Multiple sequence alignment - TraesCS3B01G443600

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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 TraesCS3B01G443600 chr3B 100.000 4394 0 0 1 4394 684113187 684108794 0.000000e+00 8115.0
1 TraesCS3B01G443600 chr3B 91.234 2407 99 32 768 3112 683790470 683788114 0.000000e+00 3173.0
2 TraesCS3B01G443600 chr3B 90.738 691 48 10 1 680 683791159 683790474 0.000000e+00 907.0
3 TraesCS3B01G443600 chr3B 97.505 481 8 1 3224 3700 683788116 683787636 0.000000e+00 819.0
4 TraesCS3B01G443600 chr3B 88.889 675 59 10 3311 3975 683782814 683782146 0.000000e+00 817.0
5 TraesCS3B01G443600 chr3B 87.701 683 59 12 3311 3982 684060390 684059722 0.000000e+00 773.0
6 TraesCS3B01G443600 chr3B 84.494 632 77 14 3684 4305 659078177 659078797 4.860000e-169 604.0
7 TraesCS3B01G443600 chr3B 90.265 452 22 4 3941 4392 683786694 683786265 4.930000e-159 571.0
8 TraesCS3B01G443600 chr3B 86.531 490 50 9 2627 3109 684067792 684067312 3.890000e-145 525.0
9 TraesCS3B01G443600 chr3B 87.826 345 33 2 3311 3655 684103534 684103199 3.180000e-106 396.0
10 TraesCS3B01G443600 chr3B 83.162 291 47 2 1 290 434032840 434032551 9.370000e-67 265.0
11 TraesCS3B01G443600 chr3B 93.162 117 7 1 3111 3226 481619510 481619626 2.100000e-38 171.0
12 TraesCS3B01G443600 chr3B 78.680 197 35 5 4116 4307 684081114 684080920 1.660000e-24 124.0
13 TraesCS3B01G443600 chr3D 90.160 2683 169 49 1 2648 519394165 519391543 0.000000e+00 3404.0
14 TraesCS3B01G443600 chr3D 95.455 924 23 7 3224 4134 519390016 519389099 0.000000e+00 1456.0
15 TraesCS3B01G443600 chr3D 85.233 1009 91 27 3311 4276 519385023 519384030 0.000000e+00 985.0
16 TraesCS3B01G443600 chr3D 95.763 472 16 3 2645 3112 519390485 519390014 0.000000e+00 758.0
17 TraesCS3B01G443600 chr3D 85.759 632 69 13 3684 4305 498117629 498118249 0.000000e+00 649.0
18 TraesCS3B01G443600 chr3D 87.425 501 48 8 2627 3112 519379968 519379468 2.970000e-156 562.0
19 TraesCS3B01G443600 chr3D 93.220 118 7 1 3110 3226 5478058 5478175 5.840000e-39 172.0
20 TraesCS3B01G443600 chr3D 97.753 89 2 0 3311 3399 519379345 519379257 2.120000e-33 154.0
21 TraesCS3B01G443600 chr3D 82.781 151 22 4 4246 4394 519389098 519388950 9.920000e-27 132.0
22 TraesCS3B01G443600 chr3D 92.424 66 4 1 4329 4394 519384016 519383952 4.680000e-15 93.5
23 TraesCS3B01G443600 chr3A 94.317 1179 39 9 3224 4394 654402786 654401628 0.000000e+00 1781.0
24 TraesCS3B01G443600 chr3A 90.572 1241 88 23 1888 3112 654404011 654402784 0.000000e+00 1616.0
25 TraesCS3B01G443600 chr3A 85.027 1122 97 34 3311 4390 654396776 654395684 0.000000e+00 1075.0
26 TraesCS3B01G443600 chr3A 93.935 709 32 4 954 1662 654404997 654404300 0.000000e+00 1061.0
27 TraesCS3B01G443600 chr3A 91.001 689 44 12 282 962 654407717 654407039 0.000000e+00 913.0
28 TraesCS3B01G443600 chr3A 85.495 717 68 16 3684 4392 636126885 636126197 0.000000e+00 715.0
29 TraesCS3B01G443600 chr3A 90.674 193 15 3 2922 3112 654397089 654396898 2.030000e-63 254.0
30 TraesCS3B01G443600 chr3A 97.391 115 3 0 2727 2841 654397620 654397506 3.470000e-46 196.0
31 TraesCS3B01G443600 chr3A 91.736 121 8 2 3108 3226 1250581 1250701 2.720000e-37 167.0
32 TraesCS3B01G443600 chr3A 91.736 121 8 2 3108 3226 1264292 1264412 2.720000e-37 167.0
33 TraesCS3B01G443600 chr3A 92.793 111 6 2 1787 1897 654404303 654404195 4.550000e-35 159.0
34 TraesCS3B01G443600 chr3A 94.048 84 5 0 2644 2727 654397739 654397656 1.280000e-25 128.0
35 TraesCS3B01G443600 chr3A 98.333 60 1 0 2834 2893 654397145 654397086 6.010000e-19 106.0
36 TraesCS3B01G443600 chr5D 89.855 690 44 12 973 1647 415261412 415262090 0.000000e+00 863.0
37 TraesCS3B01G443600 chr5B 89.420 690 45 14 973 1647 501237489 501238165 0.000000e+00 845.0
38 TraesCS3B01G443600 chr5A 83.438 960 99 43 974 1893 527844553 527845492 0.000000e+00 837.0
39 TraesCS3B01G443600 chr5A 92.683 123 8 1 3107 3228 602741271 602741149 4.520000e-40 176.0
40 TraesCS3B01G443600 chr1D 86.254 291 38 2 1 290 198747480 198747769 9.170000e-82 315.0
41 TraesCS3B01G443600 chr1D 89.922 129 10 3 3102 3228 445580647 445580520 3.520000e-36 163.0
42 TraesCS3B01G443600 chr7D 85.862 290 37 4 1 288 476970118 476969831 5.520000e-79 305.0
43 TraesCS3B01G443600 chr7D 83.618 293 42 4 1 290 207934363 207934652 2.010000e-68 270.0
44 TraesCS3B01G443600 chr4D 84.192 291 44 2 1 290 305665612 305665323 9.300000e-72 281.0
45 TraesCS3B01G443600 chr6D 83.505 291 45 3 1 290 156371901 156371613 7.240000e-68 268.0
46 TraesCS3B01G443600 chr6D 92.562 121 8 1 3110 3229 449134105 449133985 5.840000e-39 172.0
47 TraesCS3B01G443600 chr2A 83.505 291 45 3 1 290 484146078 484146366 7.240000e-68 268.0
48 TraesCS3B01G443600 chr2D 93.388 121 7 1 3110 3229 138294390 138294510 1.260000e-40 178.0
49 TraesCS3B01G443600 chr4B 94.017 117 6 1 3111 3226 169337231 169337115 4.520000e-40 176.0


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 TraesCS3B01G443600 chr3B 684108794 684113187 4393 True 8115.0000 8115 100.00000 1 4394 1 chr3B.!!$R6 4393
1 TraesCS3B01G443600 chr3B 683782146 683791159 9013 True 1257.4000 3173 91.72620 1 4392 5 chr3B.!!$R7 4391
2 TraesCS3B01G443600 chr3B 684059722 684060390 668 True 773.0000 773 87.70100 3311 3982 1 chr3B.!!$R2 671
3 TraesCS3B01G443600 chr3B 659078177 659078797 620 False 604.0000 604 84.49400 3684 4305 1 chr3B.!!$F2 621
4 TraesCS3B01G443600 chr3D 519379257 519394165 14908 True 943.0625 3404 90.87425 1 4394 8 chr3D.!!$R1 4393
5 TraesCS3B01G443600 chr3D 498117629 498118249 620 False 649.0000 649 85.75900 3684 4305 1 chr3D.!!$F2 621
6 TraesCS3B01G443600 chr3A 654395684 654407717 12033 True 728.9000 1781 92.80910 282 4394 10 chr3A.!!$R2 4112
7 TraesCS3B01G443600 chr3A 636126197 636126885 688 True 715.0000 715 85.49500 3684 4392 1 chr3A.!!$R1 708
8 TraesCS3B01G443600 chr5D 415261412 415262090 678 False 863.0000 863 89.85500 973 1647 1 chr5D.!!$F1 674
9 TraesCS3B01G443600 chr5B 501237489 501238165 676 False 845.0000 845 89.42000 973 1647 1 chr5B.!!$F1 674
10 TraesCS3B01G443600 chr5A 527844553 527845492 939 False 837.0000 837 83.43800 974 1893 1 chr5A.!!$F1 919

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
802 836 0.179067 TGACGGTCAACTGGTCAACC 60.179 55.000 8.68 0.0 37.72 3.77 F
1128 3251 1.004918 CCCGTCGAAGCAGAACCTT 60.005 57.895 0.00 0.0 0.00 3.50 F
1621 3751 1.067295 AGATCACCAAGGGCAAGACA 58.933 50.000 0.00 0.0 0.00 3.41 F
1658 3788 1.163420 AATGGCTTGCGTCGTTGTCA 61.163 50.000 0.00 0.0 0.00 3.58 F
1758 3904 2.135139 CGACACTGACAAAGCTTGCTA 58.865 47.619 0.00 0.0 0.00 3.49 F
3129 6578 0.032813 TACTCCCTCGGTCCGGAAAT 60.033 55.000 5.23 0.0 0.00 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2127 4479 0.548926 TACTGGCAGTCAATGGGGGA 60.549 55.0 25.80 0.00 0.00 4.81 R
3110 6559 0.032813 ATTTCCGGACCGAGGGAGTA 60.033 55.0 17.49 0.00 33.01 2.59 R
3111 6560 0.032813 TATTTCCGGACCGAGGGAGT 60.033 55.0 17.49 0.00 33.01 3.85 R
3113 6562 0.032813 AGTATTTCCGGACCGAGGGA 60.033 55.0 17.49 0.46 0.00 4.20 R
3210 6659 0.185416 GATCTACTCCCTCCGTCCCA 59.815 60.0 0.00 0.00 0.00 4.37 R
4308 19351 0.034337 TACAAACTCCGCCCAGTGTC 59.966 55.0 0.00 0.00 0.00 3.67 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
72 73 5.219633 GTCACGTGCAAATTTACTTGGAAT 58.780 37.500 11.67 0.00 0.00 3.01
76 77 5.218885 CGTGCAAATTTACTTGGAATGACA 58.781 37.500 0.00 0.00 0.00 3.58
86 87 3.591527 ACTTGGAATGACAGGGGTAATGA 59.408 43.478 0.00 0.00 0.00 2.57
219 220 4.404073 AGAATTGACCAACTAGAGAGCGAT 59.596 41.667 0.00 0.00 0.00 4.58
221 222 4.902443 TTGACCAACTAGAGAGCGATAG 57.098 45.455 0.00 0.00 0.00 2.08
393 394 2.041350 TCTTTGAGGGAGGTACGTCTCT 59.959 50.000 17.67 17.67 34.39 3.10
499 501 1.064060 GCCACGATTCCACTATGCAAC 59.936 52.381 0.00 0.00 0.00 4.17
539 543 4.020573 ACCGATACCTTCACACAAGATTGA 60.021 41.667 0.00 0.00 0.00 2.57
540 544 4.935205 CCGATACCTTCACACAAGATTGAA 59.065 41.667 0.00 0.00 0.00 2.69
592 596 6.198966 CCACAACTCAAAGTGCATTAACTTTC 59.801 38.462 0.00 0.00 45.10 2.62
737 770 9.703892 CCCCAAATTTCCAAATTTTTATTTTCC 57.296 29.630 7.19 0.00 43.91 3.13
742 775 9.785982 AATTTCCAAATTTTTATTTTCCTCGGA 57.214 25.926 0.00 0.00 35.16 4.55
798 832 3.196613 GACTGACGGTCAACTGGTC 57.803 57.895 12.54 11.68 43.94 4.02
799 833 0.387929 GACTGACGGTCAACTGGTCA 59.612 55.000 18.09 7.15 43.94 4.02
800 834 0.828022 ACTGACGGTCAACTGGTCAA 59.172 50.000 12.54 0.00 39.91 3.18
801 835 1.217882 CTGACGGTCAACTGGTCAAC 58.782 55.000 12.54 0.00 39.91 3.18
802 836 0.179067 TGACGGTCAACTGGTCAACC 60.179 55.000 8.68 0.00 37.72 3.77
993 3089 1.075896 GTCATCTCCCCCTCCGACT 60.076 63.158 0.00 0.00 0.00 4.18
1128 3251 1.004918 CCCGTCGAAGCAGAACCTT 60.005 57.895 0.00 0.00 0.00 3.50
1307 3430 2.359478 ATTTCGTCCCGCGGCTTT 60.359 55.556 22.85 0.00 41.72 3.51
1621 3751 1.067295 AGATCACCAAGGGCAAGACA 58.933 50.000 0.00 0.00 0.00 3.41
1658 3788 1.163420 AATGGCTTGCGTCGTTGTCA 61.163 50.000 0.00 0.00 0.00 3.58
1669 3799 3.851838 GCGTCGTTGTCAAAAATGTGGAT 60.852 43.478 0.00 0.00 0.00 3.41
1695 3825 3.326836 TGTCTATGAACCAATCGTGCA 57.673 42.857 0.00 0.00 33.20 4.57
1737 3883 9.527157 TTTTAGGACACAATGGATGAAGATTAA 57.473 29.630 0.00 0.00 0.00 1.40
1758 3904 2.135139 CGACACTGACAAAGCTTGCTA 58.865 47.619 0.00 0.00 0.00 3.49
1836 3991 6.095440 GGAAAGCCTGCTTTTCATATAAGTCA 59.905 38.462 17.44 0.00 45.16 3.41
1874 4030 8.929487 AGTTTGAAGGGGATAAATTTGTGTTTA 58.071 29.630 0.00 0.00 0.00 2.01
1894 4243 2.597455 ACCATGTGAAAAGGAACCAGG 58.403 47.619 0.00 0.00 0.00 4.45
1919 4268 7.070447 GGATAGCCATCTCATTCCATATAGTGA 59.930 40.741 0.00 0.00 0.00 3.41
1965 4316 9.223099 GGAATCCATCTTTGTTTTCATGAATTT 57.777 29.630 9.40 0.00 0.00 1.82
1967 4318 9.563748 AATCCATCTTTGTTTTCATGAATTTGT 57.436 25.926 9.40 0.00 0.00 2.83
2030 4382 2.989571 AGGAAGAACAGAATCACCCCTT 59.010 45.455 0.00 0.00 0.00 3.95
2046 4398 4.168088 CACCCCTTTCCTATCCACCTTAAT 59.832 45.833 0.00 0.00 0.00 1.40
2075 4427 7.227116 GGTAATGGTGTACAAACTACTGTCAAA 59.773 37.037 0.00 0.00 0.00 2.69
2092 4444 7.490962 CTGTCAAACAGTTGTTAAGGATACA 57.509 36.000 0.00 0.00 41.19 2.29
2108 4460 6.757897 AGGATACATTTCATTTTCGAAGCA 57.242 33.333 0.00 0.00 41.41 3.91
2121 4473 3.126001 TCGAAGCATTTCTGGTGTTCT 57.874 42.857 0.00 0.00 32.27 3.01
2122 4474 2.807967 TCGAAGCATTTCTGGTGTTCTG 59.192 45.455 0.00 0.00 32.27 3.02
2127 4479 3.701040 AGCATTTCTGGTGTTCTGTGTTT 59.299 39.130 0.00 0.00 0.00 2.83
2164 4520 5.059833 CCAGTAATCTGCCCTAACTGAATC 58.940 45.833 2.48 0.00 39.93 2.52
2227 4604 7.553334 TCAAGCTTTATAAGAACGGTAGATGT 58.447 34.615 0.00 0.00 0.00 3.06
2228 4605 7.491372 TCAAGCTTTATAAGAACGGTAGATGTG 59.509 37.037 0.00 0.00 0.00 3.21
2241 4618 8.833231 AACGGTAGATGTGATTTTATATCCAG 57.167 34.615 0.00 0.00 0.00 3.86
2277 4654 8.835734 AGCATTTATGGAATGGATGTATACCTA 58.164 33.333 0.00 0.00 44.34 3.08
2287 4667 6.215515 TGGATGTATACCTACTCTAAGGCT 57.784 41.667 0.00 0.00 40.62 4.58
2330 4710 6.318628 GTTCGTTATGATTTATTGGTGCACA 58.681 36.000 20.43 0.00 0.00 4.57
2463 4844 3.206034 TCAAGCTGTGCATTCATTTCG 57.794 42.857 0.00 0.00 0.00 3.46
2525 4907 5.239525 GCTTCCAACTCTATGTGTCAAGTTT 59.760 40.000 0.00 0.00 29.78 2.66
2576 4959 6.772233 TCCTGAACTCTTGATCAAAATTGACA 59.228 34.615 9.88 5.40 40.49 3.58
2586 4969 6.808829 TGATCAAAATTGACACAAGAAGCTT 58.191 32.000 0.00 0.00 40.49 3.74
3011 6460 5.268118 TGTGAGAGCAAGACCTGTATATG 57.732 43.478 0.00 0.00 0.00 1.78
3068 6517 3.938963 TCTTGGCGCTAGGACTTAATTTG 59.061 43.478 7.64 0.00 0.00 2.32
3093 6542 6.713450 GGGTGAGGTCAGAATTTACTTTTGTA 59.287 38.462 0.00 0.00 0.00 2.41
3098 6547 8.706322 AGGTCAGAATTTACTTTTGTATTGGT 57.294 30.769 0.00 0.00 34.49 3.67
3109 6558 6.449698 ACTTTTGTATTGGTGATGCTCTTTG 58.550 36.000 0.00 0.00 0.00 2.77
3110 6559 6.040842 ACTTTTGTATTGGTGATGCTCTTTGT 59.959 34.615 0.00 0.00 0.00 2.83
3111 6560 7.230510 ACTTTTGTATTGGTGATGCTCTTTGTA 59.769 33.333 0.00 0.00 0.00 2.41
3112 6561 6.494893 TTGTATTGGTGATGCTCTTTGTAC 57.505 37.500 0.00 0.00 0.00 2.90
3113 6562 5.804639 TGTATTGGTGATGCTCTTTGTACT 58.195 37.500 0.00 0.00 0.00 2.73
3114 6563 5.874810 TGTATTGGTGATGCTCTTTGTACTC 59.125 40.000 0.00 0.00 0.00 2.59
3115 6564 3.334583 TGGTGATGCTCTTTGTACTCC 57.665 47.619 0.00 0.00 0.00 3.85
3116 6565 2.027192 TGGTGATGCTCTTTGTACTCCC 60.027 50.000 0.00 0.00 0.00 4.30
3117 6566 2.237392 GGTGATGCTCTTTGTACTCCCT 59.763 50.000 0.00 0.00 0.00 4.20
3118 6567 3.526534 GTGATGCTCTTTGTACTCCCTC 58.473 50.000 0.00 0.00 0.00 4.30
3119 6568 2.166459 TGATGCTCTTTGTACTCCCTCG 59.834 50.000 0.00 0.00 0.00 4.63
3120 6569 0.895530 TGCTCTTTGTACTCCCTCGG 59.104 55.000 0.00 0.00 0.00 4.63
3121 6570 0.896226 GCTCTTTGTACTCCCTCGGT 59.104 55.000 0.00 0.00 0.00 4.69
3122 6571 1.135053 GCTCTTTGTACTCCCTCGGTC 60.135 57.143 0.00 0.00 0.00 4.79
3123 6572 1.477295 CTCTTTGTACTCCCTCGGTCC 59.523 57.143 0.00 0.00 0.00 4.46
3124 6573 0.172803 CTTTGTACTCCCTCGGTCCG 59.827 60.000 4.39 4.39 0.00 4.79
3125 6574 1.252904 TTTGTACTCCCTCGGTCCGG 61.253 60.000 12.29 0.00 0.00 5.14
3126 6575 2.141011 TTGTACTCCCTCGGTCCGGA 62.141 60.000 12.29 0.00 0.00 5.14
3127 6576 1.379044 GTACTCCCTCGGTCCGGAA 60.379 63.158 5.23 0.00 0.00 4.30
3128 6577 0.967380 GTACTCCCTCGGTCCGGAAA 60.967 60.000 5.23 0.00 0.00 3.13
3129 6578 0.032813 TACTCCCTCGGTCCGGAAAT 60.033 55.000 5.23 0.00 0.00 2.17
3130 6579 0.032813 ACTCCCTCGGTCCGGAAATA 60.033 55.000 5.23 0.00 0.00 1.40
3131 6580 0.388294 CTCCCTCGGTCCGGAAATAC 59.612 60.000 5.23 0.00 0.00 1.89
3132 6581 0.032813 TCCCTCGGTCCGGAAATACT 60.033 55.000 5.23 0.00 0.00 2.12
3133 6582 0.828677 CCCTCGGTCCGGAAATACTT 59.171 55.000 5.23 0.00 0.00 2.24
3134 6583 1.472728 CCCTCGGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 0.00 3.16
3135 6584 1.206371 CCTCGGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 0.00 3.16
3136 6585 2.354403 CCTCGGTCCGGAAATACTTGTT 60.354 50.000 5.23 0.00 0.00 2.83
3137 6586 2.671396 CTCGGTCCGGAAATACTTGTTG 59.329 50.000 5.23 0.00 0.00 3.33
3138 6587 2.299582 TCGGTCCGGAAATACTTGTTGA 59.700 45.455 5.23 0.00 0.00 3.18
3139 6588 3.068560 CGGTCCGGAAATACTTGTTGAA 58.931 45.455 5.23 0.00 0.00 2.69
3140 6589 3.124636 CGGTCCGGAAATACTTGTTGAAG 59.875 47.826 5.23 0.00 35.07 3.02
3141 6590 4.320870 GGTCCGGAAATACTTGTTGAAGA 58.679 43.478 5.23 0.00 32.98 2.87
3142 6591 4.758165 GGTCCGGAAATACTTGTTGAAGAA 59.242 41.667 5.23 0.00 32.98 2.52
3143 6592 5.239963 GGTCCGGAAATACTTGTTGAAGAAA 59.760 40.000 5.23 0.00 32.98 2.52
3144 6593 6.072119 GGTCCGGAAATACTTGTTGAAGAAAT 60.072 38.462 5.23 0.00 32.98 2.17
3145 6594 6.801862 GTCCGGAAATACTTGTTGAAGAAATG 59.198 38.462 5.23 0.00 32.98 2.32
3146 6595 6.072175 TCCGGAAATACTTGTTGAAGAAATGG 60.072 38.462 0.00 0.00 32.98 3.16
3147 6596 6.072175 CCGGAAATACTTGTTGAAGAAATGGA 60.072 38.462 0.00 0.00 32.98 3.41
3148 6597 7.362920 CCGGAAATACTTGTTGAAGAAATGGAT 60.363 37.037 0.00 0.00 32.98 3.41
3149 6598 7.485913 CGGAAATACTTGTTGAAGAAATGGATG 59.514 37.037 0.00 0.00 32.98 3.51
3150 6599 8.522830 GGAAATACTTGTTGAAGAAATGGATGA 58.477 33.333 0.00 0.00 32.98 2.92
3151 6600 9.912634 GAAATACTTGTTGAAGAAATGGATGAA 57.087 29.630 0.00 0.00 32.98 2.57
3154 6603 7.771927 ACTTGTTGAAGAAATGGATGAATCT 57.228 32.000 0.00 0.00 32.98 2.40
3155 6604 8.868522 ACTTGTTGAAGAAATGGATGAATCTA 57.131 30.769 0.00 0.00 32.98 1.98
3156 6605 8.954350 ACTTGTTGAAGAAATGGATGAATCTAG 58.046 33.333 0.00 0.00 32.98 2.43
3157 6606 9.170734 CTTGTTGAAGAAATGGATGAATCTAGA 57.829 33.333 0.00 0.00 0.00 2.43
3158 6607 8.498054 TGTTGAAGAAATGGATGAATCTAGAC 57.502 34.615 0.00 0.00 0.00 2.59
3159 6608 7.278646 TGTTGAAGAAATGGATGAATCTAGACG 59.721 37.037 0.00 0.00 0.00 4.18
3160 6609 6.878317 TGAAGAAATGGATGAATCTAGACGT 58.122 36.000 0.00 0.00 0.00 4.34
3161 6610 8.007405 TGAAGAAATGGATGAATCTAGACGTA 57.993 34.615 0.00 0.00 0.00 3.57
3162 6611 8.642432 TGAAGAAATGGATGAATCTAGACGTAT 58.358 33.333 0.00 0.00 0.00 3.06
3163 6612 9.482627 GAAGAAATGGATGAATCTAGACGTATT 57.517 33.333 0.00 0.00 0.00 1.89
3164 6613 9.838339 AAGAAATGGATGAATCTAGACGTATTT 57.162 29.630 0.00 0.00 0.00 1.40
3165 6614 9.838339 AGAAATGGATGAATCTAGACGTATTTT 57.162 29.630 0.00 0.00 0.00 1.82
3198 6647 9.512588 AGATACATCCAATTTTATCCATCACTC 57.487 33.333 0.00 0.00 0.00 3.51
3199 6648 6.624352 ACATCCAATTTTATCCATCACTCG 57.376 37.500 0.00 0.00 0.00 4.18
3200 6649 6.356556 ACATCCAATTTTATCCATCACTCGA 58.643 36.000 0.00 0.00 0.00 4.04
3201 6650 6.260936 ACATCCAATTTTATCCATCACTCGAC 59.739 38.462 0.00 0.00 0.00 4.20
3202 6651 5.739959 TCCAATTTTATCCATCACTCGACA 58.260 37.500 0.00 0.00 0.00 4.35
3203 6652 6.176896 TCCAATTTTATCCATCACTCGACAA 58.823 36.000 0.00 0.00 0.00 3.18
3204 6653 6.316140 TCCAATTTTATCCATCACTCGACAAG 59.684 38.462 0.00 0.00 0.00 3.16
3205 6654 6.094048 CCAATTTTATCCATCACTCGACAAGT 59.906 38.462 0.00 0.00 39.44 3.16
3206 6655 7.279981 CCAATTTTATCCATCACTCGACAAGTA 59.720 37.037 0.00 0.00 36.07 2.24
3207 6656 8.830580 CAATTTTATCCATCACTCGACAAGTAT 58.169 33.333 0.00 0.00 36.07 2.12
3208 6657 8.964476 ATTTTATCCATCACTCGACAAGTATT 57.036 30.769 0.00 0.00 36.07 1.89
3209 6658 8.786826 TTTTATCCATCACTCGACAAGTATTT 57.213 30.769 0.00 0.00 36.07 1.40
3210 6659 8.786826 TTTATCCATCACTCGACAAGTATTTT 57.213 30.769 0.00 0.00 36.07 1.82
3211 6660 6.668541 ATCCATCACTCGACAAGTATTTTG 57.331 37.500 0.00 0.00 36.07 2.44
3212 6661 4.935205 TCCATCACTCGACAAGTATTTTGG 59.065 41.667 0.00 0.00 36.07 3.28
3213 6662 4.094887 CCATCACTCGACAAGTATTTTGGG 59.905 45.833 0.00 0.00 36.07 4.12
3214 6663 4.610605 TCACTCGACAAGTATTTTGGGA 57.389 40.909 0.00 0.00 36.07 4.37
3215 6664 4.312443 TCACTCGACAAGTATTTTGGGAC 58.688 43.478 0.00 0.00 36.07 4.46
3216 6665 3.122948 CACTCGACAAGTATTTTGGGACG 59.877 47.826 0.00 0.00 36.07 4.79
3217 6666 2.671396 CTCGACAAGTATTTTGGGACGG 59.329 50.000 0.00 0.00 0.00 4.79
3218 6667 2.299582 TCGACAAGTATTTTGGGACGGA 59.700 45.455 0.00 0.00 0.00 4.69
3219 6668 2.671396 CGACAAGTATTTTGGGACGGAG 59.329 50.000 0.00 0.00 0.00 4.63
3220 6669 3.007635 GACAAGTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3221 6670 2.290705 ACAAGTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
3222 6671 1.961133 AGTATTTTGGGACGGAGGGA 58.039 50.000 0.00 0.00 0.00 4.20
3240 6689 6.127793 GGAGGGAGTAGATCTACACAACTAA 58.872 44.000 29.85 0.00 38.48 2.24
3582 7036 9.716507 CTTACCCATTTATTGAAGTGAATTACG 57.283 33.333 0.00 0.00 0.00 3.18
3621 7075 6.942005 TCAATTTATCATACCTGTGCCTATGG 59.058 38.462 0.00 0.00 0.00 2.74
3731 7837 6.152154 TCACTCATCTGATAAAACTGGACGTA 59.848 38.462 0.00 0.00 0.00 3.57
3749 7855 6.827251 TGGACGTATCTGTAAGTATTCTCAGT 59.173 38.462 0.00 0.00 33.80 3.41
3804 7911 2.094442 GTGAGTCTTCTAGAGGTGGTGC 60.094 54.545 1.31 0.00 0.00 5.01
3958 14040 7.706607 TGCACTGTAACTGCTTATACTAGATTG 59.293 37.037 0.00 0.00 35.53 2.67
4050 14163 5.711506 TCCAATGATGCTTGTGTTGTTATCT 59.288 36.000 0.00 0.00 0.00 1.98
4051 14164 6.883756 TCCAATGATGCTTGTGTTGTTATCTA 59.116 34.615 0.00 0.00 0.00 1.98
4052 14165 7.066163 TCCAATGATGCTTGTGTTGTTATCTAG 59.934 37.037 0.00 0.00 0.00 2.43
4053 14166 7.066163 CCAATGATGCTTGTGTTGTTATCTAGA 59.934 37.037 0.00 0.00 0.00 2.43
4054 14167 7.783090 ATGATGCTTGTGTTGTTATCTAGAG 57.217 36.000 0.00 0.00 0.00 2.43
4089 14202 6.168389 CAGCCCTTAAATTTTCAGATGCTTT 58.832 36.000 0.00 0.00 0.00 3.51
4122 14235 7.507956 TGTCGATAGGGTTTTCTAATGATCCTA 59.492 37.037 0.00 0.00 0.00 2.94
4169 19212 1.338200 ACCGTCATCTTGAGCAGTTCC 60.338 52.381 0.00 0.00 0.00 3.62
4176 19219 4.041567 TCATCTTGAGCAGTTCCAGGTTTA 59.958 41.667 0.00 0.00 0.00 2.01
4285 19328 2.930826 AAGGGTGACGACACTTGATT 57.069 45.000 17.14 5.16 44.63 2.57
4305 19348 1.919012 TGTCTTTGGACACTGGGCA 59.081 52.632 0.00 0.00 46.19 5.36
4306 19349 0.257328 TGTCTTTGGACACTGGGCAA 59.743 50.000 0.00 0.00 46.19 4.52
4307 19350 1.341482 TGTCTTTGGACACTGGGCAAA 60.341 47.619 0.00 0.00 46.19 3.68
4308 19351 1.338020 GTCTTTGGACACTGGGCAAAG 59.662 52.381 0.00 0.00 41.75 2.77
4309 19352 1.214175 TCTTTGGACACTGGGCAAAGA 59.786 47.619 8.15 8.15 38.89 2.52
4310 19353 1.338020 CTTTGGACACTGGGCAAAGAC 59.662 52.381 0.00 0.00 35.56 3.01
4311 19354 0.257328 TTGGACACTGGGCAAAGACA 59.743 50.000 0.00 0.00 0.00 3.41
4312 19355 0.465460 TGGACACTGGGCAAAGACAC 60.465 55.000 0.00 0.00 0.00 3.67
4313 19356 0.179018 GGACACTGGGCAAAGACACT 60.179 55.000 0.00 0.00 0.00 3.55
4314 19357 0.947244 GACACTGGGCAAAGACACTG 59.053 55.000 0.00 0.00 0.00 3.66
4315 19358 0.466189 ACACTGGGCAAAGACACTGG 60.466 55.000 0.00 0.00 0.00 4.00
4316 19359 1.151450 ACTGGGCAAAGACACTGGG 59.849 57.895 0.00 0.00 0.00 4.45
4317 19360 2.203480 TGGGCAAAGACACTGGGC 60.203 61.111 0.00 0.00 0.00 5.36
4365 19408 0.745845 CAGGGAATGAGCCTTGGACG 60.746 60.000 0.00 0.00 31.84 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 4.902443 TTCCAAGTAAATTTGCACGTGA 57.098 36.364 22.23 0.00 0.00 4.35
72 73 7.253421 ACCTATATACATCATTACCCCTGTCA 58.747 38.462 0.00 0.00 0.00 3.58
76 77 7.963060 ACCTACCTATATACATCATTACCCCT 58.037 38.462 0.00 0.00 0.00 4.79
104 105 7.835634 TCAAAGTTATGTCAATGCGTACATA 57.164 32.000 0.00 0.00 37.50 2.29
105 106 6.735678 TCAAAGTTATGTCAATGCGTACAT 57.264 33.333 0.25 0.25 39.56 2.29
108 109 6.795098 ACTTCAAAGTTATGTCAATGCGTA 57.205 33.333 0.00 0.00 35.21 4.42
219 220 4.625311 CGCAATGTATCATTATGACCGCTA 59.375 41.667 0.00 0.00 0.00 4.26
221 222 3.431912 TCGCAATGTATCATTATGACCGC 59.568 43.478 0.00 0.00 0.00 5.68
235 236 7.542890 TGGTCAATGTTAAATATTCGCAATGT 58.457 30.769 0.00 0.00 0.00 2.71
393 394 1.303236 CCGCCACATTCCTCCAACA 60.303 57.895 0.00 0.00 0.00 3.33
446 447 1.867919 CGAGGGCGCGAGGAGAATAT 61.868 60.000 12.10 0.00 0.00 1.28
539 543 2.543777 TTAAGTTGTGGAGCTCGCTT 57.456 45.000 7.83 9.05 0.00 4.68
540 544 2.744202 CAATTAAGTTGTGGAGCTCGCT 59.256 45.455 7.83 0.00 33.01 4.93
711 744 9.703892 GGAAAATAAAAATTTGGAAATTTGGGG 57.296 29.630 10.15 0.00 45.16 4.96
801 835 3.829272 AACGGTCGACGGTTGACGG 62.829 63.158 32.62 25.81 41.94 4.79
802 836 2.353839 AACGGTCGACGGTTGACG 60.354 61.111 32.62 20.97 41.94 4.35
993 3089 1.971167 GGTGCTGTCCATGGCGAAA 60.971 57.895 6.96 0.00 0.00 3.46
1478 3607 2.125912 CAGGCGAGAGGGTCAACG 60.126 66.667 0.00 0.00 0.00 4.10
1621 3751 3.941483 CCATTCGTACCTTGAAAGCATCT 59.059 43.478 0.00 0.00 0.00 2.90
1669 3799 6.128391 GCACGATTGGTTCATAGACAAACTTA 60.128 38.462 0.00 0.00 0.00 2.24
1695 3825 8.512138 GTGTCCTAAAATGCTACAAACTGTATT 58.488 33.333 0.00 0.00 31.66 1.89
1737 3883 0.657840 GCAAGCTTTGTCAGTGTCGT 59.342 50.000 0.00 0.00 0.00 4.34
1795 3941 4.395231 GGCTTTCCTGACAGTAATACCAAC 59.605 45.833 0.93 0.00 0.00 3.77
1836 3991 4.398319 CCCTTCAAACTACACCAATGTCT 58.602 43.478 0.00 0.00 40.48 3.41
1874 4030 2.176798 TCCTGGTTCCTTTTCACATGGT 59.823 45.455 0.00 0.00 0.00 3.55
1894 4243 7.925483 GTCACTATATGGAATGAGATGGCTATC 59.075 40.741 0.99 0.99 0.00 2.08
1919 4268 5.191727 TCCCATGATTGTAGTTTGGATGT 57.808 39.130 0.00 0.00 0.00 3.06
1996 4347 5.934625 TCTGTTCTTCCTGAGAATAAGTTGC 59.065 40.000 0.00 0.00 45.66 4.17
2030 4382 7.782644 CCATTACCAAATTAAGGTGGATAGGAA 59.217 37.037 12.91 0.00 40.26 3.36
2046 4398 7.055378 ACAGTAGTTTGTACACCATTACCAAA 58.945 34.615 0.00 0.00 0.00 3.28
2092 4444 6.366877 CACCAGAAATGCTTCGAAAATGAAAT 59.633 34.615 0.00 0.00 36.61 2.17
2108 4460 3.636764 GGGAAACACAGAACACCAGAAAT 59.363 43.478 0.00 0.00 0.00 2.17
2121 4473 1.993956 CAGTCAATGGGGGAAACACA 58.006 50.000 0.00 0.00 32.66 3.72
2122 4474 0.603065 GCAGTCAATGGGGGAAACAC 59.397 55.000 0.00 0.00 0.00 3.32
2127 4479 0.548926 TACTGGCAGTCAATGGGGGA 60.549 55.000 25.80 0.00 0.00 4.81
2227 4604 9.850628 GCTATACACGTACTGGATATAAAATCA 57.149 33.333 0.00 0.00 0.00 2.57
2228 4605 9.850628 TGCTATACACGTACTGGATATAAAATC 57.149 33.333 0.00 0.00 0.00 2.17
2241 4618 7.601130 TCCATTCCATAAATGCTATACACGTAC 59.399 37.037 0.00 0.00 42.96 3.67
2277 4654 3.177228 ACAGAATGGTGAGCCTTAGAGT 58.823 45.455 0.00 0.00 43.62 3.24
2287 4667 4.304110 GAACGAACACTACAGAATGGTGA 58.696 43.478 0.00 0.00 43.62 4.02
2330 4710 2.679837 CAAACTGAATGCACGGCTATCT 59.320 45.455 0.00 0.00 0.00 1.98
2341 4721 8.918658 CAAGATGGTTTTATCACAAACTGAATG 58.081 33.333 0.00 0.00 36.93 2.67
2576 4959 7.555965 AGGAAACAATTAAACAAGCTTCTTGT 58.444 30.769 6.40 6.40 0.00 3.16
2870 6315 0.615331 GGTCCACTGGAAGATGAGCA 59.385 55.000 0.00 0.00 36.22 4.26
2871 6316 0.615331 TGGTCCACTGGAAGATGAGC 59.385 55.000 0.00 0.00 37.43 4.26
3054 6503 5.045869 TGACCTCACCCAAATTAAGTCCTAG 60.046 44.000 0.00 0.00 0.00 3.02
3068 6517 5.535030 ACAAAAGTAAATTCTGACCTCACCC 59.465 40.000 0.00 0.00 0.00 4.61
3093 6542 4.265073 GGAGTACAAAGAGCATCACCAAT 58.735 43.478 0.00 0.00 37.82 3.16
3098 6547 2.166459 CGAGGGAGTACAAAGAGCATCA 59.834 50.000 0.00 0.00 37.82 3.07
3109 6558 0.967380 TTTCCGGACCGAGGGAGTAC 60.967 60.000 17.49 0.00 33.01 2.73
3110 6559 0.032813 ATTTCCGGACCGAGGGAGTA 60.033 55.000 17.49 0.00 33.01 2.59
3111 6560 0.032813 TATTTCCGGACCGAGGGAGT 60.033 55.000 17.49 0.00 33.01 3.85
3112 6561 0.388294 GTATTTCCGGACCGAGGGAG 59.612 60.000 17.49 0.00 33.01 4.30
3113 6562 0.032813 AGTATTTCCGGACCGAGGGA 60.033 55.000 17.49 0.46 0.00 4.20
3114 6563 0.828677 AAGTATTTCCGGACCGAGGG 59.171 55.000 17.49 0.00 0.00 4.30
3115 6564 1.206371 ACAAGTATTTCCGGACCGAGG 59.794 52.381 17.49 0.00 0.00 4.63
3116 6565 2.667473 ACAAGTATTTCCGGACCGAG 57.333 50.000 17.49 5.68 0.00 4.63
3117 6566 2.299582 TCAACAAGTATTTCCGGACCGA 59.700 45.455 17.49 0.00 0.00 4.69
3118 6567 2.690786 TCAACAAGTATTTCCGGACCG 58.309 47.619 1.83 6.99 0.00 4.79
3119 6568 4.320870 TCTTCAACAAGTATTTCCGGACC 58.679 43.478 1.83 0.00 0.00 4.46
3120 6569 5.934935 TTCTTCAACAAGTATTTCCGGAC 57.065 39.130 1.83 0.00 0.00 4.79
3121 6570 6.072175 CCATTTCTTCAACAAGTATTTCCGGA 60.072 38.462 0.00 0.00 0.00 5.14
3122 6571 6.072175 TCCATTTCTTCAACAAGTATTTCCGG 60.072 38.462 0.00 0.00 0.00 5.14
3123 6572 6.908825 TCCATTTCTTCAACAAGTATTTCCG 58.091 36.000 0.00 0.00 0.00 4.30
3124 6573 8.522830 TCATCCATTTCTTCAACAAGTATTTCC 58.477 33.333 0.00 0.00 0.00 3.13
3125 6574 9.912634 TTCATCCATTTCTTCAACAAGTATTTC 57.087 29.630 0.00 0.00 0.00 2.17
3128 6577 9.471702 AGATTCATCCATTTCTTCAACAAGTAT 57.528 29.630 0.00 0.00 0.00 2.12
3129 6578 8.868522 AGATTCATCCATTTCTTCAACAAGTA 57.131 30.769 0.00 0.00 0.00 2.24
3130 6579 7.771927 AGATTCATCCATTTCTTCAACAAGT 57.228 32.000 0.00 0.00 0.00 3.16
3131 6580 9.170734 TCTAGATTCATCCATTTCTTCAACAAG 57.829 33.333 0.00 0.00 0.00 3.16
3132 6581 8.950210 GTCTAGATTCATCCATTTCTTCAACAA 58.050 33.333 0.00 0.00 0.00 2.83
3133 6582 7.278646 CGTCTAGATTCATCCATTTCTTCAACA 59.721 37.037 0.00 0.00 0.00 3.33
3134 6583 7.278868 ACGTCTAGATTCATCCATTTCTTCAAC 59.721 37.037 0.00 0.00 0.00 3.18
3135 6584 7.331026 ACGTCTAGATTCATCCATTTCTTCAA 58.669 34.615 0.00 0.00 0.00 2.69
3136 6585 6.878317 ACGTCTAGATTCATCCATTTCTTCA 58.122 36.000 0.00 0.00 0.00 3.02
3137 6586 9.482627 AATACGTCTAGATTCATCCATTTCTTC 57.517 33.333 0.00 0.00 0.00 2.87
3138 6587 9.838339 AAATACGTCTAGATTCATCCATTTCTT 57.162 29.630 0.00 0.00 0.00 2.52
3139 6588 9.838339 AAAATACGTCTAGATTCATCCATTTCT 57.162 29.630 0.00 0.00 0.00 2.52
3172 6621 9.512588 GAGTGATGGATAAAATTGGATGTATCT 57.487 33.333 0.00 0.00 0.00 1.98
3173 6622 8.446273 CGAGTGATGGATAAAATTGGATGTATC 58.554 37.037 0.00 0.00 0.00 2.24
3174 6623 8.156820 TCGAGTGATGGATAAAATTGGATGTAT 58.843 33.333 0.00 0.00 0.00 2.29
3175 6624 7.441157 GTCGAGTGATGGATAAAATTGGATGTA 59.559 37.037 0.00 0.00 0.00 2.29
3176 6625 6.260936 GTCGAGTGATGGATAAAATTGGATGT 59.739 38.462 0.00 0.00 0.00 3.06
3177 6626 6.260714 TGTCGAGTGATGGATAAAATTGGATG 59.739 38.462 0.00 0.00 0.00 3.51
3178 6627 6.356556 TGTCGAGTGATGGATAAAATTGGAT 58.643 36.000 0.00 0.00 0.00 3.41
3179 6628 5.739959 TGTCGAGTGATGGATAAAATTGGA 58.260 37.500 0.00 0.00 0.00 3.53
3180 6629 6.094048 ACTTGTCGAGTGATGGATAAAATTGG 59.906 38.462 0.00 0.00 37.17 3.16
3181 6630 7.076842 ACTTGTCGAGTGATGGATAAAATTG 57.923 36.000 0.00 0.00 37.17 2.32
3182 6631 8.964476 ATACTTGTCGAGTGATGGATAAAATT 57.036 30.769 2.68 0.00 39.48 1.82
3183 6632 8.964476 AATACTTGTCGAGTGATGGATAAAAT 57.036 30.769 2.68 0.00 39.48 1.82
3184 6633 8.786826 AAATACTTGTCGAGTGATGGATAAAA 57.213 30.769 2.68 0.00 39.48 1.52
3185 6634 8.664798 CAAAATACTTGTCGAGTGATGGATAAA 58.335 33.333 2.68 0.00 39.48 1.40
3186 6635 7.279981 CCAAAATACTTGTCGAGTGATGGATAA 59.720 37.037 2.68 0.00 39.48 1.75
3187 6636 6.761242 CCAAAATACTTGTCGAGTGATGGATA 59.239 38.462 2.68 0.00 39.48 2.59
3188 6637 5.586243 CCAAAATACTTGTCGAGTGATGGAT 59.414 40.000 2.68 0.00 39.48 3.41
3189 6638 4.935205 CCAAAATACTTGTCGAGTGATGGA 59.065 41.667 2.68 0.00 39.48 3.41
3190 6639 4.094887 CCCAAAATACTTGTCGAGTGATGG 59.905 45.833 2.68 5.89 39.48 3.51
3191 6640 4.935205 TCCCAAAATACTTGTCGAGTGATG 59.065 41.667 2.68 0.00 39.48 3.07
3192 6641 4.935808 GTCCCAAAATACTTGTCGAGTGAT 59.064 41.667 2.68 0.00 39.48 3.06
3193 6642 4.312443 GTCCCAAAATACTTGTCGAGTGA 58.688 43.478 2.68 0.00 39.48 3.41
3194 6643 3.122948 CGTCCCAAAATACTTGTCGAGTG 59.877 47.826 2.68 0.00 39.48 3.51
3195 6644 3.323243 CGTCCCAAAATACTTGTCGAGT 58.677 45.455 0.00 0.00 42.55 4.18
3196 6645 2.671396 CCGTCCCAAAATACTTGTCGAG 59.329 50.000 0.00 0.00 0.00 4.04
3197 6646 2.299582 TCCGTCCCAAAATACTTGTCGA 59.700 45.455 0.00 0.00 0.00 4.20
3198 6647 2.671396 CTCCGTCCCAAAATACTTGTCG 59.329 50.000 0.00 0.00 0.00 4.35
3199 6648 3.007635 CCTCCGTCCCAAAATACTTGTC 58.992 50.000 0.00 0.00 0.00 3.18
3200 6649 2.290705 CCCTCCGTCCCAAAATACTTGT 60.291 50.000 0.00 0.00 0.00 3.16
3201 6650 2.026636 TCCCTCCGTCCCAAAATACTTG 60.027 50.000 0.00 0.00 0.00 3.16
3202 6651 2.238898 CTCCCTCCGTCCCAAAATACTT 59.761 50.000 0.00 0.00 0.00 2.24
3203 6652 1.838077 CTCCCTCCGTCCCAAAATACT 59.162 52.381 0.00 0.00 0.00 2.12
3204 6653 1.558294 ACTCCCTCCGTCCCAAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
3205 6654 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3206 6655 1.838077 CTACTCCCTCCGTCCCAAAAT 59.162 52.381 0.00 0.00 0.00 1.82
3207 6656 1.203212 TCTACTCCCTCCGTCCCAAAA 60.203 52.381 0.00 0.00 0.00 2.44
3208 6657 0.410663 TCTACTCCCTCCGTCCCAAA 59.589 55.000 0.00 0.00 0.00 3.28
3209 6658 0.635009 ATCTACTCCCTCCGTCCCAA 59.365 55.000 0.00 0.00 0.00 4.12
3210 6659 0.185416 GATCTACTCCCTCCGTCCCA 59.815 60.000 0.00 0.00 0.00 4.37
3211 6660 0.479378 AGATCTACTCCCTCCGTCCC 59.521 60.000 0.00 0.00 0.00 4.46
3212 6661 2.106166 TGTAGATCTACTCCCTCCGTCC 59.894 54.545 28.53 3.48 37.00 4.79
3213 6662 3.140623 GTGTAGATCTACTCCCTCCGTC 58.859 54.545 28.53 3.95 37.00 4.79
3214 6663 2.508716 TGTGTAGATCTACTCCCTCCGT 59.491 50.000 28.53 0.00 37.00 4.69
3215 6664 3.210232 TGTGTAGATCTACTCCCTCCG 57.790 52.381 28.53 0.00 37.00 4.63
3216 6665 4.538738 AGTTGTGTAGATCTACTCCCTCC 58.461 47.826 28.53 14.76 37.00 4.30
3217 6666 6.263617 CCTTAGTTGTGTAGATCTACTCCCTC 59.736 46.154 28.53 18.17 37.00 4.30
3218 6667 6.130569 CCTTAGTTGTGTAGATCTACTCCCT 58.869 44.000 28.53 23.31 37.00 4.20
3219 6668 5.892686 ACCTTAGTTGTGTAGATCTACTCCC 59.107 44.000 28.53 18.94 37.00 4.30
3220 6669 7.407393 AACCTTAGTTGTGTAGATCTACTCC 57.593 40.000 28.53 20.35 34.41 3.85
3221 6670 7.697291 CGAAACCTTAGTTGTGTAGATCTACTC 59.303 40.741 28.53 25.38 35.97 2.59
3222 6671 7.176340 ACGAAACCTTAGTTGTGTAGATCTACT 59.824 37.037 28.53 15.65 35.97 2.57
3621 7075 7.429920 CGACAAATCTAGCTGAGTAACTAGTTC 59.570 40.741 12.39 4.24 37.67 3.01
3749 7855 3.587061 TCCCATTTCTGGCTCTTGAGTTA 59.413 43.478 0.00 0.00 41.64 2.24
3804 7911 0.321671 TCGAGTTTGCAGAAGAGGGG 59.678 55.000 0.00 0.00 0.00 4.79
3958 14040 6.177610 TCCAAATTACAGTTCCATGTAGTCC 58.822 40.000 0.00 0.00 37.01 3.85
4050 14163 3.115390 AGGGCTGCCAAAAGATACTCTA 58.885 45.455 22.05 0.00 0.00 2.43
4051 14164 1.918957 AGGGCTGCCAAAAGATACTCT 59.081 47.619 22.05 0.62 0.00 3.24
4052 14165 2.426842 AGGGCTGCCAAAAGATACTC 57.573 50.000 22.05 0.00 0.00 2.59
4053 14166 2.907458 AAGGGCTGCCAAAAGATACT 57.093 45.000 22.05 2.22 0.00 2.12
4054 14167 5.598416 ATTTAAGGGCTGCCAAAAGATAC 57.402 39.130 22.05 0.00 0.00 2.24
4062 14175 3.505386 TCTGAAAATTTAAGGGCTGCCA 58.495 40.909 22.05 0.00 0.00 4.92
4089 14202 3.973206 AAACCCTATCGACACATGTCA 57.027 42.857 12.32 0.49 44.99 3.58
4122 14235 2.223745 CCAAAAATGCCAGCAAGCTTT 58.776 42.857 0.00 0.00 0.00 3.51
4169 19212 6.875195 TGTAGAACGATAAACCCTTAAACCTG 59.125 38.462 0.00 0.00 0.00 4.00
4176 19219 6.766429 ACTTCTTGTAGAACGATAAACCCTT 58.234 36.000 0.00 0.00 29.89 3.95
4305 19348 0.182775 AAACTCCGCCCAGTGTCTTT 59.817 50.000 0.00 0.00 0.00 2.52
4306 19349 0.535102 CAAACTCCGCCCAGTGTCTT 60.535 55.000 0.00 0.00 0.00 3.01
4307 19350 1.071471 CAAACTCCGCCCAGTGTCT 59.929 57.895 0.00 0.00 0.00 3.41
4308 19351 0.034337 TACAAACTCCGCCCAGTGTC 59.966 55.000 0.00 0.00 0.00 3.67
4309 19352 0.690762 ATACAAACTCCGCCCAGTGT 59.309 50.000 0.00 0.00 0.00 3.55
4310 19353 1.066143 AGATACAAACTCCGCCCAGTG 60.066 52.381 0.00 0.00 0.00 3.66
4311 19354 1.276622 AGATACAAACTCCGCCCAGT 58.723 50.000 0.00 0.00 0.00 4.00
4312 19355 2.009774 CAAGATACAAACTCCGCCCAG 58.990 52.381 0.00 0.00 0.00 4.45
4313 19356 1.626321 TCAAGATACAAACTCCGCCCA 59.374 47.619 0.00 0.00 0.00 5.36
4314 19357 2.396590 TCAAGATACAAACTCCGCCC 57.603 50.000 0.00 0.00 0.00 6.13
4315 19358 7.152645 TCTTATATCAAGATACAAACTCCGCC 58.847 38.462 0.00 0.00 0.00 6.13
4316 19359 8.589335 TTCTTATATCAAGATACAAACTCCGC 57.411 34.615 0.00 0.00 0.00 5.54
4317 19360 9.967346 TCTTCTTATATCAAGATACAAACTCCG 57.033 33.333 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.