Multiple sequence alignment - TraesCS4B01G226500

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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 TraesCS4B01G226500 chr4B 100.000 5618 0 0 1 5618 473573265 473567648 0.000000e+00 10375.0
1 TraesCS4B01G226500 chr4B 97.889 758 16 0 4861 5618 13293325 13294082 0.000000e+00 1312.0
2 TraesCS4B01G226500 chr4B 86.974 760 91 7 4862 5618 616140620 616141374 0.000000e+00 848.0
3 TraesCS4B01G226500 chr4B 90.244 123 10 2 1567 1689 124741906 124742026 5.830000e-35 159.0
4 TraesCS4B01G226500 chr4B 90.909 88 6 2 2276 2362 124742226 124742312 3.560000e-22 117.0
5 TraesCS4B01G226500 chr4D 89.671 1762 79 47 655 2364 386438906 386437196 0.000000e+00 2150.0
6 TraesCS4B01G226500 chr4D 92.932 1330 52 24 2758 4061 386436665 386435352 0.000000e+00 1897.0
7 TraesCS4B01G226500 chr4D 90.423 710 27 15 4146 4832 386433339 386432648 0.000000e+00 896.0
8 TraesCS4B01G226500 chr4D 86.512 215 18 6 2560 2764 386436950 386436737 5.660000e-55 226.0
9 TraesCS4B01G226500 chr4D 98.039 102 2 0 2459 2560 386437098 386436997 1.610000e-40 178.0
10 TraesCS4B01G226500 chr4D 90.517 116 11 0 1574 1689 88122203 88122318 2.710000e-33 154.0
11 TraesCS4B01G226500 chr4D 88.288 111 10 3 2350 2459 386437176 386437068 4.570000e-26 130.0
12 TraesCS4B01G226500 chr4D 90.805 87 8 0 2276 2362 88122518 88122604 3.560000e-22 117.0
13 TraesCS4B01G226500 chr4D 95.082 61 3 0 4088 4148 386434086 386434026 4.630000e-16 97.1
14 TraesCS4B01G226500 chr4A 88.934 1717 94 49 737 2390 67895174 67893491 0.000000e+00 2030.0
15 TraesCS4B01G226500 chr4A 92.247 1393 63 18 2871 4246 67892915 67891551 0.000000e+00 1932.0
16 TraesCS4B01G226500 chr4A 94.046 655 37 2 1 655 621798591 621797939 0.000000e+00 992.0
17 TraesCS4B01G226500 chr4A 93.598 656 34 6 1 655 612046965 612047613 0.000000e+00 972.0
18 TraesCS4B01G226500 chr4A 93.445 656 35 6 1 655 162135332 162135980 0.000000e+00 966.0
19 TraesCS4B01G226500 chr4A 95.062 567 24 2 4295 4860 67891456 67890893 0.000000e+00 889.0
20 TraesCS4B01G226500 chr4A 87.215 219 14 6 2560 2764 67893260 67893042 2.620000e-58 237.0
21 TraesCS4B01G226500 chr4A 89.655 116 12 0 1574 1689 500901218 500901333 1.260000e-31 148.0
22 TraesCS4B01G226500 chr4A 89.655 87 9 0 2276 2362 500901533 500901619 1.650000e-20 111.0
23 TraesCS4B01G226500 chr4A 85.714 84 3 4 655 729 67895470 67895387 4.670000e-11 80.5
24 TraesCS4B01G226500 chr3B 98.679 757 10 0 4862 5618 797059750 797060506 0.000000e+00 1343.0
25 TraesCS4B01G226500 chr3B 85.684 468 67 0 3284 3751 635220435 635220902 1.410000e-135 494.0
26 TraesCS4B01G226500 chr2A 94.656 655 34 1 1 655 507378430 507377777 0.000000e+00 1014.0
27 TraesCS4B01G226500 chr2B 94.512 656 35 1 1 656 36415524 36414870 0.000000e+00 1011.0
28 TraesCS4B01G226500 chr2B 87.352 759 92 3 4862 5618 470052613 470051857 0.000000e+00 867.0
29 TraesCS4B01G226500 chr2B 86.623 755 97 4 4861 5613 22846889 22847641 0.000000e+00 832.0
30 TraesCS4B01G226500 chr2B 86.605 754 99 2 4861 5613 22907086 22907838 0.000000e+00 832.0
31 TraesCS4B01G226500 chr1A 93.967 663 39 1 1 663 319326085 319325424 0.000000e+00 1002.0
32 TraesCS4B01G226500 chr1A 93.293 656 36 6 1 655 521280717 521280069 0.000000e+00 961.0
33 TraesCS4B01G226500 chr1A 91.097 483 39 4 3275 3755 60737103 60737583 0.000000e+00 651.0
34 TraesCS4B01G226500 chr1A 87.149 498 29 13 3112 3604 459321732 459322199 2.980000e-147 532.0
35 TraesCS4B01G226500 chr1A 85.532 470 60 7 3282 3747 474226184 474225719 8.460000e-133 484.0
36 TraesCS4B01G226500 chr1A 83.256 215 17 9 1945 2159 45118806 45118611 4.470000e-41 180.0
37 TraesCS4B01G226500 chr1A 93.243 74 5 0 2692 2765 459319687 459319760 5.950000e-20 110.0
38 TraesCS4B01G226500 chr1A 90.541 74 6 1 2488 2560 459319534 459319607 4.630000e-16 97.1
39 TraesCS4B01G226500 chr1A 89.831 59 6 0 2256 2314 45114438 45114380 6.040000e-10 76.8
40 TraesCS4B01G226500 chr7B 94.172 652 38 0 1 652 27952436 27953087 0.000000e+00 994.0
41 TraesCS4B01G226500 chr7B 85.921 760 103 4 4861 5618 658462089 658462846 0.000000e+00 808.0
42 TraesCS4B01G226500 chr6A 93.588 655 41 1 1 655 35953633 35954286 0.000000e+00 976.0
43 TraesCS4B01G226500 chr6B 87.270 762 93 1 4861 5618 658287362 658288123 0.000000e+00 867.0
44 TraesCS4B01G226500 chr5B 86.447 760 100 3 4861 5618 563930369 563929611 0.000000e+00 830.0
45 TraesCS4B01G226500 chr1D 91.368 475 37 4 3283 3755 62599375 62598903 0.000000e+00 647.0
46 TraesCS4B01G226500 chr1D 91.463 164 14 0 1884 2047 374473270 374473107 5.660000e-55 226.0
47 TraesCS4B01G226500 chr1D 90.083 121 11 1 1569 1689 62600895 62600776 7.540000e-34 156.0
48 TraesCS4B01G226500 chr1D 85.882 85 12 0 1938 2022 45273571 45273487 2.160000e-14 91.6
49 TraesCS4B01G226500 chr1D 91.525 59 5 0 2256 2314 45263206 45263148 1.300000e-11 82.4
50 TraesCS4B01G226500 chr1B 91.158 475 38 4 3283 3755 99753566 99753094 4.750000e-180 641.0
51 TraesCS4B01G226500 chr1B 87.166 561 56 11 3587 4141 98393784 98393234 1.720000e-174 623.0
52 TraesCS4B01G226500 chr1B 87.166 561 56 11 3587 4141 98441132 98440582 1.720000e-174 623.0
53 TraesCS4B01G226500 chr1B 83.682 239 21 12 1938 2176 65271435 65271215 5.700000e-50 209.0
54 TraesCS4B01G226500 chr1B 90.909 121 10 1 1569 1689 99755113 99754994 1.620000e-35 161.0
55 TraesCS4B01G226500 chr1B 88.889 63 7 0 2252 2314 65271123 65271061 1.680000e-10 78.7
56 TraesCS4B01G226500 chr3A 85.232 474 70 0 3284 3757 620218450 620217977 6.540000e-134 488.0
57 TraesCS4B01G226500 chr3A 89.167 120 13 0 1572 1691 620220797 620220678 3.510000e-32 150.0
58 TraesCS4B01G226500 chr3D 84.886 483 70 2 3271 3751 476553608 476554089 8.460000e-133 484.0
59 TraesCS4B01G226500 chr3D 88.983 118 13 0 1574 1691 476551269 476551386 4.540000e-31 147.0


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 TraesCS4B01G226500 chr4B 473567648 473573265 5617 True 10375.000000 10375 100.000000 1 5618 1 chr4B.!!$R1 5617
1 TraesCS4B01G226500 chr4B 13293325 13294082 757 False 1312.000000 1312 97.889000 4861 5618 1 chr4B.!!$F1 757
2 TraesCS4B01G226500 chr4B 616140620 616141374 754 False 848.000000 848 86.974000 4862 5618 1 chr4B.!!$F2 756
3 TraesCS4B01G226500 chr4D 386432648 386438906 6258 True 796.300000 2150 91.563857 655 4832 7 chr4D.!!$R1 4177
4 TraesCS4B01G226500 chr4A 67890893 67895470 4577 True 1033.700000 2030 89.834400 655 4860 5 chr4A.!!$R2 4205
5 TraesCS4B01G226500 chr4A 621797939 621798591 652 True 992.000000 992 94.046000 1 655 1 chr4A.!!$R1 654
6 TraesCS4B01G226500 chr4A 612046965 612047613 648 False 972.000000 972 93.598000 1 655 1 chr4A.!!$F2 654
7 TraesCS4B01G226500 chr4A 162135332 162135980 648 False 966.000000 966 93.445000 1 655 1 chr4A.!!$F1 654
8 TraesCS4B01G226500 chr3B 797059750 797060506 756 False 1343.000000 1343 98.679000 4862 5618 1 chr3B.!!$F2 756
9 TraesCS4B01G226500 chr2A 507377777 507378430 653 True 1014.000000 1014 94.656000 1 655 1 chr2A.!!$R1 654
10 TraesCS4B01G226500 chr2B 36414870 36415524 654 True 1011.000000 1011 94.512000 1 656 1 chr2B.!!$R1 655
11 TraesCS4B01G226500 chr2B 470051857 470052613 756 True 867.000000 867 87.352000 4862 5618 1 chr2B.!!$R2 756
12 TraesCS4B01G226500 chr2B 22846889 22847641 752 False 832.000000 832 86.623000 4861 5613 1 chr2B.!!$F1 752
13 TraesCS4B01G226500 chr2B 22907086 22907838 752 False 832.000000 832 86.605000 4861 5613 1 chr2B.!!$F2 752
14 TraesCS4B01G226500 chr1A 319325424 319326085 661 True 1002.000000 1002 93.967000 1 663 1 chr1A.!!$R3 662
15 TraesCS4B01G226500 chr1A 521280069 521280717 648 True 961.000000 961 93.293000 1 655 1 chr1A.!!$R5 654
16 TraesCS4B01G226500 chr1A 459319534 459322199 2665 False 246.366667 532 90.311000 2488 3604 3 chr1A.!!$F2 1116
17 TraesCS4B01G226500 chr7B 27952436 27953087 651 False 994.000000 994 94.172000 1 652 1 chr7B.!!$F1 651
18 TraesCS4B01G226500 chr7B 658462089 658462846 757 False 808.000000 808 85.921000 4861 5618 1 chr7B.!!$F2 757
19 TraesCS4B01G226500 chr6A 35953633 35954286 653 False 976.000000 976 93.588000 1 655 1 chr6A.!!$F1 654
20 TraesCS4B01G226500 chr6B 658287362 658288123 761 False 867.000000 867 87.270000 4861 5618 1 chr6B.!!$F1 757
21 TraesCS4B01G226500 chr5B 563929611 563930369 758 True 830.000000 830 86.447000 4861 5618 1 chr5B.!!$R1 757
22 TraesCS4B01G226500 chr1D 62598903 62600895 1992 True 401.500000 647 90.725500 1569 3755 2 chr1D.!!$R4 2186
23 TraesCS4B01G226500 chr1B 98393234 98393784 550 True 623.000000 623 87.166000 3587 4141 1 chr1B.!!$R1 554
24 TraesCS4B01G226500 chr1B 98440582 98441132 550 True 623.000000 623 87.166000 3587 4141 1 chr1B.!!$R2 554
25 TraesCS4B01G226500 chr1B 99753094 99755113 2019 True 401.000000 641 91.033500 1569 3755 2 chr1B.!!$R4 2186
26 TraesCS4B01G226500 chr3A 620217977 620220797 2820 True 319.000000 488 87.199500 1572 3757 2 chr3A.!!$R1 2185
27 TraesCS4B01G226500 chr3D 476551269 476554089 2820 False 315.500000 484 86.934500 1574 3751 2 chr3D.!!$F1 2177

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
912 1133 0.184451 ATACCGACCTCGAGGGCTTA 59.816 55.0 34.05 24.27 42.58 3.09 F
1498 1762 0.178958 AGAGGAGAGACCACCACGTT 60.179 55.0 0.00 0.00 42.04 3.99 F
2858 7080 0.104855 TTGATCATTCTCGCCCTCGG 59.895 55.0 0.00 0.00 36.13 4.63 F
4246 10648 0.039798 GTCAGTGGTGCTGCAATGTG 60.040 55.0 2.77 0.00 44.66 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2779 5180 0.249741 ACCGTACGAGTTTGCTTGCT 60.250 50.000 18.76 0.0 0.00 3.91 R
3328 7780 0.039074 CGTCGCCATCAGGTAGATCC 60.039 60.000 0.00 0.0 33.72 3.36 R
4286 10746 0.167470 CTGCATGTCAAGCGTTCAGG 59.833 55.000 0.00 0.0 33.85 3.86 R
5336 11821 2.224843 TGCCATCTGTCCAACACATCTT 60.225 45.455 0.00 0.0 33.23 2.40 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
74 75 6.002704 CCAATTGGATAAATCAGAGGAGGAG 58.997 44.000 20.50 0.00 37.39 3.69
349 353 0.252197 GACGCCATGGACTAGGGTTT 59.748 55.000 18.40 0.00 31.27 3.27
366 370 1.893801 GTTTGAGTCGAGGAGGAGGAA 59.106 52.381 0.00 0.00 0.00 3.36
513 518 2.435059 GGCTCAGCTGTCGGTTCC 60.435 66.667 14.67 3.52 0.00 3.62
565 570 3.618752 GCCTAATTTGCAAAAACCCGGAT 60.619 43.478 17.19 0.00 0.00 4.18
623 628 4.818005 GTGGTATCAATCTGCATGTGATGA 59.182 41.667 14.11 4.35 34.01 2.92
641 646 3.048337 TGACCGAATTGTGGTACTTCC 57.952 47.619 0.00 0.00 40.63 3.46
656 661 1.463444 ACTTCCGTGCAATTAACTCGC 59.537 47.619 0.00 0.00 0.00 5.03
657 662 1.732259 CTTCCGTGCAATTAACTCGCT 59.268 47.619 0.00 0.00 0.00 4.93
712 725 3.377172 CCTCACGTTTTCTTTGTCCTTGT 59.623 43.478 0.00 0.00 0.00 3.16
729 742 3.119637 CCTTGTTTCGTCTCTCTCTCTCC 60.120 52.174 0.00 0.00 0.00 3.71
735 953 1.745827 CGTCTCTCTCTCTCCCTCCAC 60.746 61.905 0.00 0.00 0.00 4.02
743 961 1.001760 TCTCCCTCCACCTGTAGCC 59.998 63.158 0.00 0.00 0.00 3.93
795 1016 9.866798 GAGATTATGAGAAAGCCATTTTTCTTT 57.133 29.630 2.88 0.00 45.00 2.52
796 1017 9.649167 AGATTATGAGAAAGCCATTTTTCTTTG 57.351 29.630 2.88 0.00 45.00 2.77
824 1045 4.832248 TCACCTTCGTGCTTTATTCATCT 58.168 39.130 0.00 0.00 40.04 2.90
890 1111 3.532155 CCGCTCCCCCTCTTCTCG 61.532 72.222 0.00 0.00 0.00 4.04
911 1132 1.076192 ATACCGACCTCGAGGGCTT 60.076 57.895 34.05 22.91 42.58 4.35
912 1133 0.184451 ATACCGACCTCGAGGGCTTA 59.816 55.000 34.05 24.27 42.58 3.09
914 1135 1.321074 ACCGACCTCGAGGGCTTAAG 61.321 60.000 34.05 21.47 42.58 1.85
918 1142 1.519455 CCTCGAGGGCTTAAGTGCG 60.519 63.158 24.62 3.55 0.00 5.34
964 1188 3.942748 CGAGTCTACCTCAAGAACTAGCT 59.057 47.826 0.00 0.00 40.48 3.32
974 1198 3.005897 TCAAGAACTAGCTGACAGGACAC 59.994 47.826 4.26 0.00 0.00 3.67
976 1200 1.618837 GAACTAGCTGACAGGACACCA 59.381 52.381 4.26 0.00 0.00 4.17
985 1210 0.469917 ACAGGACACCAGTGTGAAGG 59.530 55.000 8.43 0.00 45.76 3.46
1119 1344 2.433318 GCAAAGTCGCGGCTCTCT 60.433 61.111 16.36 0.00 0.00 3.10
1209 1438 3.367292 CCATTACGCAGCCATTTTCTTGT 60.367 43.478 0.00 0.00 0.00 3.16
1210 1439 4.236935 CATTACGCAGCCATTTTCTTGTT 58.763 39.130 0.00 0.00 0.00 2.83
1212 1441 3.559238 ACGCAGCCATTTTCTTGTTAG 57.441 42.857 0.00 0.00 0.00 2.34
1215 1444 3.505836 GCAGCCATTTTCTTGTTAGCTC 58.494 45.455 0.00 0.00 0.00 4.09
1219 1448 3.670627 GCCATTTTCTTGTTAGCTCACGG 60.671 47.826 0.00 0.00 0.00 4.94
1224 1453 3.603158 TCTTGTTAGCTCACGGCATTA 57.397 42.857 0.00 0.00 44.79 1.90
1227 1487 5.047847 TCTTGTTAGCTCACGGCATTATAC 58.952 41.667 0.00 0.00 44.79 1.47
1233 1493 4.079970 AGCTCACGGCATTATACTAGCTA 58.920 43.478 0.00 0.00 44.79 3.32
1496 1760 1.649390 CGAGAGGAGAGACCACCACG 61.649 65.000 0.00 0.00 42.04 4.94
1497 1761 0.609681 GAGAGGAGAGACCACCACGT 60.610 60.000 0.00 0.00 42.04 4.49
1498 1762 0.178958 AGAGGAGAGACCACCACGTT 60.179 55.000 0.00 0.00 42.04 3.99
1499 1763 0.244178 GAGGAGAGACCACCACGTTC 59.756 60.000 0.00 0.00 42.04 3.95
1500 1764 0.469331 AGGAGAGACCACCACGTTCA 60.469 55.000 0.00 0.00 42.04 3.18
1501 1765 0.608640 GGAGAGACCACCACGTTCAT 59.391 55.000 0.00 0.00 38.79 2.57
1503 1767 2.338500 GAGAGACCACCACGTTCATTC 58.662 52.381 0.00 0.00 0.00 2.67
1504 1768 1.971357 AGAGACCACCACGTTCATTCT 59.029 47.619 0.00 0.00 0.00 2.40
1505 1769 2.368875 AGAGACCACCACGTTCATTCTT 59.631 45.455 0.00 0.00 0.00 2.52
1506 1770 2.737252 GAGACCACCACGTTCATTCTTC 59.263 50.000 0.00 0.00 0.00 2.87
1507 1771 1.459592 GACCACCACGTTCATTCTTCG 59.540 52.381 0.00 0.00 0.00 3.79
1543 1830 1.302511 ATCTTCCGTGTGGTGTGGC 60.303 57.895 0.00 0.00 36.30 5.01
1696 1992 4.373116 CCTGCGCCAGGTACGTGT 62.373 66.667 14.08 0.00 45.82 4.49
1735 2031 7.886338 AGCGTTCATCATTATCAGTACTCATA 58.114 34.615 0.00 0.00 0.00 2.15
1759 2055 9.355103 ATAAGTGTTTGCTTAAAGACGGACACG 62.355 40.741 0.00 0.00 40.59 4.49
1813 2109 1.202486 TCGTCTCCAAGCTCGTTTTGT 60.202 47.619 0.00 0.00 0.00 2.83
1815 2111 2.798283 CGTCTCCAAGCTCGTTTTGTTA 59.202 45.455 0.00 0.00 0.00 2.41
1823 2119 2.488153 AGCTCGTTTTGTTATTGGCTCC 59.512 45.455 0.00 0.00 0.00 4.70
1824 2120 2.488153 GCTCGTTTTGTTATTGGCTCCT 59.512 45.455 0.00 0.00 0.00 3.69
1841 2137 2.290641 CTCCTTTGTTTCTTGGTGTCCG 59.709 50.000 0.00 0.00 0.00 4.79
1854 2150 1.837051 TGTCCGTGGAGAGTGGCTT 60.837 57.895 0.00 0.00 0.00 4.35
1855 2151 1.079750 GTCCGTGGAGAGTGGCTTC 60.080 63.158 0.00 0.00 0.00 3.86
1856 2152 2.266055 CCGTGGAGAGTGGCTTCC 59.734 66.667 0.00 0.00 0.00 3.46
1857 2153 2.286523 CCGTGGAGAGTGGCTTCCT 61.287 63.158 0.00 0.00 0.00 3.36
1858 2154 1.216710 CGTGGAGAGTGGCTTCCTC 59.783 63.158 0.00 0.00 0.00 3.71
1859 2155 1.536073 CGTGGAGAGTGGCTTCCTCA 61.536 60.000 0.00 0.00 0.00 3.86
1862 2158 1.270907 GGAGAGTGGCTTCCTCAAGA 58.729 55.000 0.00 0.00 0.00 3.02
1864 2160 2.175202 GAGAGTGGCTTCCTCAAGAGA 58.825 52.381 0.00 0.00 0.00 3.10
1902 2198 4.393062 GTGTGCAGCAACATCTACTACATT 59.607 41.667 0.00 0.00 31.49 2.71
2190 2486 1.331680 CGTACACTGCAACGTGTGTTC 60.332 52.381 19.03 11.46 46.77 3.18
2196 2492 4.994852 ACACTGCAACGTGTGTTCTATATT 59.005 37.500 10.66 0.00 45.74 1.28
2197 2493 6.160684 ACACTGCAACGTGTGTTCTATATTA 58.839 36.000 10.66 0.00 45.74 0.98
2198 2494 6.310467 ACACTGCAACGTGTGTTCTATATTAG 59.690 38.462 10.66 0.00 45.74 1.73
2199 2495 5.291128 ACTGCAACGTGTGTTCTATATTAGC 59.709 40.000 0.00 0.00 35.72 3.09
2201 2497 5.062934 TGCAACGTGTGTTCTATATTAGCAC 59.937 40.000 0.00 0.00 35.72 4.40
2202 2498 5.291128 GCAACGTGTGTTCTATATTAGCACT 59.709 40.000 0.00 0.00 35.72 4.40
2203 2499 6.183360 GCAACGTGTGTTCTATATTAGCACTT 60.183 38.462 0.00 0.00 35.72 3.16
2204 2500 6.887376 ACGTGTGTTCTATATTAGCACTTG 57.113 37.500 0.00 2.79 0.00 3.16
2236 2543 6.928979 CCATTTCGTGGGTACATAACATAA 57.071 37.500 0.00 0.00 44.79 1.90
2237 2544 6.721321 CCATTTCGTGGGTACATAACATAAC 58.279 40.000 0.00 0.00 44.79 1.89
2238 2545 6.316640 CCATTTCGTGGGTACATAACATAACA 59.683 38.462 0.00 0.00 44.79 2.41
2239 2546 7.012894 CCATTTCGTGGGTACATAACATAACAT 59.987 37.037 0.00 0.00 44.79 2.71
2396 2737 0.460635 CCCGCCCTTTCGTCGATTTA 60.461 55.000 0.00 0.00 0.00 1.40
2397 2738 0.648958 CCGCCCTTTCGTCGATTTAC 59.351 55.000 0.00 0.00 0.00 2.01
2398 2739 1.636988 CGCCCTTTCGTCGATTTACT 58.363 50.000 0.00 0.00 0.00 2.24
2399 2740 2.480073 CCGCCCTTTCGTCGATTTACTA 60.480 50.000 0.00 0.00 0.00 1.82
2400 2741 3.181397 CGCCCTTTCGTCGATTTACTAA 58.819 45.455 0.00 0.00 0.00 2.24
2442 2825 5.847111 TTGCATTAGATAGTGGAGTACGT 57.153 39.130 0.00 0.00 0.00 3.57
2443 2826 5.434352 TGCATTAGATAGTGGAGTACGTC 57.566 43.478 0.00 0.00 0.00 4.34
2483 2866 4.974645 AGTGGAGTACATGTCAAAAGGA 57.025 40.909 0.00 0.00 0.00 3.36
2567 3009 2.527123 TGGCCTGTGTACCGGGAA 60.527 61.111 6.32 0.00 42.95 3.97
2632 4519 4.382320 GGTTCCGTAGTGCCGCCA 62.382 66.667 0.00 0.00 0.00 5.69
2650 4545 2.931969 GCCAATGGCTTTTGCTGAATAC 59.068 45.455 18.47 0.00 46.69 1.89
2760 4951 1.153524 AAGACAGCATTGGCCCACA 59.846 52.632 0.00 0.00 42.56 4.17
2766 4957 2.967397 CATTGGCCCACAGCACTG 59.033 61.111 0.00 0.00 46.50 3.66
2779 5180 1.598962 GCACTGCTCAGTCTTGGCA 60.599 57.895 0.00 0.00 40.20 4.92
2781 5182 3.576004 CTGCTCAGTCTTGGCAGC 58.424 61.111 9.88 0.00 45.04 5.25
2782 5183 1.302271 CTGCTCAGTCTTGGCAGCA 60.302 57.895 9.88 0.00 45.04 4.41
2806 5207 3.387397 CAAACTCGTACGGTTTCCTTCT 58.613 45.455 23.23 7.35 35.09 2.85
2855 7077 2.787473 TTGTTGATCATTCTCGCCCT 57.213 45.000 0.00 0.00 0.00 5.19
2856 7078 2.315925 TGTTGATCATTCTCGCCCTC 57.684 50.000 0.00 0.00 0.00 4.30
2857 7079 1.212616 GTTGATCATTCTCGCCCTCG 58.787 55.000 0.00 0.00 0.00 4.63
2858 7080 0.104855 TTGATCATTCTCGCCCTCGG 59.895 55.000 0.00 0.00 36.13 4.63
2859 7081 1.043116 TGATCATTCTCGCCCTCGGT 61.043 55.000 0.00 0.00 36.13 4.69
2868 7090 2.279517 GCCCTCGGTCATACGCAG 60.280 66.667 0.00 0.00 0.00 5.18
2928 7163 1.740380 CGGCCGTCTCATCAGTCATTT 60.740 52.381 19.50 0.00 0.00 2.32
2933 7168 4.498241 CCGTCTCATCAGTCATTTTCTGA 58.502 43.478 0.00 0.00 44.37 3.27
3123 7359 1.073025 TTGCAGTCATCCACGCCTT 59.927 52.632 0.00 0.00 0.00 4.35
3185 7421 2.208326 CAGGGTTGCAGTGAAAACAC 57.792 50.000 0.15 2.27 0.00 3.32
3186 7422 1.111277 AGGGTTGCAGTGAAAACACC 58.889 50.000 0.15 5.21 29.55 4.16
3187 7423 0.820871 GGGTTGCAGTGAAAACACCA 59.179 50.000 0.15 0.00 0.00 4.17
3189 7425 1.559831 GTTGCAGTGAAAACACCAGC 58.440 50.000 0.00 0.00 0.00 4.85
3190 7426 0.459489 TTGCAGTGAAAACACCAGCC 59.541 50.000 0.00 0.00 0.00 4.85
3192 7428 1.391157 GCAGTGAAAACACCAGCCCA 61.391 55.000 0.00 0.00 0.00 5.36
3193 7429 1.331214 CAGTGAAAACACCAGCCCAT 58.669 50.000 0.00 0.00 0.00 4.00
3194 7430 1.000060 CAGTGAAAACACCAGCCCATG 60.000 52.381 0.00 0.00 0.00 3.66
3209 7523 3.459598 AGCCCATGGTTTAGATTAGAGCA 59.540 43.478 11.73 0.00 0.00 4.26
3217 7531 5.105310 TGGTTTAGATTAGAGCAGTCTGTCC 60.105 44.000 0.93 0.00 33.84 4.02
3223 7537 2.758736 AGAGCAGTCTGTCCAATGTC 57.241 50.000 0.93 0.00 0.00 3.06
3231 7577 5.300752 CAGTCTGTCCAATGTCACTAACTT 58.699 41.667 0.00 0.00 0.00 2.66
3248 7594 0.524414 CTTAGCTGTGCATGCAAGCA 59.476 50.000 34.98 25.34 43.35 3.91
3270 7616 7.593875 GCAATTAGCTAGAATCTTGATCGAT 57.406 36.000 0.00 0.00 41.15 3.59
3271 7617 7.454642 GCAATTAGCTAGAATCTTGATCGATG 58.545 38.462 0.54 0.00 41.15 3.84
3272 7618 7.412781 GCAATTAGCTAGAATCTTGATCGATGG 60.413 40.741 0.54 0.00 41.15 3.51
3273 7619 6.901081 TTAGCTAGAATCTTGATCGATGGA 57.099 37.500 0.54 0.00 0.00 3.41
3274 7620 5.999205 AGCTAGAATCTTGATCGATGGAT 57.001 39.130 0.54 0.78 34.96 3.41
3275 7621 5.722263 AGCTAGAATCTTGATCGATGGATG 58.278 41.667 0.54 0.00 31.51 3.51
3278 7624 5.287674 AGAATCTTGATCGATGGATGTGT 57.712 39.130 0.54 0.00 31.51 3.72
3279 7625 5.055144 AGAATCTTGATCGATGGATGTGTG 58.945 41.667 0.54 0.00 31.51 3.82
3280 7626 3.183793 TCTTGATCGATGGATGTGTGG 57.816 47.619 0.54 0.00 31.51 4.17
3281 7627 2.765699 TCTTGATCGATGGATGTGTGGA 59.234 45.455 0.54 0.00 31.51 4.02
3328 7780 2.335712 GGCCGCAGAAGTTCAAGGG 61.336 63.158 5.50 5.62 0.00 3.95
3839 8302 2.806244 ACGCACTAACCAAAAGTAGCTG 59.194 45.455 0.00 0.00 0.00 4.24
4078 9762 4.460948 AAAGCTGTGGCAATGATTAAGG 57.539 40.909 0.00 0.00 41.70 2.69
4099 9807 6.067217 AGGGTGAAGCATAATTAGTGTCTT 57.933 37.500 0.00 0.00 0.00 3.01
4104 9812 9.595823 GGTGAAGCATAATTAGTGTCTTTACTA 57.404 33.333 15.41 0.00 32.19 1.82
4143 9851 3.851105 GCATGAGTTGTCAGTGTCAAAGC 60.851 47.826 4.32 1.31 35.66 3.51
4160 10557 6.470877 TGTCAAAGCGTTATTTGTCTGAAAAC 59.529 34.615 8.89 0.00 40.36 2.43
4167 10564 5.502706 CGTTATTTGTCTGAAAACGGACACA 60.503 40.000 10.75 6.04 41.36 3.72
4209 10608 6.873076 GTCAGAAAGAAGAACAGAGTGATGAT 59.127 38.462 0.00 0.00 0.00 2.45
4239 10641 1.962822 ATGCGTGTCAGTGGTGCTG 60.963 57.895 0.00 0.00 46.34 4.41
4240 10642 4.017877 GCGTGTCAGTGGTGCTGC 62.018 66.667 0.00 0.00 44.66 5.25
4246 10648 0.039798 GTCAGTGGTGCTGCAATGTG 60.040 55.000 2.77 0.00 44.66 3.21
4249 10651 0.110295 AGTGGTGCTGCAATGTGGTA 59.890 50.000 2.77 0.00 0.00 3.25
4266 10726 4.097286 TGTGGTAAAGAACTCTGTTTTGCC 59.903 41.667 0.00 0.00 37.17 4.52
4280 10740 3.261580 GTTTTGCCATGGCCTAATGAAC 58.738 45.455 33.44 21.76 41.09 3.18
4282 10742 2.057137 TGCCATGGCCTAATGAACTC 57.943 50.000 33.44 2.26 41.09 3.01
4283 10743 1.565759 TGCCATGGCCTAATGAACTCT 59.434 47.619 33.44 0.00 41.09 3.24
4284 10744 2.025037 TGCCATGGCCTAATGAACTCTT 60.025 45.455 33.44 0.00 41.09 2.85
4285 10745 2.360165 GCCATGGCCTAATGAACTCTTG 59.640 50.000 27.24 0.00 34.56 3.02
4286 10746 2.360165 CCATGGCCTAATGAACTCTTGC 59.640 50.000 3.32 0.00 0.00 4.01
4287 10747 2.128771 TGGCCTAATGAACTCTTGCC 57.871 50.000 3.32 0.00 37.90 4.52
4288 10748 1.635487 TGGCCTAATGAACTCTTGCCT 59.365 47.619 3.32 0.00 38.23 4.75
4289 10749 2.019984 GGCCTAATGAACTCTTGCCTG 58.980 52.381 0.00 0.00 34.61 4.85
4290 10750 2.356125 GGCCTAATGAACTCTTGCCTGA 60.356 50.000 0.00 0.00 34.61 3.86
4291 10751 3.347216 GCCTAATGAACTCTTGCCTGAA 58.653 45.455 0.00 0.00 0.00 3.02
4292 10752 3.127721 GCCTAATGAACTCTTGCCTGAAC 59.872 47.826 0.00 0.00 0.00 3.18
4293 10753 3.372206 CCTAATGAACTCTTGCCTGAACG 59.628 47.826 0.00 0.00 0.00 3.95
4548 11008 0.396435 TCCACAACCTGACGATGCTT 59.604 50.000 0.00 0.00 0.00 3.91
4656 11116 1.144716 CTGCCGCTGCTCTGGATAA 59.855 57.895 0.70 0.00 38.71 1.75
4658 11118 1.889573 GCCGCTGCTCTGGATAACC 60.890 63.158 0.00 0.00 33.53 2.85
4676 11139 4.482952 AACCCTAGTTAATTAGCGCTGT 57.517 40.909 22.90 5.61 33.27 4.40
4686 11149 6.986817 AGTTAATTAGCGCTGTTACTGATCAT 59.013 34.615 22.90 0.00 0.00 2.45
4687 11150 5.914085 AATTAGCGCTGTTACTGATCATC 57.086 39.130 22.90 0.00 0.00 2.92
4688 11151 2.967599 AGCGCTGTTACTGATCATCA 57.032 45.000 10.39 0.00 0.00 3.07
4709 11173 7.556996 TCATCAGTCTAGTAAGAAGAACTACCC 59.443 40.741 0.00 0.00 32.16 3.69
4730 11194 0.612174 TGAGTAGGGAGCGAGCTTGT 60.612 55.000 2.14 0.00 0.00 3.16
4747 11219 6.457528 CGAGCTTGTTGTTTCTTTTCTTCTCT 60.458 38.462 0.00 0.00 0.00 3.10
4770 11242 2.368221 GGATTCAGAGAGAGGGTGATGG 59.632 54.545 0.00 0.00 0.00 3.51
4793 11265 4.512944 GCTGATGTTTGTCTCTTGTTCTGA 59.487 41.667 0.00 0.00 0.00 3.27
4854 11333 9.955102 TTCTCTTATTCTCATGCATATGCTATT 57.045 29.630 27.13 10.47 42.66 1.73
4897 11376 1.783365 AGGAAGGGAAAGCTGGTTTCT 59.217 47.619 25.85 11.26 43.73 2.52
4938 11417 2.610438 ATCATGACAACCCTTTGCCT 57.390 45.000 0.00 0.00 36.00 4.75
5336 11821 4.077108 ACATGGAATCGTAGGTATAGCGA 58.923 43.478 0.00 0.00 39.02 4.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 3.512724 TGCTGTAAGTACCCTTGTCCTAC 59.487 47.826 0.00 0.00 35.30 3.18
349 353 0.033991 CCTTCCTCCTCCTCGACTCA 60.034 60.000 0.00 0.00 0.00 3.41
366 370 3.411517 CGCACCATTCCCCTCCCT 61.412 66.667 0.00 0.00 0.00 4.20
497 502 1.739562 CTGGAACCGACAGCTGAGC 60.740 63.158 23.35 11.01 0.00 4.26
565 570 2.139917 GCGTGTCAGTACCAACATTGA 58.860 47.619 1.67 0.00 0.00 2.57
623 628 1.345415 ACGGAAGTACCACAATTCGGT 59.655 47.619 1.80 1.80 46.88 4.69
641 646 6.410914 CCTTATTTAAGCGAGTTAATTGCACG 59.589 38.462 0.00 0.00 41.26 5.34
656 661 7.334421 TCAGTGAAGCAGCTAACCTTATTTAAG 59.666 37.037 0.00 0.00 0.00 1.85
657 662 7.165485 TCAGTGAAGCAGCTAACCTTATTTAA 58.835 34.615 0.00 0.00 0.00 1.52
712 725 2.356330 GGAGGGAGAGAGAGAGACGAAA 60.356 54.545 0.00 0.00 0.00 3.46
729 742 1.351017 TCTTTTGGCTACAGGTGGAGG 59.649 52.381 0.00 0.00 0.00 4.30
735 953 2.479566 TGAGCTCTTTTGGCTACAGG 57.520 50.000 16.19 0.00 40.40 4.00
743 961 4.022589 TGCTTCTTTCCATGAGCTCTTTTG 60.023 41.667 16.19 9.79 0.00 2.44
824 1045 2.170607 GTGATTGGCTACTAGCTGGGAA 59.829 50.000 7.99 0.00 41.99 3.97
890 1111 2.728817 CCTCGAGGTCGGTATGCC 59.271 66.667 24.04 0.00 40.29 4.40
905 1126 4.394712 AGCGCGCACTTAAGCCCT 62.395 61.111 35.10 4.83 0.00 5.19
911 1132 1.153920 TTGATCGAGCGCGCACTTA 60.154 52.632 35.10 18.02 37.46 2.24
912 1133 2.432456 TTGATCGAGCGCGCACTT 60.432 55.556 35.10 17.13 37.46 3.16
914 1135 4.543736 CGTTGATCGAGCGCGCAC 62.544 66.667 35.10 27.04 42.86 5.34
964 1188 1.138859 CTTCACACTGGTGTCCTGTCA 59.861 52.381 3.16 0.00 45.45 3.58
974 1198 0.673985 TCGACTGTCCTTCACACTGG 59.326 55.000 1.55 0.00 0.00 4.00
976 1200 1.338337 CACTCGACTGTCCTTCACACT 59.662 52.381 1.55 0.00 0.00 3.55
985 1210 0.737715 GCCATGGTCACTCGACTGTC 60.738 60.000 14.67 0.00 42.21 3.51
1209 1438 4.523173 AGCTAGTATAATGCCGTGAGCTAA 59.477 41.667 0.00 0.00 44.23 3.09
1210 1439 4.079970 AGCTAGTATAATGCCGTGAGCTA 58.920 43.478 0.00 0.00 44.23 3.32
1212 1441 3.305398 AGCTAGTATAATGCCGTGAGC 57.695 47.619 0.00 0.00 44.14 4.26
1215 1444 3.921021 GCACTAGCTAGTATAATGCCGTG 59.079 47.826 25.63 11.46 37.91 4.94
1233 1493 2.031683 GCGACAACACAAAGTAAGCACT 59.968 45.455 0.00 0.00 36.19 4.40
1496 1760 1.012486 ACGGACGGCGAAGAATGAAC 61.012 55.000 16.62 0.00 0.00 3.18
1497 1761 0.734942 GACGGACGGCGAAGAATGAA 60.735 55.000 16.62 0.00 0.00 2.57
1498 1762 1.153901 GACGGACGGCGAAGAATGA 60.154 57.895 16.62 0.00 0.00 2.57
1499 1763 2.165301 GGACGGACGGCGAAGAATG 61.165 63.158 16.62 0.00 0.00 2.67
1500 1764 2.183555 GGACGGACGGCGAAGAAT 59.816 61.111 16.62 0.00 0.00 2.40
1501 1765 4.409218 CGGACGGACGGCGAAGAA 62.409 66.667 16.62 0.00 0.00 2.52
1543 1830 1.594862 GGCGATTTCAGTTCAGATCCG 59.405 52.381 0.00 0.00 0.00 4.18
1735 2031 3.942748 TGTCCGTCTTTAAGCAAACACTT 59.057 39.130 0.00 0.00 0.00 3.16
1790 2086 0.888619 AACGAGCTTGGAGACGATCA 59.111 50.000 5.79 0.00 0.00 2.92
1813 2109 4.898861 ACCAAGAAACAAAGGAGCCAATAA 59.101 37.500 0.00 0.00 0.00 1.40
1815 2111 3.070015 CACCAAGAAACAAAGGAGCCAAT 59.930 43.478 0.00 0.00 0.00 3.16
1823 2119 2.223479 CCACGGACACCAAGAAACAAAG 60.223 50.000 0.00 0.00 0.00 2.77
1824 2120 1.746220 CCACGGACACCAAGAAACAAA 59.254 47.619 0.00 0.00 0.00 2.83
1841 2137 0.687354 TTGAGGAAGCCACTCTCCAC 59.313 55.000 0.00 0.00 35.98 4.02
1854 2150 4.026052 TGCATCATACACTCTCTTGAGGA 58.974 43.478 0.00 0.00 44.29 3.71
1855 2151 4.397481 TGCATCATACACTCTCTTGAGG 57.603 45.455 0.00 0.00 44.29 3.86
1856 2152 4.750598 CCATGCATCATACACTCTCTTGAG 59.249 45.833 0.00 0.00 45.43 3.02
1857 2153 4.162888 ACCATGCATCATACACTCTCTTGA 59.837 41.667 0.00 0.00 0.00 3.02
1858 2154 4.272748 CACCATGCATCATACACTCTCTTG 59.727 45.833 0.00 0.00 0.00 3.02
1859 2155 4.080695 ACACCATGCATCATACACTCTCTT 60.081 41.667 0.00 0.00 0.00 2.85
1862 2158 3.538591 CACACCATGCATCATACACTCT 58.461 45.455 0.00 0.00 0.00 3.24
1902 2198 1.180456 TCTTGTCCAGCCGGTCGTTA 61.180 55.000 1.90 0.00 0.00 3.18
2201 2497 1.603802 ACGAAATGGACAGCACACAAG 59.396 47.619 0.00 0.00 0.00 3.16
2202 2498 1.333308 CACGAAATGGACAGCACACAA 59.667 47.619 0.00 0.00 0.00 3.33
2203 2499 0.943673 CACGAAATGGACAGCACACA 59.056 50.000 0.00 0.00 0.00 3.72
2204 2500 3.753774 CACGAAATGGACAGCACAC 57.246 52.632 0.00 0.00 0.00 3.82
2226 2533 9.687210 CAGTACCGTATACATGTTATGTTATGT 57.313 33.333 2.30 0.00 41.63 2.29
2232 2539 8.562052 TGAGTACAGTACCGTATACATGTTATG 58.438 37.037 2.30 2.23 0.00 1.90
2235 2542 6.039047 CCTGAGTACAGTACCGTATACATGTT 59.961 42.308 2.30 0.00 42.05 2.71
2236 2543 5.530171 CCTGAGTACAGTACCGTATACATGT 59.470 44.000 7.13 2.69 42.05 3.21
2237 2544 5.530171 ACCTGAGTACAGTACCGTATACATG 59.470 44.000 7.13 0.00 42.05 3.21
2238 2545 5.688807 ACCTGAGTACAGTACCGTATACAT 58.311 41.667 7.13 0.00 42.05 2.29
2239 2546 5.102953 ACCTGAGTACAGTACCGTATACA 57.897 43.478 7.13 0.00 42.05 2.29
2450 2833 9.220767 GACATGTACTCCACTATCTTTTTCTTT 57.779 33.333 0.00 0.00 0.00 2.52
2456 2839 7.607991 CCTTTTGACATGTACTCCACTATCTTT 59.392 37.037 0.00 0.00 0.00 2.52
2461 2844 6.428083 TTCCTTTTGACATGTACTCCACTA 57.572 37.500 0.00 0.00 0.00 2.74
2462 2845 4.974645 TCCTTTTGACATGTACTCCACT 57.025 40.909 0.00 0.00 0.00 4.00
2463 2846 6.385649 TTTTCCTTTTGACATGTACTCCAC 57.614 37.500 0.00 0.00 0.00 4.02
2490 2873 2.036475 TGCGTGCCCATTTTGTGTATTT 59.964 40.909 0.00 0.00 0.00 1.40
2630 4517 3.928375 GTGTATTCAGCAAAAGCCATTGG 59.072 43.478 0.00 0.00 0.00 3.16
2632 4519 4.082026 GGAGTGTATTCAGCAAAAGCCATT 60.082 41.667 0.00 0.00 0.00 3.16
2638 4533 4.890088 ACTACGGAGTGTATTCAGCAAAA 58.110 39.130 0.00 0.00 45.73 2.44
2639 4534 4.530710 ACTACGGAGTGTATTCAGCAAA 57.469 40.909 0.00 0.00 45.73 3.68
2650 4545 8.699283 AGCTAGTAAATTTAAACTACGGAGTG 57.301 34.615 0.00 0.00 45.73 3.51
2671 4705 2.358957 CACAAATGTGCAGCCTAGCTA 58.641 47.619 0.00 0.00 36.76 3.32
2740 4931 1.153524 TGGGCCAATGCTGTCTTGT 59.846 52.632 2.13 0.00 37.74 3.16
2760 4951 1.302351 GCCAAGACTGAGCAGTGCT 60.302 57.895 19.86 19.86 42.66 4.40
2766 4957 4.069869 TTGCTGCCAAGACTGAGC 57.930 55.556 0.00 0.00 0.00 4.26
2779 5180 0.249741 ACCGTACGAGTTTGCTTGCT 60.250 50.000 18.76 0.00 0.00 3.91
2780 5181 0.584876 AACCGTACGAGTTTGCTTGC 59.415 50.000 18.76 0.00 0.00 4.01
2781 5182 2.349155 GGAAACCGTACGAGTTTGCTTG 60.349 50.000 28.78 11.75 40.96 4.01
2782 5183 1.869132 GGAAACCGTACGAGTTTGCTT 59.131 47.619 28.78 14.53 40.96 3.91
2855 7077 2.183300 GCCACTGCGTATGACCGA 59.817 61.111 0.00 0.00 0.00 4.69
2856 7078 2.125713 TGCCACTGCGTATGACCG 60.126 61.111 0.00 0.00 41.78 4.79
2857 7079 1.815421 CCTGCCACTGCGTATGACC 60.815 63.158 0.00 0.00 41.78 4.02
2858 7080 2.464459 GCCTGCCACTGCGTATGAC 61.464 63.158 0.00 0.00 41.78 3.06
2859 7081 2.125147 GCCTGCCACTGCGTATGA 60.125 61.111 0.00 0.00 41.78 2.15
2928 7163 3.458118 TCCTTTCCCTTGACTGTTCAGAA 59.542 43.478 6.83 0.00 31.71 3.02
2933 7168 1.202940 GGCTCCTTTCCCTTGACTGTT 60.203 52.381 0.00 0.00 0.00 3.16
3186 7422 3.817647 GCTCTAATCTAAACCATGGGCTG 59.182 47.826 18.09 3.31 0.00 4.85
3187 7423 3.459598 TGCTCTAATCTAAACCATGGGCT 59.540 43.478 18.09 4.76 0.00 5.19
3189 7425 5.041191 ACTGCTCTAATCTAAACCATGGG 57.959 43.478 18.09 0.00 0.00 4.00
3190 7426 5.757320 CAGACTGCTCTAATCTAAACCATGG 59.243 44.000 11.19 11.19 0.00 3.66
3192 7428 6.407525 GGACAGACTGCTCTAATCTAAACCAT 60.408 42.308 1.25 0.00 0.00 3.55
3193 7429 5.105310 GGACAGACTGCTCTAATCTAAACCA 60.105 44.000 1.25 0.00 0.00 3.67
3194 7430 5.105310 TGGACAGACTGCTCTAATCTAAACC 60.105 44.000 1.25 0.00 0.00 3.27
3195 7431 5.967088 TGGACAGACTGCTCTAATCTAAAC 58.033 41.667 1.25 0.00 0.00 2.01
3198 7434 5.658634 ACATTGGACAGACTGCTCTAATCTA 59.341 40.000 1.25 0.00 0.00 1.98
3199 7435 4.469227 ACATTGGACAGACTGCTCTAATCT 59.531 41.667 1.25 0.00 0.00 2.40
3200 7436 4.764172 ACATTGGACAGACTGCTCTAATC 58.236 43.478 1.25 0.00 0.00 1.75
3201 7437 4.223700 TGACATTGGACAGACTGCTCTAAT 59.776 41.667 1.25 6.59 0.00 1.73
3203 7439 3.056536 GTGACATTGGACAGACTGCTCTA 60.057 47.826 1.25 0.00 0.00 2.43
3204 7440 1.973515 TGACATTGGACAGACTGCTCT 59.026 47.619 1.25 0.00 0.00 4.09
3205 7441 2.072298 GTGACATTGGACAGACTGCTC 58.928 52.381 1.25 0.00 0.00 4.26
3209 7523 5.552870 AAGTTAGTGACATTGGACAGACT 57.447 39.130 0.00 0.00 0.00 3.24
3217 7531 4.452114 TGCACAGCTAAGTTAGTGACATTG 59.548 41.667 11.51 4.78 33.99 2.82
3223 7537 2.743664 TGCATGCACAGCTAAGTTAGTG 59.256 45.455 18.46 10.37 35.19 2.74
3231 7577 1.179152 ATTGCTTGCATGCACAGCTA 58.821 45.000 34.01 30.46 43.20 3.32
3248 7594 7.901029 TCCATCGATCAAGATTCTAGCTAATT 58.099 34.615 0.00 0.00 0.00 1.40
3258 7604 4.132336 CCACACATCCATCGATCAAGATT 58.868 43.478 0.00 0.00 0.00 2.40
3259 7605 3.389002 TCCACACATCCATCGATCAAGAT 59.611 43.478 0.00 0.00 0.00 2.40
3261 7607 3.183793 TCCACACATCCATCGATCAAG 57.816 47.619 0.00 0.00 0.00 3.02
3264 7610 1.802960 GCATCCACACATCCATCGATC 59.197 52.381 0.00 0.00 0.00 3.69
3265 7611 1.141455 TGCATCCACACATCCATCGAT 59.859 47.619 0.00 0.00 0.00 3.59
3266 7612 0.540923 TGCATCCACACATCCATCGA 59.459 50.000 0.00 0.00 0.00 3.59
3267 7613 0.942252 CTGCATCCACACATCCATCG 59.058 55.000 0.00 0.00 0.00 3.84
3268 7614 1.315690 CCTGCATCCACACATCCATC 58.684 55.000 0.00 0.00 0.00 3.51
3270 7616 1.206811 TCCCTGCATCCACACATCCA 61.207 55.000 0.00 0.00 0.00 3.41
3271 7617 0.465097 CTCCCTGCATCCACACATCC 60.465 60.000 0.00 0.00 0.00 3.51
3272 7618 0.465097 CCTCCCTGCATCCACACATC 60.465 60.000 0.00 0.00 0.00 3.06
3273 7619 1.210204 ACCTCCCTGCATCCACACAT 61.210 55.000 0.00 0.00 0.00 3.21
3274 7620 1.847506 ACCTCCCTGCATCCACACA 60.848 57.895 0.00 0.00 0.00 3.72
3275 7621 1.377725 CACCTCCCTGCATCCACAC 60.378 63.158 0.00 0.00 0.00 3.82
3278 7624 1.917495 CATCACCTCCCTGCATCCA 59.083 57.895 0.00 0.00 0.00 3.41
3279 7625 1.527844 GCATCACCTCCCTGCATCC 60.528 63.158 0.00 0.00 35.96 3.51
3280 7626 1.099879 GTGCATCACCTCCCTGCATC 61.100 60.000 0.00 0.00 46.52 3.91
3281 7627 1.077212 GTGCATCACCTCCCTGCAT 60.077 57.895 0.00 0.00 46.52 3.96
3328 7780 0.039074 CGTCGCCATCAGGTAGATCC 60.039 60.000 0.00 0.00 33.72 3.36
3839 8302 5.277011 CCAAGCTAAAAGTGAAAGCAAAAGC 60.277 40.000 0.00 0.00 38.75 3.51
4063 9747 3.429410 GCTTCACCCTTAATCATTGCCAC 60.429 47.826 0.00 0.00 0.00 5.01
4078 9762 8.494016 AGTAAAGACACTAATTATGCTTCACC 57.506 34.615 0.00 0.00 0.00 4.02
4099 9807 5.581479 TGCAGTTTTGTCTCACGTTTAGTAA 59.419 36.000 0.00 0.00 0.00 2.24
4104 9812 3.376859 TCATGCAGTTTTGTCTCACGTTT 59.623 39.130 0.00 0.00 0.00 3.60
4143 9851 4.901881 GTGTCCGTTTTCAGACAAATAACG 59.098 41.667 0.00 0.00 44.19 3.18
4209 10608 3.715618 GACACGCATGTCGAACAAATA 57.284 42.857 14.88 0.00 45.66 1.40
4239 10641 5.438761 AACAGAGTTCTTTACCACATTGC 57.561 39.130 0.00 0.00 0.00 3.56
4240 10642 6.198966 GCAAAACAGAGTTCTTTACCACATTG 59.801 38.462 0.00 0.00 0.00 2.82
4246 10648 4.911514 TGGCAAAACAGAGTTCTTTACC 57.088 40.909 0.00 0.00 0.00 2.85
4249 10651 3.493176 GCCATGGCAAAACAGAGTTCTTT 60.493 43.478 32.08 0.00 41.49 2.52
4266 10726 2.360165 GGCAAGAGTTCATTAGGCCATG 59.640 50.000 5.01 0.00 39.66 3.66
4280 10740 0.514691 GTCAAGCGTTCAGGCAAGAG 59.485 55.000 0.00 0.00 34.64 2.85
4282 10742 0.877071 ATGTCAAGCGTTCAGGCAAG 59.123 50.000 0.00 0.00 34.64 4.01
4283 10743 0.592637 CATGTCAAGCGTTCAGGCAA 59.407 50.000 0.00 0.00 34.64 4.52
4284 10744 1.855213 GCATGTCAAGCGTTCAGGCA 61.855 55.000 6.41 0.00 38.47 4.75
4285 10745 1.154150 GCATGTCAAGCGTTCAGGC 60.154 57.895 0.00 0.00 0.00 4.85
4286 10746 0.167470 CTGCATGTCAAGCGTTCAGG 59.833 55.000 0.00 0.00 33.85 3.86
4287 10747 1.150827 TCTGCATGTCAAGCGTTCAG 58.849 50.000 0.00 0.00 33.85 3.02
4288 10748 1.264020 GTTCTGCATGTCAAGCGTTCA 59.736 47.619 0.00 0.00 33.85 3.18
4289 10749 1.722751 CGTTCTGCATGTCAAGCGTTC 60.723 52.381 0.00 0.00 33.85 3.95
4290 10750 0.235665 CGTTCTGCATGTCAAGCGTT 59.764 50.000 0.00 0.00 33.85 4.84
4291 10751 1.862123 CGTTCTGCATGTCAAGCGT 59.138 52.632 0.00 0.00 33.85 5.07
4292 10752 1.510623 GCGTTCTGCATGTCAAGCG 60.511 57.895 0.00 0.00 45.45 4.68
4293 10753 4.447365 GCGTTCTGCATGTCAAGC 57.553 55.556 0.00 0.00 45.45 4.01
4638 11098 1.144716 TTATCCAGAGCAGCGGCAG 59.855 57.895 12.44 0.00 44.61 4.85
4642 11102 1.000283 CTAGGGTTATCCAGAGCAGCG 60.000 57.143 0.00 0.00 38.24 5.18
4643 11103 2.043227 ACTAGGGTTATCCAGAGCAGC 58.957 52.381 0.00 0.00 38.24 5.25
4644 11104 5.871396 TTAACTAGGGTTATCCAGAGCAG 57.129 43.478 0.00 0.00 37.69 4.24
4653 11113 6.170846 ACAGCGCTAATTAACTAGGGTTAT 57.829 37.500 10.99 0.00 37.69 1.89
4656 11116 4.482952 AACAGCGCTAATTAACTAGGGT 57.517 40.909 10.99 0.00 35.01 4.34
4658 11118 6.270815 TCAGTAACAGCGCTAATTAACTAGG 58.729 40.000 10.99 0.00 0.00 3.02
4686 11149 5.879223 CGGGTAGTTCTTCTTACTAGACTGA 59.121 44.000 0.00 0.00 0.00 3.41
4687 11150 5.647225 ACGGGTAGTTCTTCTTACTAGACTG 59.353 44.000 0.00 0.00 0.00 3.51
4688 11151 5.647225 CACGGGTAGTTCTTCTTACTAGACT 59.353 44.000 0.00 0.00 0.00 3.24
4689 11152 5.645497 TCACGGGTAGTTCTTCTTACTAGAC 59.355 44.000 0.00 0.00 0.00 2.59
4690 11153 5.809001 TCACGGGTAGTTCTTCTTACTAGA 58.191 41.667 0.00 0.00 0.00 2.43
4691 11154 5.647225 ACTCACGGGTAGTTCTTCTTACTAG 59.353 44.000 0.00 0.00 0.00 2.57
4701 11165 2.022934 CTCCCTACTCACGGGTAGTTC 58.977 57.143 3.49 0.00 42.56 3.01
4709 11173 1.658686 AAGCTCGCTCCCTACTCACG 61.659 60.000 0.00 0.00 0.00 4.35
4730 11194 8.292444 TGAATCCAAGAGAAGAAAAGAAACAA 57.708 30.769 0.00 0.00 0.00 2.83
4747 11219 3.190383 TCACCCTCTCTCTGAATCCAA 57.810 47.619 0.00 0.00 0.00 3.53
4770 11242 4.512944 TCAGAACAAGAGACAAACATCAGC 59.487 41.667 0.00 0.00 0.00 4.26
4854 11333 1.340502 TGCGCATCCCCATAACAAAGA 60.341 47.619 5.66 0.00 0.00 2.52
4938 11417 3.662759 AAGTCTCCTCCAACCAAACAA 57.337 42.857 0.00 0.00 0.00 2.83
5336 11821 2.224843 TGCCATCTGTCCAACACATCTT 60.225 45.455 0.00 0.00 33.23 2.40


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

AutoCloner maintained by Alex Coulton.