Multiple sequence alignment - TraesCS3A01G287000

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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 TraesCS3A01G287000 chr3A 100.000 3611 0 0 1 3611 515282046 515285656 0.000000e+00 6669.0
1 TraesCS3A01G287000 chr3A 94.299 2298 116 7 783 3068 515722798 515725092 0.000000e+00 3504.0
2 TraesCS3A01G287000 chr3A 96.629 267 2 5 3352 3611 515725298 515725564 1.540000e-118 436.0
3 TraesCS3A01G287000 chr3A 83.226 155 7 2 3216 3351 515725091 515725245 1.360000e-24 124.0
4 TraesCS3A01G287000 chr3D 95.257 1982 69 11 886 2864 395641630 395643589 0.000000e+00 3116.0
5 TraesCS3A01G287000 chr3D 85.000 420 33 11 3216 3611 395643743 395644156 2.020000e-107 399.0
6 TraesCS3A01G287000 chr3D 93.151 146 9 1 3077 3222 292030909 292031053 2.820000e-51 213.0
7 TraesCS3A01G287000 chr3D 88.554 166 13 2 2903 3068 395643585 395643744 2.840000e-46 196.0
8 TraesCS3A01G287000 chr3D 86.000 50 7 0 705 754 552955547 552955596 2.000000e-03 54.7
9 TraesCS3A01G287000 chr3B 91.831 2228 124 21 834 3037 520370337 520372530 0.000000e+00 3053.0
10 TraesCS3A01G287000 chr3B 91.777 2189 136 16 886 3068 520445711 520447861 0.000000e+00 3005.0
11 TraesCS3A01G287000 chr3B 87.240 674 28 13 30 659 520369160 520369819 0.000000e+00 715.0
12 TraesCS3A01G287000 chr3B 89.455 275 13 4 3352 3611 520372743 520373016 2.080000e-87 333.0
13 TraesCS3A01G287000 chr3B 89.179 268 18 8 3352 3611 520448134 520448398 1.250000e-84 324.0
14 TraesCS3A01G287000 chr3B 87.179 195 16 4 648 835 520369843 520370035 2.820000e-51 213.0
15 TraesCS3A01G287000 chr3B 83.226 155 7 3 3216 3351 520372545 520372699 1.360000e-24 124.0
16 TraesCS3A01G287000 chr3B 94.118 51 3 0 3224 3274 520447868 520447918 1.070000e-10 78.7
17 TraesCS3A01G287000 chr7A 93.617 141 9 0 3077 3217 435059515 435059375 1.020000e-50 211.0
18 TraesCS3A01G287000 chr7A 88.158 76 9 0 707 782 192881102 192881177 1.380000e-14 91.6
19 TraesCS3A01G287000 chr7A 87.013 77 8 1 706 782 628824902 628824828 6.420000e-13 86.1
20 TraesCS3A01G287000 chr4A 93.617 141 9 0 3077 3217 252243879 252243739 1.020000e-50 211.0
21 TraesCS3A01G287000 chr4A 93.617 141 9 0 3077 3217 384826240 384826100 1.020000e-50 211.0
22 TraesCS3A01G287000 chr2A 93.617 141 9 0 3077 3217 614723539 614723399 1.020000e-50 211.0
23 TraesCS3A01G287000 chr1D 93.617 141 8 1 3077 3217 419478114 419477975 3.650000e-50 209.0
24 TraesCS3A01G287000 chr4D 93.525 139 9 0 3079 3217 408572651 408572513 1.310000e-49 207.0
25 TraesCS3A01G287000 chr4D 100.000 31 0 0 708 738 357652932 357652962 1.400000e-04 58.4
26 TraesCS3A01G287000 chr4B 93.525 139 9 0 3079 3217 507365495 507365633 1.310000e-49 207.0
27 TraesCS3A01G287000 chr4B 83.333 78 10 3 705 782 378771626 378771700 6.470000e-08 69.4
28 TraesCS3A01G287000 chr1A 92.908 141 10 0 3077 3217 351745557 351745417 4.730000e-49 206.0
29 TraesCS3A01G287000 chr2D 97.674 43 1 0 741 783 128989455 128989413 1.390000e-09 75.0
30 TraesCS3A01G287000 chr7D 97.297 37 0 1 751 787 74476208 74476173 1.080000e-05 62.1
31 TraesCS3A01G287000 chr7D 100.000 32 0 0 756 787 74423604 74423573 3.890000e-05 60.2
32 TraesCS3A01G287000 chr6B 100.000 32 0 0 756 787 132310724 132310693 3.890000e-05 60.2
33 TraesCS3A01G287000 chr6B 100.000 30 0 0 756 785 123701924 123701953 5.040000e-04 56.5
34 TraesCS3A01G287000 chr5A 96.875 32 0 1 705 735 379041068 379041099 7.000000e-03 52.8


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 TraesCS3A01G287000 chr3A 515282046 515285656 3610 False 6669.000000 6669 100.000000 1 3611 1 chr3A.!!$F1 3610
1 TraesCS3A01G287000 chr3A 515722798 515725564 2766 False 1354.666667 3504 91.384667 783 3611 3 chr3A.!!$F2 2828
2 TraesCS3A01G287000 chr3D 395641630 395644156 2526 False 1237.000000 3116 89.603667 886 3611 3 chr3D.!!$F3 2725
3 TraesCS3A01G287000 chr3B 520445711 520448398 2687 False 1135.900000 3005 91.691333 886 3611 3 chr3B.!!$F2 2725
4 TraesCS3A01G287000 chr3B 520369160 520373016 3856 False 887.600000 3053 87.786200 30 3611 5 chr3B.!!$F1 3581

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
543 588 0.507358 GACCGCAAGAAACTCGTCAC 59.493 55.0 0.00 0.0 43.02 3.67 F
973 1383 1.262640 AAGTTACGGCGGGTCCATCT 61.263 55.0 13.24 0.0 34.01 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1799 2210 0.098905 TCCGCTGAAGAAGACGATCG 59.901 55.0 14.88 14.88 0.0 3.69 R
2944 3360 0.459237 AAAGGCACGATCGCTCAGAG 60.459 55.0 16.60 0.00 0.0 3.35 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
20 21 2.619013 GGAGATGCCTTGTTCGTTTG 57.381 50.000 0.00 0.00 0.00 2.93
21 22 1.401539 GGAGATGCCTTGTTCGTTTGC 60.402 52.381 0.00 0.00 0.00 3.68
22 23 1.537202 GAGATGCCTTGTTCGTTTGCT 59.463 47.619 0.00 0.00 0.00 3.91
23 24 1.537202 AGATGCCTTGTTCGTTTGCTC 59.463 47.619 0.00 0.00 0.00 4.26
24 25 1.537202 GATGCCTTGTTCGTTTGCTCT 59.463 47.619 0.00 0.00 0.00 4.09
25 26 0.944386 TGCCTTGTTCGTTTGCTCTC 59.056 50.000 0.00 0.00 0.00 3.20
26 27 1.230324 GCCTTGTTCGTTTGCTCTCT 58.770 50.000 0.00 0.00 0.00 3.10
27 28 1.604278 GCCTTGTTCGTTTGCTCTCTT 59.396 47.619 0.00 0.00 0.00 2.85
28 29 2.033424 GCCTTGTTCGTTTGCTCTCTTT 59.967 45.455 0.00 0.00 0.00 2.52
29 30 3.489229 GCCTTGTTCGTTTGCTCTCTTTT 60.489 43.478 0.00 0.00 0.00 2.27
30 31 4.261031 GCCTTGTTCGTTTGCTCTCTTTTA 60.261 41.667 0.00 0.00 0.00 1.52
31 32 5.444122 CCTTGTTCGTTTGCTCTCTTTTAG 58.556 41.667 0.00 0.00 0.00 1.85
32 33 5.236478 CCTTGTTCGTTTGCTCTCTTTTAGA 59.764 40.000 0.00 0.00 0.00 2.10
33 34 6.238374 CCTTGTTCGTTTGCTCTCTTTTAGAA 60.238 38.462 0.00 0.00 32.46 2.10
34 35 6.287107 TGTTCGTTTGCTCTCTTTTAGAAG 57.713 37.500 0.00 0.00 32.46 2.85
35 36 5.236478 TGTTCGTTTGCTCTCTTTTAGAAGG 59.764 40.000 0.00 0.00 32.46 3.46
45 46 7.119846 TGCTCTCTTTTAGAAGGCTTTATTCAC 59.880 37.037 0.00 0.00 32.46 3.18
79 80 4.170292 CTGGTTTCAGCCAAAAGATCTG 57.830 45.455 0.00 0.00 38.18 2.90
80 81 3.565307 TGGTTTCAGCCAAAAGATCTGT 58.435 40.909 0.00 0.00 35.25 3.41
81 82 4.724399 TGGTTTCAGCCAAAAGATCTGTA 58.276 39.130 0.00 0.00 35.25 2.74
82 83 5.136828 TGGTTTCAGCCAAAAGATCTGTAA 58.863 37.500 0.00 0.00 35.25 2.41
83 84 5.241506 TGGTTTCAGCCAAAAGATCTGTAAG 59.758 40.000 0.00 0.00 35.25 2.34
84 85 5.335976 GGTTTCAGCCAAAAGATCTGTAAGG 60.336 44.000 0.00 0.00 0.00 2.69
85 86 3.347216 TCAGCCAAAAGATCTGTAAGGC 58.653 45.455 17.62 17.62 40.85 4.35
109 110 3.038280 TGTGACTGAGGTTGGAAAGAGA 58.962 45.455 0.00 0.00 0.00 3.10
110 111 3.070159 TGTGACTGAGGTTGGAAAGAGAG 59.930 47.826 0.00 0.00 0.00 3.20
120 121 2.902608 TGGAAAGAGAGCCTTGGAGTA 58.097 47.619 0.00 0.00 34.79 2.59
162 163 0.663153 GCCAACCATTAGATCGCACC 59.337 55.000 0.00 0.00 0.00 5.01
178 179 2.425592 CCCTGGCTGTCAACGTCA 59.574 61.111 0.00 0.00 0.00 4.35
201 202 4.274459 AGAAAGTAGCAAGTCAAAGCACAG 59.726 41.667 0.00 0.00 0.00 3.66
212 213 4.284490 AGTCAAAGCACAGAGGAGAATACA 59.716 41.667 0.00 0.00 0.00 2.29
242 243 8.091449 GGTAATACTTCAATCAGTATCAGAGGG 58.909 40.741 0.00 0.00 38.77 4.30
315 316 7.436430 TTTAGAAACAAACAAACAAAACCCC 57.564 32.000 0.00 0.00 0.00 4.95
316 317 3.997681 AGAAACAAACAAACAAAACCCCG 59.002 39.130 0.00 0.00 0.00 5.73
340 341 5.479124 TGAAACTTGTTACTACCTCCCTC 57.521 43.478 0.00 0.00 0.00 4.30
366 367 5.483685 TCCATAATAAGTTGGATCGGAGG 57.516 43.478 0.00 0.00 37.10 4.30
412 415 5.771469 TGCAAACCATATTTTCACAGAGTG 58.229 37.500 0.00 0.00 34.45 3.51
424 427 2.158957 TCACAGAGTGTCAGGACAAACC 60.159 50.000 3.28 0.00 43.77 3.27
460 485 4.201950 ACGCTGGATTCAGATATGCAAAAC 60.202 41.667 4.75 0.00 43.49 2.43
473 498 6.816640 AGATATGCAAAACTAACTGACGCTTA 59.183 34.615 0.00 0.00 0.00 3.09
490 515 1.001406 CTTAAGGATGCTAGCGGAGGG 59.999 57.143 10.77 0.00 0.00 4.30
492 517 4.321966 GGATGCTAGCGGAGGGGC 62.322 72.222 10.77 0.00 0.00 5.80
540 585 1.222115 GCTGACCGCAAGAAACTCGT 61.222 55.000 0.00 0.00 43.02 4.18
543 588 0.507358 GACCGCAAGAAACTCGTCAC 59.493 55.000 0.00 0.00 43.02 3.67
550 595 4.547532 GCAAGAAACTCGTCACTCTAGAA 58.452 43.478 0.00 0.00 0.00 2.10
552 597 5.117897 GCAAGAAACTCGTCACTCTAGAAAG 59.882 44.000 0.00 0.00 0.00 2.62
553 598 4.800784 AGAAACTCGTCACTCTAGAAAGC 58.199 43.478 0.00 0.00 0.00 3.51
578 623 4.825422 TCTTGTGACCATTCATCACTCTC 58.175 43.478 6.68 0.00 45.58 3.20
586 631 6.596888 TGACCATTCATCACTCTCAAATCTTC 59.403 38.462 0.00 0.00 0.00 2.87
608 653 4.115516 CGTGAAGTTCTACAGATCCATGG 58.884 47.826 4.97 4.97 0.00 3.66
622 667 1.399744 CCATGGTACTAGCTCCGCCA 61.400 60.000 2.57 0.00 0.00 5.69
659 704 8.517056 CACCGTTTTAGGGTTTAAAGTCAATAT 58.483 33.333 0.00 0.00 33.44 1.28
660 705 9.081204 ACCGTTTTAGGGTTTAAAGTCAATATT 57.919 29.630 0.00 0.00 31.25 1.28
675 754 7.573968 AGTCAATATTCTAGCCATGTTTTCC 57.426 36.000 0.00 0.00 0.00 3.13
677 756 5.833131 TCAATATTCTAGCCATGTTTTCCCC 59.167 40.000 0.00 0.00 0.00 4.81
694 773 2.840576 CCCTTTTCGTGTGGGGGA 59.159 61.111 0.00 0.00 39.42 4.81
723 808 8.738199 TTAGTACTGTCTCAAAATAAGTGTCG 57.262 34.615 5.39 0.00 0.00 4.35
725 810 4.632153 ACTGTCTCAAAATAAGTGTCGCT 58.368 39.130 0.00 0.00 0.00 4.93
733 818 7.602644 TCTCAAAATAAGTGTCGCTGATTTACT 59.397 33.333 8.84 0.00 37.29 2.24
742 827 9.988350 AAGTGTCGCTGATTTACTATAAAATTG 57.012 29.630 0.00 0.00 0.00 2.32
768 853 7.144722 ACTGAATCAGCGACATTTATTTTGA 57.855 32.000 10.62 0.00 34.37 2.69
769 854 7.592938 ACTGAATCAGCGACATTTATTTTGAA 58.407 30.769 10.62 0.00 34.37 2.69
773 858 5.150683 TCAGCGACATTTATTTTGAAACGG 58.849 37.500 0.00 0.00 0.00 4.44
962 1372 2.287368 GGCCTTGTTGTCAAAGTTACGG 60.287 50.000 0.00 0.00 32.87 4.02
973 1383 1.262640 AAGTTACGGCGGGTCCATCT 61.263 55.000 13.24 0.00 34.01 2.90
1050 1461 5.844516 TCTTTCCCTCTTCTCTTCTTTGGTA 59.155 40.000 0.00 0.00 0.00 3.25
1054 1465 5.659079 TCCCTCTTCTCTTCTTTGGTAGATC 59.341 44.000 0.00 0.00 31.54 2.75
1090 1501 3.142838 CATTGCAGGGGCCTTCCG 61.143 66.667 0.84 0.00 40.13 4.30
1439 1850 1.542492 TCCAGTTCCAGACGTACCTC 58.458 55.000 0.00 0.00 0.00 3.85
1442 1853 1.473278 CAGTTCCAGACGTACCTCCTC 59.527 57.143 0.00 0.00 0.00 3.71
1455 1866 3.343788 CTCCTCCTCCGTGTGCGAC 62.344 68.421 0.00 0.00 41.33 5.19
1568 1979 2.076863 GGAGTTCGTGATGTTCTTGGG 58.923 52.381 0.00 0.00 0.00 4.12
1589 2000 2.242926 CAGCTATCCTCGAATCTCCCA 58.757 52.381 0.00 0.00 0.00 4.37
1600 2011 2.280628 GAATCTCCCAGCAACCTTACG 58.719 52.381 0.00 0.00 0.00 3.18
1601 2012 1.568504 ATCTCCCAGCAACCTTACGA 58.431 50.000 0.00 0.00 0.00 3.43
1818 2229 0.098905 CGATCGTCTTCTTCAGCGGA 59.901 55.000 7.03 0.00 0.00 5.54
1892 2303 1.200948 GCATCAGAACCTTGCTTCCAC 59.799 52.381 0.00 0.00 33.61 4.02
1917 2328 1.827344 CATGGAGACTCACTGGCTGTA 59.173 52.381 4.53 0.00 31.30 2.74
2280 2691 4.395542 GTGCTGAGATGCTTGAGAGATTTT 59.604 41.667 0.00 0.00 0.00 1.82
2416 2827 2.494888 TTATCATGAGCCCTCTCCCA 57.505 50.000 0.09 0.00 38.58 4.37
2471 2882 3.134574 TGTTTTGTCTGGGCGAGTTAT 57.865 42.857 0.00 0.00 0.00 1.89
2535 2946 2.313945 ACCTCCCTGCTACACCTACTTA 59.686 50.000 0.00 0.00 0.00 2.24
2545 2956 4.158025 GCTACACCTACTTAGTGAGCTTCA 59.842 45.833 0.00 0.00 38.63 3.02
2547 2958 5.746990 ACACCTACTTAGTGAGCTTCATT 57.253 39.130 0.00 0.00 38.63 2.57
2593 3004 0.525882 GCTCGGTAAGAAGCGGTCTC 60.526 60.000 0.00 0.00 46.40 3.36
2667 3079 1.235724 AGTGCACGCCTTACCTTTTC 58.764 50.000 12.01 0.00 0.00 2.29
2671 3083 3.251487 GTGCACGCCTTACCTTTTCTTTA 59.749 43.478 0.00 0.00 0.00 1.85
2681 3094 1.611491 CCTTTTCTTTAACAGCGCCCA 59.389 47.619 2.29 0.00 0.00 5.36
2778 3191 1.762370 ACAGTCCACACTCATCACACA 59.238 47.619 0.00 0.00 0.00 3.72
2793 3207 0.673644 ACACAGCATAACCGTCTGGC 60.674 55.000 0.00 0.00 39.70 4.85
2813 3228 1.534595 CAGAACTGCTTCAAGCCAGAC 59.465 52.381 7.01 5.17 41.51 3.51
2928 3344 2.072298 CCAACACTACAGAAGAGCAGC 58.928 52.381 0.00 0.00 0.00 5.25
2944 3360 4.096081 AGAGCAGCAGCATTTTACAAGATC 59.904 41.667 3.17 0.00 45.49 2.75
2955 3371 6.563753 GCATTTTACAAGATCTCTGAGCGATC 60.564 42.308 4.32 4.32 38.01 3.69
2969 3385 1.079127 CGATCGTGCCTTTCCCAGT 60.079 57.895 7.03 0.00 0.00 4.00
3072 3490 7.923414 ATTTGATGTGTTCTAAACTACTCCC 57.077 36.000 0.00 0.00 0.00 4.30
3073 3491 5.416271 TGATGTGTTCTAAACTACTCCCC 57.584 43.478 0.00 0.00 0.00 4.81
3074 3492 5.091552 TGATGTGTTCTAAACTACTCCCCT 58.908 41.667 0.00 0.00 0.00 4.79
3075 3493 4.884668 TGTGTTCTAAACTACTCCCCTG 57.115 45.455 0.00 0.00 0.00 4.45
3076 3494 4.228824 TGTGTTCTAAACTACTCCCCTGT 58.771 43.478 0.00 0.00 0.00 4.00
3077 3495 5.396485 TGTGTTCTAAACTACTCCCCTGTA 58.604 41.667 0.00 0.00 0.00 2.74
3078 3496 5.840149 TGTGTTCTAAACTACTCCCCTGTAA 59.160 40.000 0.00 0.00 0.00 2.41
3079 3497 6.014840 TGTGTTCTAAACTACTCCCCTGTAAG 60.015 42.308 0.00 0.00 0.00 2.34
3080 3498 6.210185 GTGTTCTAAACTACTCCCCTGTAAGA 59.790 42.308 0.00 0.00 34.07 2.10
3081 3499 6.210185 TGTTCTAAACTACTCCCCTGTAAGAC 59.790 42.308 0.00 0.00 34.07 3.01
3082 3500 5.267587 TCTAAACTACTCCCCTGTAAGACC 58.732 45.833 0.00 0.00 34.07 3.85
3083 3501 3.848978 AACTACTCCCCTGTAAGACCT 57.151 47.619 0.00 0.00 34.07 3.85
3084 3502 3.848978 ACTACTCCCCTGTAAGACCTT 57.151 47.619 0.00 0.00 34.07 3.50
3085 3503 4.143406 ACTACTCCCCTGTAAGACCTTT 57.857 45.455 0.00 0.00 34.07 3.11
3086 3504 4.500452 ACTACTCCCCTGTAAGACCTTTT 58.500 43.478 0.00 0.00 34.07 2.27
3087 3505 5.658474 ACTACTCCCCTGTAAGACCTTTTA 58.342 41.667 0.00 0.00 34.07 1.52
3088 3506 5.720520 ACTACTCCCCTGTAAGACCTTTTAG 59.279 44.000 0.00 0.00 34.07 1.85
3089 3507 3.844804 ACTCCCCTGTAAGACCTTTTAGG 59.155 47.826 0.00 0.00 42.49 2.69
3090 3508 3.187112 TCCCCTGTAAGACCTTTTAGGG 58.813 50.000 17.30 17.30 40.58 3.53
3091 3509 3.181392 TCCCCTGTAAGACCTTTTAGGGA 60.181 47.826 22.23 14.52 42.44 4.20
3092 3510 3.786450 CCCCTGTAAGACCTTTTAGGGAT 59.214 47.826 22.23 0.00 42.44 3.85
3093 3511 4.229812 CCCCTGTAAGACCTTTTAGGGATT 59.770 45.833 22.23 0.00 42.44 3.01
3094 3512 5.281558 CCCCTGTAAGACCTTTTAGGGATTT 60.282 44.000 22.23 0.00 42.44 2.17
3095 3513 5.886474 CCCTGTAAGACCTTTTAGGGATTTC 59.114 44.000 18.54 0.00 42.44 2.17
3096 3514 6.481643 CCTGTAAGACCTTTTAGGGATTTCA 58.518 40.000 0.00 0.00 40.58 2.69
3097 3515 6.374613 CCTGTAAGACCTTTTAGGGATTTCAC 59.625 42.308 0.00 0.00 40.58 3.18
3098 3516 7.086685 TGTAAGACCTTTTAGGGATTTCACT 57.913 36.000 0.00 0.00 40.58 3.41
3099 3517 8.209802 TGTAAGACCTTTTAGGGATTTCACTA 57.790 34.615 0.00 0.00 40.58 2.74
3100 3518 8.832735 TGTAAGACCTTTTAGGGATTTCACTAT 58.167 33.333 0.00 0.00 40.58 2.12
3103 3521 8.855804 AGACCTTTTAGGGATTTCACTATAGA 57.144 34.615 6.78 0.00 40.58 1.98
3104 3522 8.706521 AGACCTTTTAGGGATTTCACTATAGAC 58.293 37.037 6.78 0.00 40.58 2.59
3105 3523 8.625467 ACCTTTTAGGGATTTCACTATAGACT 57.375 34.615 6.78 0.00 40.58 3.24
3106 3524 9.725206 ACCTTTTAGGGATTTCACTATAGACTA 57.275 33.333 6.78 0.00 40.58 2.59
3107 3525 9.984190 CCTTTTAGGGATTTCACTATAGACTAC 57.016 37.037 6.78 0.00 30.93 2.73
3112 3530 8.338072 AGGGATTTCACTATAGACTACATACG 57.662 38.462 6.78 0.00 0.00 3.06
3113 3531 7.393796 AGGGATTTCACTATAGACTACATACGG 59.606 40.741 6.78 0.00 0.00 4.02
3114 3532 7.392673 GGGATTTCACTATAGACTACATACGGA 59.607 40.741 6.78 0.00 0.00 4.69
3115 3533 8.452534 GGATTTCACTATAGACTACATACGGAG 58.547 40.741 6.78 0.00 0.00 4.63
3116 3534 6.798315 TTCACTATAGACTACATACGGAGC 57.202 41.667 6.78 0.00 0.00 4.70
3117 3535 5.861727 TCACTATAGACTACATACGGAGCA 58.138 41.667 6.78 0.00 0.00 4.26
3118 3536 6.293698 TCACTATAGACTACATACGGAGCAA 58.706 40.000 6.78 0.00 0.00 3.91
3119 3537 6.769341 TCACTATAGACTACATACGGAGCAAA 59.231 38.462 6.78 0.00 0.00 3.68
3120 3538 7.283807 TCACTATAGACTACATACGGAGCAAAA 59.716 37.037 6.78 0.00 0.00 2.44
3121 3539 8.082852 CACTATAGACTACATACGGAGCAAAAT 58.917 37.037 6.78 0.00 0.00 1.82
3122 3540 8.082852 ACTATAGACTACATACGGAGCAAAATG 58.917 37.037 6.78 0.00 0.00 2.32
3123 3541 5.339008 AGACTACATACGGAGCAAAATGA 57.661 39.130 0.00 0.00 0.00 2.57
3124 3542 5.352284 AGACTACATACGGAGCAAAATGAG 58.648 41.667 0.00 0.00 0.00 2.90
3125 3543 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
3126 3544 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
3127 3545 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
3128 3546 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
3129 3547 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
3130 3548 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
3131 3549 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
3132 3550 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
3133 3551 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
3134 3552 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
3135 3553 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
3158 3576 9.698309 ACACTGTAAAGTATGTCTATATGCATC 57.302 33.333 0.19 0.00 0.00 3.91
3159 3577 9.144747 CACTGTAAAGTATGTCTATATGCATCC 57.855 37.037 0.19 0.00 0.00 3.51
3160 3578 8.314751 ACTGTAAAGTATGTCTATATGCATCCC 58.685 37.037 0.19 0.00 0.00 3.85
3161 3579 8.435931 TGTAAAGTATGTCTATATGCATCCCT 57.564 34.615 0.19 0.00 0.00 4.20
3162 3580 9.541884 TGTAAAGTATGTCTATATGCATCCCTA 57.458 33.333 0.19 0.00 0.00 3.53
3165 3583 8.615360 AAGTATGTCTATATGCATCCCTATGT 57.385 34.615 0.19 0.00 35.38 2.29
3166 3584 9.715119 AAGTATGTCTATATGCATCCCTATGTA 57.285 33.333 0.19 0.00 35.38 2.29
3167 3585 9.360901 AGTATGTCTATATGCATCCCTATGTAG 57.639 37.037 0.19 0.00 35.38 2.74
3168 3586 9.137459 GTATGTCTATATGCATCCCTATGTAGT 57.863 37.037 0.19 0.00 35.38 2.73
3169 3587 8.615360 ATGTCTATATGCATCCCTATGTAGTT 57.385 34.615 0.19 0.00 35.38 2.24
3170 3588 8.067751 TGTCTATATGCATCCCTATGTAGTTC 57.932 38.462 0.19 0.00 35.38 3.01
3171 3589 7.673926 TGTCTATATGCATCCCTATGTAGTTCA 59.326 37.037 0.19 0.00 35.38 3.18
3172 3590 8.700051 GTCTATATGCATCCCTATGTAGTTCAT 58.300 37.037 0.19 0.00 40.25 2.57
3173 3591 9.936329 TCTATATGCATCCCTATGTAGTTCATA 57.064 33.333 0.19 0.00 37.91 2.15
3213 3631 7.059202 GGTCTTATATTTAAGAACGGAGGGA 57.941 40.000 7.14 0.00 44.12 4.20
3214 3632 7.153315 GGTCTTATATTTAAGAACGGAGGGAG 58.847 42.308 7.14 0.00 44.12 4.30
3218 3636 3.881937 TTTAAGAACGGAGGGAGTAGC 57.118 47.619 0.00 0.00 0.00 3.58
3319 3826 7.967854 CCAAATCAAATTCTTATTGCGTACTGA 59.032 33.333 0.00 0.00 0.00 3.41
3330 3837 9.157104 TCTTATTGCGTACTGAAATAACATGAA 57.843 29.630 0.00 0.00 33.84 2.57
3331 3838 9.210426 CTTATTGCGTACTGAAATAACATGAAC 57.790 33.333 0.00 0.00 33.84 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.401539 GCAAACGAACAAGGCATCTCC 60.402 52.381 0.00 0.00 0.00 3.71
2 3 1.537202 AGCAAACGAACAAGGCATCTC 59.463 47.619 0.00 0.00 0.00 2.75
4 5 1.537202 AGAGCAAACGAACAAGGCATC 59.463 47.619 0.00 0.00 0.00 3.91
5 6 1.537202 GAGAGCAAACGAACAAGGCAT 59.463 47.619 0.00 0.00 0.00 4.40
6 7 0.944386 GAGAGCAAACGAACAAGGCA 59.056 50.000 0.00 0.00 0.00 4.75
7 8 1.230324 AGAGAGCAAACGAACAAGGC 58.770 50.000 0.00 0.00 0.00 4.35
8 9 3.971032 AAAGAGAGCAAACGAACAAGG 57.029 42.857 0.00 0.00 0.00 3.61
9 10 6.287107 TCTAAAAGAGAGCAAACGAACAAG 57.713 37.500 0.00 0.00 0.00 3.16
10 11 6.238374 CCTTCTAAAAGAGAGCAAACGAACAA 60.238 38.462 0.00 0.00 34.93 2.83
11 12 5.236478 CCTTCTAAAAGAGAGCAAACGAACA 59.764 40.000 0.00 0.00 34.93 3.18
12 13 5.680893 CCTTCTAAAAGAGAGCAAACGAAC 58.319 41.667 0.00 0.00 34.93 3.95
13 14 4.213482 GCCTTCTAAAAGAGAGCAAACGAA 59.787 41.667 0.00 0.00 34.93 3.85
14 15 3.746492 GCCTTCTAAAAGAGAGCAAACGA 59.254 43.478 0.00 0.00 34.93 3.85
15 16 3.748568 AGCCTTCTAAAAGAGAGCAAACG 59.251 43.478 0.00 0.00 34.93 3.60
16 17 5.697473 AAGCCTTCTAAAAGAGAGCAAAC 57.303 39.130 0.00 0.00 34.93 2.93
17 18 8.409358 AATAAAGCCTTCTAAAAGAGAGCAAA 57.591 30.769 0.00 0.00 34.93 3.68
18 19 7.665559 TGAATAAAGCCTTCTAAAAGAGAGCAA 59.334 33.333 0.00 0.00 34.93 3.91
19 20 7.119846 GTGAATAAAGCCTTCTAAAAGAGAGCA 59.880 37.037 0.00 0.00 34.93 4.26
20 21 7.468441 GTGAATAAAGCCTTCTAAAAGAGAGC 58.532 38.462 0.00 0.00 34.93 4.09
21 22 7.545965 TCGTGAATAAAGCCTTCTAAAAGAGAG 59.454 37.037 0.00 0.00 34.93 3.20
22 23 7.383687 TCGTGAATAAAGCCTTCTAAAAGAGA 58.616 34.615 0.00 0.00 34.14 3.10
23 24 7.596749 TCGTGAATAAAGCCTTCTAAAAGAG 57.403 36.000 0.00 0.00 34.14 2.85
24 25 7.972832 TTCGTGAATAAAGCCTTCTAAAAGA 57.027 32.000 0.00 0.00 34.14 2.52
25 26 7.636359 CGATTCGTGAATAAAGCCTTCTAAAAG 59.364 37.037 0.00 0.00 0.00 2.27
26 27 7.413657 CCGATTCGTGAATAAAGCCTTCTAAAA 60.414 37.037 5.20 0.00 0.00 1.52
27 28 6.036735 CCGATTCGTGAATAAAGCCTTCTAAA 59.963 38.462 5.20 0.00 0.00 1.85
28 29 5.522460 CCGATTCGTGAATAAAGCCTTCTAA 59.478 40.000 5.20 0.00 0.00 2.10
29 30 5.047847 CCGATTCGTGAATAAAGCCTTCTA 58.952 41.667 5.20 0.00 0.00 2.10
30 31 3.871594 CCGATTCGTGAATAAAGCCTTCT 59.128 43.478 5.20 0.00 0.00 2.85
31 32 3.546218 GCCGATTCGTGAATAAAGCCTTC 60.546 47.826 5.20 0.00 0.00 3.46
32 33 2.354821 GCCGATTCGTGAATAAAGCCTT 59.645 45.455 5.20 0.00 0.00 4.35
33 34 1.940613 GCCGATTCGTGAATAAAGCCT 59.059 47.619 5.20 0.00 0.00 4.58
34 35 1.668751 TGCCGATTCGTGAATAAAGCC 59.331 47.619 5.20 0.00 0.00 4.35
35 36 2.351726 ACTGCCGATTCGTGAATAAAGC 59.648 45.455 5.20 0.00 0.00 3.51
45 46 1.577328 AAACCAGCACTGCCGATTCG 61.577 55.000 0.00 0.00 0.00 3.34
76 77 2.822561 CTCAGTCACAGAGCCTTACAGA 59.177 50.000 0.00 0.00 0.00 3.41
77 78 2.094286 CCTCAGTCACAGAGCCTTACAG 60.094 54.545 0.00 0.00 0.00 2.74
78 79 1.895798 CCTCAGTCACAGAGCCTTACA 59.104 52.381 0.00 0.00 0.00 2.41
79 80 1.896465 ACCTCAGTCACAGAGCCTTAC 59.104 52.381 0.00 0.00 0.00 2.34
80 81 2.300152 CAACCTCAGTCACAGAGCCTTA 59.700 50.000 0.00 0.00 0.00 2.69
81 82 1.071385 CAACCTCAGTCACAGAGCCTT 59.929 52.381 0.00 0.00 0.00 4.35
82 83 0.683973 CAACCTCAGTCACAGAGCCT 59.316 55.000 0.00 0.00 0.00 4.58
83 84 0.321122 CCAACCTCAGTCACAGAGCC 60.321 60.000 0.00 0.00 0.00 4.70
84 85 0.681733 TCCAACCTCAGTCACAGAGC 59.318 55.000 0.00 0.00 0.00 4.09
85 86 3.070159 TCTTTCCAACCTCAGTCACAGAG 59.930 47.826 0.00 0.00 0.00 3.35
109 110 4.148825 CGCGGCTACTCCAAGGCT 62.149 66.667 0.00 0.00 39.79 4.58
110 111 4.143333 TCGCGGCTACTCCAAGGC 62.143 66.667 6.13 0.00 38.63 4.35
120 121 2.125106 GACATTTCCCTCGCGGCT 60.125 61.111 6.13 0.00 0.00 5.52
162 163 0.249868 TTCTGACGTTGACAGCCAGG 60.250 55.000 0.00 0.00 35.61 4.45
178 179 4.199310 TGTGCTTTGACTTGCTACTTTCT 58.801 39.130 0.00 0.00 0.00 2.52
201 202 8.475639 TGAAGTATTACCAGTTGTATTCTCCTC 58.524 37.037 0.00 0.00 0.00 3.71
212 213 9.823647 CTGATACTGATTGAAGTATTACCAGTT 57.176 33.333 0.00 0.00 42.22 3.16
242 243 5.291614 CACAAAATTGCAATGTATACCAGGC 59.708 40.000 13.82 1.80 0.00 4.85
311 312 3.286329 AGTAACAAGTTTCAACGGGGT 57.714 42.857 0.00 0.00 0.00 4.95
315 316 4.450080 GGGAGGTAGTAACAAGTTTCAACG 59.550 45.833 0.00 0.00 0.00 4.10
316 317 5.618236 AGGGAGGTAGTAACAAGTTTCAAC 58.382 41.667 0.00 0.00 0.00 3.18
361 362 3.380637 CGGGATATATACAACTCCCTCCG 59.619 52.174 14.55 0.00 44.42 4.63
366 367 3.933332 GCAAGCGGGATATATACAACTCC 59.067 47.826 0.00 0.00 0.00 3.85
383 384 3.995705 TGAAAATATGGTTTGCAGCAAGC 59.004 39.130 13.34 13.34 45.96 4.01
412 415 1.605753 GAACTGGGGTTTGTCCTGAC 58.394 55.000 0.00 0.00 35.58 3.51
424 427 4.003788 AGCGTGGACGGAACTGGG 62.004 66.667 0.71 0.00 40.23 4.45
460 485 3.786635 AGCATCCTTAAGCGTCAGTTAG 58.213 45.455 0.00 0.00 35.48 2.34
473 498 2.143419 CCCCTCCGCTAGCATCCTT 61.143 63.158 16.45 0.00 0.00 3.36
490 515 3.559238 ATTTGAGTTGTTCACATCGCC 57.441 42.857 0.00 0.00 34.94 5.54
492 517 5.989249 TCTCAATTTGAGTTGTTCACATCG 58.011 37.500 22.44 0.00 44.58 3.84
530 555 5.224135 GCTTTCTAGAGTGACGAGTTTCTT 58.776 41.667 0.00 0.00 0.00 2.52
540 585 2.558795 ACAAGAGCGCTTTCTAGAGTGA 59.441 45.455 13.26 0.00 30.14 3.41
543 588 2.920490 GTCACAAGAGCGCTTTCTAGAG 59.080 50.000 13.26 1.84 30.14 2.43
550 595 1.160137 GAATGGTCACAAGAGCGCTT 58.840 50.000 13.26 0.00 45.10 4.68
552 597 1.063174 GATGAATGGTCACAAGAGCGC 59.937 52.381 0.00 0.00 45.10 5.92
553 598 2.094894 GTGATGAATGGTCACAAGAGCG 59.905 50.000 1.69 0.00 45.10 5.03
578 623 7.201478 GGATCTGTAGAACTTCACGAAGATTTG 60.201 40.741 13.60 0.00 40.79 2.32
586 631 4.115516 CCATGGATCTGTAGAACTTCACG 58.884 47.826 5.56 0.00 0.00 4.35
622 667 7.764141 ACCCTAAAACGGTGTTATAATTTGT 57.236 32.000 0.00 0.00 30.39 2.83
659 704 2.525105 GGGGGAAAACATGGCTAGAA 57.475 50.000 0.00 0.00 0.00 2.10
677 756 0.679960 GATCCCCCACACGAAAAGGG 60.680 60.000 0.00 0.00 42.44 3.95
733 818 8.710835 TGTCGCTGATTCAGTACAATTTTATA 57.289 30.769 14.90 0.00 33.43 0.98
742 827 8.175069 TCAAAATAAATGTCGCTGATTCAGTAC 58.825 33.333 14.90 13.21 33.43 2.73
747 832 7.375781 CGTTTCAAAATAAATGTCGCTGATTC 58.624 34.615 0.00 0.00 0.00 2.52
768 853 2.052468 ACCAAACTACTCCCTCCGTTT 58.948 47.619 0.00 0.00 0.00 3.60
769 854 1.725803 ACCAAACTACTCCCTCCGTT 58.274 50.000 0.00 0.00 0.00 4.44
773 858 3.782656 TTCCAACCAAACTACTCCCTC 57.217 47.619 0.00 0.00 0.00 4.30
962 1372 1.524621 CATGGACAGATGGACCCGC 60.525 63.158 0.00 0.00 0.00 6.13
1026 1437 4.660771 ACCAAAGAAGAGAAGAGGGAAAGA 59.339 41.667 0.00 0.00 0.00 2.52
1050 1461 2.456340 TCCTGGTGGGATAGATGGATCT 59.544 50.000 0.00 0.00 39.58 2.75
1054 1465 2.126882 TGTTCCTGGTGGGATAGATGG 58.873 52.381 0.00 0.00 44.66 3.51
1090 1501 1.134551 AGAGAGAAGCGGCTCCATTTC 60.135 52.381 1.45 0.00 35.49 2.17
1439 1850 4.778415 CGTCGCACACGGAGGAGG 62.778 72.222 0.00 0.00 45.46 4.30
1460 1871 0.548682 AAGCACCAGGTCCATCCTCT 60.549 55.000 0.00 0.00 46.24 3.69
1464 1875 1.386533 CATCAAGCACCAGGTCCATC 58.613 55.000 0.00 0.00 0.00 3.51
1568 1979 1.067213 GGGAGATTCGAGGATAGCTGC 60.067 57.143 0.00 0.00 0.00 5.25
1589 2000 0.171903 ATACGCGTCGTAAGGTTGCT 59.828 50.000 18.63 0.00 45.39 3.91
1600 2011 4.892655 TGATCATGAAACAAATACGCGTC 58.107 39.130 18.63 0.00 0.00 5.19
1601 2012 4.201812 CCTGATCATGAAACAAATACGCGT 60.202 41.667 19.17 19.17 0.00 6.01
1680 2091 0.700564 TTCCATTCCTTGCAGCCTCT 59.299 50.000 0.00 0.00 0.00 3.69
1799 2210 0.098905 TCCGCTGAAGAAGACGATCG 59.901 55.000 14.88 14.88 0.00 3.69
1818 2229 6.295462 CCAAGTTTCCACCATTGAGATCATTT 60.295 38.462 0.00 0.00 0.00 2.32
1892 2303 2.187946 GTGAGTCTCCATGCGGGG 59.812 66.667 0.00 0.00 37.22 5.73
1917 2328 1.289160 TGTCCCCTGCTAGCTCAATT 58.711 50.000 17.23 0.00 0.00 2.32
2280 2691 2.558286 GCTGAGGTGCTTGCTTGCA 61.558 57.895 0.27 0.27 41.05 4.08
2535 2946 2.138320 CGTGACACAATGAAGCTCACT 58.862 47.619 6.37 0.00 30.97 3.41
2545 2956 2.483876 CTTGTCTGTCCGTGACACAAT 58.516 47.619 6.37 0.00 43.13 2.71
2547 2958 0.529773 GCTTGTCTGTCCGTGACACA 60.530 55.000 6.37 0.00 43.13 3.72
2593 3004 2.636830 ACATCAAATTCTCTCCTGCCG 58.363 47.619 0.00 0.00 0.00 5.69
2656 3067 4.473199 GCGCTGTTAAAGAAAAGGTAAGG 58.527 43.478 0.00 0.00 0.00 2.69
2667 3079 1.812571 AGATGTTGGGCGCTGTTAAAG 59.187 47.619 7.64 0.00 0.00 1.85
2671 3083 1.675641 GGAGATGTTGGGCGCTGTT 60.676 57.895 7.64 0.00 0.00 3.16
2705 3118 0.536915 GGAGATCCATGGAGCAAGCC 60.537 60.000 30.59 23.18 35.64 4.35
2756 3169 2.545526 GTGTGATGAGTGTGGACTGTTG 59.454 50.000 0.00 0.00 30.16 3.33
2757 3170 2.170397 TGTGTGATGAGTGTGGACTGTT 59.830 45.455 0.00 0.00 30.16 3.16
2778 3191 0.613260 TTCTGCCAGACGGTTATGCT 59.387 50.000 0.00 0.00 33.28 3.79
2793 3207 1.534595 GTCTGGCTTGAAGCAGTTCTG 59.465 52.381 19.89 5.69 44.75 3.02
2813 3228 6.258230 TGCAGATAAAAATGGTTCTGTCAG 57.742 37.500 0.00 0.00 38.26 3.51
2928 3344 5.502058 CGCTCAGAGATCTTGTAAAATGCTG 60.502 44.000 0.00 0.00 0.00 4.41
2944 3360 0.459237 AAAGGCACGATCGCTCAGAG 60.459 55.000 16.60 0.00 0.00 3.35
2955 3371 2.714259 TTTCACTGGGAAAGGCACG 58.286 52.632 0.00 0.00 40.51 5.34
2969 3385 3.569277 ACATGTGCAGTGCAGTAATTTCA 59.431 39.130 20.42 11.54 40.08 2.69
3066 3484 5.028131 CCTAAAAGGTCTTACAGGGGAGTA 58.972 45.833 3.77 0.00 0.00 2.59
3067 3485 3.844804 CCTAAAAGGTCTTACAGGGGAGT 59.155 47.826 3.77 0.00 0.00 3.85
3068 3486 3.200165 CCCTAAAAGGTCTTACAGGGGAG 59.800 52.174 16.16 0.00 38.87 4.30
3069 3487 3.181392 TCCCTAAAAGGTCTTACAGGGGA 60.181 47.826 20.46 14.64 41.04 4.81
3070 3488 3.187112 TCCCTAAAAGGTCTTACAGGGG 58.813 50.000 20.46 13.21 41.04 4.79
3071 3489 5.452341 AATCCCTAAAAGGTCTTACAGGG 57.548 43.478 17.17 17.17 41.59 4.45
3072 3490 6.374613 GTGAAATCCCTAAAAGGTCTTACAGG 59.625 42.308 4.44 4.44 31.93 4.00
3073 3491 7.168905 AGTGAAATCCCTAAAAGGTCTTACAG 58.831 38.462 0.00 0.00 31.93 2.74
3074 3492 7.086685 AGTGAAATCCCTAAAAGGTCTTACA 57.913 36.000 0.00 0.00 31.93 2.41
3077 3495 9.280456 TCTATAGTGAAATCCCTAAAAGGTCTT 57.720 33.333 0.00 0.00 31.93 3.01
3078 3496 8.706521 GTCTATAGTGAAATCCCTAAAAGGTCT 58.293 37.037 0.00 0.00 31.93 3.85
3079 3497 8.706521 AGTCTATAGTGAAATCCCTAAAAGGTC 58.293 37.037 0.00 0.00 31.93 3.85
3080 3498 8.625467 AGTCTATAGTGAAATCCCTAAAAGGT 57.375 34.615 0.00 0.00 31.93 3.50
3081 3499 9.984190 GTAGTCTATAGTGAAATCCCTAAAAGG 57.016 37.037 0.00 0.00 34.30 3.11
3086 3504 9.445878 CGTATGTAGTCTATAGTGAAATCCCTA 57.554 37.037 0.00 0.00 0.00 3.53
3087 3505 7.393796 CCGTATGTAGTCTATAGTGAAATCCCT 59.606 40.741 0.00 0.00 0.00 4.20
3088 3506 7.392673 TCCGTATGTAGTCTATAGTGAAATCCC 59.607 40.741 0.00 0.00 0.00 3.85
3089 3507 8.332996 TCCGTATGTAGTCTATAGTGAAATCC 57.667 38.462 0.00 0.00 0.00 3.01
3090 3508 7.964011 GCTCCGTATGTAGTCTATAGTGAAATC 59.036 40.741 0.00 0.00 0.00 2.17
3091 3509 7.447545 TGCTCCGTATGTAGTCTATAGTGAAAT 59.552 37.037 0.00 0.00 0.00 2.17
3092 3510 6.769341 TGCTCCGTATGTAGTCTATAGTGAAA 59.231 38.462 0.00 0.00 0.00 2.69
3093 3511 6.293698 TGCTCCGTATGTAGTCTATAGTGAA 58.706 40.000 0.00 0.00 0.00 3.18
3094 3512 5.861727 TGCTCCGTATGTAGTCTATAGTGA 58.138 41.667 0.00 0.00 0.00 3.41
3095 3513 6.555812 TTGCTCCGTATGTAGTCTATAGTG 57.444 41.667 0.00 0.00 0.00 2.74
3096 3514 7.578310 TTTTGCTCCGTATGTAGTCTATAGT 57.422 36.000 0.00 0.00 0.00 2.12
3097 3515 8.297426 TCATTTTGCTCCGTATGTAGTCTATAG 58.703 37.037 0.00 0.00 0.00 1.31
3098 3516 8.173542 TCATTTTGCTCCGTATGTAGTCTATA 57.826 34.615 0.00 0.00 0.00 1.31
3099 3517 7.050970 TCATTTTGCTCCGTATGTAGTCTAT 57.949 36.000 0.00 0.00 0.00 1.98
3100 3518 6.096423 ACTCATTTTGCTCCGTATGTAGTCTA 59.904 38.462 0.00 0.00 0.00 2.59
3101 3519 5.105310 ACTCATTTTGCTCCGTATGTAGTCT 60.105 40.000 0.00 0.00 0.00 3.24
3102 3520 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
3103 3521 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
3104 3522 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
3105 3523 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
3106 3524 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
3107 3525 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
3108 3526 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
3109 3527 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
3110 3528 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
3111 3529 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
3112 3530 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3113 3531 6.148480 ACAGTGTAGATTCACTCATTTTGCTC 59.852 38.462 0.00 0.00 45.37 4.26
3114 3532 6.000219 ACAGTGTAGATTCACTCATTTTGCT 59.000 36.000 0.00 0.00 45.37 3.91
3115 3533 6.246420 ACAGTGTAGATTCACTCATTTTGC 57.754 37.500 0.00 0.00 45.37 3.68
3116 3534 9.817365 CTTTACAGTGTAGATTCACTCATTTTG 57.183 33.333 2.68 0.00 45.37 2.44
3117 3535 9.561069 ACTTTACAGTGTAGATTCACTCATTTT 57.439 29.630 2.68 0.00 45.37 1.82
3120 3538 9.809096 CATACTTTACAGTGTAGATTCACTCAT 57.191 33.333 2.68 0.00 45.37 2.90
3121 3539 8.803235 ACATACTTTACAGTGTAGATTCACTCA 58.197 33.333 2.68 0.00 45.37 3.41
3122 3540 9.291664 GACATACTTTACAGTGTAGATTCACTC 57.708 37.037 2.68 0.00 45.37 3.51
3132 3550 9.698309 GATGCATATAGACATACTTTACAGTGT 57.302 33.333 0.00 0.00 34.06 3.55
3133 3551 9.144747 GGATGCATATAGACATACTTTACAGTG 57.855 37.037 0.00 0.00 34.06 3.66
3134 3552 8.314751 GGGATGCATATAGACATACTTTACAGT 58.685 37.037 0.00 0.00 36.99 3.55
3135 3553 8.535335 AGGGATGCATATAGACATACTTTACAG 58.465 37.037 0.00 0.00 0.00 2.74
3136 3554 8.435931 AGGGATGCATATAGACATACTTTACA 57.564 34.615 0.00 0.00 0.00 2.41
3139 3557 9.051259 ACATAGGGATGCATATAGACATACTTT 57.949 33.333 0.00 0.00 36.43 2.66
3140 3558 8.615360 ACATAGGGATGCATATAGACATACTT 57.385 34.615 0.00 0.00 36.43 2.24
3141 3559 9.360901 CTACATAGGGATGCATATAGACATACT 57.639 37.037 0.00 1.77 36.43 2.12
3142 3560 9.137459 ACTACATAGGGATGCATATAGACATAC 57.863 37.037 0.00 0.00 36.43 2.39
3143 3561 9.715119 AACTACATAGGGATGCATATAGACATA 57.285 33.333 0.00 0.00 36.43 2.29
3144 3562 8.615360 AACTACATAGGGATGCATATAGACAT 57.385 34.615 0.00 0.00 36.43 3.06
3145 3563 7.673926 TGAACTACATAGGGATGCATATAGACA 59.326 37.037 0.00 0.00 36.43 3.41
3146 3564 8.067751 TGAACTACATAGGGATGCATATAGAC 57.932 38.462 0.00 0.00 36.43 2.59
3147 3565 8.844865 ATGAACTACATAGGGATGCATATAGA 57.155 34.615 0.00 0.00 37.46 1.98
3185 3603 9.392259 CCTCCGTTCTTAAATATAAGACCTTTT 57.608 33.333 0.00 0.00 45.52 2.27
3186 3604 7.991460 CCCTCCGTTCTTAAATATAAGACCTTT 59.009 37.037 0.00 0.00 45.52 3.11
3187 3605 7.346436 TCCCTCCGTTCTTAAATATAAGACCTT 59.654 37.037 0.00 0.00 45.52 3.50
3188 3606 6.842807 TCCCTCCGTTCTTAAATATAAGACCT 59.157 38.462 0.00 0.00 45.52 3.85
3189 3607 7.059202 TCCCTCCGTTCTTAAATATAAGACC 57.941 40.000 0.00 0.00 45.52 3.85
3190 3608 7.724287 ACTCCCTCCGTTCTTAAATATAAGAC 58.276 38.462 0.00 0.00 45.52 3.01
3191 3609 7.909485 ACTCCCTCCGTTCTTAAATATAAGA 57.091 36.000 0.00 0.00 44.48 2.10
3192 3610 7.813627 GCTACTCCCTCCGTTCTTAAATATAAG 59.186 40.741 0.00 0.00 39.97 1.73
3193 3611 7.288389 TGCTACTCCCTCCGTTCTTAAATATAA 59.712 37.037 0.00 0.00 0.00 0.98
3194 3612 6.779049 TGCTACTCCCTCCGTTCTTAAATATA 59.221 38.462 0.00 0.00 0.00 0.86
3195 3613 5.601313 TGCTACTCCCTCCGTTCTTAAATAT 59.399 40.000 0.00 0.00 0.00 1.28
3196 3614 4.957954 TGCTACTCCCTCCGTTCTTAAATA 59.042 41.667 0.00 0.00 0.00 1.40
3197 3615 3.773119 TGCTACTCCCTCCGTTCTTAAAT 59.227 43.478 0.00 0.00 0.00 1.40
3198 3616 3.167485 TGCTACTCCCTCCGTTCTTAAA 58.833 45.455 0.00 0.00 0.00 1.52
3199 3617 2.811410 TGCTACTCCCTCCGTTCTTAA 58.189 47.619 0.00 0.00 0.00 1.85
3200 3618 2.519771 TGCTACTCCCTCCGTTCTTA 57.480 50.000 0.00 0.00 0.00 2.10
3201 3619 1.482593 CATGCTACTCCCTCCGTTCTT 59.517 52.381 0.00 0.00 0.00 2.52
3202 3620 1.115467 CATGCTACTCCCTCCGTTCT 58.885 55.000 0.00 0.00 0.00 3.01
3203 3621 0.105039 CCATGCTACTCCCTCCGTTC 59.895 60.000 0.00 0.00 0.00 3.95
3204 3622 0.325296 TCCATGCTACTCCCTCCGTT 60.325 55.000 0.00 0.00 0.00 4.44
3205 3623 0.757188 CTCCATGCTACTCCCTCCGT 60.757 60.000 0.00 0.00 0.00 4.69
3206 3624 2.045280 CTCCATGCTACTCCCTCCG 58.955 63.158 0.00 0.00 0.00 4.63
3207 3625 1.751563 GCTCCATGCTACTCCCTCC 59.248 63.158 0.00 0.00 38.95 4.30
3208 3626 0.762461 AGGCTCCATGCTACTCCCTC 60.762 60.000 0.00 0.00 42.39 4.30
3209 3627 1.053264 CAGGCTCCATGCTACTCCCT 61.053 60.000 0.00 0.00 42.39 4.20
3210 3628 1.449353 CAGGCTCCATGCTACTCCC 59.551 63.158 0.00 0.00 42.39 4.30
3211 3629 1.449353 CCAGGCTCCATGCTACTCC 59.551 63.158 0.00 0.00 42.39 3.85
3212 3630 1.227793 GCCAGGCTCCATGCTACTC 60.228 63.158 3.29 0.00 42.39 2.59
3213 3631 2.750657 GGCCAGGCTCCATGCTACT 61.751 63.158 12.43 0.00 42.39 2.57
3214 3632 2.203266 GGCCAGGCTCCATGCTAC 60.203 66.667 12.43 0.00 42.39 3.58
3218 3636 0.611062 CATATGGGCCAGGCTCCATG 60.611 60.000 30.75 21.13 38.99 3.66
3319 3826 9.461312 TGCTACCTAGAAATGTTCATGTTATTT 57.539 29.630 0.00 0.00 0.00 1.40
3330 3837 4.265073 CCAAAGCTGCTACCTAGAAATGT 58.735 43.478 0.90 0.00 0.00 2.71
3331 3838 3.065925 GCCAAAGCTGCTACCTAGAAATG 59.934 47.826 0.90 0.00 35.50 2.32


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

AutoCloner maintained by Alex Coulton.