Multiple sequence alignment - TraesCS1D01G267000

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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 TraesCS1D01G267000 chr1D 100.000 2659 0 0 1 2659 362919557 362922215 0.000000e+00 4911.0
1 TraesCS1D01G267000 chr1B 90.689 1815 117 20 819 2607 486157823 486159611 0.000000e+00 2368.0
2 TraesCS1D01G267000 chr1A 92.151 1325 47 17 819 2102 462136576 462137884 0.000000e+00 1818.0
3 TraesCS1D01G267000 chr7D 95.007 761 35 2 1 759 487869334 487870093 0.000000e+00 1192.0
4 TraesCS1D01G267000 chr7D 95.729 679 29 0 4 682 101554047 101553369 0.000000e+00 1094.0
5 TraesCS1D01G267000 chr3A 92.840 824 51 6 4 824 496458993 496458175 0.000000e+00 1188.0
6 TraesCS1D01G267000 chr2A 92.063 819 55 5 1 817 775207581 775208391 0.000000e+00 1144.0
7 TraesCS1D01G267000 chr5D 95.608 683 30 0 1 683 513527284 513527966 0.000000e+00 1096.0
8 TraesCS1D01G267000 chr6D 95.461 683 30 1 4 686 148078178 148077497 0.000000e+00 1088.0
9 TraesCS1D01G267000 chr6D 95.022 683 34 0 1 683 30067797 30068479 0.000000e+00 1074.0
10 TraesCS1D01G267000 chr6D 95.022 683 34 0 4 686 354544904 354544222 0.000000e+00 1074.0
11 TraesCS1D01G267000 chr6D 94.876 683 35 0 4 686 60170162 60169480 0.000000e+00 1068.0
12 TraesCS1D01G267000 chr2D 91.827 416 33 1 2225 2640 167421647 167421233 1.770000e-161 579.0
13 TraesCS1D01G267000 chr2D 90.762 433 38 2 2227 2659 167130170 167129740 6.380000e-161 577.0
14 TraesCS1D01G267000 chr2D 89.425 435 43 3 2226 2659 218389397 218389829 1.800000e-151 545.0
15 TraesCS1D01G267000 chr2D 89.171 434 43 4 2227 2659 568719939 568719509 3.010000e-149 538.0
16 TraesCS1D01G267000 chr2D 89.120 432 44 3 2227 2657 568406687 568406258 3.900000e-148 534.0
17 TraesCS1D01G267000 chr2D 88.915 433 47 1 2227 2659 139785316 139785747 1.400000e-147 532.0
18 TraesCS1D01G267000 chr2B 88.532 436 47 3 2225 2659 256993550 256993983 2.340000e-145 525.0
19 TraesCS1D01G267000 chr4D 88.330 437 48 3 2224 2659 336115865 336115431 3.030000e-144 521.0
20 TraesCS1D01G267000 chrUn 78.017 837 117 25 1 811 167283767 167284562 5.180000e-127 464.0
21 TraesCS1D01G267000 chrUn 92.632 95 2 3 728 817 370576662 370576756 5.970000e-27 132.0
22 TraesCS1D01G267000 chr3D 93.023 43 2 1 1384 1425 497369182 497369140 7.950000e-06 62.1


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 TraesCS1D01G267000 chr1D 362919557 362922215 2658 False 4911 4911 100.000 1 2659 1 chr1D.!!$F1 2658
1 TraesCS1D01G267000 chr1B 486157823 486159611 1788 False 2368 2368 90.689 819 2607 1 chr1B.!!$F1 1788
2 TraesCS1D01G267000 chr1A 462136576 462137884 1308 False 1818 1818 92.151 819 2102 1 chr1A.!!$F1 1283
3 TraesCS1D01G267000 chr7D 487869334 487870093 759 False 1192 1192 95.007 1 759 1 chr7D.!!$F1 758
4 TraesCS1D01G267000 chr7D 101553369 101554047 678 True 1094 1094 95.729 4 682 1 chr7D.!!$R1 678
5 TraesCS1D01G267000 chr3A 496458175 496458993 818 True 1188 1188 92.840 4 824 1 chr3A.!!$R1 820
6 TraesCS1D01G267000 chr2A 775207581 775208391 810 False 1144 1144 92.063 1 817 1 chr2A.!!$F1 816
7 TraesCS1D01G267000 chr5D 513527284 513527966 682 False 1096 1096 95.608 1 683 1 chr5D.!!$F1 682
8 TraesCS1D01G267000 chr6D 148077497 148078178 681 True 1088 1088 95.461 4 686 1 chr6D.!!$R2 682
9 TraesCS1D01G267000 chr6D 30067797 30068479 682 False 1074 1074 95.022 1 683 1 chr6D.!!$F1 682
10 TraesCS1D01G267000 chr6D 354544222 354544904 682 True 1074 1074 95.022 4 686 1 chr6D.!!$R3 682
11 TraesCS1D01G267000 chr6D 60169480 60170162 682 True 1068 1068 94.876 4 686 1 chr6D.!!$R1 682
12 TraesCS1D01G267000 chrUn 167283767 167284562 795 False 464 464 78.017 1 811 1 chrUn.!!$F1 810

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
845 870 0.584396 CGCACTAAAAACCGAGCACA 59.416 50.0 0.0 0.0 0.0 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2135 2226 0.035739 TTGAGGTGGGTTTAGGACGC 59.964 55.0 0.0 0.0 41.31 5.19 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
50 51 2.017559 GCTGGTACTCCGCCGAGATT 62.018 60.000 9.16 0.00 38.52 2.40
155 156 4.467084 GAGATGCCCCGGTCGCAA 62.467 66.667 16.50 2.15 40.22 4.85
245 246 3.632080 ATGGACCGTGCCGACCAA 61.632 61.111 13.46 3.49 36.94 3.67
418 431 1.656818 CGGAAGGCATTGGCGAATGT 61.657 55.000 20.66 3.25 41.09 2.71
845 870 0.584396 CGCACTAAAAACCGAGCACA 59.416 50.000 0.00 0.00 0.00 4.57
940 965 4.610680 GCTGAAAAACTAACCGTGCTAGTG 60.611 45.833 0.00 0.00 29.96 2.74
961 989 1.124116 GTTTGCATAAACAAAGCGCCG 59.876 47.619 2.29 0.00 44.38 6.46
1008 1053 7.158021 CAGGAGACAGGAGGTGAATATAAATC 58.842 42.308 0.00 0.00 0.00 2.17
1078 1123 1.747355 CCATGATCTTGTCCTTGTGCC 59.253 52.381 7.73 0.00 0.00 5.01
1134 1179 1.305219 CCAGCTCCATTTCGCGGAAA 61.305 55.000 2.72 4.98 35.94 3.13
1139 1184 0.035598 TCCATTTCGCGGAAACAGGA 59.964 50.000 2.72 9.65 37.01 3.86
1334 1388 3.003763 ACCTTCTCCACCGGCTCC 61.004 66.667 0.00 0.00 0.00 4.70
1545 1599 1.587043 CGTGGAGAAGGAGCACGAGA 61.587 60.000 0.00 0.00 41.16 4.04
1546 1600 0.109039 GTGGAGAAGGAGCACGAGAC 60.109 60.000 0.00 0.00 0.00 3.36
1576 1630 2.973899 GCAGCGAGAGGAAGGTCA 59.026 61.111 0.00 0.00 0.00 4.02
1578 1632 1.515020 CAGCGAGAGGAAGGTCAGG 59.485 63.158 0.00 0.00 0.00 3.86
1662 1716 1.648467 GCTCTTCCGGTTGTGATGGC 61.648 60.000 0.00 0.00 0.00 4.40
1663 1717 1.361668 CTCTTCCGGTTGTGATGGCG 61.362 60.000 0.00 0.00 0.00 5.69
1715 1773 5.534407 TGTAACGAAATGTACTTGCTCTCA 58.466 37.500 0.00 0.00 0.00 3.27
1797 1877 2.169832 TCGTTGAGGAGGAGCAAAAG 57.830 50.000 0.00 0.00 0.00 2.27
1845 1925 3.098958 CGCATGCGTGTTTGTGCC 61.099 61.111 31.33 0.00 34.20 5.01
1878 1958 4.569943 TGAGTGCGAGCTTTTTAGATCTT 58.430 39.130 0.00 0.00 0.00 2.40
2037 2125 0.179078 GTCGGAGCTCTAGACTCGGA 60.179 60.000 25.12 19.26 40.09 4.55
2083 2173 3.799281 AATGGCCCAAATACAATCACG 57.201 42.857 0.00 0.00 0.00 4.35
2102 2192 2.102588 ACGACTACCCCATGCATAAGAC 59.897 50.000 0.00 0.00 0.00 3.01
2141 2232 1.261480 CATCTATAGCCTGGCGTCCT 58.739 55.000 13.96 0.00 0.00 3.85
2146 2237 0.468648 ATAGCCTGGCGTCCTAAACC 59.531 55.000 13.96 0.00 0.00 3.27
2152 2243 1.078637 GGCGTCCTAAACCCACCTC 60.079 63.158 0.00 0.00 0.00 3.85
2159 2250 1.877443 CCTAAACCCACCTCAAACACG 59.123 52.381 0.00 0.00 0.00 4.49
2164 2255 2.604174 CCACCTCAAACACGCGGAC 61.604 63.158 12.47 0.00 0.00 4.79
2190 2281 1.676678 CCCGATCACTGACCGGTCAT 61.677 60.000 36.21 22.62 41.53 3.06
2192 2283 1.613925 CCGATCACTGACCGGTCATAT 59.386 52.381 36.21 27.45 39.13 1.78
2193 2284 2.035961 CCGATCACTGACCGGTCATATT 59.964 50.000 36.21 21.00 39.13 1.28
2196 2287 4.917998 CGATCACTGACCGGTCATATTTAG 59.082 45.833 36.21 25.01 39.13 1.85
2197 2288 4.054780 TCACTGACCGGTCATATTTAGC 57.945 45.455 36.21 7.52 39.13 3.09
2198 2289 2.794910 CACTGACCGGTCATATTTAGCG 59.205 50.000 36.21 23.59 39.13 4.26
2246 2338 1.066430 TGACGGTGTTCTGGATAAGGC 60.066 52.381 0.00 0.00 0.00 4.35
2247 2339 0.981183 ACGGTGTTCTGGATAAGGCA 59.019 50.000 0.00 0.00 0.00 4.75
2255 2347 5.811100 GTGTTCTGGATAAGGCAGTACTAAC 59.189 44.000 0.00 0.00 0.00 2.34
2256 2348 5.105064 TGTTCTGGATAAGGCAGTACTAACC 60.105 44.000 0.00 0.00 0.00 2.85
2257 2349 4.616553 TCTGGATAAGGCAGTACTAACCA 58.383 43.478 14.77 4.55 0.00 3.67
2272 2364 0.322546 AACCAAGTCGGCCCATTCTC 60.323 55.000 0.00 0.00 39.03 2.87
2273 2365 1.452108 CCAAGTCGGCCCATTCTCC 60.452 63.158 0.00 0.00 0.00 3.71
2276 2368 1.961180 AAGTCGGCCCATTCTCCTCG 61.961 60.000 0.00 0.00 0.00 4.63
2279 2371 2.768344 GGCCCATTCTCCTCGGGA 60.768 66.667 0.00 0.00 43.21 5.14
2292 2384 4.096003 CGGGATGGGCCGACAAGT 62.096 66.667 0.00 0.00 37.63 3.16
2320 2412 2.214216 TGGTCAAGGTGGACTCCGG 61.214 63.158 0.00 0.00 37.91 5.14
2351 2443 0.820871 AGGAGGCGTGATCAAGACTC 59.179 55.000 30.05 30.05 43.04 3.36
2382 2474 4.365723 GAAGACTTGACGTGTACTCCAAA 58.634 43.478 0.00 0.00 0.00 3.28
2387 2479 4.989168 ACTTGACGTGTACTCCAAAATCTC 59.011 41.667 0.00 0.00 0.00 2.75
2434 2526 3.320256 CGACCTTGTAACCCTAGATACCC 59.680 52.174 0.00 0.00 0.00 3.69
2435 2527 4.554683 GACCTTGTAACCCTAGATACCCT 58.445 47.826 0.00 0.00 0.00 4.34
2439 2531 3.145043 TGTAACCCTAGATACCCTCCCT 58.855 50.000 0.00 0.00 0.00 4.20
2450 2542 0.105142 ACCCTCCCTGGCGTGTATAT 60.105 55.000 0.00 0.00 0.00 0.86
2454 2546 2.353803 CCTCCCTGGCGTGTATATAAGC 60.354 54.545 0.00 0.00 0.00 3.09
2466 2558 6.534079 GCGTGTATATAAGCCATAGGGTTTAG 59.466 42.308 8.69 0.00 42.23 1.85
2501 2593 4.236935 ACATCAACACAAAATCATTCGCC 58.763 39.130 0.00 0.00 0.00 5.54
2503 2595 3.899734 TCAACACAAAATCATTCGCCTG 58.100 40.909 0.00 0.00 0.00 4.85
2510 2602 0.179018 AATCATTCGCCTGGCCCTAC 60.179 55.000 14.12 0.00 0.00 3.18
2512 2604 1.077787 CATTCGCCTGGCCCTACAA 60.078 57.895 14.12 0.00 0.00 2.41
2520 2612 2.872038 GCCTGGCCCTACAATTAGATCG 60.872 54.545 7.66 0.00 0.00 3.69
2523 2615 2.143925 GGCCCTACAATTAGATCGCAC 58.856 52.381 0.00 0.00 0.00 5.34
2524 2616 2.484770 GGCCCTACAATTAGATCGCACA 60.485 50.000 0.00 0.00 0.00 4.57
2529 2621 5.118664 CCCTACAATTAGATCGCACATTACG 59.881 44.000 0.00 0.00 0.00 3.18
2538 2630 1.669265 TCGCACATTACGATCTCGAGT 59.331 47.619 13.13 0.00 43.02 4.18
2541 2633 4.033019 CGCACATTACGATCTCGAGTTAA 58.967 43.478 13.13 6.66 43.02 2.01
2607 2699 3.528532 CATGACGTAGGGTTTTACCTCC 58.471 50.000 0.00 0.00 42.09 4.30
2608 2700 2.607499 TGACGTAGGGTTTTACCTCCA 58.393 47.619 0.00 0.00 42.09 3.86
2609 2701 3.175594 TGACGTAGGGTTTTACCTCCAT 58.824 45.455 0.00 0.00 42.09 3.41
2610 2702 3.196254 TGACGTAGGGTTTTACCTCCATC 59.804 47.826 0.00 0.00 42.09 3.51
2611 2703 3.175594 ACGTAGGGTTTTACCTCCATCA 58.824 45.455 0.00 0.00 42.09 3.07
2612 2704 3.583966 ACGTAGGGTTTTACCTCCATCAA 59.416 43.478 0.00 0.00 42.09 2.57
2613 2705 4.189231 CGTAGGGTTTTACCTCCATCAAG 58.811 47.826 0.00 0.00 42.09 3.02
2614 2706 4.081309 CGTAGGGTTTTACCTCCATCAAGA 60.081 45.833 0.00 0.00 42.09 3.02
2615 2707 4.576330 AGGGTTTTACCTCCATCAAGAG 57.424 45.455 0.00 0.00 38.64 2.85
2621 2713 2.507944 CTCCATCAAGAGGGCCCG 59.492 66.667 18.44 1.05 31.15 6.13
2622 2714 2.040442 TCCATCAAGAGGGCCCGA 59.960 61.111 18.44 8.04 31.15 5.14
2623 2715 1.615124 TCCATCAAGAGGGCCCGAA 60.615 57.895 18.44 1.01 31.15 4.30
2624 2716 1.452108 CCATCAAGAGGGCCCGAAC 60.452 63.158 18.44 12.45 0.00 3.95
2625 2717 1.452108 CATCAAGAGGGCCCGAACC 60.452 63.158 18.44 7.31 0.00 3.62
2626 2718 1.616628 ATCAAGAGGGCCCGAACCT 60.617 57.895 18.44 9.75 42.18 3.50
2627 2719 1.915078 ATCAAGAGGGCCCGAACCTG 61.915 60.000 18.44 12.14 38.79 4.00
2628 2720 3.330720 AAGAGGGCCCGAACCTGG 61.331 66.667 18.44 0.00 38.79 4.45
2636 2728 3.970205 CCCGAACCTGGGTAAACAT 57.030 52.632 0.00 0.00 44.76 2.71
2637 2729 1.746470 CCCGAACCTGGGTAAACATC 58.254 55.000 0.00 0.00 44.76 3.06
2638 2730 1.365699 CCGAACCTGGGTAAACATCG 58.634 55.000 0.00 4.42 0.00 3.84
2639 2731 1.338389 CCGAACCTGGGTAAACATCGT 60.338 52.381 0.00 0.00 0.00 3.73
2640 2732 1.997606 CGAACCTGGGTAAACATCGTC 59.002 52.381 0.00 0.00 0.00 4.20
2641 2733 2.353406 CGAACCTGGGTAAACATCGTCT 60.353 50.000 0.00 0.00 0.00 4.18
2642 2734 3.259902 GAACCTGGGTAAACATCGTCTC 58.740 50.000 0.00 0.00 0.00 3.36
2643 2735 1.553704 ACCTGGGTAAACATCGTCTCC 59.446 52.381 0.00 0.00 0.00 3.71
2644 2736 1.831736 CCTGGGTAAACATCGTCTCCT 59.168 52.381 0.00 0.00 0.00 3.69
2645 2737 2.236395 CCTGGGTAAACATCGTCTCCTT 59.764 50.000 0.00 0.00 0.00 3.36
2646 2738 3.522553 CTGGGTAAACATCGTCTCCTTC 58.477 50.000 0.00 0.00 0.00 3.46
2647 2739 2.094390 TGGGTAAACATCGTCTCCTTCG 60.094 50.000 0.00 0.00 0.00 3.79
2648 2740 2.094338 GGGTAAACATCGTCTCCTTCGT 60.094 50.000 0.00 0.00 0.00 3.85
2649 2741 3.582780 GGTAAACATCGTCTCCTTCGTT 58.417 45.455 0.00 0.00 0.00 3.85
2650 2742 3.611549 GGTAAACATCGTCTCCTTCGTTC 59.388 47.826 0.00 0.00 0.00 3.95
2651 2743 3.380479 AAACATCGTCTCCTTCGTTCA 57.620 42.857 0.00 0.00 0.00 3.18
2652 2744 3.594603 AACATCGTCTCCTTCGTTCAT 57.405 42.857 0.00 0.00 0.00 2.57
2653 2745 2.881074 ACATCGTCTCCTTCGTTCATG 58.119 47.619 0.00 0.00 0.00 3.07
2654 2746 2.231478 ACATCGTCTCCTTCGTTCATGT 59.769 45.455 0.00 0.00 0.00 3.21
2655 2747 3.254060 CATCGTCTCCTTCGTTCATGTT 58.746 45.455 0.00 0.00 0.00 2.71
2656 2748 4.082408 ACATCGTCTCCTTCGTTCATGTTA 60.082 41.667 0.00 0.00 0.00 2.41
2657 2749 3.829948 TCGTCTCCTTCGTTCATGTTAC 58.170 45.455 0.00 0.00 0.00 2.50
2658 2750 2.921754 CGTCTCCTTCGTTCATGTTACC 59.078 50.000 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
155 156 0.974383 AGACGTCCCGGAAGTTCATT 59.026 50.000 13.01 0.00 0.00 2.57
281 282 4.521062 GCCATGGCTCGCTCGTCT 62.521 66.667 29.98 0.00 38.26 4.18
418 431 0.174617 TGCAACGATATCGGACTGCA 59.825 50.000 31.08 31.08 44.81 4.41
768 788 1.869132 GTGCTAAAATGCAGCGCGG 60.869 57.895 8.83 2.11 44.20 6.46
817 841 3.140623 GGTTTTTAGTGCGTGGGTTAGA 58.859 45.455 0.00 0.00 0.00 2.10
845 870 0.809385 CGTCTACGAGGGTGTGTCAT 59.191 55.000 0.00 0.00 43.02 3.06
940 965 1.459209 GGCGCTTTGTTTATGCAAACC 59.541 47.619 7.64 0.00 42.88 3.27
961 989 4.058817 GCACACCACTTATATACAGCCTC 58.941 47.826 0.00 0.00 0.00 4.70
1134 1179 3.201708 AGCAAATGGATCTAGCTTCCTGT 59.798 43.478 4.59 0.00 34.17 4.00
1139 1184 3.386078 TCTCGAGCAAATGGATCTAGCTT 59.614 43.478 7.81 0.00 35.36 3.74
1334 1388 2.125065 CTGCTGCAGAGCCTCTGG 60.125 66.667 24.88 8.59 44.43 3.86
1545 1599 2.262915 CTGCGCCTCCTTCTTCGT 59.737 61.111 4.18 0.00 0.00 3.85
1546 1600 3.191539 GCTGCGCCTCCTTCTTCG 61.192 66.667 4.18 0.00 0.00 3.79
1576 1630 4.722535 TGGCCTCCTCCTTCGCCT 62.723 66.667 3.32 0.00 42.15 5.52
1578 1632 2.124942 CTTGGCCTCCTCCTTCGC 60.125 66.667 3.32 0.00 0.00 4.70
1715 1773 5.070981 TCAACCAAGAGATCAACAAGAGACT 59.929 40.000 0.00 0.00 0.00 3.24
1797 1877 4.479993 ATGCCGAGCTCACCCTGC 62.480 66.667 15.40 8.24 0.00 4.85
1845 1925 2.253452 GCACTCAGCGCACAAAGG 59.747 61.111 11.47 0.00 0.00 3.11
1878 1958 1.269958 CCACACTCCCAGTCTCATCA 58.730 55.000 0.00 0.00 0.00 3.07
2037 2125 2.896854 CCGCTGCGCATACCACAT 60.897 61.111 18.00 0.00 0.00 3.21
2083 2173 3.134804 ACTGTCTTATGCATGGGGTAGTC 59.865 47.826 10.16 0.00 0.00 2.59
2131 2222 1.376812 GTGGGTTTAGGACGCCAGG 60.377 63.158 0.00 0.00 40.28 4.45
2133 2224 1.833787 GAGGTGGGTTTAGGACGCCA 61.834 60.000 0.00 0.00 40.28 5.69
2135 2226 0.035739 TTGAGGTGGGTTTAGGACGC 59.964 55.000 0.00 0.00 41.31 5.19
2141 2232 1.310904 GCGTGTTTGAGGTGGGTTTA 58.689 50.000 0.00 0.00 0.00 2.01
2146 2237 2.280524 TCCGCGTGTTTGAGGTGG 60.281 61.111 4.92 0.00 40.84 4.61
2152 2243 4.054455 CGTCCGTCCGCGTGTTTG 62.054 66.667 4.92 0.00 36.15 2.93
2165 2256 3.458163 TCAGTGATCGGGCCGTCC 61.458 66.667 27.32 18.58 0.00 4.79
2190 2281 1.268899 GCTCGCCTAGACCGCTAAATA 59.731 52.381 0.00 0.00 0.00 1.40
2192 2283 1.436336 GCTCGCCTAGACCGCTAAA 59.564 57.895 0.00 0.00 0.00 1.85
2193 2284 2.831366 CGCTCGCCTAGACCGCTAA 61.831 63.158 0.00 0.00 0.00 3.09
2212 2304 3.047877 GTCACCGGGCGTTTGAGG 61.048 66.667 6.32 0.00 0.00 3.86
2246 2338 1.405121 GGGCCGACTTGGTTAGTACTG 60.405 57.143 5.39 0.00 41.21 2.74
2247 2339 0.900421 GGGCCGACTTGGTTAGTACT 59.100 55.000 0.00 0.00 41.21 2.73
2255 2347 1.452108 GGAGAATGGGCCGACTTGG 60.452 63.158 0.00 0.00 42.50 3.61
2256 2348 0.462759 GAGGAGAATGGGCCGACTTG 60.463 60.000 0.00 0.00 0.00 3.16
2257 2349 1.908483 GAGGAGAATGGGCCGACTT 59.092 57.895 0.00 0.00 0.00 3.01
2276 2368 2.124695 GACTTGTCGGCCCATCCC 60.125 66.667 0.00 0.00 0.00 3.85
2279 2371 1.274703 ATGAGGACTTGTCGGCCCAT 61.275 55.000 0.00 0.00 0.00 4.00
2289 2381 2.289694 CCTTGACCACGAATGAGGACTT 60.290 50.000 0.00 0.00 0.00 3.01
2292 2384 1.001974 CACCTTGACCACGAATGAGGA 59.998 52.381 0.00 0.00 0.00 3.71
2320 2412 4.208686 CCTCCTGCGTACGGCCTC 62.209 72.222 18.39 0.00 42.61 4.70
2345 2437 2.307686 AGTCTTCGGGAGAGAGAGTCTT 59.692 50.000 0.00 0.00 41.75 3.01
2351 2443 1.131504 CGTCAAGTCTTCGGGAGAGAG 59.868 57.143 0.00 0.00 41.75 3.20
2382 2474 3.154473 TAGGCGGCGGCAGAGATT 61.154 61.111 34.87 15.93 42.47 2.40
2406 2498 0.250597 GGGTTACAAGGTCGGCAACT 60.251 55.000 0.00 0.00 0.00 3.16
2434 2526 2.353803 GGCTTATATACACGCCAGGGAG 60.354 54.545 10.51 0.00 42.06 4.30
2435 2527 1.621814 GGCTTATATACACGCCAGGGA 59.378 52.381 10.51 0.00 42.06 4.20
2470 2562 3.695830 TTGTGTTGATGTCCCCTCTAC 57.304 47.619 0.00 0.00 0.00 2.59
2501 2593 2.224281 TGCGATCTAATTGTAGGGCCAG 60.224 50.000 6.18 0.00 0.00 4.85
2503 2595 2.143925 GTGCGATCTAATTGTAGGGCC 58.856 52.381 0.00 0.00 0.00 5.80
2520 2612 5.944049 TTTAACTCGAGATCGTAATGTGC 57.056 39.130 21.68 0.00 40.80 4.57
2523 2615 8.341477 AGTTGATTTAACTCGAGATCGTAATG 57.659 34.615 21.68 0.00 46.55 1.90
2529 2621 9.953697 AGTACATAGTTGATTTAACTCGAGATC 57.046 33.333 21.68 12.04 46.55 2.75
2574 2666 6.827727 ACCCTACGTCATGCTCTTATTTTAT 58.172 36.000 0.00 0.00 0.00 1.40
2576 2668 5.099042 ACCCTACGTCATGCTCTTATTTT 57.901 39.130 0.00 0.00 0.00 1.82
2588 2680 2.607499 TGGAGGTAAAACCCTACGTCA 58.393 47.619 0.00 0.00 38.41 4.35
2607 2699 1.452108 GGTTCGGGCCCTCTTGATG 60.452 63.158 22.43 1.43 0.00 3.07
2608 2700 1.616628 AGGTTCGGGCCCTCTTGAT 60.617 57.895 22.43 0.00 0.00 2.57
2609 2701 2.203938 AGGTTCGGGCCCTCTTGA 60.204 61.111 22.43 6.61 0.00 3.02
2610 2702 2.045926 CAGGTTCGGGCCCTCTTG 60.046 66.667 22.43 12.77 0.00 3.02
2611 2703 3.330720 CCAGGTTCGGGCCCTCTT 61.331 66.667 22.43 3.59 0.00 2.85
2619 2711 1.338389 ACGATGTTTACCCAGGTTCGG 60.338 52.381 11.39 0.00 30.52 4.30
2620 2712 1.997606 GACGATGTTTACCCAGGTTCG 59.002 52.381 6.36 6.36 31.96 3.95
2621 2713 3.259902 GAGACGATGTTTACCCAGGTTC 58.740 50.000 0.00 0.00 0.00 3.62
2622 2714 2.027469 GGAGACGATGTTTACCCAGGTT 60.027 50.000 0.00 0.00 0.00 3.50
2623 2715 1.553704 GGAGACGATGTTTACCCAGGT 59.446 52.381 0.00 0.00 0.00 4.00
2624 2716 1.831736 AGGAGACGATGTTTACCCAGG 59.168 52.381 0.00 0.00 0.00 4.45
2625 2717 3.522553 GAAGGAGACGATGTTTACCCAG 58.477 50.000 0.00 0.00 0.00 4.45
2626 2718 2.094390 CGAAGGAGACGATGTTTACCCA 60.094 50.000 0.00 0.00 0.00 4.51
2627 2719 2.094338 ACGAAGGAGACGATGTTTACCC 60.094 50.000 0.00 0.00 34.70 3.69
2628 2720 3.227810 ACGAAGGAGACGATGTTTACC 57.772 47.619 0.00 0.00 34.70 2.85
2629 2721 4.232221 TGAACGAAGGAGACGATGTTTAC 58.768 43.478 0.00 0.00 34.70 2.01
2630 2722 4.508461 TGAACGAAGGAGACGATGTTTA 57.492 40.909 0.00 0.00 34.70 2.01
2631 2723 3.380479 TGAACGAAGGAGACGATGTTT 57.620 42.857 0.00 0.00 34.70 2.83
2632 2724 3.254060 CATGAACGAAGGAGACGATGTT 58.746 45.455 0.00 0.00 34.70 2.71
2633 2725 2.231478 ACATGAACGAAGGAGACGATGT 59.769 45.455 0.00 0.00 34.70 3.06
2634 2726 2.881074 ACATGAACGAAGGAGACGATG 58.119 47.619 0.00 0.00 34.70 3.84
2635 2727 3.594603 AACATGAACGAAGGAGACGAT 57.405 42.857 0.00 0.00 34.70 3.73
2636 2728 3.366679 GGTAACATGAACGAAGGAGACGA 60.367 47.826 0.00 0.00 34.70 4.20
2637 2729 2.921754 GGTAACATGAACGAAGGAGACG 59.078 50.000 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.