Multiple sequence alignment - TraesCS3A01G169700

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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 TraesCS3A01G169700 chr3A 100.000 3029 0 0 1 3029 177887060 177890088 0.000000e+00 5594.0
1 TraesCS3A01G169700 chr3A 96.320 1114 35 3 996 2109 177671495 177672602 0.000000e+00 1825.0
2 TraesCS3A01G169700 chr3A 83.293 1233 110 42 996 2188 159832018 159833194 0.000000e+00 1048.0
3 TraesCS3A01G169700 chr3A 82.247 1335 124 40 898 2190 166923334 166924597 0.000000e+00 1048.0
4 TraesCS3A01G169700 chr3A 82.809 1175 126 28 984 2101 181104886 181106041 0.000000e+00 981.0
5 TraesCS3A01G169700 chr3A 88.445 476 39 6 925 1389 159431268 159431738 7.330000e-156 560.0
6 TraesCS3A01G169700 chr3A 85.806 155 10 3 1680 1828 181105525 181105673 1.450000e-33 154.0
7 TraesCS3A01G169700 chr3A 93.976 83 0 3 818 898 520425851 520425772 1.470000e-23 121.0
8 TraesCS3A01G169700 chr3A 93.651 63 4 0 2288 2350 166928186 166928248 8.940000e-16 95.3
9 TraesCS3A01G169700 chr3A 100.000 31 0 0 2360 2390 166928232 166928262 1.170000e-04 58.4
10 TraesCS3A01G169700 chr3B 93.180 1217 66 7 996 2199 224286883 224285671 0.000000e+00 1772.0
11 TraesCS3A01G169700 chr3B 93.156 1125 61 4 996 2109 224164399 224163280 0.000000e+00 1637.0
12 TraesCS3A01G169700 chr3B 92.533 1125 68 4 996 2109 223677898 223676779 0.000000e+00 1598.0
13 TraesCS3A01G169700 chr3B 98.791 827 7 3 1 827 368887276 368886453 0.000000e+00 1469.0
14 TraesCS3A01G169700 chr3B 92.784 776 29 9 1680 2438 223558131 223557366 0.000000e+00 1098.0
15 TraesCS3A01G169700 chr3B 84.787 986 93 25 918 1874 203549095 203550052 0.000000e+00 937.0
16 TraesCS3A01G169700 chr3B 93.590 468 28 2 996 1461 223558707 223558240 0.000000e+00 697.0
17 TraesCS3A01G169700 chr3B 97.635 296 6 1 2734 3029 223557050 223556756 9.690000e-140 507.0
18 TraesCS3A01G169700 chr3B 96.035 227 2 2 2504 2730 223557365 223557146 2.220000e-96 363.0
19 TraesCS3A01G169700 chr3B 85.621 153 16 2 1680 1829 224163787 224163638 4.040000e-34 156.0
20 TraesCS3A01G169700 chr3B 88.372 129 14 1 2082 2209 221980972 221981100 1.450000e-33 154.0
21 TraesCS3A01G169700 chr3B 87.597 129 15 1 2082 2209 215386220 215386348 6.770000e-32 148.0
22 TraesCS3A01G169700 chr3B 87.597 129 15 1 2082 2209 221466865 221466993 6.770000e-32 148.0
23 TraesCS3A01G169700 chr3B 87.597 129 15 1 2082 2209 221913502 221913630 6.770000e-32 148.0
24 TraesCS3A01G169700 chr3B 87.500 96 11 1 2082 2176 215573130 215573225 3.190000e-20 110.0
25 TraesCS3A01G169700 chr3B 97.059 34 0 1 2357 2390 221985037 221985069 4.220000e-04 56.5
26 TraesCS3A01G169700 chr3D 92.694 1136 56 9 996 2109 152852021 152850891 0.000000e+00 1613.0
27 TraesCS3A01G169700 chr3D 93.271 1070 37 11 1680 2727 152701800 152700744 0.000000e+00 1544.0
28 TraesCS3A01G169700 chr3D 94.173 738 34 4 996 1727 152702412 152701678 0.000000e+00 1116.0
29 TraesCS3A01G169700 chr3D 83.899 1149 113 21 996 2103 149769939 149768822 0.000000e+00 1031.0
30 TraesCS3A01G169700 chr3D 88.352 807 64 11 996 1787 141410619 141411410 0.000000e+00 942.0
31 TraesCS3A01G169700 chr3D 98.653 297 3 1 2734 3029 152700686 152700390 2.680000e-145 525.0
32 TraesCS3A01G169700 chr3D 93.651 63 4 0 2288 2350 149548603 149548665 8.940000e-16 95.3
33 TraesCS3A01G169700 chr3D 90.769 65 3 1 2138 2199 152850886 152850822 1.940000e-12 84.2
34 TraesCS3A01G169700 chr3D 100.000 31 0 0 2360 2390 149548649 149548679 1.170000e-04 58.4
35 TraesCS3A01G169700 chrUn 98.671 828 8 2 1 826 306103585 306102759 0.000000e+00 1465.0
36 TraesCS3A01G169700 chrUn 99.251 668 5 0 1 668 438635676 438636343 0.000000e+00 1206.0
37 TraesCS3A01G169700 chr4B 99.139 813 7 0 1 813 168142833 168142021 0.000000e+00 1463.0
38 TraesCS3A01G169700 chr4B 84.043 940 76 29 1 904 462185875 462184974 0.000000e+00 837.0
39 TraesCS3A01G169700 chr4B 100.000 62 0 0 832 893 629857447 629857386 6.860000e-22 115.0
40 TraesCS3A01G169700 chr2B 99.006 805 6 2 1 804 103884748 103883945 0.000000e+00 1441.0
41 TraesCS3A01G169700 chr2B 82.927 287 45 4 530 813 52632702 52632417 3.880000e-64 255.0
42 TraesCS3A01G169700 chr2B 91.781 73 4 2 822 894 137187519 137187589 1.920000e-17 100.0
43 TraesCS3A01G169700 chr2A 97.255 838 17 4 1 834 166821178 166822013 0.000000e+00 1415.0
44 TraesCS3A01G169700 chr2A 82.534 292 47 4 530 818 55890762 55890472 1.390000e-63 254.0
45 TraesCS3A01G169700 chr2A 86.420 81 8 3 819 898 205911756 205911678 5.380000e-13 86.1
46 TraesCS3A01G169700 chr2A 84.375 64 8 1 837 898 218120652 218120715 9.070000e-06 62.1
47 TraesCS3A01G169700 chr7A 98.259 804 7 2 1 804 499906027 499905231 0.000000e+00 1400.0
48 TraesCS3A01G169700 chr1B 98.746 638 8 0 1 638 403409948 403410585 0.000000e+00 1134.0
49 TraesCS3A01G169700 chr7B 86.731 829 56 21 1 804 220965266 220966065 0.000000e+00 872.0
50 TraesCS3A01G169700 chr4A 84.483 116 16 2 465 578 716983643 716983758 2.470000e-21 113.0
51 TraesCS3A01G169700 chr6B 96.364 55 0 2 845 898 709529435 709529488 4.160000e-14 89.8


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 TraesCS3A01G169700 chr3A 177887060 177890088 3028 False 5594.000000 5594 100.000000 1 3029 1 chr3A.!!$F4 3028
1 TraesCS3A01G169700 chr3A 177671495 177672602 1107 False 1825.000000 1825 96.320000 996 2109 1 chr3A.!!$F3 1113
2 TraesCS3A01G169700 chr3A 159832018 159833194 1176 False 1048.000000 1048 83.293000 996 2188 1 chr3A.!!$F2 1192
3 TraesCS3A01G169700 chr3A 181104886 181106041 1155 False 567.500000 981 84.307500 984 2101 2 chr3A.!!$F6 1117
4 TraesCS3A01G169700 chr3A 166923334 166928262 4928 False 400.566667 1048 91.966000 898 2390 3 chr3A.!!$F5 1492
5 TraesCS3A01G169700 chr3B 224285671 224286883 1212 True 1772.000000 1772 93.180000 996 2199 1 chr3B.!!$R2 1203
6 TraesCS3A01G169700 chr3B 223676779 223677898 1119 True 1598.000000 1598 92.533000 996 2109 1 chr3B.!!$R1 1113
7 TraesCS3A01G169700 chr3B 368886453 368887276 823 True 1469.000000 1469 98.791000 1 827 1 chr3B.!!$R3 826
8 TraesCS3A01G169700 chr3B 203549095 203550052 957 False 937.000000 937 84.787000 918 1874 1 chr3B.!!$F1 956
9 TraesCS3A01G169700 chr3B 224163280 224164399 1119 True 896.500000 1637 89.388500 996 2109 2 chr3B.!!$R5 1113
10 TraesCS3A01G169700 chr3B 223556756 223558707 1951 True 666.250000 1098 95.011000 996 3029 4 chr3B.!!$R4 2033
11 TraesCS3A01G169700 chr3D 152700390 152702412 2022 True 1061.666667 1544 95.365667 996 3029 3 chr3D.!!$R2 2033
12 TraesCS3A01G169700 chr3D 149768822 149769939 1117 True 1031.000000 1031 83.899000 996 2103 1 chr3D.!!$R1 1107
13 TraesCS3A01G169700 chr3D 141410619 141411410 791 False 942.000000 942 88.352000 996 1787 1 chr3D.!!$F1 791
14 TraesCS3A01G169700 chr3D 152850822 152852021 1199 True 848.600000 1613 91.731500 996 2199 2 chr3D.!!$R3 1203
15 TraesCS3A01G169700 chrUn 306102759 306103585 826 True 1465.000000 1465 98.671000 1 826 1 chrUn.!!$R1 825
16 TraesCS3A01G169700 chrUn 438635676 438636343 667 False 1206.000000 1206 99.251000 1 668 1 chrUn.!!$F1 667
17 TraesCS3A01G169700 chr4B 168142021 168142833 812 True 1463.000000 1463 99.139000 1 813 1 chr4B.!!$R1 812
18 TraesCS3A01G169700 chr4B 462184974 462185875 901 True 837.000000 837 84.043000 1 904 1 chr4B.!!$R2 903
19 TraesCS3A01G169700 chr2B 103883945 103884748 803 True 1441.000000 1441 99.006000 1 804 1 chr2B.!!$R2 803
20 TraesCS3A01G169700 chr2A 166821178 166822013 835 False 1415.000000 1415 97.255000 1 834 1 chr2A.!!$F1 833
21 TraesCS3A01G169700 chr7A 499905231 499906027 796 True 1400.000000 1400 98.259000 1 804 1 chr7A.!!$R1 803
22 TraesCS3A01G169700 chr1B 403409948 403410585 637 False 1134.000000 1134 98.746000 1 638 1 chr1B.!!$F1 637
23 TraesCS3A01G169700 chr7B 220965266 220966065 799 False 872.000000 872 86.731000 1 804 1 chr7B.!!$F1 803

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
525 557 1.829222 GGAGAGGGTAATGGACAACGA 59.171 52.381 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2451 6554 0.305922 GATGCAGATACAACAGCCGC 59.694 55.0 0.0 0.0 0.0 6.53 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
525 557 1.829222 GGAGAGGGTAATGGACAACGA 59.171 52.381 0.00 0.00 0.00 3.85
954 1002 4.844349 TTTTCGATCTGATCTTTCCCCT 57.156 40.909 15.16 0.00 0.00 4.79
994 1050 4.498520 CCATCTCGCGCACTCCGT 62.499 66.667 8.75 0.00 39.71 4.69
998 1066 4.753877 CTCGCGCACTCCGTCGAA 62.754 66.667 8.75 0.00 41.92 3.71
1576 1846 2.157738 GGCTTCTTGTTGAGCTCATGT 58.842 47.619 19.04 0.00 0.00 3.21
2016 2548 1.064003 TGGCACCAGGTTCAGTGTAT 58.936 50.000 0.00 0.00 36.35 2.29
2043 2575 5.347635 CAGCTGTTAGTGTAAATCGTGCTAA 59.652 40.000 5.25 0.00 0.00 3.09
2219 2909 2.033407 CGCGAATTTCTTCAGCATCGAT 60.033 45.455 0.00 0.00 33.44 3.59
2350 6385 7.771183 ACTCTCTCATAGATTCAACAAGACTC 58.229 38.462 0.00 0.00 32.41 3.36
2438 6541 2.621338 AGTTGTATCTGCATGTGTCGG 58.379 47.619 0.00 0.00 0.00 4.79
2439 6542 2.028112 AGTTGTATCTGCATGTGTCGGT 60.028 45.455 0.00 0.00 0.00 4.69
2440 6543 2.293677 TGTATCTGCATGTGTCGGTC 57.706 50.000 0.00 0.00 0.00 4.79
2441 6544 1.824852 TGTATCTGCATGTGTCGGTCT 59.175 47.619 0.00 0.00 0.00 3.85
2442 6545 2.196749 GTATCTGCATGTGTCGGTCTG 58.803 52.381 0.00 0.00 0.00 3.51
2443 6546 0.742281 ATCTGCATGTGTCGGTCTGC 60.742 55.000 0.00 0.00 35.21 4.26
2444 6547 1.375140 CTGCATGTGTCGGTCTGCT 60.375 57.895 0.00 0.00 35.66 4.24
2445 6548 1.632948 CTGCATGTGTCGGTCTGCTG 61.633 60.000 0.00 0.00 35.66 4.41
2446 6549 3.031964 GCATGTGTCGGTCTGCTGC 62.032 63.158 0.00 0.00 0.00 5.25
2447 6550 2.433145 ATGTGTCGGTCTGCTGCG 60.433 61.111 0.00 0.00 0.00 5.18
2448 6551 3.226429 ATGTGTCGGTCTGCTGCGT 62.226 57.895 0.00 0.00 0.00 5.24
2449 6552 3.106407 GTGTCGGTCTGCTGCGTC 61.106 66.667 0.00 0.00 0.00 5.19
2450 6553 3.295273 TGTCGGTCTGCTGCGTCT 61.295 61.111 0.00 0.00 0.00 4.18
2451 6554 2.807045 GTCGGTCTGCTGCGTCTG 60.807 66.667 0.00 0.00 0.00 3.51
2452 6555 4.724602 TCGGTCTGCTGCGTCTGC 62.725 66.667 0.00 2.64 43.20 4.26
2462 6565 2.736995 GCGTCTGCGGCTGTTGTA 60.737 61.111 0.00 0.00 38.78 2.41
2463 6566 2.100631 GCGTCTGCGGCTGTTGTAT 61.101 57.895 0.00 0.00 38.78 2.29
2464 6567 1.999051 CGTCTGCGGCTGTTGTATC 59.001 57.895 0.00 0.00 0.00 2.24
2465 6568 0.458543 CGTCTGCGGCTGTTGTATCT 60.459 55.000 0.00 0.00 0.00 1.98
2466 6569 1.002366 GTCTGCGGCTGTTGTATCTG 58.998 55.000 0.00 0.00 0.00 2.90
2467 6570 0.740868 TCTGCGGCTGTTGTATCTGC 60.741 55.000 0.00 0.00 0.00 4.26
2468 6571 1.003959 TGCGGCTGTTGTATCTGCA 60.004 52.632 0.00 0.00 39.52 4.41
2469 6572 0.392863 TGCGGCTGTTGTATCTGCAT 60.393 50.000 0.00 0.00 37.21 3.96
2470 6573 0.305922 GCGGCTGTTGTATCTGCATC 59.694 55.000 0.00 0.00 34.71 3.91
2471 6574 0.940126 CGGCTGTTGTATCTGCATCC 59.060 55.000 0.00 0.00 34.71 3.51
2472 6575 1.473965 CGGCTGTTGTATCTGCATCCT 60.474 52.381 0.00 0.00 34.71 3.24
2473 6576 2.224042 CGGCTGTTGTATCTGCATCCTA 60.224 50.000 0.00 0.00 34.71 2.94
2474 6577 3.555795 CGGCTGTTGTATCTGCATCCTAT 60.556 47.826 0.00 0.00 34.71 2.57
2475 6578 4.392940 GGCTGTTGTATCTGCATCCTATT 58.607 43.478 0.00 0.00 34.71 1.73
2476 6579 4.823989 GGCTGTTGTATCTGCATCCTATTT 59.176 41.667 0.00 0.00 34.71 1.40
2477 6580 5.278169 GGCTGTTGTATCTGCATCCTATTTG 60.278 44.000 0.00 0.00 34.71 2.32
2478 6581 5.297776 GCTGTTGTATCTGCATCCTATTTGT 59.702 40.000 0.00 0.00 33.55 2.83
2479 6582 6.483307 GCTGTTGTATCTGCATCCTATTTGTA 59.517 38.462 0.00 0.00 33.55 2.41
2480 6583 7.173907 GCTGTTGTATCTGCATCCTATTTGTAT 59.826 37.037 0.00 0.00 33.55 2.29
2481 6584 8.978874 TGTTGTATCTGCATCCTATTTGTATT 57.021 30.769 0.00 0.00 0.00 1.89
2482 6585 9.407380 TGTTGTATCTGCATCCTATTTGTATTT 57.593 29.630 0.00 0.00 0.00 1.40
2483 6586 9.669353 GTTGTATCTGCATCCTATTTGTATTTG 57.331 33.333 0.00 0.00 0.00 2.32
2484 6587 7.874940 TGTATCTGCATCCTATTTGTATTTGC 58.125 34.615 0.00 0.00 0.00 3.68
2485 6588 6.964807 ATCTGCATCCTATTTGTATTTGCA 57.035 33.333 0.00 0.00 37.13 4.08
2486 6589 6.964807 TCTGCATCCTATTTGTATTTGCAT 57.035 33.333 0.00 0.00 37.90 3.96
2487 6590 6.973843 TCTGCATCCTATTTGTATTTGCATC 58.026 36.000 0.00 0.00 37.90 3.91
2488 6591 6.774170 TCTGCATCCTATTTGTATTTGCATCT 59.226 34.615 0.00 0.00 37.90 2.90
2489 6592 6.973843 TGCATCCTATTTGTATTTGCATCTC 58.026 36.000 0.00 0.00 34.03 2.75
2490 6593 6.774170 TGCATCCTATTTGTATTTGCATCTCT 59.226 34.615 0.00 0.00 34.03 3.10
2491 6594 7.286087 TGCATCCTATTTGTATTTGCATCTCTT 59.714 33.333 0.00 0.00 34.03 2.85
2492 6595 7.594015 GCATCCTATTTGTATTTGCATCTCTTG 59.406 37.037 0.00 0.00 0.00 3.02
2493 6596 8.627403 CATCCTATTTGTATTTGCATCTCTTGT 58.373 33.333 0.00 0.00 0.00 3.16
2494 6597 8.213518 TCCTATTTGTATTTGCATCTCTTGTC 57.786 34.615 0.00 0.00 0.00 3.18
2495 6598 8.049117 TCCTATTTGTATTTGCATCTCTTGTCT 58.951 33.333 0.00 0.00 0.00 3.41
2496 6599 8.341173 CCTATTTGTATTTGCATCTCTTGTCTC 58.659 37.037 0.00 0.00 0.00 3.36
2497 6600 7.934855 ATTTGTATTTGCATCTCTTGTCTCT 57.065 32.000 0.00 0.00 0.00 3.10
2499 6602 9.624373 ATTTGTATTTGCATCTCTTGTCTCTAT 57.376 29.630 0.00 0.00 0.00 1.98
2500 6603 9.453572 TTTGTATTTGCATCTCTTGTCTCTATT 57.546 29.630 0.00 0.00 0.00 1.73
2501 6604 8.654230 TGTATTTGCATCTCTTGTCTCTATTC 57.346 34.615 0.00 0.00 0.00 1.75
2502 6605 8.260114 TGTATTTGCATCTCTTGTCTCTATTCA 58.740 33.333 0.00 0.00 0.00 2.57
2540 6643 5.422331 TCTTACATTCAGAGTACCTCCTTGG 59.578 44.000 0.00 0.00 42.93 3.61
2727 6833 6.097412 AGGAAACAAAACTTCAGAGCTTGAAT 59.903 34.615 10.45 0.00 44.48 2.57
2730 6836 6.705863 ACAAAACTTCAGAGCTTGAATCTT 57.294 33.333 10.45 5.98 44.48 2.40
2731 6837 6.733145 ACAAAACTTCAGAGCTTGAATCTTC 58.267 36.000 10.45 0.00 44.48 2.87
2732 6838 5.956068 AAACTTCAGAGCTTGAATCTTCC 57.044 39.130 10.45 0.00 44.48 3.46
2851 7050 1.003355 GCTGCTGCTCTTGTGGGTA 60.003 57.895 8.53 0.00 36.03 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
731 766 7.562454 ACGAAAAAGTCCTTGTGATTTAGAA 57.438 32.000 0.00 0.00 0.00 2.10
893 941 1.301479 GTGCGTCGTCCCCTTCTTT 60.301 57.895 0.00 0.00 0.00 2.52
894 942 2.342648 GTGCGTCGTCCCCTTCTT 59.657 61.111 0.00 0.00 0.00 2.52
895 943 3.692406 GGTGCGTCGTCCCCTTCT 61.692 66.667 0.00 0.00 0.00 2.85
954 1002 0.461339 GAAGTTGGGCGGCGAAGATA 60.461 55.000 12.98 0.00 0.00 1.98
1084 1152 4.480480 TTCCTGCGGGAAGATCCT 57.520 55.556 23.60 0.00 45.72 3.24
1108 1176 4.699522 GAGCACGGCGGGGAACTT 62.700 66.667 12.74 0.00 0.00 2.66
1576 1846 0.605319 GTCATCTTGACCCCACGCAA 60.605 55.000 0.00 0.00 41.37 4.85
1829 2316 3.241530 AGAAGCACGTCCCAGGCA 61.242 61.111 0.00 0.00 0.00 4.75
2006 2506 5.574830 CACTAACAGCTGAGATACACTGAAC 59.425 44.000 23.35 0.00 34.36 3.18
2016 2548 5.161358 CACGATTTACACTAACAGCTGAGA 58.839 41.667 23.35 6.42 0.00 3.27
2043 2575 3.710677 AGCTAAGCTCTGATTCTGATGGT 59.289 43.478 0.00 0.00 30.62 3.55
2219 2909 7.215719 AGGTTTATATGATCGAGATTCGTGA 57.784 36.000 0.00 0.00 41.35 4.35
2358 6396 7.533426 GCATGACAAGTCTTGTTGAATCTATT 58.467 34.615 19.09 0.00 45.52 1.73
2443 6546 4.081030 CAACAGCCGCAGACGCAG 62.081 66.667 0.00 0.00 38.40 5.18
2444 6547 2.779951 ATACAACAGCCGCAGACGCA 62.780 55.000 0.00 0.00 38.40 5.24
2445 6548 2.025359 GATACAACAGCCGCAGACGC 62.025 60.000 0.00 0.00 38.22 5.19
2446 6549 0.458543 AGATACAACAGCCGCAGACG 60.459 55.000 0.00 0.00 39.67 4.18
2447 6550 1.002366 CAGATACAACAGCCGCAGAC 58.998 55.000 0.00 0.00 0.00 3.51
2448 6551 0.740868 GCAGATACAACAGCCGCAGA 60.741 55.000 0.00 0.00 0.00 4.26
2449 6552 1.020861 TGCAGATACAACAGCCGCAG 61.021 55.000 0.00 0.00 0.00 5.18
2450 6553 0.392863 ATGCAGATACAACAGCCGCA 60.393 50.000 0.00 0.00 0.00 5.69
2451 6554 0.305922 GATGCAGATACAACAGCCGC 59.694 55.000 0.00 0.00 0.00 6.53
2452 6555 0.940126 GGATGCAGATACAACAGCCG 59.060 55.000 0.00 0.00 29.02 5.52
2453 6556 2.338577 AGGATGCAGATACAACAGCC 57.661 50.000 0.00 0.00 40.18 4.85
2454 6557 5.297776 ACAAATAGGATGCAGATACAACAGC 59.702 40.000 0.00 0.00 0.00 4.40
2455 6558 6.932356 ACAAATAGGATGCAGATACAACAG 57.068 37.500 0.00 0.00 0.00 3.16
2456 6559 8.978874 AATACAAATAGGATGCAGATACAACA 57.021 30.769 0.00 0.00 0.00 3.33
2457 6560 9.669353 CAAATACAAATAGGATGCAGATACAAC 57.331 33.333 0.00 0.00 0.00 3.32
2458 6561 8.352201 GCAAATACAAATAGGATGCAGATACAA 58.648 33.333 0.00 0.00 32.80 2.41
2459 6562 7.501892 TGCAAATACAAATAGGATGCAGATACA 59.498 33.333 0.00 0.00 37.40 2.29
2460 6563 7.874940 TGCAAATACAAATAGGATGCAGATAC 58.125 34.615 0.00 0.00 37.40 2.24
2461 6564 8.640063 ATGCAAATACAAATAGGATGCAGATA 57.360 30.769 0.00 0.00 44.42 1.98
2462 6565 6.964807 TGCAAATACAAATAGGATGCAGAT 57.035 33.333 0.00 0.00 37.40 2.90
2463 6566 6.774170 AGATGCAAATACAAATAGGATGCAGA 59.226 34.615 0.00 0.00 44.42 4.26
2464 6567 6.978338 AGATGCAAATACAAATAGGATGCAG 58.022 36.000 0.00 0.00 44.42 4.41
2465 6568 6.774170 AGAGATGCAAATACAAATAGGATGCA 59.226 34.615 0.00 0.00 45.16 3.96
2466 6569 7.211966 AGAGATGCAAATACAAATAGGATGC 57.788 36.000 0.00 0.00 0.00 3.91
2467 6570 8.627403 ACAAGAGATGCAAATACAAATAGGATG 58.373 33.333 0.00 0.00 0.00 3.51
2468 6571 8.757982 ACAAGAGATGCAAATACAAATAGGAT 57.242 30.769 0.00 0.00 0.00 3.24
2469 6572 8.049117 AGACAAGAGATGCAAATACAAATAGGA 58.951 33.333 0.00 0.00 0.00 2.94
2470 6573 8.218338 AGACAAGAGATGCAAATACAAATAGG 57.782 34.615 0.00 0.00 0.00 2.57
2471 6574 9.107177 AGAGACAAGAGATGCAAATACAAATAG 57.893 33.333 0.00 0.00 0.00 1.73
2473 6576 7.934855 AGAGACAAGAGATGCAAATACAAAT 57.065 32.000 0.00 0.00 0.00 2.32
2474 6577 9.453572 AATAGAGACAAGAGATGCAAATACAAA 57.546 29.630 0.00 0.00 0.00 2.83
2475 6578 9.102757 GAATAGAGACAAGAGATGCAAATACAA 57.897 33.333 0.00 0.00 0.00 2.41
2476 6579 8.260114 TGAATAGAGACAAGAGATGCAAATACA 58.740 33.333 0.00 0.00 0.00 2.29
2477 6580 8.654230 TGAATAGAGACAAGAGATGCAAATAC 57.346 34.615 0.00 0.00 0.00 1.89
2478 6581 9.671279 TTTGAATAGAGACAAGAGATGCAAATA 57.329 29.630 0.00 0.00 0.00 1.40
2479 6582 8.571461 TTTGAATAGAGACAAGAGATGCAAAT 57.429 30.769 0.00 0.00 0.00 2.32
2480 6583 7.984422 TTTGAATAGAGACAAGAGATGCAAA 57.016 32.000 0.00 0.00 0.00 3.68
2481 6584 7.825761 TCATTTGAATAGAGACAAGAGATGCAA 59.174 33.333 0.00 0.00 0.00 4.08
2482 6585 7.333323 TCATTTGAATAGAGACAAGAGATGCA 58.667 34.615 0.00 0.00 0.00 3.96
2483 6586 7.783090 TCATTTGAATAGAGACAAGAGATGC 57.217 36.000 0.00 0.00 0.00 3.91
2488 6591 9.519191 TGGAAATTCATTTGAATAGAGACAAGA 57.481 29.630 6.24 0.00 43.41 3.02
2489 6592 9.784680 CTGGAAATTCATTTGAATAGAGACAAG 57.215 33.333 6.24 0.00 43.41 3.16
2490 6593 9.300681 ACTGGAAATTCATTTGAATAGAGACAA 57.699 29.630 6.24 0.00 43.41 3.18
2491 6594 8.868522 ACTGGAAATTCATTTGAATAGAGACA 57.131 30.769 6.24 2.41 43.41 3.41
2492 6595 9.171877 AGACTGGAAATTCATTTGAATAGAGAC 57.828 33.333 6.24 2.30 43.41 3.36
2493 6596 9.745018 AAGACTGGAAATTCATTTGAATAGAGA 57.255 29.630 6.24 0.00 43.41 3.10
2499 6602 9.912634 GAATGTAAGACTGGAAATTCATTTGAA 57.087 29.630 0.00 0.00 38.56 2.69
2500 6603 9.076781 TGAATGTAAGACTGGAAATTCATTTGA 57.923 29.630 0.00 0.00 31.08 2.69
2501 6604 9.350357 CTGAATGTAAGACTGGAAATTCATTTG 57.650 33.333 0.00 0.00 34.52 2.32
2502 6605 9.300681 TCTGAATGTAAGACTGGAAATTCATTT 57.699 29.630 0.00 0.00 34.52 2.32
2540 6643 0.972883 AGACAGAGGACAGCAAGGAC 59.027 55.000 0.00 0.00 0.00 3.85
2541 6644 1.722034 AAGACAGAGGACAGCAAGGA 58.278 50.000 0.00 0.00 0.00 3.36
2542 6645 2.149578 CAAAGACAGAGGACAGCAAGG 58.850 52.381 0.00 0.00 0.00 3.61
2543 6646 2.843701 ACAAAGACAGAGGACAGCAAG 58.156 47.619 0.00 0.00 0.00 4.01
2544 6647 3.118261 AGAACAAAGACAGAGGACAGCAA 60.118 43.478 0.00 0.00 0.00 3.91
2545 6648 2.435805 AGAACAAAGACAGAGGACAGCA 59.564 45.455 0.00 0.00 0.00 4.41
2546 6649 3.118905 AGAACAAAGACAGAGGACAGC 57.881 47.619 0.00 0.00 0.00 4.40
2727 6833 5.060427 TGGAATTTGACTGAAAGGGAAGA 57.940 39.130 0.00 0.00 39.30 2.87
2730 6836 4.527816 CCATTGGAATTTGACTGAAAGGGA 59.472 41.667 0.00 0.00 39.30 4.20
2731 6837 4.527816 TCCATTGGAATTTGACTGAAAGGG 59.472 41.667 1.94 0.00 39.30 3.95
2732 6838 5.726980 TCCATTGGAATTTGACTGAAAGG 57.273 39.130 1.94 0.00 39.30 3.11
2851 7050 1.043816 CCCAGCAGTATCCACGATCT 58.956 55.000 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.