Multiple sequence alignment - TraesCS1B01G018500

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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 TraesCS1B01G018500 chr1B 100.000 2836 0 0 1 2836 8855210 8852375 0.000000e+00 5238.0
1 TraesCS1B01G018500 chr1B 82.353 680 81 15 2183 2836 548190667 548190001 3.190000e-154 555.0
2 TraesCS1B01G018500 chr4B 95.041 2319 111 4 1 2317 36635155 36632839 0.000000e+00 3642.0
3 TraesCS1B01G018500 chr4B 96.232 345 12 1 2492 2836 36616320 36615977 5.300000e-157 564.0
4 TraesCS1B01G018500 chr4B 91.943 211 8 2 2302 2508 36623238 36623033 1.290000e-73 287.0
5 TraesCS1B01G018500 chr1D 93.516 2190 122 7 1 2171 6713905 6711717 0.000000e+00 3240.0
6 TraesCS1B01G018500 chr1D 89.921 1905 173 13 64 1953 407671788 407669888 0.000000e+00 2436.0
7 TraesCS1B01G018500 chr1D 82.660 594 64 12 2181 2748 407669496 407668916 9.130000e-135 490.0
8 TraesCS1B01G018500 chr1D 89.947 189 14 5 2649 2836 6694332 6694148 3.650000e-59 239.0
9 TraesCS1B01G018500 chr1D 80.543 221 22 10 1980 2184 407669784 407669569 1.760000e-32 150.0
10 TraesCS1B01G018500 chr1A 93.016 2205 130 9 1 2184 8143797 8141596 0.000000e+00 3197.0
11 TraesCS1B01G018500 chr1A 88.837 2159 211 12 52 2183 7835427 7837582 0.000000e+00 2625.0
12 TraesCS1B01G018500 chr1A 94.231 52 3 0 2181 2232 8141545 8141494 2.340000e-11 80.5
13 TraesCS1B01G018500 chr5A 86.996 2207 244 18 1 2171 12193523 12191324 0.000000e+00 2446.0
14 TraesCS1B01G018500 chr5A 83.333 162 23 4 2190 2351 12191191 12191034 2.280000e-31 147.0
15 TraesCS1B01G018500 chr5B 86.787 2210 243 17 1 2171 13775440 13773241 0.000000e+00 2418.0
16 TraesCS1B01G018500 chr2D 85.008 1901 248 25 47 1929 469984783 469986664 0.000000e+00 1897.0
17 TraesCS1B01G018500 chr2D 83.775 1886 272 18 47 1916 599927169 599929036 0.000000e+00 1757.0


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 TraesCS1B01G018500 chr1B 8852375 8855210 2835 True 5238.000000 5238 100.000000 1 2836 1 chr1B.!!$R1 2835
1 TraesCS1B01G018500 chr1B 548190001 548190667 666 True 555.000000 555 82.353000 2183 2836 1 chr1B.!!$R2 653
2 TraesCS1B01G018500 chr4B 36632839 36635155 2316 True 3642.000000 3642 95.041000 1 2317 1 chr4B.!!$R3 2316
3 TraesCS1B01G018500 chr1D 6711717 6713905 2188 True 3240.000000 3240 93.516000 1 2171 1 chr1D.!!$R2 2170
4 TraesCS1B01G018500 chr1D 407668916 407671788 2872 True 1025.333333 2436 84.374667 64 2748 3 chr1D.!!$R3 2684
5 TraesCS1B01G018500 chr1A 7835427 7837582 2155 False 2625.000000 2625 88.837000 52 2183 1 chr1A.!!$F1 2131
6 TraesCS1B01G018500 chr1A 8141494 8143797 2303 True 1638.750000 3197 93.623500 1 2232 2 chr1A.!!$R1 2231
7 TraesCS1B01G018500 chr5A 12191034 12193523 2489 True 1296.500000 2446 85.164500 1 2351 2 chr5A.!!$R1 2350
8 TraesCS1B01G018500 chr5B 13773241 13775440 2199 True 2418.000000 2418 86.787000 1 2171 1 chr5B.!!$R1 2170
9 TraesCS1B01G018500 chr2D 469984783 469986664 1881 False 1897.000000 1897 85.008000 47 1929 1 chr2D.!!$F1 1882
10 TraesCS1B01G018500 chr2D 599927169 599929036 1867 False 1757.000000 1757 83.775000 47 1916 1 chr2D.!!$F2 1869

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
570 575 0.603569 GTCTCGGTTCTTGCTCCTGA 59.396 55.0 0.0 0.0 0.0 3.86 F
705 710 0.652592 CTGCCAAAGATTCGCTACCG 59.347 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1713 1728 0.251564 TCACCCATTGTTGGCCGATT 60.252 50.0 0.0 0.0 42.15 3.34 R
2386 2732 0.392863 TGATTCCCACTCGCCACATG 60.393 55.0 0.0 0.0 0.00 3.21 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
44 45 5.486775 ACCTCGGGATCATCATCTTTGATAT 59.513 40.000 0.00 0.00 40.70 1.63
45 46 6.669591 ACCTCGGGATCATCATCTTTGATATA 59.330 38.462 0.00 0.00 40.70 0.86
165 166 7.706607 CACTTTACTGGATGAATCATCGTCTTA 59.293 37.037 16.10 3.41 41.35 2.10
340 345 5.039920 TCCATCATGTGTCTTTATGGAGG 57.960 43.478 6.05 0.00 40.84 4.30
379 384 1.202222 CGCATGATTGGGAGTTTGAGC 60.202 52.381 0.00 0.00 38.00 4.26
380 385 1.135721 GCATGATTGGGAGTTTGAGCC 59.864 52.381 0.00 0.00 0.00 4.70
388 393 1.149148 GGAGTTTGAGCCTCGAACAC 58.851 55.000 23.46 17.93 41.99 3.32
408 413 1.393539 CGAGGGTGCATTAGAAACACG 59.606 52.381 0.00 0.00 35.11 4.49
458 463 8.776376 AACAAGAAAAACATGACAAGTTCAAT 57.224 26.923 0.00 0.00 37.92 2.57
499 504 1.131126 CTCAAGTTGCATTGCCCTACG 59.869 52.381 6.12 0.00 0.00 3.51
550 555 3.251729 TCAGAGCAAATGTGAAGAAGCAC 59.748 43.478 0.00 0.00 39.22 4.40
570 575 0.603569 GTCTCGGTTCTTGCTCCTGA 59.396 55.000 0.00 0.00 0.00 3.86
609 614 6.782082 AACAATAGTAGATGCTCTGTCTGA 57.218 37.500 0.00 0.00 0.00 3.27
705 710 0.652592 CTGCCAAAGATTCGCTACCG 59.347 55.000 0.00 0.00 0.00 4.02
796 802 6.183360 TGGTTAATAATCGTCATGCTGTTGTC 60.183 38.462 0.00 0.00 0.00 3.18
837 843 1.476085 TCAAGTGTTGTGGTTTGCCTG 59.524 47.619 0.00 0.00 35.27 4.85
889 895 1.754803 TGTAGCCTTCAGATACACCGG 59.245 52.381 0.00 0.00 0.00 5.28
948 954 2.374170 GGAGGAGGTGGTTTTGGTTCTA 59.626 50.000 0.00 0.00 0.00 2.10
957 963 8.943594 AGGTGGTTTTGGTTCTATATACAAAA 57.056 30.769 5.37 5.37 39.61 2.44
1006 1018 3.679389 CAGTGAAAAGGCTAGATGGTGT 58.321 45.455 0.00 0.00 0.00 4.16
1048 1060 2.347490 GGCCGAGGTGAGCTCAAA 59.653 61.111 20.19 0.00 0.00 2.69
1094 1106 7.004086 ACCTAGTCAAATTGATTGGTTTCTGA 58.996 34.615 0.00 0.00 39.62 3.27
1169 1181 8.981659 TCTCTTGATGGTCATCTATTTAAGACA 58.018 33.333 11.62 0.00 36.93 3.41
1208 1223 5.357878 TGTCATCCTAAATTGGAACATCAGC 59.642 40.000 0.00 0.00 39.85 4.26
1319 1334 4.375272 AGAACATACTTCTGGATGCATCG 58.625 43.478 20.15 7.89 0.00 3.84
1365 1380 1.530419 TTGGCAGCGTTTGTGGGAT 60.530 52.632 0.00 0.00 0.00 3.85
1419 1434 2.290960 GGAACTGTGGGTTATCTTGCCT 60.291 50.000 0.00 0.00 38.41 4.75
1539 1554 4.272504 CACCTGAAACATCGTACAACACTT 59.727 41.667 0.00 0.00 0.00 3.16
1608 1623 0.957395 CAGCAAGCTTCACGGTGGAT 60.957 55.000 8.50 0.00 0.00 3.41
1610 1625 0.727398 GCAAGCTTCACGGTGGATAC 59.273 55.000 8.50 0.00 0.00 2.24
1632 1647 5.513094 TACTTGAAGAGTTTGGTGGATCCAG 60.513 44.000 16.81 0.00 42.49 3.86
1647 1662 4.192317 GGATCCAGAGTTACATGGTGTTC 58.808 47.826 6.95 3.71 37.84 3.18
1713 1728 5.892686 TGGTGCATCCAAGATAATGAATTCA 59.107 36.000 11.26 11.26 44.12 2.57
1746 1761 1.482748 GGGTGAAGGTGTCCGGGTTA 61.483 60.000 0.00 0.00 0.00 2.85
1751 1766 1.411612 GAAGGTGTCCGGGTTATCGAT 59.588 52.381 0.00 2.16 0.00 3.59
1958 1985 9.145865 GGCAGCTAGATGTCTCTTATTATTTAC 57.854 37.037 10.15 0.00 32.66 2.01
2050 2196 1.134551 CAGAGCTAGGCTGGGAACTTC 60.135 57.143 0.00 0.00 39.88 3.01
2065 2211 2.015736 ACTTCGCAGTGCAGGAATAG 57.984 50.000 16.83 3.30 0.00 1.73
2140 2286 6.756074 TGTTTTCAAACTGTGCCTAATCAAAG 59.244 34.615 4.14 0.00 39.59 2.77
2152 2298 4.700213 GCCTAATCAAAGTGGAGCAGTTTA 59.300 41.667 0.00 0.00 35.17 2.01
2223 2559 3.507233 GGCATCTTGGATTTCAGTGTTGA 59.493 43.478 0.00 0.00 0.00 3.18
2224 2560 4.159135 GGCATCTTGGATTTCAGTGTTGAT 59.841 41.667 0.00 0.00 32.27 2.57
2344 2683 7.944061 TCATGAACAAGTTGACAATCTTCATT 58.056 30.769 10.54 0.00 0.00 2.57
2354 2693 4.701171 TGACAATCTTCATTGCAGCATGTA 59.299 37.500 0.00 0.00 43.03 2.29
2356 2695 5.588240 ACAATCTTCATTGCAGCATGTATG 58.412 37.500 0.00 0.00 43.03 2.39
2399 2745 2.359107 AGCACATGTGGCGAGTGG 60.359 61.111 26.55 0.00 36.08 4.00
2439 2789 5.163374 ACCGGTAGGATATGTAGGTGTTTTC 60.163 44.000 4.49 0.00 41.02 2.29
2440 2790 5.295152 CGGTAGGATATGTAGGTGTTTTCC 58.705 45.833 0.00 0.00 0.00 3.13
2441 2791 5.618236 GGTAGGATATGTAGGTGTTTTCCC 58.382 45.833 0.00 0.00 0.00 3.97
2444 2794 3.462205 GGATATGTAGGTGTTTTCCCCCT 59.538 47.826 0.00 0.00 0.00 4.79
2445 2795 4.661709 GGATATGTAGGTGTTTTCCCCCTA 59.338 45.833 0.00 0.00 0.00 3.53
2446 2796 5.312443 GGATATGTAGGTGTTTTCCCCCTAT 59.688 44.000 0.00 0.00 33.60 2.57
2447 2797 6.502863 GGATATGTAGGTGTTTTCCCCCTATA 59.497 42.308 0.00 0.00 33.60 1.31
2466 2816 5.587844 CCTATATATGCAGCCAATTCTGGTC 59.412 44.000 0.00 0.00 45.53 4.02
2471 2821 1.336125 GCAGCCAATTCTGGTCTATGC 59.664 52.381 0.00 0.00 45.53 3.14
2479 2829 6.036517 GCCAATTCTGGTCTATGCGAATATAG 59.963 42.308 0.00 0.00 45.53 1.31
2488 2838 6.206498 GTCTATGCGAATATAGTGTGTGTCA 58.794 40.000 0.00 0.00 33.38 3.58
2520 2870 9.860898 TTCATATAGAACATGGAAGACGATATG 57.139 33.333 0.00 0.00 32.26 1.78
2526 2876 3.879295 ACATGGAAGACGATATGCCTTTG 59.121 43.478 0.00 0.00 0.00 2.77
2528 2878 2.092968 TGGAAGACGATATGCCTTTGCT 60.093 45.455 0.00 0.00 38.71 3.91
2531 2881 2.831333 AGACGATATGCCTTTGCTCAG 58.169 47.619 0.00 0.00 38.71 3.35
2535 2885 3.144506 CGATATGCCTTTGCTCAGGAAT 58.855 45.455 5.97 3.50 36.05 3.01
2553 2903 8.229253 TCAGGAATTGATGACTTGAAATATGG 57.771 34.615 0.00 0.00 0.00 2.74
2555 2905 8.689061 CAGGAATTGATGACTTGAAATATGGAA 58.311 33.333 0.00 0.00 0.00 3.53
2556 2906 8.689972 AGGAATTGATGACTTGAAATATGGAAC 58.310 33.333 0.00 0.00 0.00 3.62
2557 2907 8.689972 GGAATTGATGACTTGAAATATGGAACT 58.310 33.333 0.00 0.00 0.00 3.01
2561 2911 9.904198 TTGATGACTTGAAATATGGAACTATCA 57.096 29.630 0.00 0.00 0.00 2.15
2562 2912 9.904198 TGATGACTTGAAATATGGAACTATCAA 57.096 29.630 0.00 0.00 0.00 2.57
2604 2954 7.768120 TCATGAAGTTGCAAGGTTATTTGTTTT 59.232 29.630 0.00 0.00 0.00 2.43
2605 2955 7.532682 TGAAGTTGCAAGGTTATTTGTTTTC 57.467 32.000 0.00 0.00 0.00 2.29
2649 3008 2.995283 TGTGCAGATCATCTTTGGGAG 58.005 47.619 0.00 0.00 0.00 4.30
2655 3014 1.216427 GATCATCTTTGGGAGGGGCTT 59.784 52.381 0.00 0.00 0.00 4.35
2660 3019 4.480537 TCATCTTTGGGAGGGGCTTTTATA 59.519 41.667 0.00 0.00 0.00 0.98
2667 3026 6.734918 TGGGAGGGGCTTTTATATATTCAT 57.265 37.500 0.00 0.00 0.00 2.57
2671 3030 7.122799 GGGAGGGGCTTTTATATATTCATTCAC 59.877 40.741 0.00 0.00 0.00 3.18
2715 3077 1.134699 ACATATGGTGCACTCTGACCG 60.135 52.381 17.98 2.43 34.69 4.79
2722 3084 0.038251 TGCACTCTGACCGTGATGTC 60.038 55.000 1.63 0.00 34.35 3.06
2753 3115 7.817418 TTTTCTGTCAGTAAGCAGGTTTATT 57.183 32.000 0.00 0.00 33.81 1.40
2759 3121 6.877322 TGTCAGTAAGCAGGTTTATTTAGGTC 59.123 38.462 0.00 0.00 0.00 3.85
2764 3126 8.211629 AGTAAGCAGGTTTATTTAGGTCCTATG 58.788 37.037 0.00 0.00 0.00 2.23
2765 3127 5.941788 AGCAGGTTTATTTAGGTCCTATGG 58.058 41.667 0.00 0.00 0.00 2.74
2780 3142 5.529060 GGTCCTATGGATTCAGTTGAATGAC 59.471 44.000 11.81 10.80 44.14 3.06
2795 3157 2.770164 ATGACGAAGCTGCTACCTTT 57.230 45.000 0.90 0.00 0.00 3.11
2801 3163 2.772287 GAAGCTGCTACCTTTGACTGT 58.228 47.619 0.90 0.00 0.00 3.55
2802 3164 3.614150 CGAAGCTGCTACCTTTGACTGTA 60.614 47.826 0.90 0.00 0.00 2.74
2815 3177 1.616865 TGACTGTACAAAGTCCGAGGG 59.383 52.381 11.52 0.00 45.03 4.30
2824 3186 2.817258 CAAAGTCCGAGGGCACAAAATA 59.183 45.455 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 7.992754 AAATCTAGAAGTGACTTGAGCATTT 57.007 32.000 0.90 5.75 0.00 2.32
340 345 1.473434 CGGTGACTTATGGGAGAAGCC 60.473 57.143 0.00 0.00 0.00 4.35
388 393 1.393539 CGTGTTTCTAATGCACCCTCG 59.606 52.381 0.00 0.00 0.00 4.63
408 413 1.062587 CTAGTGCTGCAATGTAACGGC 59.937 52.381 13.47 0.00 38.70 5.68
458 463 2.620367 GCAATGGGGTGGAACATGTCTA 60.620 50.000 0.00 0.00 44.52 2.59
499 504 6.759497 AGCAACTTCTATAATTTGTGGGTC 57.241 37.500 0.00 0.00 30.21 4.46
550 555 0.734253 CAGGAGCAAGAACCGAGACG 60.734 60.000 0.00 0.00 0.00 4.18
609 614 3.456380 ACACTAAGCAATTCCCCATGT 57.544 42.857 0.00 0.00 0.00 3.21
705 710 5.607939 TTCTTTTCCTTTTTCTGGAACCC 57.392 39.130 0.00 0.00 42.57 4.11
782 788 1.501169 TCAGTGACAACAGCATGACG 58.499 50.000 0.00 0.00 39.69 4.35
796 802 6.088016 TGAATTTGTTCCTCCAAATCAGTG 57.912 37.500 0.00 0.00 42.63 3.66
837 843 5.980116 CAGCACTACCTAGATTGTCATACAC 59.020 44.000 0.00 0.00 0.00 2.90
889 895 3.119814 GCTTTTAGTAGCAGGAACCAAGC 60.120 47.826 0.00 0.00 40.89 4.01
1006 1018 1.338107 TTGCTTCTCTCCTTGACGGA 58.662 50.000 0.00 0.00 40.30 4.69
1169 1181 3.998341 GGATGACAACATTTGCATTGCTT 59.002 39.130 10.49 0.00 36.82 3.91
1208 1223 4.674101 GCAACTCCTAGCGCTATCTGATAG 60.674 50.000 19.19 18.28 35.94 2.08
1220 1235 3.386402 ACAATCCTCTAGCAACTCCTAGC 59.614 47.826 0.00 0.00 35.78 3.42
1319 1334 5.500645 AGTCTGCAACTTTAGGAACAAAC 57.499 39.130 0.00 0.00 33.03 2.93
1365 1380 2.806945 AGAATTCGGCTGAAATCCCA 57.193 45.000 17.90 0.00 35.07 4.37
1419 1434 1.895798 CACTCCAGTAAGCCACTCTGA 59.104 52.381 0.00 0.00 34.26 3.27
1539 1554 0.467804 TGGTCACTGTAGTTGCTGCA 59.532 50.000 0.00 0.00 0.00 4.41
1608 1623 4.349636 TGGATCCACCAAACTCTTCAAGTA 59.650 41.667 11.44 0.00 46.75 2.24
1610 1625 3.754965 TGGATCCACCAAACTCTTCAAG 58.245 45.455 11.44 0.00 46.75 3.02
1632 1647 6.206634 TCCAAATTGAGAACACCATGTAACTC 59.793 38.462 0.00 8.29 35.79 3.01
1647 1662 4.082354 CCTTTCAGCCTCTTCCAAATTGAG 60.082 45.833 0.00 0.00 0.00 3.02
1713 1728 0.251564 TCACCCATTGTTGGCCGATT 60.252 50.000 0.00 0.00 42.15 3.34
1735 1750 0.462789 ACCATCGATAACCCGGACAC 59.537 55.000 0.73 0.00 0.00 3.67
1746 1761 3.055167 TCAATGTCCTGTTGACCATCGAT 60.055 43.478 0.00 0.00 43.78 3.59
1751 1766 3.507162 ACATCAATGTCCTGTTGACCA 57.493 42.857 0.00 0.00 43.78 4.02
2050 2196 0.392998 AACCCTATTCCTGCACTGCG 60.393 55.000 0.00 0.00 0.00 5.18
2065 2211 4.833390 CCTAGGCATGCTAATAGTAACCC 58.167 47.826 18.92 0.00 0.00 4.11
2296 2632 8.712228 TGATCATGACTATACTAAGGTCACAT 57.288 34.615 0.00 0.00 41.75 3.21
2332 2671 4.106029 ACATGCTGCAATGAAGATTGTC 57.894 40.909 6.36 0.00 41.09 3.18
2344 2683 1.612463 TGCACAAACATACATGCTGCA 59.388 42.857 4.13 4.13 38.90 4.41
2354 2693 2.765699 ACCCAAGAAACTGCACAAACAT 59.234 40.909 0.00 0.00 0.00 2.71
2356 2695 2.959507 ACCCAAGAAACTGCACAAAC 57.040 45.000 0.00 0.00 0.00 2.93
2383 2729 3.434319 CCCACTCGCCACATGTGC 61.434 66.667 20.81 14.31 0.00 4.57
2385 2731 0.392998 GATTCCCACTCGCCACATGT 60.393 55.000 0.00 0.00 0.00 3.21
2386 2732 0.392863 TGATTCCCACTCGCCACATG 60.393 55.000 0.00 0.00 0.00 3.21
2388 2734 0.392863 CATGATTCCCACTCGCCACA 60.393 55.000 0.00 0.00 0.00 4.17
2399 2745 3.016736 ACCGGTGTCATTTCATGATTCC 58.983 45.455 6.12 0.00 42.04 3.01
2418 2768 5.455755 GGGGAAAACACCTACATATCCTACC 60.456 48.000 0.00 0.00 0.00 3.18
2439 2789 3.959495 ATTGGCTGCATATATAGGGGG 57.041 47.619 0.50 0.00 0.00 5.40
2440 2790 4.885907 CAGAATTGGCTGCATATATAGGGG 59.114 45.833 0.50 0.00 0.00 4.79
2441 2791 4.885907 CCAGAATTGGCTGCATATATAGGG 59.114 45.833 0.50 0.00 37.73 3.53
2466 2816 6.439712 GTGACACACACTATATTCGCATAG 57.560 41.667 0.00 0.00 45.13 2.23
2505 2855 3.304257 GCAAAGGCATATCGTCTTCCATG 60.304 47.826 0.00 0.00 39.14 3.66
2510 2860 3.201290 CTGAGCAAAGGCATATCGTCTT 58.799 45.455 0.00 0.00 43.00 3.01
2514 2864 2.245159 TCCTGAGCAAAGGCATATCG 57.755 50.000 0.00 0.00 44.61 2.92
2520 2870 2.756760 TCATCAATTCCTGAGCAAAGGC 59.243 45.455 0.00 0.00 37.52 4.35
2526 2876 5.633830 TTTCAAGTCATCAATTCCTGAGC 57.366 39.130 0.00 0.00 37.52 4.26
2528 2878 8.054572 TCCATATTTCAAGTCATCAATTCCTGA 58.945 33.333 0.00 0.00 38.81 3.86
2531 2881 8.689972 AGTTCCATATTTCAAGTCATCAATTCC 58.310 33.333 0.00 0.00 0.00 3.01
2535 2885 9.904198 TGATAGTTCCATATTTCAAGTCATCAA 57.096 29.630 0.00 0.00 0.00 2.57
2582 2932 7.770801 AGAAAACAAATAACCTTGCAACTTC 57.229 32.000 0.00 0.00 0.00 3.01
2585 2935 8.196802 AGAAAGAAAACAAATAACCTTGCAAC 57.803 30.769 0.00 0.00 0.00 4.17
2618 2968 6.656902 AGATGATCTGCACAAGAAATTCCTA 58.343 36.000 0.00 0.00 38.79 2.94
2621 2971 6.530534 CCAAAGATGATCTGCACAAGAAATTC 59.469 38.462 0.00 0.00 38.79 2.17
2649 3008 8.870075 AGAGTGAATGAATATATAAAAGCCCC 57.130 34.615 0.00 0.00 0.00 5.80
2671 3030 8.896744 TGTGCCTGAAATAAGAAAATGATAGAG 58.103 33.333 0.00 0.00 0.00 2.43
2677 3036 8.199449 ACCATATGTGCCTGAAATAAGAAAATG 58.801 33.333 1.24 0.00 0.00 2.32
2678 3037 8.199449 CACCATATGTGCCTGAAATAAGAAAAT 58.801 33.333 1.24 0.00 38.34 1.82
2732 3094 7.103641 CCTAAATAAACCTGCTTACTGACAGA 58.896 38.462 10.08 0.00 35.90 3.41
2735 3097 6.315642 GGACCTAAATAAACCTGCTTACTGAC 59.684 42.308 0.00 0.00 0.00 3.51
2737 3099 6.415573 AGGACCTAAATAAACCTGCTTACTG 58.584 40.000 0.00 0.00 0.00 2.74
2739 3101 7.444487 CCATAGGACCTAAATAAACCTGCTTAC 59.556 40.741 5.03 0.00 32.90 2.34
2753 3115 6.884472 TTCAACTGAATCCATAGGACCTAA 57.116 37.500 5.03 0.00 32.98 2.69
2759 3121 5.359756 TCGTCATTCAACTGAATCCATAGG 58.640 41.667 1.87 0.00 42.41 2.57
2764 3126 3.686726 AGCTTCGTCATTCAACTGAATCC 59.313 43.478 1.87 0.00 42.41 3.01
2765 3127 4.645956 CAGCTTCGTCATTCAACTGAATC 58.354 43.478 1.87 0.00 42.41 2.52
2780 3142 1.728971 CAGTCAAAGGTAGCAGCTTCG 59.271 52.381 0.00 0.00 34.42 3.79
2795 3157 1.616865 CCCTCGGACTTTGTACAGTCA 59.383 52.381 14.98 0.00 44.53 3.41
2801 3163 0.759959 TTGTGCCCTCGGACTTTGTA 59.240 50.000 0.00 0.00 0.00 2.41
2802 3164 0.106918 TTTGTGCCCTCGGACTTTGT 60.107 50.000 0.00 0.00 0.00 2.83
2810 3172 5.043248 GGAATCAAATATTTTGTGCCCTCG 58.957 41.667 0.00 0.00 0.00 4.63
2812 3174 4.782156 TGGGAATCAAATATTTTGTGCCCT 59.218 37.500 19.68 0.00 33.07 5.19


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

AutoCloner maintained by Alex Coulton.