Multiple sequence alignment - TraesCS3B01G303800

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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 TraesCS3B01G303800 chr3B 100.000 4087 0 0 1 4087 487905088 487909174 0.000000e+00 7548.0
1 TraesCS3B01G303800 chr3B 81.067 750 107 29 3115 3857 736417834 736417113 2.130000e-157 566.0
2 TraesCS3B01G303800 chr3B 94.444 54 2 1 3940 3992 487908974 487909027 9.420000e-12 82.4
3 TraesCS3B01G303800 chr3B 94.444 54 2 1 3887 3940 487909027 487909079 9.420000e-12 82.4
4 TraesCS3B01G303800 chr3A 94.220 4118 180 27 2 4087 496701453 496705544 0.000000e+00 6233.0
5 TraesCS3B01G303800 chr3A 96.296 54 2 0 3887 3940 496705396 496705449 5.630000e-14 89.8
6 TraesCS3B01G303800 chr3A 96.296 54 1 1 3940 3992 496705343 496705396 2.020000e-13 87.9
7 TraesCS3B01G303800 chr3D 94.784 3892 139 27 245 4087 374205234 374209110 0.000000e+00 6004.0
8 TraesCS3B01G303800 chr3D 89.712 243 23 2 1 243 374204249 374204489 3.970000e-80 309.0
9 TraesCS3B01G303800 chr3D 75.472 265 51 13 1916 2176 339253212 339252958 2.580000e-22 117.0
10 TraesCS3B01G303800 chr3D 94.444 54 2 1 3940 3992 374208910 374208963 9.420000e-12 82.4
11 TraesCS3B01G303800 chr4A 82.736 753 106 18 3115 3857 658261515 658262253 0.000000e+00 649.0
12 TraesCS3B01G303800 chr7B 82.819 745 106 15 3115 3849 164158543 164157811 0.000000e+00 647.0
13 TraesCS3B01G303800 chr2A 83.463 641 89 13 3115 3745 778620349 778619716 7.620000e-162 580.0
14 TraesCS3B01G303800 chr2D 81.447 760 93 22 3125 3849 596162982 596163728 2.740000e-161 579.0
15 TraesCS3B01G303800 chr6B 81.142 753 105 26 3115 3857 351224964 351224239 1.650000e-158 569.0
16 TraesCS3B01G303800 chr2B 81.142 753 102 25 3115 3857 785240117 785240839 5.930000e-158 568.0


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 TraesCS3B01G303800 chr3B 487905088 487909174 4086 False 2570.933333 7548 96.296 1 4087 3 chr3B.!!$F1 4086
1 TraesCS3B01G303800 chr3B 736417113 736417834 721 True 566.000000 566 81.067 3115 3857 1 chr3B.!!$R1 742
2 TraesCS3B01G303800 chr3A 496701453 496705544 4091 False 2136.900000 6233 95.604 2 4087 3 chr3A.!!$F1 4085
3 TraesCS3B01G303800 chr3D 374204249 374209110 4861 False 2131.800000 6004 92.980 1 4087 3 chr3D.!!$F1 4086
4 TraesCS3B01G303800 chr4A 658261515 658262253 738 False 649.000000 649 82.736 3115 3857 1 chr4A.!!$F1 742
5 TraesCS3B01G303800 chr7B 164157811 164158543 732 True 647.000000 647 82.819 3115 3849 1 chr7B.!!$R1 734
6 TraesCS3B01G303800 chr2A 778619716 778620349 633 True 580.000000 580 83.463 3115 3745 1 chr2A.!!$R1 630
7 TraesCS3B01G303800 chr2D 596162982 596163728 746 False 579.000000 579 81.447 3125 3849 1 chr2D.!!$F1 724
8 TraesCS3B01G303800 chr6B 351224239 351224964 725 True 569.000000 569 81.142 3115 3857 1 chr6B.!!$R1 742
9 TraesCS3B01G303800 chr2B 785240117 785240839 722 False 568.000000 568 81.142 3115 3857 1 chr2B.!!$F1 742

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
157 158 0.829990 TCAATAGACTCATGCGGCCA 59.170 50.000 2.24 0.0 0.00 5.36 F
269 1013 0.960364 CGCTTGGGTGTAGGTGCATT 60.960 55.000 0.00 0.0 0.00 3.56 F
271 1015 1.202348 GCTTGGGTGTAGGTGCATTTC 59.798 52.381 0.00 0.0 0.00 2.17 F
298 1042 1.210478 GGCAGCTCAGGACCTAATGAA 59.790 52.381 0.00 0.0 0.00 2.57 F
1783 2544 1.303643 GGTTCCACCAGCCAAGGAG 60.304 63.158 0.00 0.0 38.42 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2828 2.327325 AGAAGTACCAGGCCTTCTCA 57.673 50.000 0.00 0.00 42.86 3.27 R
2202 2963 1.290324 CTGTCGCCATCCTATCGGG 59.710 63.158 0.00 0.00 0.00 5.14 R
2508 3269 1.072331 GTCTTCCTCTTCTTGTGCCCA 59.928 52.381 0.00 0.00 0.00 5.36 R
2594 3355 4.717629 TCTTGCGCCCAGACGTCG 62.718 66.667 10.46 5.16 34.88 5.12 R
3857 4691 0.685097 TCCACTAGTGTCAACCCTGC 59.315 55.000 21.18 0.00 0.00 4.85 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
67 68 8.718102 ACTAGCACAATTATAGTTGTAACTGG 57.282 34.615 12.69 15.50 40.17 4.00
88 89 5.271598 TGGTCCTTCCTTGATTAATGCATT 58.728 37.500 17.56 17.56 37.07 3.56
96 97 5.419788 TCCTTGATTAATGCATTGTGCTTCT 59.580 36.000 22.27 0.00 45.31 2.85
103 104 1.202915 TGCATTGTGCTTCTCCTTCCA 60.203 47.619 3.41 0.00 45.31 3.53
117 118 3.045634 TCCTTCCATGTAATGTCCGGAT 58.954 45.455 7.81 0.00 44.81 4.18
119 120 2.928801 TCCATGTAATGTCCGGATGG 57.071 50.000 7.81 9.87 44.81 3.51
120 121 2.123589 TCCATGTAATGTCCGGATGGT 58.876 47.619 7.81 0.00 44.81 3.55
128 129 1.832883 TGTCCGGATGGTGGATTTTG 58.167 50.000 7.81 0.00 37.93 2.44
141 142 5.424573 TGGTGGATTTTGCCATCAATATCAA 59.575 36.000 0.00 0.00 45.70 2.57
157 158 0.829990 TCAATAGACTCATGCGGCCA 59.170 50.000 2.24 0.00 0.00 5.36
160 161 2.044806 ATAGACTCATGCGGCCACCC 62.045 60.000 2.24 0.00 0.00 4.61
181 182 2.362717 CTCGGGAGGTGGAATACTTCTC 59.637 54.545 0.00 0.00 35.82 2.87
190 191 4.336713 GGTGGAATACTTCTCCATCTTTGC 59.663 45.833 0.00 0.00 44.69 3.68
192 193 4.192317 GGAATACTTCTCCATCTTTGCGT 58.808 43.478 0.00 0.00 32.77 5.24
200 201 4.797471 TCTCCATCTTTGCGTGAATTTTG 58.203 39.130 0.00 0.00 0.00 2.44
212 213 5.401972 TGCGTGAATTTTGATAAAGCACTTG 59.598 36.000 0.00 0.00 33.66 3.16
225 226 1.542915 AGCACTTGACATTGTGATGGC 59.457 47.619 11.72 0.00 41.98 4.40
232 233 4.233632 TGACATTGTGATGGCCATAAGA 57.766 40.909 20.84 7.13 40.84 2.10
269 1013 0.960364 CGCTTGGGTGTAGGTGCATT 60.960 55.000 0.00 0.00 0.00 3.56
271 1015 1.202348 GCTTGGGTGTAGGTGCATTTC 59.798 52.381 0.00 0.00 0.00 2.17
298 1042 1.210478 GGCAGCTCAGGACCTAATGAA 59.790 52.381 0.00 0.00 0.00 2.57
318 1062 2.781667 AGGCAATGACTAGGGGAGAAT 58.218 47.619 0.00 0.00 0.00 2.40
323 1067 2.940514 TGACTAGGGGAGAATGACCA 57.059 50.000 0.00 0.00 0.00 4.02
348 1092 6.528321 AGAGGTTAGGTTTAGGTGTGTAAAC 58.472 40.000 0.00 0.00 40.68 2.01
355 1099 6.130569 AGGTTTAGGTGTGTAAACAATTGGA 58.869 36.000 10.83 0.00 42.40 3.53
383 1127 4.519350 GCTTGGGCCAAGATAAAGGTATAC 59.481 45.833 42.69 20.58 43.42 1.47
392 1136 6.649557 CCAAGATAAAGGTATACGGGCTTTAG 59.350 42.308 14.27 5.34 0.00 1.85
398 1142 4.449131 AGGTATACGGGCTTTAGCTTTTC 58.551 43.478 0.00 0.00 41.70 2.29
420 1164 6.882610 TCAAAATTGGCTGCATATAGGTAG 57.117 37.500 0.50 0.00 0.00 3.18
424 1168 7.458409 AAATTGGCTGCATATAGGTAGAATG 57.542 36.000 6.68 0.00 0.00 2.67
425 1169 5.567037 TTGGCTGCATATAGGTAGAATGT 57.433 39.130 6.68 0.00 0.00 2.71
428 1172 5.542251 TGGCTGCATATAGGTAGAATGTACA 59.458 40.000 6.68 0.00 0.00 2.90
429 1173 5.869888 GGCTGCATATAGGTAGAATGTACAC 59.130 44.000 6.68 0.00 0.00 2.90
430 1174 6.455647 GCTGCATATAGGTAGAATGTACACA 58.544 40.000 6.68 0.00 0.00 3.72
451 1195 5.355350 CACAGAAATTTCCATCTCCCTACAC 59.645 44.000 14.61 0.00 0.00 2.90
539 1283 8.726988 CAGTTTCTATAATTTTCTCCGTTTCCA 58.273 33.333 0.00 0.00 0.00 3.53
568 1312 3.550678 GCTGAACTACCGAGTAAATTCCG 59.449 47.826 0.00 0.00 33.58 4.30
574 1318 1.347221 CGAGTAAATTCCGCACCGC 59.653 57.895 0.00 0.00 0.00 5.68
622 1366 8.213679 ACCTATATTTTTAGAGCTTGCTCATCA 58.786 33.333 22.44 6.47 0.00 3.07
623 1367 9.060347 CCTATATTTTTAGAGCTTGCTCATCAA 57.940 33.333 22.44 11.48 0.00 2.57
647 1391 9.933723 CAATATCCTTTTCCTTTTGAAGAACAT 57.066 29.630 0.00 0.00 33.63 2.71
649 1393 6.405278 TCCTTTTCCTTTTGAAGAACATCC 57.595 37.500 0.00 0.00 33.63 3.51
650 1394 6.136155 TCCTTTTCCTTTTGAAGAACATCCT 58.864 36.000 0.00 0.00 33.63 3.24
651 1395 6.611236 TCCTTTTCCTTTTGAAGAACATCCTT 59.389 34.615 0.00 0.00 33.63 3.36
652 1396 6.925718 CCTTTTCCTTTTGAAGAACATCCTTC 59.074 38.462 0.00 0.00 42.09 3.46
703 1461 2.203640 ATCCCTCTATCCGCGGCA 60.204 61.111 23.51 10.36 0.00 5.69
720 1478 2.162754 CACGGTCGTAATGCGGGTC 61.163 63.158 0.00 0.00 41.72 4.46
754 1512 2.482142 CGTTTGACTGGGCCTAGAGATC 60.482 54.545 24.81 10.74 0.00 2.75
850 1608 1.874345 AACTCGTACGGCTCCAGGTG 61.874 60.000 16.52 0.00 0.00 4.00
891 1649 2.829720 TCAACAGTAGTAATCCAGGCGT 59.170 45.455 0.00 0.00 0.00 5.68
892 1650 3.259876 TCAACAGTAGTAATCCAGGCGTT 59.740 43.478 0.00 0.00 0.00 4.84
976 1734 3.243434 CCTCGCCGGTGCTAATATATAGG 60.243 52.174 11.05 4.56 34.43 2.57
985 1743 6.531948 CGGTGCTAATATATAGGCTTGACTTC 59.468 42.308 0.00 0.00 0.00 3.01
1003 1761 2.378634 CCCTCCGAAATCCCCAGCT 61.379 63.158 0.00 0.00 0.00 4.24
1019 1780 3.434310 CCCAGCTATTCTTTCCTTCCTCC 60.434 52.174 0.00 0.00 0.00 4.30
1036 1797 3.976654 TCCTCCCTCCCTTCATAATTCTG 59.023 47.826 0.00 0.00 0.00 3.02
1037 1798 3.497584 CCTCCCTCCCTTCATAATTCTGC 60.498 52.174 0.00 0.00 0.00 4.26
1177 1938 3.249189 AGCGCCCCTGGAAGTTCA 61.249 61.111 2.29 0.00 0.00 3.18
1191 1952 1.810030 GTTCATCCACGAGGCCGAC 60.810 63.158 0.00 0.00 39.50 4.79
1642 2403 2.411504 GCGAGCGAGGAGGACTCTT 61.412 63.158 0.00 0.00 44.33 2.85
1770 2531 2.579738 GACTCCGAGCAGGGTTCC 59.420 66.667 0.00 0.00 41.52 3.62
1778 2539 4.284550 GCAGGGTTCCACCAGCCA 62.285 66.667 0.00 0.00 41.02 4.75
1782 2543 2.840753 GGGTTCCACCAGCCAAGGA 61.841 63.158 0.00 0.00 41.02 3.36
1783 2544 1.303643 GGTTCCACCAGCCAAGGAG 60.304 63.158 0.00 0.00 38.42 3.69
1784 2545 1.303643 GTTCCACCAGCCAAGGAGG 60.304 63.158 0.00 0.00 40.39 4.30
1863 2624 2.188994 GCCCTTCGAGCTGCTCAT 59.811 61.111 27.46 0.00 0.00 2.90
1872 2633 1.680522 GAGCTGCTCATCTTCCCCGA 61.681 60.000 24.02 0.00 0.00 5.14
2044 2805 1.602771 GCCCTCACCAGGAAGTACC 59.397 63.158 0.00 0.00 43.65 3.34
2314 3075 3.134127 GCCTCGACCATGGCCAAC 61.134 66.667 10.96 0.49 43.11 3.77
2316 3077 1.746615 CCTCGACCATGGCCAACAG 60.747 63.158 10.96 3.56 0.00 3.16
2432 3193 1.805945 CCGGCGACAACTACTCTGC 60.806 63.158 9.30 0.00 0.00 4.26
2508 3269 1.810532 GGCGTCGACATCTTCCTCT 59.189 57.895 17.16 0.00 0.00 3.69
2549 3310 1.837051 ACAGCAGGAACTCCGGTCA 60.837 57.895 0.00 0.00 42.08 4.02
2554 3315 1.529948 AGGAACTCCGGTCACGTGA 60.530 57.895 15.76 15.76 42.08 4.35
2615 3376 2.097038 CGTCTGGGCGCAAGAAGAG 61.097 63.158 16.57 7.55 43.02 2.85
2656 3429 4.864334 GTGGGATGGAGCCAGCGG 62.864 72.222 0.00 0.00 32.44 5.52
2745 3518 2.416260 GACCCTATGACCGGCGAC 59.584 66.667 9.30 2.28 0.00 5.19
2770 3543 1.293179 GCACCCCATTGCCTCAAAC 59.707 57.895 0.00 0.00 36.42 2.93
2791 3564 2.356432 CCAGGTGAATCTTCAGGATGCA 60.356 50.000 0.00 0.00 37.64 3.96
2817 3590 4.082136 AGACCGTTCTACCAGTTCAAGATC 60.082 45.833 0.00 0.00 0.00 2.75
2833 3606 8.682710 AGTTCAAGATCTGACAACTAGATAGAC 58.317 37.037 10.92 0.00 35.14 2.59
2979 3752 4.021456 TGGTATGCACATCGGATTAGGTAG 60.021 45.833 0.00 0.00 0.00 3.18
2991 3765 7.584122 TCGGATTAGGTAGATATAGGCATTC 57.416 40.000 0.00 0.00 0.00 2.67
3038 3813 2.156117 TGGCGTACAAAGAAATCGTTCG 59.844 45.455 0.00 0.00 38.90 3.95
3067 3842 7.253422 ACTTGATCAAATTGTACATTAGCAGC 58.747 34.615 9.88 0.00 0.00 5.25
3070 3845 7.475015 TGATCAAATTGTACATTAGCAGCTTC 58.525 34.615 0.00 0.00 0.00 3.86
3348 4151 8.993121 ACATTACAGACATTTGACACTAAGAAG 58.007 33.333 0.00 0.00 0.00 2.85
3631 4459 3.207265 ACAGTCAATGTGTTGGTAGCA 57.793 42.857 0.00 0.00 41.91 3.49
3789 4622 9.463443 AAACTATTTTCTGCATACAAGTGTTTC 57.537 29.630 0.00 0.00 0.00 2.78
3907 4741 5.187381 TCATATGCAACACAATGGGAAACAT 59.813 36.000 0.00 0.00 43.07 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 3.612241 GCTAGTTTGCATGCATGTGTTGA 60.612 43.478 26.79 0.58 0.00 3.18
55 56 4.903049 TCAAGGAAGGACCAGTTACAACTA 59.097 41.667 0.00 0.00 42.04 2.24
67 68 6.038356 CACAATGCATTAATCAAGGAAGGAC 58.962 40.000 12.53 0.00 0.00 3.85
88 89 4.263462 ACATTACATGGAAGGAGAAGCACA 60.263 41.667 9.79 0.00 33.60 4.57
96 97 2.473070 TCCGGACATTACATGGAAGGA 58.527 47.619 9.79 0.00 33.60 3.36
103 104 2.123589 TCCACCATCCGGACATTACAT 58.876 47.619 6.12 0.00 35.59 2.29
117 118 4.961099 TGATATTGATGGCAAAATCCACCA 59.039 37.500 0.00 0.00 39.25 4.17
119 120 8.579006 TCTATTGATATTGATGGCAAAATCCAC 58.421 33.333 0.00 0.00 39.25 4.02
120 121 8.579006 GTCTATTGATATTGATGGCAAAATCCA 58.421 33.333 0.00 0.00 40.97 3.41
128 129 6.456584 CGCATGAGTCTATTGATATTGATGGC 60.457 42.308 0.00 0.00 0.00 4.40
134 135 4.256920 GGCCGCATGAGTCTATTGATATT 58.743 43.478 0.00 0.00 0.00 1.28
141 142 1.447643 GGTGGCCGCATGAGTCTAT 59.552 57.895 19.98 0.00 0.00 1.98
160 161 2.892784 GAAGTATTCCACCTCCCGAG 57.107 55.000 0.00 0.00 39.83 4.63
174 175 3.953712 TCACGCAAAGATGGAGAAGTA 57.046 42.857 0.00 0.00 0.00 2.24
181 182 7.579589 TTTATCAAAATTCACGCAAAGATGG 57.420 32.000 0.00 0.00 0.00 3.51
186 187 5.982516 AGTGCTTTATCAAAATTCACGCAAA 59.017 32.000 0.00 0.00 35.16 3.68
190 191 6.636447 TGTCAAGTGCTTTATCAAAATTCACG 59.364 34.615 0.00 0.00 35.16 4.35
192 193 8.980610 CAATGTCAAGTGCTTTATCAAAATTCA 58.019 29.630 0.00 0.00 0.00 2.57
200 201 6.032094 CCATCACAATGTCAAGTGCTTTATC 58.968 40.000 4.39 0.00 35.76 1.75
212 213 3.002656 CGTCTTATGGCCATCACAATGTC 59.997 47.826 24.80 4.04 0.00 3.06
225 226 4.527509 AGTGATATGCCTCGTCTTATGG 57.472 45.455 0.00 0.00 0.00 2.74
232 233 1.267261 GCGACTAGTGATATGCCTCGT 59.733 52.381 0.00 0.00 0.00 4.18
269 1013 0.535780 CCTGAGCTGCCACTGTTGAA 60.536 55.000 0.00 0.00 0.00 2.69
271 1015 1.071987 TCCTGAGCTGCCACTGTTG 59.928 57.895 0.00 0.00 0.00 3.33
298 1042 2.270434 TTCTCCCCTAGTCATTGCCT 57.730 50.000 0.00 0.00 0.00 4.75
300 1044 3.471680 GTCATTCTCCCCTAGTCATTGC 58.528 50.000 0.00 0.00 0.00 3.56
301 1045 3.455910 TGGTCATTCTCCCCTAGTCATTG 59.544 47.826 0.00 0.00 0.00 2.82
302 1046 3.736094 TGGTCATTCTCCCCTAGTCATT 58.264 45.455 0.00 0.00 0.00 2.57
303 1047 3.421394 TGGTCATTCTCCCCTAGTCAT 57.579 47.619 0.00 0.00 0.00 3.06
323 1067 6.752285 TTACACACCTAAACCTAACCTCTT 57.248 37.500 0.00 0.00 0.00 2.85
348 1092 0.107557 GCCCAAGCCCAATCCAATTG 60.108 55.000 0.00 0.00 39.94 2.32
372 1116 5.820404 AGCTAAAGCCCGTATACCTTTAT 57.180 39.130 11.08 0.00 43.38 1.40
383 1127 4.152223 CCAATTTTGAAAAGCTAAAGCCCG 59.848 41.667 0.00 0.00 43.38 6.13
392 1136 5.806366 ATATGCAGCCAATTTTGAAAAGC 57.194 34.783 0.00 0.00 0.00 3.51
398 1142 6.882610 TCTACCTATATGCAGCCAATTTTG 57.117 37.500 0.00 0.00 0.00 2.44
420 1164 7.415653 GGGAGATGGAAATTTCTGTGTACATTC 60.416 40.741 17.42 10.44 0.00 2.67
424 1168 5.501156 AGGGAGATGGAAATTTCTGTGTAC 58.499 41.667 17.42 6.23 0.00 2.90
425 1169 5.779241 AGGGAGATGGAAATTTCTGTGTA 57.221 39.130 17.42 1.03 0.00 2.90
428 1172 5.501156 GTGTAGGGAGATGGAAATTTCTGT 58.499 41.667 17.42 6.83 0.00 3.41
429 1173 4.572389 CGTGTAGGGAGATGGAAATTTCTG 59.428 45.833 17.42 0.00 0.00 3.02
430 1174 4.225267 ACGTGTAGGGAGATGGAAATTTCT 59.775 41.667 17.42 0.00 0.00 2.52
461 1205 5.671493 AGTAAAACATATGGTCTCCTTCCG 58.329 41.667 7.80 0.00 0.00 4.30
539 1283 3.805207 ACTCGGTAGTTCAGCAAAAAGT 58.195 40.909 0.00 0.00 29.00 2.66
568 1312 1.639298 AAAAGAGATGAGCGCGGTGC 61.639 55.000 18.92 5.16 46.98 5.01
623 1367 8.753133 GGATGTTCTTCAAAAGGAAAAGGATAT 58.247 33.333 0.00 0.00 34.44 1.63
659 1415 8.419076 AGCGTTTCTCAACACAAAATAAAAAT 57.581 26.923 0.00 0.00 32.54 1.82
703 1461 3.434316 AATGACCCGCATTACGACCGT 62.434 52.381 0.00 0.00 45.16 4.83
720 1478 4.274069 CAGTCAAACGATCCGCATTAATG 58.726 43.478 11.27 11.27 0.00 1.90
850 1608 3.133003 TGATCTCCTCAAATCCGAGTTCC 59.867 47.826 0.00 0.00 0.00 3.62
891 1649 1.407434 CGTACGAACTACGCCAACAA 58.593 50.000 10.44 0.00 46.94 2.83
892 1650 3.090598 CGTACGAACTACGCCAACA 57.909 52.632 10.44 0.00 46.94 3.33
976 1734 2.010497 GATTTCGGAGGGAAGTCAAGC 58.990 52.381 0.00 0.00 40.17 4.01
985 1743 1.054406 TAGCTGGGGATTTCGGAGGG 61.054 60.000 0.00 0.00 0.00 4.30
1003 1761 3.015275 AGGGAGGGAGGAAGGAAAGAATA 59.985 47.826 0.00 0.00 0.00 1.75
1019 1780 2.489802 GGGGCAGAATTATGAAGGGAGG 60.490 54.545 3.77 0.00 0.00 4.30
1036 1797 3.770040 GATTTGTTGGGCGGGGGC 61.770 66.667 0.00 0.00 0.00 5.80
1037 1798 3.448340 CGATTTGTTGGGCGGGGG 61.448 66.667 0.00 0.00 0.00 5.40
1177 1938 2.881539 TAGACGTCGGCCTCGTGGAT 62.882 60.000 23.44 13.33 41.64 3.41
1783 2544 4.814294 AATCACTCCGCCGTCGCC 62.814 66.667 0.00 0.00 0.00 5.54
1784 2545 3.554692 CAATCACTCCGCCGTCGC 61.555 66.667 0.00 0.00 0.00 5.19
1785 2546 2.885644 CCAATCACTCCGCCGTCG 60.886 66.667 0.00 0.00 0.00 5.12
1786 2547 3.195698 GCCAATCACTCCGCCGTC 61.196 66.667 0.00 0.00 0.00 4.79
1787 2548 4.015406 TGCCAATCACTCCGCCGT 62.015 61.111 0.00 0.00 0.00 5.68
1863 2624 2.420568 CGTCGGGATTCGGGGAAGA 61.421 63.158 0.00 0.00 39.77 2.87
2067 2828 2.327325 AGAAGTACCAGGCCTTCTCA 57.673 50.000 0.00 0.00 42.86 3.27
2202 2963 1.290324 CTGTCGCCATCCTATCGGG 59.710 63.158 0.00 0.00 0.00 5.14
2508 3269 1.072331 GTCTTCCTCTTCTTGTGCCCA 59.928 52.381 0.00 0.00 0.00 5.36
2594 3355 4.717629 TCTTGCGCCCAGACGTCG 62.718 66.667 10.46 5.16 34.88 5.12
2632 3405 3.023949 GCTCCATCCCACAGCGAGT 62.024 63.158 0.00 0.00 0.00 4.18
2683 3456 2.896443 GTCTTCCTCCTCGGCAGG 59.104 66.667 0.00 0.00 42.01 4.85
2721 3494 0.750546 CGGTCATAGGGTCGTCCTCA 60.751 60.000 0.00 0.00 44.06 3.86
2765 3538 3.394274 TCCTGAAGATTCACCTGGTTTGA 59.606 43.478 0.00 0.00 32.90 2.69
2770 3543 2.295885 GCATCCTGAAGATTCACCTGG 58.704 52.381 0.00 0.00 30.59 4.45
2791 3564 1.617357 GAACTGGTAGAACGGTCTGGT 59.383 52.381 14.77 3.82 35.12 4.00
2817 3590 4.216687 GGGGATCGTCTATCTAGTTGTCAG 59.783 50.000 0.00 0.00 34.75 3.51
2833 3606 1.555075 TCAGGAGAAAACTGGGGATCG 59.445 52.381 0.00 0.00 36.62 3.69
2979 3752 6.942532 TTGACAAACCAGAATGCCTATATC 57.057 37.500 0.00 0.00 31.97 1.63
2991 3765 7.257722 AGAAGTACAACAATTTGACAAACCAG 58.742 34.615 1.94 0.00 36.48 4.00
3038 3813 7.009540 GCTAATGTACAATTTGATCAAGTTGCC 59.990 37.037 31.98 25.03 40.35 4.52
3067 3842 7.967854 TGTACAATTTATTTGCGATTGAGGAAG 59.032 33.333 0.00 0.00 39.03 3.46
3070 3845 7.540400 TGTTGTACAATTTATTTGCGATTGAGG 59.460 33.333 12.26 0.00 39.03 3.86
3575 4398 6.017192 ACCTGAACATTAGGTCTCTGTAGAA 58.983 40.000 0.00 0.00 45.19 2.10
3584 4407 9.895138 TTAACCTTTATACCTGAACATTAGGTC 57.105 33.333 0.00 0.00 45.19 3.85
3659 4487 4.599041 TGGGATATGTTGGAACCTGAAAG 58.401 43.478 0.00 0.00 0.00 2.62
3857 4691 0.685097 TCCACTAGTGTCAACCCTGC 59.315 55.000 21.18 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.