Multiple sequence alignment - TraesCS6A01G031000

Loading Multiple Alignment...

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 TraesCS6A01G031000 chr6A 100.000 3524 0 0 1 3524 15755654 15759177 0.000000e+00 6508.0
1 TraesCS6A01G031000 chr6A 90.921 1542 138 2 1001 2541 15727844 15729384 0.000000e+00 2071.0
2 TraesCS6A01G031000 chr6A 86.711 1821 192 31 729 2514 15765691 15767496 0.000000e+00 1977.0
3 TraesCS6A01G031000 chr6A 89.655 58 6 0 704 761 15734189 15734246 1.360000e-09 75.0
4 TraesCS6A01G031000 chr6A 100.000 34 0 0 728 761 15747373 15747406 2.940000e-06 63.9
5 TraesCS6A01G031000 chr6A 94.444 36 2 0 719 754 15727594 15727629 4.910000e-04 56.5
6 TraesCS6A01G031000 chr6D 93.242 2471 147 12 432 2894 14633550 14631092 0.000000e+00 3620.0
7 TraesCS6A01G031000 chr6D 89.780 1546 156 2 1001 2546 14656589 14655046 0.000000e+00 1978.0
8 TraesCS6A01G031000 chr6D 89.073 1565 161 3 994 2557 14664535 14662980 0.000000e+00 1934.0
9 TraesCS6A01G031000 chr6D 89.235 1542 166 0 1000 2541 14680776 14679235 0.000000e+00 1929.0
10 TraesCS6A01G031000 chr6D 89.921 635 47 9 2897 3524 14631061 14630437 0.000000e+00 802.0
11 TraesCS6A01G031000 chr6D 93.503 354 21 1 1 352 14634342 14633989 3.120000e-145 525.0
12 TraesCS6A01G031000 chr6D 76.423 246 29 12 214 431 14627025 14626781 4.810000e-19 106.0
13 TraesCS6A01G031000 chr6D 96.364 55 2 0 377 431 14633627 14633573 1.350000e-14 91.6
14 TraesCS6A01G031000 chr6B 90.270 2703 190 39 507 3147 26618922 26616231 0.000000e+00 3467.0
15 TraesCS6A01G031000 chr6B 89.352 1559 164 1 999 2557 26634794 26633238 0.000000e+00 1958.0
16 TraesCS6A01G031000 chr6B 89.295 1532 164 0 996 2527 26597780 26596249 0.000000e+00 1921.0
17 TraesCS6A01G031000 chr6B 87.209 430 34 10 1 420 26619585 26619167 1.480000e-128 470.0
18 TraesCS6A01G031000 chr6B 92.114 317 22 3 3209 3524 26616237 26615923 8.980000e-121 444.0
19 TraesCS6A01G031000 chr6B 97.059 68 0 2 432 498 26619049 26618983 2.880000e-21 113.0
20 TraesCS6A01G031000 chr6B 76.132 243 32 8 214 431 26598765 26598524 1.730000e-18 104.0
21 TraesCS6A01G031000 chr6B 88.333 60 5 2 709 766 26635117 26635058 1.760000e-08 71.3
22 TraesCS6A01G031000 chr6B 90.566 53 5 0 709 761 26645906 26645854 1.760000e-08 71.3
23 TraesCS6A01G031000 chr6B 95.122 41 0 2 728 766 26627186 26627146 2.940000e-06 63.9


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 TraesCS6A01G031000 chr6A 15755654 15759177 3523 False 6508.00 6508 100.0000 1 3524 1 chr6A.!!$F3 3523
1 TraesCS6A01G031000 chr6A 15765691 15767496 1805 False 1977.00 1977 86.7110 729 2514 1 chr6A.!!$F4 1785
2 TraesCS6A01G031000 chr6A 15727594 15729384 1790 False 1063.75 2071 92.6825 719 2541 2 chr6A.!!$F5 1822
3 TraesCS6A01G031000 chr6D 14655046 14656589 1543 True 1978.00 1978 89.7800 1001 2546 1 chr6D.!!$R1 1545
4 TraesCS6A01G031000 chr6D 14662980 14664535 1555 True 1934.00 1934 89.0730 994 2557 1 chr6D.!!$R2 1563
5 TraesCS6A01G031000 chr6D 14679235 14680776 1541 True 1929.00 1929 89.2350 1000 2541 1 chr6D.!!$R3 1541
6 TraesCS6A01G031000 chr6D 14626781 14634342 7561 True 1028.92 3620 89.8906 1 3524 5 chr6D.!!$R4 3523
7 TraesCS6A01G031000 chr6B 26615923 26619585 3662 True 1123.50 3467 91.6630 1 3524 4 chr6B.!!$R4 3523
8 TraesCS6A01G031000 chr6B 26633238 26635117 1879 True 1014.65 1958 88.8425 709 2557 2 chr6B.!!$R5 1848
9 TraesCS6A01G031000 chr6B 26596249 26598765 2516 True 1012.50 1921 82.7135 214 2527 2 chr6B.!!$R3 2313

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
823 1553 0.596082 GTTGTGGTGCGTTTATGCCT 59.404 50.000 0.0 0.0 0.00 4.75 F
828 1601 1.210722 TGGTGCGTTTATGCCTATCCA 59.789 47.619 0.0 0.0 0.00 3.41 F
1368 2239 1.472082 CCGACTGTATTTTGCATGGCA 59.528 47.619 0.0 0.0 36.47 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1791 2669 0.386476 CGCCCATACAGTAGCCGTAA 59.614 55.0 0.00 0.0 0.00 3.18 R
2058 2936 0.829333 CCATAGCTGTGACTGAGGCT 59.171 55.0 12.67 0.0 38.62 4.58 R
3229 4145 0.734889 CACAATTCACATCCCTCGGC 59.265 55.0 0.00 0.0 0.00 5.54 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
96 97 1.437986 CCTACACCCTACAGAGCGC 59.562 63.158 0.00 0.00 0.00 5.92
143 144 5.104735 GGTTTTCCACCATATCTGAGAGTCT 60.105 44.000 0.00 0.00 46.42 3.24
151 152 7.093596 CCACCATATCTGAGAGTCTATGCATTA 60.094 40.741 3.54 0.00 0.00 1.90
156 157 7.779754 ATCTGAGAGTCTATGCATTATCAGT 57.220 36.000 16.39 5.73 35.54 3.41
221 222 5.755375 GTGCAAATTATCTAGCTAGTCTGCA 59.245 40.000 20.10 19.95 33.96 4.41
224 225 8.150296 TGCAAATTATCTAGCTAGTCTGCATAA 58.850 33.333 20.10 15.37 31.58 1.90
259 262 7.642082 ACTAAAGATACACGAGGTCATTACT 57.358 36.000 0.00 0.00 0.00 2.24
276 287 0.698238 ACTTGTCCCCTTGCATGCTA 59.302 50.000 20.33 10.88 0.00 3.49
309 325 4.037446 GGTTTGACATACACTTTCCAAGCA 59.963 41.667 0.00 0.00 0.00 3.91
311 327 4.829064 TGACATACACTTTCCAAGCAAC 57.171 40.909 0.00 0.00 0.00 4.17
352 368 1.343142 AGCGAATGGACTGTGTGTGTA 59.657 47.619 0.00 0.00 0.00 2.90
353 369 2.139917 GCGAATGGACTGTGTGTGTAA 58.860 47.619 0.00 0.00 0.00 2.41
354 370 2.742053 GCGAATGGACTGTGTGTGTAAT 59.258 45.455 0.00 0.00 0.00 1.89
355 371 3.424829 GCGAATGGACTGTGTGTGTAATG 60.425 47.826 0.00 0.00 0.00 1.90
356 372 3.424829 CGAATGGACTGTGTGTGTAATGC 60.425 47.826 0.00 0.00 0.00 3.56
358 374 1.202592 TGGACTGTGTGTGTAATGCGT 60.203 47.619 0.00 0.00 0.00 5.24
359 375 1.194547 GGACTGTGTGTGTAATGCGTG 59.805 52.381 0.00 0.00 0.00 5.34
366 393 1.003108 TGTGTAATGCGTGTATGCCG 58.997 50.000 0.00 0.00 0.00 5.69
374 401 2.102749 GTGTATGCCGTCGCCGTA 59.897 61.111 0.00 0.00 0.00 4.02
409 762 0.871722 TCCGTTGGATCGTTGCAAAG 59.128 50.000 0.00 2.46 34.74 2.77
472 941 0.969409 GGCTGGCTGGCTTTGAAGAT 60.969 55.000 10.74 0.00 38.32 2.40
631 1298 0.673333 TGGACATGCATCGTGTGACC 60.673 55.000 0.00 0.00 33.38 4.02
707 1424 1.532505 GGCGACGAGATTAGTGCGTTA 60.533 52.381 0.00 0.00 38.51 3.18
724 1444 3.535860 CGTTATTTAATCGCAGCTGCTC 58.464 45.455 34.22 9.26 39.32 4.26
725 1445 3.246226 CGTTATTTAATCGCAGCTGCTCT 59.754 43.478 34.22 20.79 39.32 4.09
799 1527 4.201920 GCTAATTGCACTTAACCTACAGCC 60.202 45.833 0.00 0.00 42.31 4.85
813 1541 1.103398 ACAGCCAAGAGTTGTGGTGC 61.103 55.000 7.03 0.00 38.67 5.01
820 1548 3.554524 CAAGAGTTGTGGTGCGTTTATG 58.445 45.455 0.00 0.00 0.00 1.90
823 1553 0.596082 GTTGTGGTGCGTTTATGCCT 59.404 50.000 0.00 0.00 0.00 4.75
828 1601 1.210722 TGGTGCGTTTATGCCTATCCA 59.789 47.619 0.00 0.00 0.00 3.41
845 1618 4.623932 ATCCAAGTGTCAACTCTGCTAA 57.376 40.909 0.00 0.00 34.77 3.09
851 1632 5.583854 CAAGTGTCAACTCTGCTAATAGCAT 59.416 40.000 15.97 0.00 43.00 3.79
865 1646 2.531522 TAGCATATGCATGTGAGCGT 57.468 45.000 28.62 7.93 45.16 5.07
898 1679 4.330944 AATACCAAACCGATGCGAGATA 57.669 40.909 0.00 0.00 0.00 1.98
944 1734 6.093909 CACATCACCATTACTACATTCAAGCA 59.906 38.462 0.00 0.00 0.00 3.91
997 1810 3.295973 AGCTGTTTTTAGTTGCCAGGAA 58.704 40.909 0.00 0.00 0.00 3.36
1017 1888 2.658321 ATATGGAGGTCGAGGCGGGT 62.658 60.000 0.00 0.00 0.00 5.28
1092 1963 1.676967 GGCCAAGTCCTTCAGGCTG 60.677 63.158 8.58 8.58 46.23 4.85
1152 2023 2.100584 CTCCTGGATCTCCTTCTTCACG 59.899 54.545 0.00 0.00 36.82 4.35
1302 2173 3.845259 GGGGCCGTGTGCGATCTA 61.845 66.667 0.00 0.00 42.61 1.98
1368 2239 1.472082 CCGACTGTATTTTGCATGGCA 59.528 47.619 0.00 0.00 36.47 4.92
1768 2646 4.762825 GTGCCGTCACCAACTACA 57.237 55.556 0.00 0.00 37.24 2.74
1791 2669 2.432510 GACATGGATCTTCGTCCTCCTT 59.567 50.000 0.00 0.00 39.12 3.36
2073 2951 2.591072 CCCAGCCTCAGTCACAGCT 61.591 63.158 0.00 0.00 35.52 4.24
2151 3029 1.318576 CCTTTGTTTCCAGGCGTTCT 58.681 50.000 0.00 0.00 0.00 3.01
2271 3149 2.357154 GGGTCTTGAGTACATGGGCATT 60.357 50.000 0.00 0.00 0.00 3.56
2388 3266 1.043673 ACTATGCCTCCGAGTGGTCC 61.044 60.000 0.00 0.00 36.30 4.46
2563 3441 8.780846 TTTCTACCTTCGAAGCATACATTTAA 57.219 30.769 19.99 2.13 0.00 1.52
2659 3537 3.440173 GCTAAACACTAGCTTCCATGCAA 59.560 43.478 0.00 0.00 37.56 4.08
2660 3538 4.437930 GCTAAACACTAGCTTCCATGCAAG 60.438 45.833 0.00 0.00 37.56 4.01
2686 3564 2.502213 TGCGAACGAGGGTATATGTG 57.498 50.000 0.00 0.00 0.00 3.21
2691 3569 4.142534 GCGAACGAGGGTATATGTGCTATA 60.143 45.833 0.00 0.00 0.00 1.31
2698 3576 8.372459 ACGAGGGTATATGTGCTATAAAATTCA 58.628 33.333 0.00 0.00 0.00 2.57
2704 3582 9.419297 GTATATGTGCTATAAAATTCAGTCCGA 57.581 33.333 0.00 0.00 0.00 4.55
2709 3587 7.967854 TGTGCTATAAAATTCAGTCCGAAATTG 59.032 33.333 0.00 0.00 37.12 2.32
2784 3667 9.491675 TTTAAATACTTGGAGTTACATGTTCGA 57.508 29.630 2.30 0.00 32.02 3.71
2785 3668 7.596749 AAATACTTGGAGTTACATGTTCGAG 57.403 36.000 2.30 0.40 32.02 4.04
2837 3720 8.837389 GTGAAAGTCTAAACTAAACCAAGTGAT 58.163 33.333 0.00 0.00 33.48 3.06
2869 3752 7.949962 CCAACTGCAAATATACGAATATGTACG 59.050 37.037 0.00 0.00 0.00 3.67
2874 3757 8.908678 TGCAAATATACGAATATGTACGAAGTC 58.091 33.333 0.00 0.00 43.93 3.01
2883 3766 8.598075 ACGAATATGTACGAAGTCAATTTTACC 58.402 33.333 0.00 0.00 43.93 2.85
2895 3806 4.154737 GTCAATTTTACCGTCCCAACTACC 59.845 45.833 0.00 0.00 0.00 3.18
2902 3813 1.065926 CCGTCCCAACTACCCCTAAAC 60.066 57.143 0.00 0.00 0.00 2.01
2917 3828 6.890293 ACCCCTAAACTCATGAGACTATTTC 58.110 40.000 29.27 0.00 0.00 2.17
2939 3852 5.055812 TCAAAAGTTTGAAATGATGTGGCC 58.944 37.500 4.00 0.00 43.62 5.36
2945 3858 3.507103 TGAAATGATGTGGCCGAAATG 57.493 42.857 0.00 0.00 0.00 2.32
2954 3867 2.469516 GGCCGAAATGTGGTAGCCG 61.470 63.158 0.00 0.00 0.00 5.52
2971 3884 0.040958 CCGCGCCAGCTAATTGATTC 60.041 55.000 0.00 0.00 42.32 2.52
2992 3905 9.904198 TGATTCTAATGACCAAGTCAATCAATA 57.096 29.630 0.91 0.00 45.96 1.90
3070 3985 1.451927 CATTCGCTAGGGGCAAGCA 60.452 57.895 6.99 0.00 40.08 3.91
3074 3989 1.817099 CGCTAGGGGCAAGCAAGAG 60.817 63.158 0.00 0.00 40.08 2.85
3092 4007 2.038689 AGAGCCAGTGATGATGCATAGG 59.961 50.000 0.00 0.00 0.00 2.57
3103 4018 3.138304 TGATGCATAGGTAAATGGCGAC 58.862 45.455 0.00 0.00 0.00 5.19
3121 4036 2.088423 GACATGCAACAATCCCGGTAA 58.912 47.619 0.00 0.00 0.00 2.85
3150 4065 3.072038 GGGCGTAAATGAGGTATAGGGTT 59.928 47.826 0.00 0.00 0.00 4.11
3151 4066 4.284234 GGGCGTAAATGAGGTATAGGGTTA 59.716 45.833 0.00 0.00 0.00 2.85
3174 4089 0.324645 GGATTGGAGTGCATGGGGTT 60.325 55.000 0.00 0.00 0.00 4.11
3229 4145 1.153549 GTTGCTACGCCAGGAGAGG 60.154 63.158 0.00 0.00 0.00 3.69
3239 4155 2.123077 AGGAGAGGCCGAGGGATG 60.123 66.667 0.00 0.00 43.43 3.51
3249 4166 1.382522 CCGAGGGATGTGAATTGTGG 58.617 55.000 0.00 0.00 0.00 4.17
3499 4419 3.392616 GGAGATGGGGAAGATTAGCTCAA 59.607 47.826 0.00 0.00 0.00 3.02
3513 4433 5.643379 TTAGCTCAATTTTTGTAGCCCAG 57.357 39.130 0.00 0.00 35.69 4.45
3515 4435 2.029110 GCTCAATTTTTGTAGCCCAGCA 60.029 45.455 0.00 0.00 31.82 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 5.824624 CCTTAATCTAGCCTTCAATTGCTCA 59.175 40.000 0.00 0.00 39.00 4.26
96 97 2.192861 TGCACTTGGGAAACTGCGG 61.193 57.895 0.00 0.00 31.96 5.69
224 225 8.997621 TCGTGTATCTTTAGTTAATTCTTGCT 57.002 30.769 0.00 0.00 0.00 3.91
259 262 1.284491 TGATAGCATGCAAGGGGACAA 59.716 47.619 21.98 0.00 0.00 3.18
309 325 1.954362 TTTGCAAACTGGCCGCTGTT 61.954 50.000 8.05 0.00 0.00 3.16
311 327 1.662446 CTTTGCAAACTGGCCGCTG 60.662 57.895 8.05 0.00 0.00 5.18
352 368 3.394588 CGACGGCATACACGCATT 58.605 55.556 0.00 0.00 34.00 3.56
373 400 1.651240 GGACAGCTAGCCACGACGTA 61.651 60.000 12.13 0.00 0.00 3.57
374 401 2.567049 GACAGCTAGCCACGACGT 59.433 61.111 12.13 0.00 0.00 4.34
575 1222 4.335315 TGTGCACACTACAGAAAGGAAAAG 59.665 41.667 17.42 0.00 0.00 2.27
576 1223 4.265893 TGTGCACACTACAGAAAGGAAAA 58.734 39.130 17.42 0.00 0.00 2.29
631 1298 4.212847 CGACCAAGGATCAGAATATGCAAG 59.787 45.833 0.00 0.00 0.00 4.01
724 1444 2.028420 TCTGACGGAATCATGGCAAG 57.972 50.000 0.00 0.00 36.48 4.01
725 1445 2.291365 CATCTGACGGAATCATGGCAA 58.709 47.619 0.00 0.00 36.48 4.52
799 1527 3.554524 CATAAACGCACCACAACTCTTG 58.445 45.455 0.00 0.00 0.00 3.02
813 1541 4.188462 TGACACTTGGATAGGCATAAACG 58.812 43.478 0.00 0.00 0.00 3.60
820 1548 3.265791 CAGAGTTGACACTTGGATAGGC 58.734 50.000 0.00 0.00 31.22 3.93
823 1553 5.738619 TTAGCAGAGTTGACACTTGGATA 57.261 39.130 0.00 0.00 31.22 2.59
845 1618 2.740447 CACGCTCACATGCATATGCTAT 59.260 45.455 27.13 16.17 42.66 2.97
851 1632 1.798813 CGAGACACGCTCACATGCATA 60.799 52.381 0.00 0.00 44.15 3.14
865 1646 5.045215 CGGTTTGGTATTTATAGCGAGACA 58.955 41.667 0.00 0.00 33.65 3.41
898 1679 3.054434 TGGTAGTATGGCTGATGCTTTGT 60.054 43.478 0.00 0.00 39.59 2.83
944 1734 0.536687 TGCTGCTGCTCTTGAGCTTT 60.537 50.000 21.17 0.00 40.48 3.51
960 1753 0.038744 AGCTAATGGTGGCTGTTGCT 59.961 50.000 0.00 0.00 40.62 3.91
961 1754 2.571548 AGCTAATGGTGGCTGTTGC 58.428 52.632 0.00 0.00 40.62 4.17
981 1774 6.154363 CCTCCATATTTCCTGGCAACTAAAAA 59.846 38.462 0.00 0.00 33.56 1.94
997 1810 1.472662 CCCGCCTCGACCTCCATATT 61.473 60.000 0.00 0.00 0.00 1.28
1092 1963 2.033194 CGGGTTGGCGAAGGAGAAC 61.033 63.158 0.00 0.00 0.00 3.01
1152 2023 0.868406 CAAAGGTGGAGACGAAGCAC 59.132 55.000 0.00 0.00 0.00 4.40
1302 2173 4.524318 CCATAACGCGGGCCGAGT 62.524 66.667 33.44 31.50 42.27 4.18
1791 2669 0.386476 CGCCCATACAGTAGCCGTAA 59.614 55.000 0.00 0.00 0.00 3.18
1812 2690 1.069090 GTTGTCGGTGGTGAGCTCA 59.931 57.895 13.74 13.74 0.00 4.26
1917 2795 4.155733 CCCATAGGACGCGCCACA 62.156 66.667 19.30 8.80 40.02 4.17
1920 2798 4.910585 CCACCCATAGGACGCGCC 62.911 72.222 5.73 9.03 36.73 6.53
2058 2936 0.829333 CCATAGCTGTGACTGAGGCT 59.171 55.000 12.67 0.00 38.62 4.58
2073 2951 3.432186 CGCAAATGGAGAAGAGGACCATA 60.432 47.826 0.00 0.00 42.59 2.74
2151 3029 1.048601 GCCCGGAGATGATACCAAGA 58.951 55.000 0.73 0.00 0.00 3.02
2271 3149 0.876399 GCGTGCATGCCATGATCATA 59.124 50.000 20.59 0.00 31.89 2.15
2325 3203 2.517959 CTGGCTGGAAAGAACATGGAA 58.482 47.619 0.00 0.00 0.00 3.53
2388 3266 1.205893 CCCTTGTTCTTCTCCTCCTCG 59.794 57.143 0.00 0.00 0.00 4.63
2590 3468 2.116827 TAATTACGTGGGGTTGCAGG 57.883 50.000 0.00 0.00 0.00 4.85
2686 3564 6.972328 TGCAATTTCGGACTGAATTTTATAGC 59.028 34.615 0.00 2.03 36.22 2.97
2691 3569 5.782047 TCATGCAATTTCGGACTGAATTTT 58.218 33.333 0.00 0.00 36.22 1.82
2698 3576 4.789012 AATGTTCATGCAATTTCGGACT 57.211 36.364 0.00 0.00 0.00 3.85
2704 3582 9.804758 ACAAAATTTCAAATGTTCATGCAATTT 57.195 22.222 0.00 0.00 35.09 1.82
2709 3587 8.550376 AGTACACAAAATTTCAAATGTTCATGC 58.450 29.630 0.00 0.00 0.00 4.06
2783 3666 4.517453 ACTATAGACCTGCTCGAACATCTC 59.483 45.833 6.78 0.00 0.00 2.75
2784 3667 4.465886 ACTATAGACCTGCTCGAACATCT 58.534 43.478 6.78 0.00 0.00 2.90
2785 3668 4.276183 TGACTATAGACCTGCTCGAACATC 59.724 45.833 6.78 0.00 0.00 3.06
2838 3721 9.944376 ATATTCGTATATTTGCAGTTGGAGTAT 57.056 29.630 0.00 0.00 0.00 2.12
2840 3723 7.715249 ACATATTCGTATATTTGCAGTTGGAGT 59.285 33.333 0.00 0.00 0.00 3.85
2841 3724 8.087982 ACATATTCGTATATTTGCAGTTGGAG 57.912 34.615 0.00 0.00 0.00 3.86
2842 3725 8.984764 GTACATATTCGTATATTTGCAGTTGGA 58.015 33.333 0.00 0.00 0.00 3.53
2843 3726 7.949962 CGTACATATTCGTATATTTGCAGTTGG 59.050 37.037 0.00 0.00 0.00 3.77
2844 3727 8.696175 TCGTACATATTCGTATATTTGCAGTTG 58.304 33.333 0.00 0.00 0.00 3.16
2869 3752 4.517832 AGTTGGGACGGTAAAATTGACTTC 59.482 41.667 0.00 0.00 0.00 3.01
2874 3757 3.441222 GGGTAGTTGGGACGGTAAAATTG 59.559 47.826 0.00 0.00 0.00 2.32
2883 3766 1.904537 AGTTTAGGGGTAGTTGGGACG 59.095 52.381 0.00 0.00 0.00 4.79
2895 3806 8.792830 TTTGAAATAGTCTCATGAGTTTAGGG 57.207 34.615 21.92 0.00 0.00 3.53
2917 3828 4.084433 CGGCCACATCATTTCAAACTTTTG 60.084 41.667 2.24 0.00 39.48 2.44
2929 3842 1.105457 CCACATTTCGGCCACATCAT 58.895 50.000 2.24 0.00 0.00 2.45
2937 3850 3.098555 CGGCTACCACATTTCGGC 58.901 61.111 0.00 0.00 0.00 5.54
2939 3852 2.701006 CGCGGCTACCACATTTCG 59.299 61.111 0.00 0.00 0.00 3.46
2954 3867 4.214119 TCATTAGAATCAATTAGCTGGCGC 59.786 41.667 0.00 0.00 0.00 6.53
3028 3943 5.646793 GCCGAATAGGAAGAAGGTAGTTTTT 59.353 40.000 0.00 0.00 45.00 1.94
3029 3944 5.183969 GCCGAATAGGAAGAAGGTAGTTTT 58.816 41.667 0.00 0.00 45.00 2.43
3030 3945 4.224370 TGCCGAATAGGAAGAAGGTAGTTT 59.776 41.667 0.00 0.00 45.00 2.66
3070 3985 2.730934 ATGCATCATCACTGGCTCTT 57.269 45.000 0.00 0.00 0.00 2.85
3074 3989 2.267174 ACCTATGCATCATCACTGGC 57.733 50.000 0.19 0.00 0.00 4.85
3092 4007 2.627863 TGTTGCATGTCGCCATTTAC 57.372 45.000 0.00 0.00 41.33 2.01
3103 4018 2.752354 TCTTTACCGGGATTGTTGCATG 59.248 45.455 6.32 0.00 0.00 4.06
3108 4023 2.354403 CCTCGTCTTTACCGGGATTGTT 60.354 50.000 6.32 0.00 0.00 2.83
3150 4065 2.644299 CCCATGCACTCCAATCCCTATA 59.356 50.000 0.00 0.00 0.00 1.31
3151 4066 1.426598 CCCATGCACTCCAATCCCTAT 59.573 52.381 0.00 0.00 0.00 2.57
3174 4089 1.470051 GCCCGATTTTGGCTCCTTTA 58.530 50.000 0.00 0.00 45.70 1.85
3229 4145 0.734889 CACAATTCACATCCCTCGGC 59.265 55.000 0.00 0.00 0.00 5.54
3233 4149 3.434309 CCTTTCCACAATTCACATCCCT 58.566 45.455 0.00 0.00 0.00 4.20
3239 4155 4.010349 CCTACTCCCTTTCCACAATTCAC 58.990 47.826 0.00 0.00 0.00 3.18
3249 4166 2.303311 ACAACTGCTCCTACTCCCTTTC 59.697 50.000 0.00 0.00 0.00 2.62
3462 4382 5.823045 CCCCATCTCCACTACTCAAATTAAC 59.177 44.000 0.00 0.00 0.00 2.01
3464 4384 5.285401 TCCCCATCTCCACTACTCAAATTA 58.715 41.667 0.00 0.00 0.00 1.40
3472 4392 4.262678 GCTAATCTTCCCCATCTCCACTAC 60.263 50.000 0.00 0.00 0.00 2.73
3499 4419 4.301072 TCTACTGCTGGGCTACAAAAAT 57.699 40.909 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.