Multiple sequence alignment - TraesCS7B01G407500

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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 TraesCS7B01G407500 chr7B 100.000 3586 0 0 1 3586 676536064 676532479 0.000000e+00 6623.0
1 TraesCS7B01G407500 chr7B 92.800 1750 91 12 1243 2973 676862213 676860480 0.000000e+00 2501.0
2 TraesCS7B01G407500 chr7B 93.064 1384 78 10 1214 2592 676993419 676994789 0.000000e+00 2008.0
3 TraesCS7B01G407500 chr7B 81.696 1557 238 24 889 2422 676211264 676209732 0.000000e+00 1253.0
4 TraesCS7B01G407500 chr7B 90.584 616 46 8 2979 3586 676863093 676862482 0.000000e+00 806.0
5 TraesCS7B01G407500 chr7B 77.897 1303 218 47 1131 2422 676424153 676425396 0.000000e+00 747.0
6 TraesCS7B01G407500 chr7B 82.695 809 114 12 889 1682 676217217 676216420 0.000000e+00 695.0
7 TraesCS7B01G407500 chr7B 89.532 449 39 6 3143 3585 676860153 676859707 2.420000e-156 562.0
8 TraesCS7B01G407500 chr7B 88.442 398 24 8 2500 2884 676863528 676863140 9.070000e-126 460.0
9 TraesCS7B01G407500 chr7B 83.768 345 25 6 889 1218 676988142 676988470 7.530000e-77 298.0
10 TraesCS7B01G407500 chr7B 76.014 567 82 38 3054 3586 312404423 312404969 9.950000e-61 244.0
11 TraesCS7B01G407500 chr7B 82.941 170 22 6 3054 3218 251316596 251316763 2.890000e-31 147.0
12 TraesCS7B01G407500 chr7B 90.164 61 6 0 829 889 676862360 676862300 2.970000e-11 80.5
13 TraesCS7B01G407500 chr7B 96.875 32 1 0 971 1002 676862277 676862246 2.000000e-03 54.7
14 TraesCS7B01G407500 chr7D 91.302 2104 146 17 889 2973 597619570 597621655 0.000000e+00 2837.0
15 TraesCS7B01G407500 chr7D 94.388 1675 84 3 966 2640 597546573 597544909 0.000000e+00 2564.0
16 TraesCS7B01G407500 chr7D 90.654 1819 129 19 889 2678 597570481 597568675 0.000000e+00 2379.0
17 TraesCS7B01G407500 chr7D 91.579 760 51 8 1 748 597618615 597619373 0.000000e+00 1037.0
18 TraesCS7B01G407500 chr7D 82.067 1132 173 17 1310 2422 597965351 597966471 0.000000e+00 939.0
19 TraesCS7B01G407500 chr7D 78.341 1302 206 43 1134 2422 597654309 597653071 0.000000e+00 773.0
20 TraesCS7B01G407500 chr7D 88.197 610 53 10 2984 3586 597621699 597622296 0.000000e+00 710.0
21 TraesCS7B01G407500 chr7D 89.558 498 38 10 2984 3473 597546847 597547338 1.410000e-173 619.0
22 TraesCS7B01G407500 chr7D 86.420 243 16 6 2751 2977 597546569 597546810 2.140000e-62 250.0
23 TraesCS7B01G407500 chr7D 91.803 61 5 0 829 889 597619460 597619520 6.380000e-13 86.1
24 TraesCS7B01G407500 chr7D 91.111 45 2 2 2602 2646 597621314 597621356 3.870000e-05 60.2
25 TraesCS7B01G407500 chr7A 93.333 1665 91 9 966 2626 690517135 690518783 0.000000e+00 2442.0
26 TraesCS7B01G407500 chr7A 90.090 999 81 7 1694 2679 690439280 690440273 0.000000e+00 1280.0
27 TraesCS7B01G407500 chr7A 81.841 1564 227 23 889 2422 690196013 690194477 0.000000e+00 1262.0
28 TraesCS7B01G407500 chr7A 92.219 694 43 7 954 1641 690438592 690439280 0.000000e+00 972.0
29 TraesCS7B01G407500 chr7A 84.728 478 36 17 2984 3452 690516862 690516413 9.140000e-121 444.0
30 TraesCS7B01G407500 chr7A 87.554 233 15 4 2754 2974 690517136 690516906 1.280000e-64 257.0
31 TraesCS7B01G407500 chr7A 86.066 122 6 3 889 999 690438469 690438590 1.750000e-23 121.0
32 TraesCS7B01G407500 chr2D 89.757 781 56 13 1 760 72711480 72712257 0.000000e+00 977.0
33 TraesCS7B01G407500 chr2D 85.664 844 64 26 1 831 603652394 603653193 0.000000e+00 835.0
34 TraesCS7B01G407500 chr2A 84.005 844 73 29 1 831 735792559 735793353 0.000000e+00 754.0
35 TraesCS7B01G407500 chr2A 77.720 386 64 16 3054 3422 519546283 519545903 2.170000e-52 217.0
36 TraesCS7B01G407500 chr2B 87.766 376 37 8 2984 3353 754024564 754024192 7.110000e-117 431.0
37 TraesCS7B01G407500 chr4A 79.861 288 42 9 2690 2973 693524313 693524038 2.820000e-46 196.0
38 TraesCS7B01G407500 chr5B 79.654 231 33 11 3054 3274 49890668 49890894 1.720000e-33 154.0
39 TraesCS7B01G407500 chr6D 90.566 53 4 1 2688 2739 32655939 32655887 6.420000e-08 69.4


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 TraesCS7B01G407500 chr7B 676532479 676536064 3585 True 6623.000000 6623 100.000000 1 3586 1 chr7B.!!$R3 3585
1 TraesCS7B01G407500 chr7B 676993419 676994789 1370 False 2008.000000 2008 93.064000 1214 2592 1 chr7B.!!$F5 1378
2 TraesCS7B01G407500 chr7B 676209732 676211264 1532 True 1253.000000 1253 81.696000 889 2422 1 chr7B.!!$R1 1533
3 TraesCS7B01G407500 chr7B 676424153 676425396 1243 False 747.000000 747 77.897000 1131 2422 1 chr7B.!!$F3 1291
4 TraesCS7B01G407500 chr7B 676859707 676863528 3821 True 744.033333 2501 91.399500 829 3586 6 chr7B.!!$R4 2757
5 TraesCS7B01G407500 chr7B 676216420 676217217 797 True 695.000000 695 82.695000 889 1682 1 chr7B.!!$R2 793
6 TraesCS7B01G407500 chr7B 312404423 312404969 546 False 244.000000 244 76.014000 3054 3586 1 chr7B.!!$F2 532
7 TraesCS7B01G407500 chr7D 597544909 597546573 1664 True 2564.000000 2564 94.388000 966 2640 1 chr7D.!!$R1 1674
8 TraesCS7B01G407500 chr7D 597568675 597570481 1806 True 2379.000000 2379 90.654000 889 2678 1 chr7D.!!$R2 1789
9 TraesCS7B01G407500 chr7D 597618615 597622296 3681 False 946.060000 2837 90.798400 1 3586 5 chr7D.!!$F3 3585
10 TraesCS7B01G407500 chr7D 597965351 597966471 1120 False 939.000000 939 82.067000 1310 2422 1 chr7D.!!$F1 1112
11 TraesCS7B01G407500 chr7D 597653071 597654309 1238 True 773.000000 773 78.341000 1134 2422 1 chr7D.!!$R3 1288
12 TraesCS7B01G407500 chr7D 597546569 597547338 769 False 434.500000 619 87.989000 2751 3473 2 chr7D.!!$F2 722
13 TraesCS7B01G407500 chr7A 690517135 690518783 1648 False 2442.000000 2442 93.333000 966 2626 1 chr7A.!!$F1 1660
14 TraesCS7B01G407500 chr7A 690194477 690196013 1536 True 1262.000000 1262 81.841000 889 2422 1 chr7A.!!$R1 1533
15 TraesCS7B01G407500 chr7A 690438469 690440273 1804 False 791.000000 1280 89.458333 889 2679 3 chr7A.!!$F2 1790
16 TraesCS7B01G407500 chr7A 690516413 690517136 723 True 350.500000 444 86.141000 2754 3452 2 chr7A.!!$R2 698
17 TraesCS7B01G407500 chr2D 72711480 72712257 777 False 977.000000 977 89.757000 1 760 1 chr2D.!!$F1 759
18 TraesCS7B01G407500 chr2D 603652394 603653193 799 False 835.000000 835 85.664000 1 831 1 chr2D.!!$F2 830
19 TraesCS7B01G407500 chr2A 735792559 735793353 794 False 754.000000 754 84.005000 1 831 1 chr2A.!!$F1 830

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
431 441 1.372004 CCATGCCGTGCAAACAGTG 60.372 57.895 2.68 0.0 43.62 3.66 F
1141 1602 0.460987 CCCTGCAGTCATCTTCGTCC 60.461 60.000 13.81 0.0 0.00 4.79 F
1507 1978 1.203199 AGGAGAAGACGGGGAAGTTCT 60.203 52.381 2.25 0.0 31.85 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1770 2274 0.622136 TCTTGGTGGCAGCTGATCAT 59.378 50.0 20.43 0.00 0.00 2.45 R
2029 2548 0.825010 AACTGGTCGTAGTCCGTGGT 60.825 55.0 0.00 0.00 38.97 4.16 R
2787 3346 1.067693 CATAGAAACTGCACGTGCGA 58.932 50.0 33.22 21.54 45.83 5.10 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
23 24 2.443887 AATTGTCAACATGCAGGCAC 57.556 45.000 0.00 0.00 0.00 5.01
98 99 3.623060 GGCTACATTGATGTACAGTGTGG 59.377 47.826 5.88 7.02 46.21 4.17
114 115 4.692625 CAGTGTGGTGTGAATAGAAGGAAG 59.307 45.833 0.00 0.00 0.00 3.46
160 162 2.109126 GCCACAGGGATCTTGCGTC 61.109 63.158 0.00 0.00 35.59 5.19
214 216 1.966451 GTCGGCTGGGTGAAAGTGG 60.966 63.158 0.00 0.00 0.00 4.00
238 240 9.470399 TGGAAATAGTGTCTCTGTAGTAATGTA 57.530 33.333 0.00 0.00 0.00 2.29
404 414 6.701841 AGCACTAACGAATGTATTCATCGAAT 59.298 34.615 1.03 0.00 36.61 3.34
413 423 9.784824 CGAATGTATTCATCGAATAGAAAGTTC 57.215 33.333 5.55 0.00 35.54 3.01
415 425 9.613428 AATGTATTCATCGAATAGAAAGTTCCA 57.387 29.630 0.00 0.00 35.54 3.53
431 441 1.372004 CCATGCCGTGCAAACAGTG 60.372 57.895 2.68 0.00 43.62 3.66
434 444 2.655044 GCCGTGCAAACAGTGTGC 60.655 61.111 9.00 9.00 42.55 4.57
454 465 3.327757 TGCTCCCTCACACTAGAAAATGT 59.672 43.478 0.00 0.00 0.00 2.71
455 466 4.530553 TGCTCCCTCACACTAGAAAATGTA 59.469 41.667 0.00 0.00 0.00 2.29
590 639 8.127327 CACTAGAAAATGATGCTTCCTTGTATG 58.873 37.037 0.00 0.00 0.00 2.39
743 800 6.071320 AGGATTTGAAGCTGTTTTAGGAAGT 58.929 36.000 0.00 0.00 0.00 3.01
803 860 6.039717 GGATAACATGGCATTCTAGAAAGCAA 59.960 38.462 28.25 21.02 36.81 3.91
876 1217 5.372547 AAGAAGGAAACTAATCAAACGGC 57.627 39.130 0.00 0.00 42.68 5.68
882 1223 4.082463 GGAAACTAATCAAACGGCCATGAA 60.082 41.667 2.24 0.00 0.00 2.57
908 1299 6.540438 TTCTTGTGGGGTAGTAAGATACAG 57.460 41.667 0.00 0.00 0.00 2.74
947 1344 9.806203 TTAATTAAATTGACTGCCATCTTGATG 57.194 29.630 3.77 3.77 0.00 3.07
1081 1542 5.326069 TGTCTCTTCTCCTGTTTAGCTAGT 58.674 41.667 0.00 0.00 0.00 2.57
1108 1569 1.613630 ATGGGGAGTTCCAGTCGCT 60.614 57.895 0.00 0.00 40.56 4.93
1124 1585 0.815615 CGCTACTGCTCCATTTCCCC 60.816 60.000 0.00 0.00 36.97 4.81
1141 1602 0.460987 CCCTGCAGTCATCTTCGTCC 60.461 60.000 13.81 0.00 0.00 4.79
1162 1623 2.743928 CCGTCCTGCTGCTCAACC 60.744 66.667 0.00 0.00 0.00 3.77
1203 1664 1.338484 TGCTTCAAGCGCATCTTCTCT 60.338 47.619 11.47 0.00 46.26 3.10
1387 1854 4.437772 CATACATGCATGTGTGTTCCAA 57.562 40.909 35.38 19.50 42.61 3.53
1400 1867 3.192422 TGTGTTCCAAGTTCCAACAGTTG 59.808 43.478 6.28 6.28 30.72 3.16
1507 1978 1.203199 AGGAGAAGACGGGGAAGTTCT 60.203 52.381 2.25 0.00 31.85 3.01
2029 2548 4.022329 TCAGAGATTACAAGAGCAACACGA 60.022 41.667 0.00 0.00 0.00 4.35
2184 2703 0.546122 ATGGCGCCTTCATGGAGTTA 59.454 50.000 29.70 1.81 37.96 2.24
2444 2963 6.824305 TCCAGTTCCTTCATTTTCAGATTC 57.176 37.500 0.00 0.00 0.00 2.52
2635 3193 9.780186 GGCTAGTCTTGTTTTAGATATATGGTT 57.220 33.333 0.00 0.00 0.00 3.67
2671 3229 8.677148 AGGTATTATGTGCGACTTCATTATTT 57.323 30.769 0.00 0.00 0.00 1.40
2672 3230 8.559536 AGGTATTATGTGCGACTTCATTATTTG 58.440 33.333 0.00 0.00 0.00 2.32
2673 3231 7.323656 GGTATTATGTGCGACTTCATTATTTGC 59.676 37.037 0.00 0.00 0.00 3.68
2674 3232 4.700268 ATGTGCGACTTCATTATTTGCA 57.300 36.364 0.00 0.00 0.00 4.08
2675 3233 4.700268 TGTGCGACTTCATTATTTGCAT 57.300 36.364 0.00 0.00 33.01 3.96
2676 3234 5.809719 TGTGCGACTTCATTATTTGCATA 57.190 34.783 0.00 0.00 33.01 3.14
2677 3235 6.375945 TGTGCGACTTCATTATTTGCATAT 57.624 33.333 0.00 0.00 33.01 1.78
2761 3319 1.875963 CCGTTGGATGGAAGTGTGC 59.124 57.895 0.00 0.00 0.00 4.57
2787 3346 2.537600 CTAGATGAGCAGGCCCCTT 58.462 57.895 0.00 0.00 0.00 3.95
2809 3379 1.155889 CACGTGCAGTTTCTATGCCA 58.844 50.000 0.82 0.00 43.18 4.92
2813 3383 2.675032 CGTGCAGTTTCTATGCCAGAGA 60.675 50.000 0.00 0.00 43.18 3.10
2822 3392 5.791336 TTCTATGCCAGAGATGATTACGT 57.209 39.130 0.00 0.00 33.83 3.57
2823 3393 5.791336 TCTATGCCAGAGATGATTACGTT 57.209 39.130 0.00 0.00 0.00 3.99
2824 3394 6.161855 TCTATGCCAGAGATGATTACGTTT 57.838 37.500 0.00 0.00 0.00 3.60
2825 3395 5.985530 TCTATGCCAGAGATGATTACGTTTG 59.014 40.000 0.00 0.00 0.00 2.93
2826 3396 3.270027 TGCCAGAGATGATTACGTTTGG 58.730 45.455 0.00 0.00 0.00 3.28
2827 3397 3.055458 TGCCAGAGATGATTACGTTTGGA 60.055 43.478 0.00 0.00 0.00 3.53
2828 3398 4.130118 GCCAGAGATGATTACGTTTGGAT 58.870 43.478 0.00 0.00 0.00 3.41
2829 3399 4.576463 GCCAGAGATGATTACGTTTGGATT 59.424 41.667 0.00 0.00 0.00 3.01
2899 3477 8.908903 TCCATATATTTAGGCAACAAATTTCGT 58.091 29.630 0.00 0.00 41.41 3.85
2906 3484 3.434299 AGGCAACAAATTTCGTACGGTAG 59.566 43.478 16.52 2.71 41.41 3.18
3017 3630 8.682128 TTTTTCCATCTTACACGCAATAATTC 57.318 30.769 0.00 0.00 0.00 2.17
3021 3634 6.765512 TCCATCTTACACGCAATAATTCATGA 59.234 34.615 0.00 0.00 0.00 3.07
3030 3643 6.581166 CACGCAATAATTCATGATTCCATCAG 59.419 38.462 0.00 0.00 43.53 2.90
3033 3646 8.291740 CGCAATAATTCATGATTCCATCAGTTA 58.708 33.333 0.00 0.00 43.53 2.24
3050 3663 7.387673 CCATCAGTTAGTGAACACAACAAGATA 59.612 37.037 7.68 0.00 39.19 1.98
3051 3664 8.939929 CATCAGTTAGTGAACACAACAAGATAT 58.060 33.333 7.68 0.00 39.19 1.63
3101 3714 1.920574 CACGATACTGCTTCCACGAAG 59.079 52.381 0.00 0.00 42.03 3.79
3108 3721 2.614057 ACTGCTTCCACGAAGAACAAAG 59.386 45.455 5.58 0.00 41.71 2.77
3120 3733 6.524586 CACGAAGAACAAAGAATATTCTTGCC 59.475 38.462 27.25 17.12 46.22 4.52
3126 3739 7.398332 AGAACAAAGAATATTCTTGCCTCCATT 59.602 33.333 27.25 15.01 46.22 3.16
3162 3961 1.164411 TTAGCAATGGAAGCACCGTG 58.836 50.000 0.00 0.00 42.61 4.94
3209 4008 8.682936 ATTGCTTCCAATAATCTCGTCTATTT 57.317 30.769 0.00 0.00 39.81 1.40
3287 4091 2.476821 ACGTTTCCAACTACGGTGAAG 58.523 47.619 0.00 0.00 41.81 3.02
3325 4130 9.342308 TGAATTTGCTTCCTACCTAGAATATTG 57.658 33.333 0.00 0.00 32.49 1.90
3353 4158 2.542020 TGTCCAACGAGATTGCTTCA 57.458 45.000 0.00 0.00 36.93 3.02
3360 4165 5.937540 TCCAACGAGATTGCTTCAAAGATAA 59.062 36.000 0.00 0.00 36.93 1.75
3490 4308 7.253422 ACAATATTGCATCCGAAAAGAGAAAG 58.747 34.615 15.48 0.00 0.00 2.62
3562 4387 8.908903 TCCAACAAAAAGAGTATTTGCTTCTTA 58.091 29.630 0.00 0.00 40.58 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.271379 CAGTGCCTGCATGTTGACAAT 59.729 47.619 0.00 0.00 0.00 2.71
8 9 0.039798 CACAGTGCCTGCATGTTGAC 60.040 55.000 0.00 0.00 34.37 3.18
20 21 1.462283 CAGTCACATGTAGCACAGTGC 59.538 52.381 18.55 18.55 45.46 4.40
23 24 1.799544 TGCAGTCACATGTAGCACAG 58.200 50.000 0.00 0.00 0.00 3.66
98 99 2.930682 GGCGACTTCCTTCTATTCACAC 59.069 50.000 0.00 0.00 0.00 3.82
160 162 2.746904 TGAATGGTAAGCATTCCACACG 59.253 45.455 0.00 0.00 38.04 4.49
291 296 7.410120 ACAAGAAACAAGAAGAATTGGAACT 57.590 32.000 0.00 0.00 34.36 3.01
404 414 1.271108 TGCACGGCATGGAACTTTCTA 60.271 47.619 0.00 0.00 31.71 2.10
413 423 1.372004 CACTGTTTGCACGGCATGG 60.372 57.895 0.00 0.00 38.76 3.66
415 425 1.359833 CACACTGTTTGCACGGCAT 59.640 52.632 0.00 0.00 38.76 4.40
431 441 3.402628 TTTTCTAGTGTGAGGGAGCAC 57.597 47.619 0.00 0.00 39.22 4.40
434 444 5.105146 AGCTACATTTTCTAGTGTGAGGGAG 60.105 44.000 0.00 0.00 0.00 4.30
454 465 7.391554 AGCATTCTTCTTGATACACAAAAGCTA 59.608 33.333 0.00 0.00 38.08 3.32
455 466 6.208204 AGCATTCTTCTTGATACACAAAAGCT 59.792 34.615 0.00 0.00 38.08 3.74
519 539 2.755655 TGGCCGAAAACTTTCTGTTCAA 59.244 40.909 0.00 0.00 38.03 2.69
562 611 3.950395 AGGAAGCATCATTTTCTAGTGCC 59.050 43.478 0.00 0.00 36.50 5.01
590 639 1.270358 ACCACGGAAGCACTCTTCTTC 60.270 52.381 5.21 0.00 46.12 2.87
660 711 8.627487 TTTTGCCTACGATTAGCAATTAATTG 57.373 30.769 21.54 21.54 45.24 2.32
679 736 1.616374 TCGTCAAATCCCCTTTTTGCC 59.384 47.619 0.00 0.00 34.73 4.52
756 813 8.712228 ATCCTTGATTTTCTTCCTAAAACTGT 57.288 30.769 0.00 0.00 31.50 3.55
803 860 5.221702 ACAGCCACAATTTGCTTCCTAAAAT 60.222 36.000 0.00 0.00 35.12 1.82
871 1212 2.489329 CACAAGAATCTTCATGGCCGTT 59.511 45.455 0.00 0.00 30.67 4.44
876 1217 3.091633 ACCCCACAAGAATCTTCATGG 57.908 47.619 13.39 13.39 30.67 3.66
882 1223 6.901300 TGTATCTTACTACCCCACAAGAATCT 59.099 38.462 0.00 0.00 31.25 2.40
935 1332 0.883153 GTGTGCACATCAAGATGGCA 59.117 50.000 24.69 16.77 42.91 4.92
937 1334 0.448990 CGGTGTGCACATCAAGATGG 59.551 55.000 28.63 8.41 42.91 3.51
999 1449 7.699391 TCCAGATCTACGTTTCGTTTAGTATTG 59.301 37.037 0.00 0.00 41.54 1.90
1081 1542 3.711704 CTGGAACTCCCCATCTTAGCTAA 59.288 47.826 5.94 5.94 35.33 3.09
1108 1569 0.255890 GCAGGGGAAATGGAGCAGTA 59.744 55.000 0.00 0.00 0.00 2.74
1124 1585 1.998315 CAAGGACGAAGATGACTGCAG 59.002 52.381 13.48 13.48 0.00 4.41
1141 1602 3.123620 GAGCAGCAGGACGGCAAG 61.124 66.667 0.00 0.00 42.62 4.01
1162 1623 1.360551 CGCACGACCCTAGATCAGG 59.639 63.158 0.00 0.00 45.07 3.86
1203 1664 4.713946 GTGATGGAGTCGCCCAAA 57.286 55.556 0.00 0.00 40.04 3.28
1400 1867 1.199789 TGAGCATGCACACGAAATTCC 59.800 47.619 21.98 0.00 0.00 3.01
1507 1978 2.029964 GAAGTTGGCACCGGTCGA 59.970 61.111 2.59 0.00 0.00 4.20
1767 2271 1.499368 TGGTGGCAGCTGATCATAGA 58.501 50.000 20.43 0.47 0.00 1.98
1770 2274 0.622136 TCTTGGTGGCAGCTGATCAT 59.378 50.000 20.43 0.00 0.00 2.45
2029 2548 0.825010 AACTGGTCGTAGTCCGTGGT 60.825 55.000 0.00 0.00 38.97 4.16
2184 2703 4.163839 CCATTCCTGAGAGGATTCTTGACT 59.836 45.833 0.00 0.00 45.34 3.41
2444 2963 7.049140 TCATTAGCTGCGTGATAATTATTCG 57.951 36.000 15.04 15.04 35.33 3.34
2455 2974 2.802816 GGGAGTATTCATTAGCTGCGTG 59.197 50.000 0.00 0.00 0.00 5.34
2456 2975 2.700897 AGGGAGTATTCATTAGCTGCGT 59.299 45.455 0.00 0.00 0.00 5.24
2457 2976 3.393089 AGGGAGTATTCATTAGCTGCG 57.607 47.619 0.00 0.00 0.00 5.18
2542 3066 6.089551 GCACTTTTCGATACGCATATCATACT 59.910 38.462 0.17 0.00 37.63 2.12
2547 3071 4.708868 TGCACTTTTCGATACGCATATC 57.291 40.909 0.00 0.00 34.84 1.63
2635 3193 3.880490 CACATAATACCTTTTGGCCGCTA 59.120 43.478 0.00 0.00 45.59 4.26
2672 3230 4.095483 GCAGTTCCCACTATATGCATATGC 59.905 45.833 26.21 21.09 42.50 3.14
2673 3231 5.494724 AGCAGTTCCCACTATATGCATATG 58.505 41.667 26.21 18.28 0.00 1.78
2674 3232 5.768980 AGCAGTTCCCACTATATGCATAT 57.231 39.130 22.31 22.31 0.00 1.78
2675 3233 5.187772 CCTAGCAGTTCCCACTATATGCATA 59.812 44.000 9.27 9.27 0.00 3.14
2676 3234 4.019860 CCTAGCAGTTCCCACTATATGCAT 60.020 45.833 3.79 3.79 0.00 3.96
2677 3235 3.324846 CCTAGCAGTTCCCACTATATGCA 59.675 47.826 0.00 0.00 0.00 3.96
2693 3251 3.953542 TCAGTAGTCTGATCCCTAGCA 57.046 47.619 0.00 0.00 44.58 3.49
2787 3346 1.067693 CATAGAAACTGCACGTGCGA 58.932 50.000 33.22 21.54 45.83 5.10
2794 3353 3.198417 TCATCTCTGGCATAGAAACTGCA 59.802 43.478 6.68 0.00 41.47 4.41
2809 3379 5.882557 AGCAAATCCAAACGTAATCATCTCT 59.117 36.000 0.00 0.00 0.00 3.10
2822 3392 8.962679 ACGGAAGTAATTATTAGCAAATCCAAA 58.037 29.630 0.00 0.00 46.88 3.28
2823 3393 8.514330 ACGGAAGTAATTATTAGCAAATCCAA 57.486 30.769 0.00 0.00 46.88 3.53
2899 3477 6.006275 ACAGTTATTACTCTCCCTACCGTA 57.994 41.667 0.00 0.00 30.26 4.02
2906 3484 9.984190 CCTATTTTCTACAGTTATTACTCTCCC 57.016 37.037 0.00 0.00 30.26 4.30
3021 3634 6.061441 TGTTGTGTTCACTAACTGATGGAAT 58.939 36.000 4.59 0.00 36.51 3.01
3030 3643 9.640963 AGACTATATCTTGTTGTGTTCACTAAC 57.359 33.333 4.59 7.58 31.62 2.34
3061 3674 7.297229 TCGTGATGCTTTCGAAACAATATAA 57.703 32.000 6.47 0.00 0.00 0.98
3101 3714 6.515272 TGGAGGCAAGAATATTCTTTGTTC 57.485 37.500 24.94 20.10 44.70 3.18
3162 3961 9.529325 GCAATTATTAGGGATTGTTTCCTAAAC 57.471 33.333 6.00 0.00 45.40 2.01
3209 4008 8.620416 CCTAATTACATGCAGCATAACAGTAAA 58.380 33.333 16.06 4.67 0.00 2.01
3279 4083 1.923356 AATTGGATTGGCTTCACCGT 58.077 45.000 0.00 0.00 43.94 4.83
3280 4084 2.230992 TCAAATTGGATTGGCTTCACCG 59.769 45.455 0.00 0.00 43.94 4.94
3287 4091 5.392272 GGAAGCAAATTCAAATTGGATTGGC 60.392 40.000 16.72 16.72 39.91 4.52
3325 4130 2.567985 TCTCGTTGGACAAGGGAAAAC 58.432 47.619 5.09 0.00 0.00 2.43
3524 4349 7.700656 ACTCTTTTTGTTGGAAGTATTGTTTCG 59.299 33.333 0.00 0.00 0.00 3.46
3533 4358 7.112452 AGCAAATACTCTTTTTGTTGGAAGT 57.888 32.000 0.00 0.00 36.63 3.01


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

AutoCloner maintained by Alex Coulton.