.327091 CCTGTCAACGAGCAGAAATATTTG 58.673 41.667 5.17 0.00 34.87 2.32
468 469 5.121105 GCCGTCTAACATTTTGGTAGGTAT 58.879 41.667 0.06 0.00 38.19 2.73
486 487 2.076863 ACAGAAACTAGCATTGCCGTC 58.923 47.619 4.70 0.00 0.00 4.79
487 488 2.076863 GACAGAAACTAGCATTGCCGT 58.923 47.619 4.70 0.00 0.00 5.68
488 489 2.349886 GAGACAGAAACTAGCATTGCCG 59.650 50.000 4.70 0.00 0.00 5.69
545 4116 2.076100 TCTGTGCAATTTAGCTGACCG 58.924 47.619 0.00 0.00 34.99 4.79
638 4210 6.485648 GCATGTATACCTACCCGAAAAGAAAT 59.514 38.462 0.00 0.00 0.00 2.17
749 4322 2.414161 GCGTTTAGTCAATGGCAGAACC 60.414 50.000 0.00 0.00 39.84 3.62
824 4448 2.291741 GGCCAGCACTAGTTAATGATGC 59.708 50.000 0.00 0.00 36.52 3.91
896 4520 3.701205 TGGAAGTCCATATATGCGCAT 57.299 42.857 28.23 28.23 42.01 4.73
959 4589 1.051008 TGCTCTTCTGGTCTGCTCAA 58.949 50.000 0.00 0.00 0.00 3.02
996 4626 4.025858 AGCACGAGTGGCATGGCT 62.026 61.111 21.08 0.00 0.00 4.75
1726 5710 3.458163 GAGGATGACGGGCACGGA 61.458 66.667 15.46 0.00 46.48 4.69
1792 5776 0.320050 TGGCACGCATAGTCAGTTGA 59.680 50.000 0.00 0.00 0.00 3.18
1849 5833 1.002624 AGTTGCACCGGTACCCATG 60.003 57.895 6.87 5.98 0.00 3.66
2125 6175 4.378774 CAATGTGAAATTGTCCTTTGGCA 58.621 39.130 0.00 0.00 0.00 4.92
2412 6500 4.601857 TCCTTGGTAAAGATCTTGAACCCT 59.398 41.667 26.21 8.54 35.19 4.34
2706 6794 5.243283 CCTACTACCATGGATGTAGTGGTAC 59.757 48.000 28.96 0.00 44.08 3.34
2820 6908 0.107017 CTCCATGGAGAATTGGCGGT 60.107 55.000 34.54 0.00 44.53 5.68
3069 7157 1.433879 CTCTGGCCCGTCGAAGTAG 59.566 63.158 0.00 0.00 0.00 2.57
3126 7214 0.251341 CTTGGTGCTGGCCTACCTTT 60.251 55.000 20.20 0.00 37.84 3.11
3213 7301 4.201920 CCACTCATGTTCAAGCATCTCATG 60.202 45.833 0.00 0.00 37.71 3.07
3546 7641 3.181448 ACAACCCGTGTGAGGTTTAGATT 60.181 43.478 0.00 0.00 45.46 2.40
3687 8655 6.654959 TCCATCCTAATAAATTGTTGTCCGA 58.345 36.000 0.00 0.00 0.00 4.55
3715 8683 5.527951 TGCCTAGTCAACAATCGTTTTGTAA 59.472 36.000 6.87 0.00 31.13 2.41
3717 8685 3.880490 TGCCTAGTCAACAATCGTTTTGT 59.120 39.130 1.50 1.50 31.13 2.83
3718 8686 4.219033 GTGCCTAGTCAACAATCGTTTTG 58.781 43.478 0.00 0.36 31.13 2.44
3719 8687 3.252458 GGTGCCTAGTCAACAATCGTTTT 59.748 43.478 0.00 0.00 31.13 2.43
3723 8691 2.386661 AGGTGCCTAGTCAACAATCG 57.613 50.000 0.00 0.00 0.00 3.34
3724 8692 4.473477 AGTAGGTGCCTAGTCAACAATC 57.527 45.455 0.00 0.00 0.00 2.67
3728 8730 4.796038 TTGTAGTAGGTGCCTAGTCAAC 57.204 45.455 8.74 4.42 34.39 3.18
3740 8742 8.379457 AGTTAAGCAGTTTCTTTTGTAGTAGG 57.621 34.615 0.00 0.00 0.00 3.18
3758 8760 3.302365 TGCCTGCAAATCAAGTTAAGC 57.698 42.857 0.00 0.00 0.00 3.09
3871 8875 3.854666 AGATCACGGAAGTTCATGTCAG 58.145 45.455 5.01 0.00 46.40 3.51
3874 8878 3.511540 TCTGAGATCACGGAAGTTCATGT 59.488 43.478 5.01 0.00 46.40 3.21
3884 8888 1.110442 AGGAAGCTCTGAGATCACGG 58.890 55.000 9.28 0.00 0.00 4.94
3938 8969 3.084786 GCATACATTGGGAGGCTTATCC 58.915 50.000 0.00 0.00 38.76 2.59
3939 8970 3.084786 GGCATACATTGGGAGGCTTATC 58.915 50.000 0.00 0.00 0.00 1.75
3940 8971 2.446666 TGGCATACATTGGGAGGCTTAT 59.553 45.455 0.00 0.00 0.00 1.73
3942 8973 0.630673 TGGCATACATTGGGAGGCTT 59.369 50.000 0.00 0.00 0.00 4.35
3943 8974 0.855598 ATGGCATACATTGGGAGGCT 59.144 50.000 0.00 0.00 35.97 4.58
3944 8975 2.440409 CTATGGCATACATTGGGAGGC 58.560 52.381 2.32 0.00 41.03 4.70
3945 8976 2.224843 TGCTATGGCATACATTGGGAGG 60.225 50.000 2.32 0.00 44.28 4.30
3946 8977 3.144657 TGCTATGGCATACATTGGGAG 57.855 47.619 2.32 0.00 44.28 4.30
3958 8989 2.635899 GACGCTGCATGCTATGGC 59.364 61.111 20.33 15.74 40.11 4.40
3959 8990 2.256591 GGGACGCTGCATGCTATGG 61.257 63.158 20.33 8.08 40.11 2.74
3960 8991 0.887836 ATGGGACGCTGCATGCTATG 60.888 55.000 20.33 10.49 40.11 2.23
3961 8992 0.887836 CATGGGACGCTGCATGCTAT 60.888 55.000 20.33 0.89 40.11 2.97
3962 8993 1.524393 CATGGGACGCTGCATGCTA 60.524 57.895 20.33 4.40 40.11 3.49
3963 8994 2.619941 ATCATGGGACGCTGCATGCT 62.620 55.000 20.33 0.00 40.11 3.79
3964 8995 0.886043 TATCATGGGACGCTGCATGC 60.886 55.000 11.82 11.82 38.57 4.06
3965 8996 1.596603 TTATCATGGGACGCTGCATG 58.403 50.000 0.00 0.00 0.00 4.06
3966 8997 1.949525 GTTTATCATGGGACGCTGCAT 59.050 47.619 0.00 0.00 0.00 3.96
3967 8998 1.378531 GTTTATCATGGGACGCTGCA 58.621 50.000 0.00 0.00 0.00 4.41
3968 8999 0.663153 GGTTTATCATGGGACGCTGC 59.337 55.000 0.00 0.00 0.00 5.25
3969 9000 0.937304 CGGTTTATCATGGGACGCTG 59.063 55.000 0.00 0.00 0.00 5.18
3996 9027 1.766494 TTTGCGGATGAAGGATGCAT 58.234 45.000 0.00 0.00 36.73 3.96
4029 9060 6.611613 TCTCCATTGTACTGAAGAATGACT 57.388 37.500 4.82 0.00 40.46 3.41
4042 9073 6.939730 TCTAACACAATTTGCTCTCCATTGTA 59.060 34.615 0.00 0.00 38.75 2.41
4068 9099 0.745845 AAAGGCCAGTCTAGCGCATG 60.746 55.000 11.47 0.79 0.00 4.06
4073 9104 1.168714 CCAACAAAGGCCAGTCTAGC 58.831 55.000 5.01 0.00 0.00 3.42
4086 9117 3.153369 TGCTTTGAGGATAGCCAACAA 57.847 42.857 0.00 2.46 36.56 2.83
4097 9128 5.505173 TTCTGAACTTCTTTGCTTTGAGG 57.495 39.130 0.00 0.00 0.00 3.86
4098 9129 9.985318 CTATATTCTGAACTTCTTTGCTTTGAG 57.015 33.333 0.00 0.00 0.00 3.02
4137 9168 2.689983 CAGCCGGGAAGCAAAATCTATT 59.310 45.455 2.18 0.00 34.23 1.73
4198 9231 7.729116 TCATCTCTGCATGTATCAATCAAGTA 58.271 34.615 0.00 0.00 0.00 2.24
4245 9294 2.036604 TCTCATGTCACGGTGCTGTAAA 59.963 45.455 2.51 0.00 0.00 2.01
4326 9375 4.219507 TCTCTTTCTCAAGCTCTTGACGAT 59.780 41.667 8.14 0.00 43.90 3.73
4357 9412 5.105997 CCGAGCACATCATCTCTACATATGA 60.106 44.000 10.38 0.00 36.60 2.15
4383 9439 8.967918 AGTCATGACTACTACAATACAGCTTTA 58.032 33.333 26.87 0.00 40.43 1.85


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

AutoCloner maintained by Alex Coulton.