Multiple sequence alignment - TraesCS2B01G245900

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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 TraesCS2B01G245900 chr2B 100.000 3939 0 0 1 3939 250064630 250068568 0.000000e+00 7275
1 TraesCS2B01G245900 chr2B 95.567 812 27 4 2937 3747 219888165 219887362 0.000000e+00 1291
2 TraesCS2B01G245900 chr2B 87.195 492 57 5 2939 3428 602747638 602747151 4.450000e-154 555
3 TraesCS2B01G245900 chr2A 91.130 2300 101 42 694 2939 208109049 208111299 0.000000e+00 3022
4 TraesCS2B01G245900 chr2A 83.838 198 17 10 3744 3939 208111297 208111481 1.450000e-39 174
5 TraesCS2B01G245900 chr2D 94.019 1438 52 14 692 2113 194187384 194188803 0.000000e+00 2148
6 TraesCS2B01G245900 chr2D 91.315 852 39 14 2119 2941 194188843 194189688 0.000000e+00 1131
7 TraesCS2B01G245900 chr2D 90.014 701 52 13 1 691 194186662 194187354 0.000000e+00 891
8 TraesCS2B01G245900 chr2D 90.549 328 22 3 692 1012 194183192 194183517 3.640000e-115 425
9 TraesCS2B01G245900 chr7B 96.863 797 21 4 2937 3732 597152515 597151722 0.000000e+00 1330
10 TraesCS2B01G245900 chr1B 95.901 805 25 3 2943 3747 580222214 580223010 0.000000e+00 1297
11 TraesCS2B01G245900 chr1B 94.955 337 8 3 3411 3747 426159636 426159309 1.620000e-143 520
12 TraesCS2B01G245900 chr3B 95.398 804 28 4 2943 3746 688544117 688544911 0.000000e+00 1271
13 TraesCS2B01G245900 chr3B 89.056 466 44 3 2930 3388 768751223 768750758 4.420000e-159 571
14 TraesCS2B01G245900 chr7D 95.492 488 22 0 2939 3426 549274160 549273673 0.000000e+00 780
15 TraesCS2B01G245900 chr7D 95.607 478 14 6 2955 3426 167550579 167550103 0.000000e+00 760
16 TraesCS2B01G245900 chr7D 89.899 495 41 6 2939 3426 385395086 385394594 2.580000e-176 628
17 TraesCS2B01G245900 chr7D 95.665 346 9 5 3423 3768 167550055 167549716 5.750000e-153 551
18 TraesCS2B01G245900 chr7D 97.523 323 6 2 3423 3745 549273627 549273307 5.750000e-153 551
19 TraesCS2B01G245900 chr7D 92.331 326 21 4 3423 3747 385394546 385394224 9.970000e-126 460
20 TraesCS2B01G245900 chr1D 96.717 396 12 1 3031 3426 108804391 108803997 0.000000e+00 658
21 TraesCS2B01G245900 chr1D 93.038 316 18 3 3428 3741 26648730 26648417 3.590000e-125 459


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 TraesCS2B01G245900 chr2B 250064630 250068568 3938 False 7275.00 7275 100.00000 1 3939 1 chr2B.!!$F1 3938
1 TraesCS2B01G245900 chr2B 219887362 219888165 803 True 1291.00 1291 95.56700 2937 3747 1 chr2B.!!$R1 810
2 TraesCS2B01G245900 chr2A 208109049 208111481 2432 False 1598.00 3022 87.48400 694 3939 2 chr2A.!!$F1 3245
3 TraesCS2B01G245900 chr2D 194183192 194189688 6496 False 1148.75 2148 91.47425 1 2941 4 chr2D.!!$F1 2940
4 TraesCS2B01G245900 chr7B 597151722 597152515 793 True 1330.00 1330 96.86300 2937 3732 1 chr7B.!!$R1 795
5 TraesCS2B01G245900 chr1B 580222214 580223010 796 False 1297.00 1297 95.90100 2943 3747 1 chr1B.!!$F1 804
6 TraesCS2B01G245900 chr3B 688544117 688544911 794 False 1271.00 1271 95.39800 2943 3746 1 chr3B.!!$F1 803
7 TraesCS2B01G245900 chr7D 549273307 549274160 853 True 665.50 780 96.50750 2939 3745 2 chr7D.!!$R3 806
8 TraesCS2B01G245900 chr7D 167549716 167550579 863 True 655.50 760 95.63600 2955 3768 2 chr7D.!!$R1 813
9 TraesCS2B01G245900 chr7D 385394224 385395086 862 True 544.00 628 91.11500 2939 3747 2 chr7D.!!$R2 808

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
181 3656 0.400093 AGGGAAAGGGCGGCTAGTAT 60.400 55.0 9.56 0.0 0.00 2.12 F
614 4093 0.530870 GCCGCCTACTGATCCAGAAC 60.531 60.0 0.45 0.0 35.18 3.01 F
1580 5111 0.250684 TGATGCGTGTGTGTTGGGAT 60.251 50.0 0.00 0.0 0.00 3.85 F
1723 5254 0.850217 CGTTCAGCGTTTTCGTCTCA 59.150 50.0 0.00 0.0 46.03 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1261 4791 0.531532 CCGATCTTGGCGCTCTTCAT 60.532 55.0 7.64 0.00 0.00 2.57 R
2380 5949 0.534877 TGGCAAGCAGTCACGTGATT 60.535 50.0 23.12 15.55 0.00 2.57 R
2795 6398 0.469331 AGGTTCCGAGGATGGCGATA 60.469 55.0 0.00 0.00 0.00 2.92 R
3461 7190 0.681175 AACAACCATGCCCAAAGCTC 59.319 50.0 0.00 0.00 44.23 4.09 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 3508 1.726533 GACTAAGCTCGGCGGCTACT 61.727 60.000 20.24 10.51 42.24 2.57
55 3526 5.978322 GGCTACTACGTCTCATTTTCTAAGG 59.022 44.000 0.00 0.00 0.00 2.69
104 3575 4.680440 GCTTGGTATAACAAGGGCATTTGG 60.680 45.833 27.62 4.70 46.10 3.28
117 3588 1.135721 GCATTTGGAGTGCCTCATTCC 59.864 52.381 1.91 1.91 40.11 3.01
118 3589 2.731572 CATTTGGAGTGCCTCATTCCT 58.268 47.619 9.29 0.00 40.31 3.36
121 3592 4.380843 TTTGGAGTGCCTCATTCCTTTA 57.619 40.909 9.29 0.00 40.31 1.85
122 3593 3.350219 TGGAGTGCCTCATTCCTTTAC 57.650 47.619 9.29 0.00 40.31 2.01
124 3595 3.274288 GGAGTGCCTCATTCCTTTACTG 58.726 50.000 1.68 0.00 37.30 2.74
125 3596 3.307762 GGAGTGCCTCATTCCTTTACTGT 60.308 47.826 1.68 0.00 37.30 3.55
127 3598 5.396884 GGAGTGCCTCATTCCTTTACTGTAT 60.397 44.000 1.68 0.00 37.30 2.29
165 3640 1.436983 GGCGGCTTACAATCGAAGGG 61.437 60.000 0.00 0.00 0.00 3.95
168 3643 2.352388 CGGCTTACAATCGAAGGGAAA 58.648 47.619 0.00 0.00 0.00 3.13
169 3644 2.351726 CGGCTTACAATCGAAGGGAAAG 59.648 50.000 0.00 0.00 0.00 2.62
173 3648 0.676782 ACAATCGAAGGGAAAGGGCG 60.677 55.000 0.00 0.00 0.00 6.13
177 3652 2.995547 GAAGGGAAAGGGCGGCTA 59.004 61.111 9.56 0.00 0.00 3.93
178 3653 1.153147 GAAGGGAAAGGGCGGCTAG 60.153 63.158 9.56 0.00 0.00 3.42
179 3654 1.911702 GAAGGGAAAGGGCGGCTAGT 61.912 60.000 9.56 0.00 0.00 2.57
180 3655 0.619543 AAGGGAAAGGGCGGCTAGTA 60.620 55.000 9.56 0.00 0.00 1.82
181 3656 0.400093 AGGGAAAGGGCGGCTAGTAT 60.400 55.000 9.56 0.00 0.00 2.12
237 3715 6.993786 TTTGTGTCATGTCTTTTCAGTGTA 57.006 33.333 0.00 0.00 0.00 2.90
242 3720 5.057149 GTCATGTCTTTTCAGTGTACTGGT 58.943 41.667 11.76 0.00 43.91 4.00
243 3721 5.050091 GTCATGTCTTTTCAGTGTACTGGTG 60.050 44.000 11.76 1.43 43.91 4.17
256 3734 6.761714 CAGTGTACTGGTGTATTATTTCCCTC 59.238 42.308 4.10 0.00 40.20 4.30
293 3772 3.643159 AAAAGCCATTCCGTGTCTTTC 57.357 42.857 0.00 0.00 0.00 2.62
403 3882 8.680903 TGCATAAATGAACAAAACCACAAATTT 58.319 25.926 0.00 0.00 0.00 1.82
411 3890 9.535878 TGAACAAAACCACAAATTTACTTATCC 57.464 29.630 0.00 0.00 0.00 2.59
422 3901 9.267071 ACAAATTTACTTATCCAAAGGGCTATT 57.733 29.630 0.00 0.00 0.00 1.73
425 3904 7.891498 TTTACTTATCCAAAGGGCTATTTCC 57.109 36.000 0.00 0.00 0.00 3.13
439 3918 6.014242 AGGGCTATTTCCTTTTTCTTCTTTGG 60.014 38.462 0.00 0.00 0.00 3.28
445 3924 1.686587 CTTTTTCTTCTTTGGGGCGGT 59.313 47.619 0.00 0.00 0.00 5.68
454 3933 1.814772 TTTGGGGCGGTGATTTGCTG 61.815 55.000 0.00 0.00 0.00 4.41
489 3968 5.892568 AGTCGTCAGTATGTCCTGATTTAC 58.107 41.667 0.00 0.00 43.03 2.01
503 3982 8.859090 TGTCCTGATTTACATCAATGACTTTTT 58.141 29.630 16.25 0.00 39.04 1.94
507 3986 9.573133 CTGATTTACATCAATGACTTTTTACCC 57.427 33.333 0.00 0.00 39.04 3.69
513 3992 4.901868 TCAATGACTTTTTACCCGCTACT 58.098 39.130 0.00 0.00 0.00 2.57
541 4020 9.614792 CTATAAGCTCATAGGTTTTAACAAGGT 57.385 33.333 0.00 0.00 37.16 3.50
554 4033 6.969993 TTTAACAAGGTTGCTCCAGTAAAT 57.030 33.333 1.79 0.00 39.02 1.40
580 4059 2.819608 TGCCCAAAGTCAGATAACAAGC 59.180 45.455 0.00 0.00 0.00 4.01
587 4066 5.619625 AAGTCAGATAACAAGCTTTGCTC 57.380 39.130 0.00 0.00 38.25 4.26
604 4083 2.159819 CTCACAGTGTGCCGCCTACT 62.160 60.000 18.80 0.00 32.98 2.57
607 4086 1.219124 CAGTGTGCCGCCTACTGAT 59.781 57.895 15.41 0.00 43.35 2.90
614 4093 0.530870 GCCGCCTACTGATCCAGAAC 60.531 60.000 0.45 0.00 35.18 3.01
618 4097 2.796383 CGCCTACTGATCCAGAACGAAG 60.796 54.545 0.45 0.00 35.18 3.79
649 4128 9.734620 CACAAATTTCTTCAAATGACTTGTCTA 57.265 29.630 2.35 0.00 32.03 2.59
687 4166 2.599408 AGGAACTTCTCGTAGGGACA 57.401 50.000 0.00 0.00 27.25 4.02
710 4218 7.452562 ACATGCAATAAAAGAGGGTCAAAAAT 58.547 30.769 0.00 0.00 0.00 1.82
762 4273 7.177878 CCATAGTGCAGGAAAATAGGGAATAT 58.822 38.462 0.00 0.00 0.00 1.28
1064 4594 1.378762 GTGCCAGTACCACCACCAT 59.621 57.895 0.00 0.00 0.00 3.55
1093 4623 2.227036 AAGCCTGTCCACCTCCCTG 61.227 63.158 0.00 0.00 0.00 4.45
1332 4862 8.716646 TGAACGTGATCTTCAACATATACAAT 57.283 30.769 0.00 0.00 0.00 2.71
1389 4919 2.525629 TCGACCTTGTCCCTGGCA 60.526 61.111 0.00 0.00 0.00 4.92
1514 5044 1.748122 CTCATGGCTTCTTGGCGCT 60.748 57.895 7.64 0.00 45.14 5.92
1516 5046 2.821366 ATGGCTTCTTGGCGCTCG 60.821 61.111 7.64 0.00 45.14 5.03
1540 5070 2.361104 TTGCCAATCTCACCGGCC 60.361 61.111 0.00 0.00 45.63 6.13
1580 5111 0.250684 TGATGCGTGTGTGTTGGGAT 60.251 50.000 0.00 0.00 0.00 3.85
1723 5254 0.850217 CGTTCAGCGTTTTCGTCTCA 59.150 50.000 0.00 0.00 46.03 3.27
1855 5386 3.491208 GCAATCTGCAGACTCCCAT 57.509 52.632 20.97 0.00 44.26 4.00
1866 5397 4.344679 TGCAGACTCCCATTTTTGTTGAAT 59.655 37.500 0.00 0.00 0.00 2.57
1885 5416 4.635765 TGAATCTTGAAATTACCTCCAGCG 59.364 41.667 0.00 0.00 0.00 5.18
1891 5422 3.709653 TGAAATTACCTCCAGCGGATACT 59.290 43.478 0.00 0.00 0.00 2.12
1892 5423 4.202223 TGAAATTACCTCCAGCGGATACTC 60.202 45.833 0.00 0.00 0.00 2.59
1895 5426 0.851469 ACCTCCAGCGGATACTCCTA 59.149 55.000 0.00 0.00 33.30 2.94
1896 5427 1.249407 CCTCCAGCGGATACTCCTAC 58.751 60.000 0.00 0.00 33.30 3.18
1897 5428 1.478837 CCTCCAGCGGATACTCCTACA 60.479 57.143 0.00 0.00 33.30 2.74
1928 5459 9.601217 AAGAAATATCGTCACTTTTGCTAGTAT 57.399 29.630 0.00 0.00 0.00 2.12
2033 5568 9.263538 CACGTATATATTGTACCAAAGGCTTTA 57.736 33.333 12.95 0.00 0.00 1.85
2073 5608 3.487879 GGACAACGTTGTACTTTTGGGTG 60.488 47.826 31.90 4.96 42.43 4.61
2081 5616 3.806380 TGTACTTTTGGGTGCGACTTTA 58.194 40.909 0.00 0.00 0.00 1.85
2125 5694 7.801716 TGCGGTTTAATTAATTCTGATAGCT 57.198 32.000 3.39 0.00 0.00 3.32
2152 5721 5.164620 TGCTCAATCAACTGTAGGATTCA 57.835 39.130 5.06 0.17 31.63 2.57
2380 5949 1.968493 ACTTCGTCTGGTAAGCTCCAA 59.032 47.619 0.00 0.00 37.01 3.53
2381 5950 2.367567 ACTTCGTCTGGTAAGCTCCAAA 59.632 45.455 0.00 0.00 37.01 3.28
2382 5951 3.008049 ACTTCGTCTGGTAAGCTCCAAAT 59.992 43.478 0.00 0.00 37.01 2.32
2410 5982 2.856032 CTTGCCAGTTCGCTGTCG 59.144 61.111 0.00 0.00 43.51 4.35
2417 5989 2.132762 CCAGTTCGCTGTCGTAAGTTT 58.867 47.619 0.00 0.00 43.51 2.66
2458 6049 8.707938 ATTCTAAATGCTTAATGAACTTTGGC 57.292 30.769 0.00 0.00 0.00 4.52
2481 6084 5.080731 CGACGAACTATAGCATAGCAGTAC 58.919 45.833 0.00 0.00 0.00 2.73
2520 6123 6.425721 CAGAATGAATTGGCACAAGTTCATTT 59.574 34.615 20.60 12.94 45.89 2.32
2531 6134 5.621228 GCACAAGTTCATTTACGAAAGACTG 59.379 40.000 0.00 0.00 0.00 3.51
2545 6148 5.235186 ACGAAAGACTGAGATTTTGACAGTG 59.765 40.000 0.00 0.00 43.49 3.66
2555 6158 6.936335 TGAGATTTTGACAGTGTGTGTGATAT 59.064 34.615 0.00 0.00 40.56 1.63
2567 6170 6.017109 AGTGTGTGTGATATTTCAGTTGGTTC 60.017 38.462 0.00 0.00 30.85 3.62
2574 6177 7.023575 GTGATATTTCAGTTGGTTCATGTGTC 58.976 38.462 0.00 0.00 30.85 3.67
2592 6195 9.123902 TCATGTGTCTAAATAAATGGATTCCTG 57.876 33.333 3.95 0.00 0.00 3.86
2605 6208 3.073798 TGGATTCCTGTGTGTGTTGGTAT 59.926 43.478 3.95 0.00 0.00 2.73
2606 6209 3.440173 GGATTCCTGTGTGTGTTGGTATG 59.560 47.826 0.00 0.00 0.00 2.39
2607 6210 3.569194 TTCCTGTGTGTGTTGGTATGT 57.431 42.857 0.00 0.00 0.00 2.29
2608 6211 4.691326 TTCCTGTGTGTGTTGGTATGTA 57.309 40.909 0.00 0.00 0.00 2.29
2609 6212 3.997762 TCCTGTGTGTGTTGGTATGTAC 58.002 45.455 0.00 0.00 0.00 2.90
2833 6436 2.432510 CCTTCATCTACTCCCAGGTGAC 59.567 54.545 0.00 0.00 35.40 3.67
2846 6449 1.741770 GGTGACCCATCTCACACGC 60.742 63.158 0.00 0.00 42.17 5.34
3170 6786 1.066002 ACGTTTCTTCGTCCTCGTTCA 59.934 47.619 0.00 0.00 40.04 3.18
3174 6790 3.936372 TTCTTCGTCCTCGTTCATTCT 57.064 42.857 0.00 0.00 38.33 2.40
3177 6793 3.444034 TCTTCGTCCTCGTTCATTCTCAT 59.556 43.478 0.00 0.00 38.33 2.90
3456 7185 6.208644 GTTTTTCTCATCTTTGTAAGCTGCA 58.791 36.000 1.02 0.00 0.00 4.41
3457 7186 5.618056 TTTCTCATCTTTGTAAGCTGCAG 57.382 39.130 10.11 10.11 0.00 4.41
3458 7187 3.603532 TCTCATCTTTGTAAGCTGCAGG 58.396 45.455 17.12 0.00 0.00 4.85
3459 7188 3.261643 TCTCATCTTTGTAAGCTGCAGGA 59.738 43.478 17.12 1.29 0.00 3.86
3460 7189 3.338249 TCATCTTTGTAAGCTGCAGGAC 58.662 45.455 17.12 0.00 0.00 3.85
3461 7190 1.795768 TCTTTGTAAGCTGCAGGACG 58.204 50.000 17.12 0.00 0.00 4.79
3539 7275 1.690219 TTGCATGGCCGTTGGGTTTT 61.690 50.000 0.00 0.00 34.97 2.43
3752 7489 4.112634 TCAAACACAGCCTAAGGGAAAT 57.887 40.909 0.00 0.00 33.58 2.17
3754 7491 2.403252 ACACAGCCTAAGGGAAATCG 57.597 50.000 0.00 0.00 33.58 3.34
3782 7519 2.159761 CGATATCTCTTCCGACGAGAGC 60.160 54.545 10.12 2.64 40.53 4.09
3823 7560 8.076714 ACGTTATATGTTGTTGAGCATATCTG 57.923 34.615 0.00 0.00 38.67 2.90
3831 7568 5.619132 TGTTGAGCATATCTGATTGAGGA 57.381 39.130 0.00 0.00 0.00 3.71
3832 7569 5.363101 TGTTGAGCATATCTGATTGAGGAC 58.637 41.667 0.00 0.00 0.00 3.85
3835 7572 4.652881 TGAGCATATCTGATTGAGGACACT 59.347 41.667 0.00 0.00 0.00 3.55
3904 7643 2.396590 TTTCTAGGTTTAGCTGCGGG 57.603 50.000 0.00 0.00 0.00 6.13
3923 7662 3.254892 GGGTGTCTCTGAATTCTTCGTC 58.745 50.000 7.05 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.680872 GCTTAGTCCTAGTGTAGTTGGTCATC 60.681 46.154 0.00 0.00 0.00 2.92
3 4 4.705991 AGCTTAGTCCTAGTGTAGTTGGTC 59.294 45.833 0.00 0.00 0.00 4.02
10 3481 2.295885 GCCGAGCTTAGTCCTAGTGTA 58.704 52.381 0.00 0.00 0.00 2.90
15 3486 2.487532 GCCGCCGAGCTTAGTCCTA 61.488 63.158 0.00 0.00 0.00 2.94
37 3508 5.360144 CCTCCTCCTTAGAAAATGAGACGTA 59.640 44.000 0.00 0.00 31.11 3.57
77 3548 4.924625 TGCCCTTGTTATACCAAGCTTTA 58.075 39.130 4.55 0.00 40.40 1.85
133 3608 1.674322 GCCGCCTGTTGGAGCTTTA 60.674 57.895 0.00 0.00 34.57 1.85
134 3609 2.983725 AAGCCGCCTGTTGGAGCTTT 62.984 55.000 6.87 0.00 45.87 3.51
136 3611 2.592993 TAAGCCGCCTGTTGGAGCT 61.593 57.895 0.00 0.00 43.45 4.09
146 3621 1.436983 CCCTTCGATTGTAAGCCGCC 61.437 60.000 0.00 0.00 0.00 6.13
237 3715 5.888982 ATCGAGGGAAATAATACACCAGT 57.111 39.130 0.00 0.00 0.00 4.00
277 3755 4.454504 TCTTTTAGAAAGACACGGAATGGC 59.545 41.667 0.00 0.00 36.02 4.40
278 3756 6.554334 TTCTTTTAGAAAGACACGGAATGG 57.446 37.500 2.79 0.00 29.99 3.16
374 3853 5.632764 TGTGGTTTTGTTCATTTATGCATCG 59.367 36.000 0.19 0.00 0.00 3.84
403 3882 6.841781 AGGAAATAGCCCTTTGGATAAGTA 57.158 37.500 0.00 0.00 35.80 2.24
422 3901 2.364002 CGCCCCAAAGAAGAAAAAGGAA 59.636 45.455 0.00 0.00 0.00 3.36
423 3902 1.960689 CGCCCCAAAGAAGAAAAAGGA 59.039 47.619 0.00 0.00 0.00 3.36
424 3903 1.000843 CCGCCCCAAAGAAGAAAAAGG 59.999 52.381 0.00 0.00 0.00 3.11
425 3904 1.686587 ACCGCCCCAAAGAAGAAAAAG 59.313 47.619 0.00 0.00 0.00 2.27
439 3918 4.481112 CGCAGCAAATCACCGCCC 62.481 66.667 0.00 0.00 0.00 6.13
445 3924 1.926510 CGTGATCTACGCAGCAAATCA 59.073 47.619 5.07 0.00 46.92 2.57
489 3968 4.701956 AGCGGGTAAAAAGTCATTGATG 57.298 40.909 0.00 0.00 0.00 3.07
503 3982 4.722220 TGAGCTTATAGAAGTAGCGGGTA 58.278 43.478 0.00 0.00 39.82 3.69
505 3984 4.792521 ATGAGCTTATAGAAGTAGCGGG 57.207 45.455 0.00 0.00 39.82 6.13
507 3986 6.503589 ACCTATGAGCTTATAGAAGTAGCG 57.496 41.667 23.39 9.75 39.82 4.26
565 4044 5.049129 GTGAGCAAAGCTTGTTATCTGACTT 60.049 40.000 0.00 0.00 39.88 3.01
569 4048 4.214971 ACTGTGAGCAAAGCTTGTTATCTG 59.785 41.667 0.00 0.00 39.88 2.90
570 4049 4.214971 CACTGTGAGCAAAGCTTGTTATCT 59.785 41.667 0.00 0.00 39.88 1.98
580 4059 1.280746 CGGCACACTGTGAGCAAAG 59.719 57.895 26.93 15.85 35.63 2.77
587 4066 2.029288 CAGTAGGCGGCACACTGTG 61.029 63.158 25.94 6.19 35.91 3.66
604 4083 1.967779 TGTGGTCTTCGTTCTGGATCA 59.032 47.619 0.00 0.00 0.00 2.92
607 4086 1.116308 TGTGTGGTCTTCGTTCTGGA 58.884 50.000 0.00 0.00 0.00 3.86
614 4093 5.168526 TGAAGAAATTTGTGTGGTCTTCG 57.831 39.130 0.00 0.00 44.62 3.79
618 4097 6.980397 AGTCATTTGAAGAAATTTGTGTGGTC 59.020 34.615 0.00 0.00 28.65 4.02
687 4166 9.657419 CTTATTTTTGACCCTCTTTTATTGCAT 57.343 29.630 0.00 0.00 0.00 3.96
1261 4791 0.531532 CCGATCTTGGCGCTCTTCAT 60.532 55.000 7.64 0.00 0.00 2.57
1262 4792 1.153568 CCGATCTTGGCGCTCTTCA 60.154 57.895 7.64 0.00 0.00 3.02
1332 4862 2.472695 ACGCATTCAGCACCTTCTTA 57.527 45.000 0.00 0.00 46.13 2.10
1497 5027 1.746615 GAGCGCCAAGAAGCCATGA 60.747 57.895 2.29 0.00 0.00 3.07
1499 5029 2.821366 CGAGCGCCAAGAAGCCAT 60.821 61.111 2.29 0.00 0.00 4.40
1514 5044 1.270785 TGAGATTGGCAAGAACAGCGA 60.271 47.619 5.96 0.00 0.00 4.93
1516 5046 1.200948 GGTGAGATTGGCAAGAACAGC 59.799 52.381 5.96 10.77 0.00 4.40
1540 5070 1.256652 CACATCGAGAACACGTACGG 58.743 55.000 21.06 11.05 34.70 4.02
1585 5116 3.243907 CCTGCCCGGACACAAAAATAAAA 60.244 43.478 0.73 0.00 33.16 1.52
1672 5203 2.475187 GCTCTTGATGATGTGCGTGAAC 60.475 50.000 0.00 0.00 0.00 3.18
1847 5378 6.748132 TCAAGATTCAACAAAAATGGGAGTC 58.252 36.000 0.00 0.00 0.00 3.36
1855 5386 9.541143 GGAGGTAATTTCAAGATTCAACAAAAA 57.459 29.630 0.00 0.00 0.00 1.94
1866 5397 2.569853 TCCGCTGGAGGTAATTTCAAGA 59.430 45.455 0.00 0.00 0.00 3.02
1891 5422 8.692710 AGTGACGATATTTCTTATGTTGTAGGA 58.307 33.333 0.00 0.00 0.00 2.94
1892 5423 8.873215 AGTGACGATATTTCTTATGTTGTAGG 57.127 34.615 0.00 0.00 0.00 3.18
1895 5426 9.825972 CAAAAGTGACGATATTTCTTATGTTGT 57.174 29.630 0.00 0.00 0.00 3.32
1896 5427 8.788813 GCAAAAGTGACGATATTTCTTATGTTG 58.211 33.333 0.00 0.00 0.00 3.33
1897 5428 8.730680 AGCAAAAGTGACGATATTTCTTATGTT 58.269 29.630 0.00 0.00 0.00 2.71
1962 5497 1.070134 TGGACAGTTCAGGTTCTTCGG 59.930 52.381 0.00 0.00 0.00 4.30
2027 5562 3.569250 TTTGACGCCAAAGATAAAGCC 57.431 42.857 0.00 0.00 37.36 4.35
2033 5568 3.320541 TGTCCAATTTTGACGCCAAAGAT 59.679 39.130 0.00 0.00 42.55 2.40
2040 5575 2.113910 ACGTTGTCCAATTTTGACGC 57.886 45.000 0.00 0.00 34.17 5.19
2041 5576 3.430931 ACAACGTTGTCCAATTTTGACG 58.569 40.909 27.70 0.00 36.50 4.35
2081 5616 3.797256 GCATACTTTCAACGAGCGATACT 59.203 43.478 0.00 0.00 0.00 2.12
2088 5623 3.806316 AAACCGCATACTTTCAACGAG 57.194 42.857 0.00 0.00 0.00 4.18
2125 5694 6.484364 TCCTACAGTTGATTGAGCATATGA 57.516 37.500 6.97 0.00 0.00 2.15
2152 5721 1.061905 TTGGAGATCATCGCCCCCAT 61.062 55.000 4.77 0.00 35.30 4.00
2380 5949 0.534877 TGGCAAGCAGTCACGTGATT 60.535 50.000 23.12 15.55 0.00 2.57
2381 5950 0.952497 CTGGCAAGCAGTCACGTGAT 60.952 55.000 23.12 8.09 0.00 3.06
2382 5951 1.595109 CTGGCAAGCAGTCACGTGA 60.595 57.895 15.76 15.76 0.00 4.35
2410 5982 7.873739 ATTGCTAAGCATCAACAAAACTTAC 57.126 32.000 0.00 0.00 38.76 2.34
2417 5989 7.276218 GCATTTAGAATTGCTAAGCATCAACAA 59.724 33.333 0.00 0.00 40.05 2.83
2458 6049 4.148563 ACTGCTATGCTATAGTTCGTCG 57.851 45.455 0.84 0.00 0.00 5.12
2481 6084 7.648112 CCAATTCATTCTGAAGTATGAATGCTG 59.352 37.037 19.62 15.86 45.48 4.41
2520 6123 6.420903 CACTGTCAAAATCTCAGTCTTTCGTA 59.579 38.462 0.00 0.00 39.89 3.43
2523 6126 6.037610 ACACACTGTCAAAATCTCAGTCTTTC 59.962 38.462 0.00 0.00 39.89 2.62
2531 6134 5.679734 ATCACACACACTGTCAAAATCTC 57.320 39.130 0.00 0.00 0.00 2.75
2545 6148 6.312399 TGAACCAACTGAAATATCACACAC 57.688 37.500 0.00 0.00 0.00 3.82
2555 6158 7.581213 ATTTAGACACATGAACCAACTGAAA 57.419 32.000 0.00 0.00 0.00 2.69
2567 6170 8.906867 ACAGGAATCCATTTATTTAGACACATG 58.093 33.333 0.61 0.00 0.00 3.21
2574 6177 8.055279 ACACACACAGGAATCCATTTATTTAG 57.945 34.615 0.61 0.00 0.00 1.85
2592 6195 4.927425 CCTACAGTACATACCAACACACAC 59.073 45.833 0.00 0.00 0.00 3.82
2605 6208 1.537814 CGCCACCCACCTACAGTACA 61.538 60.000 0.00 0.00 0.00 2.90
2606 6209 1.217244 CGCCACCCACCTACAGTAC 59.783 63.158 0.00 0.00 0.00 2.73
2607 6210 1.985662 CCGCCACCCACCTACAGTA 60.986 63.158 0.00 0.00 0.00 2.74
2608 6211 3.319198 CCGCCACCCACCTACAGT 61.319 66.667 0.00 0.00 0.00 3.55
2609 6212 4.778143 GCCGCCACCCACCTACAG 62.778 72.222 0.00 0.00 0.00 2.74
2795 6398 0.469331 AGGTTCCGAGGATGGCGATA 60.469 55.000 0.00 0.00 0.00 2.92
2833 6436 1.448540 GTGAGGCGTGTGAGATGGG 60.449 63.158 0.00 0.00 0.00 4.00
2846 6449 0.966920 ACGTGGTGAGGTAAGTGAGG 59.033 55.000 0.00 0.00 0.00 3.86
3020 6632 2.435372 TTGTGGAGACCAAACAGCTT 57.565 45.000 0.00 0.00 34.18 3.74
3170 6786 2.514592 CGGCGGTGGCATGAGAAT 60.515 61.111 0.00 0.00 42.47 2.40
3456 7185 1.377725 CATGCCCAAAGCTCGTCCT 60.378 57.895 0.00 0.00 44.23 3.85
3457 7186 2.409870 CCATGCCCAAAGCTCGTCC 61.410 63.158 0.00 0.00 44.23 4.79
3458 7187 1.244019 AACCATGCCCAAAGCTCGTC 61.244 55.000 0.00 0.00 44.23 4.20
3459 7188 1.228552 AACCATGCCCAAAGCTCGT 60.229 52.632 0.00 0.00 44.23 4.18
3460 7189 1.213537 CAACCATGCCCAAAGCTCG 59.786 57.895 0.00 0.00 44.23 5.03
3461 7190 0.681175 AACAACCATGCCCAAAGCTC 59.319 50.000 0.00 0.00 44.23 4.09
3539 7275 2.059490 ACTTGCTTACCCTGTTACCCA 58.941 47.619 0.00 0.00 0.00 4.51
3752 7489 3.242969 CGGAAGAGATATCGTTTGGTCGA 60.243 47.826 0.00 0.00 43.86 4.20
3754 7491 4.043073 GTCGGAAGAGATATCGTTTGGTC 58.957 47.826 0.00 0.00 43.49 4.02
3823 7560 4.553330 TTACAAGGGAGTGTCCTCAATC 57.447 45.455 0.00 0.00 39.64 2.67
3898 7635 1.066573 AGAATTCAGAGACACCCGCAG 60.067 52.381 8.44 0.00 0.00 5.18


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

AutoCloner maintained by Alex Coulton.