Multiple sequence alignment - TraesCS7A01G090400

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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 TraesCS7A01G090400 chr7A 100.000 3407 0 0 1 3407 55002350 54998944 0.000000e+00 6292.0
1 TraesCS7A01G090400 chr7D 91.080 2825 143 46 1 2770 53262840 53265610 0.000000e+00 3720.0
2 TraesCS7A01G090400 chr7D 82.022 534 63 19 2755 3280 53265843 53266351 1.130000e-114 424.0
3 TraesCS7A01G090400 chr4A 89.946 1303 105 15 1503 2790 667350506 667349215 0.000000e+00 1657.0
4 TraesCS7A01G090400 chr4A 90.469 661 33 17 858 1501 667351280 667350633 0.000000e+00 845.0
5 TraesCS7A01G090400 chr4A 75.355 211 31 11 3102 3294 667349189 667348982 7.840000e-12 82.4
6 TraesCS7A01G090400 chr6A 81.879 745 72 36 1244 1957 8971233 8971945 1.370000e-158 569.0
7 TraesCS7A01G090400 chr2A 81.095 767 74 37 1222 1957 755066972 755066246 6.430000e-152 547.0
8 TraesCS7A01G090400 chrUn 82.609 184 25 7 585 767 68264514 68264691 4.550000e-34 156.0
9 TraesCS7A01G090400 chrUn 81.928 166 24 6 597 762 68276606 68276447 5.930000e-28 135.0
10 TraesCS7A01G090400 chrUn 81.928 166 24 6 597 762 362462809 362462968 5.930000e-28 135.0
11 TraesCS7A01G090400 chr3B 83.140 172 22 6 597 767 16048225 16048390 2.120000e-32 150.0
12 TraesCS7A01G090400 chr5D 82.065 184 22 10 585 767 497108110 497108283 2.740000e-31 147.0
13 TraesCS7A01G090400 chr4D 79.532 171 31 4 597 766 8593932 8594099 5.970000e-23 119.0
14 TraesCS7A01G090400 chr7B 78.378 185 30 7 583 764 623520413 623520236 9.990000e-21 111.0
15 TraesCS7A01G090400 chr7B 77.368 190 33 9 583 767 623264355 623264171 1.670000e-18 104.0
16 TraesCS7A01G090400 chr6B 77.193 171 34 5 597 767 699137796 699137631 1.010000e-15 95.3


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 TraesCS7A01G090400 chr7A 54998944 55002350 3406 True 6292.000000 6292 100.000000 1 3407 1 chr7A.!!$R1 3406
1 TraesCS7A01G090400 chr7D 53262840 53266351 3511 False 2072.000000 3720 86.551000 1 3280 2 chr7D.!!$F1 3279
2 TraesCS7A01G090400 chr4A 667348982 667351280 2298 True 861.466667 1657 85.256667 858 3294 3 chr4A.!!$R1 2436
3 TraesCS7A01G090400 chr6A 8971233 8971945 712 False 569.000000 569 81.879000 1244 1957 1 chr6A.!!$F1 713
4 TraesCS7A01G090400 chr2A 755066246 755066972 726 True 547.000000 547 81.095000 1222 1957 1 chr2A.!!$R1 735

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
40 41 0.394488 TGGTTTTCCGTGCCTGTCAA 60.394 50.0 0.0 0.0 44.36 3.18 F
1200 1257 0.177141 CCGTCTTATCTTTCCCGGCA 59.823 55.0 0.0 0.0 0.00 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1218 1275 1.269257 GGCATCTTCTTTAATGGCGGC 60.269 52.381 0.0 0.0 38.46 6.53 R
3072 3551 0.179045 CCCACCTGCTACATGCCTAC 60.179 60.000 0.0 0.0 42.00 3.18 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
29 30 6.316640 GCCTCTAGATTAGAAGTTGGTTTTCC 59.683 42.308 0.00 0.00 35.89 3.13
30 31 6.535508 CCTCTAGATTAGAAGTTGGTTTTCCG 59.464 42.308 0.00 0.00 37.26 4.30
40 41 0.394488 TGGTTTTCCGTGCCTGTCAA 60.394 50.000 0.00 0.00 44.36 3.18
113 114 4.713814 TGAGCTGTTATTCAGTGAGATCCT 59.286 41.667 0.00 0.00 45.23 3.24
114 115 5.893824 TGAGCTGTTATTCAGTGAGATCCTA 59.106 40.000 0.00 0.00 45.23 2.94
115 116 6.552725 TGAGCTGTTATTCAGTGAGATCCTAT 59.447 38.462 0.00 0.00 45.23 2.57
116 117 7.725844 TGAGCTGTTATTCAGTGAGATCCTATA 59.274 37.037 0.00 0.00 45.23 1.31
117 118 7.891561 AGCTGTTATTCAGTGAGATCCTATAC 58.108 38.462 0.00 0.00 45.23 1.47
118 119 7.039363 AGCTGTTATTCAGTGAGATCCTATACC 60.039 40.741 0.00 0.00 45.23 2.73
129 157 9.747898 AGTGAGATCCTATACCTAGTAATTCAG 57.252 37.037 0.00 0.00 0.00 3.02
331 359 4.870363 ACCATTGTGAGTGCATTTTGTAC 58.130 39.130 0.00 0.00 32.95 2.90
334 362 5.630680 CCATTGTGAGTGCATTTTGTACTTC 59.369 40.000 0.00 0.00 43.31 3.01
340 368 5.007626 TGAGTGCATTTTGTACTTCTGTCAC 59.992 40.000 0.00 0.00 43.31 3.67
361 389 5.241285 TCACAGATTTTGCTTGCTGTATCAA 59.759 36.000 0.00 0.00 39.40 2.57
407 435 2.805671 TGCCTGTGATGTAACTTTCGTG 59.194 45.455 0.00 0.00 0.00 4.35
468 496 7.255277 GGAAAGATAGACTGAACTGTTTTTGCT 60.255 37.037 0.00 0.00 0.00 3.91
471 499 4.622701 AGACTGAACTGTTTTTGCTGTC 57.377 40.909 0.00 2.16 0.00 3.51
472 500 4.009675 AGACTGAACTGTTTTTGCTGTCA 58.990 39.130 14.70 0.00 32.18 3.58
488 516 1.414919 TGTCAGTTTTAGCTGGTCGGT 59.585 47.619 0.00 0.00 37.12 4.69
510 538 8.701895 TCGGTAATCTAGTTCCATTTTGACTAT 58.298 33.333 0.00 0.00 0.00 2.12
632 662 6.333416 TCTCAGTCGATTGAGATTTAACCAG 58.667 40.000 30.21 8.07 46.42 4.00
634 664 5.046591 TCAGTCGATTGAGATTTAACCAGGT 60.047 40.000 6.51 0.00 0.00 4.00
635 665 5.292101 CAGTCGATTGAGATTTAACCAGGTC 59.708 44.000 0.86 0.00 0.00 3.85
727 759 9.914131 TCTTCATGTAAGATCCAACGAATATAG 57.086 33.333 0.00 0.00 39.36 1.31
728 760 8.534333 TTCATGTAAGATCCAACGAATATAGC 57.466 34.615 0.00 0.00 0.00 2.97
729 761 7.666623 TCATGTAAGATCCAACGAATATAGCA 58.333 34.615 0.00 0.00 0.00 3.49
730 762 8.314021 TCATGTAAGATCCAACGAATATAGCAT 58.686 33.333 0.00 0.00 0.00 3.79
741 773 4.083217 ACGAATATAGCATCGACTGAGACC 60.083 45.833 11.05 0.00 41.43 3.85
743 775 5.351740 CGAATATAGCATCGACTGAGACCTA 59.648 44.000 0.00 0.00 41.43 3.08
790 833 5.678132 AGCAGATTTGGTTTGAATTTTGC 57.322 34.783 0.00 0.00 32.36 3.68
812 856 2.685897 TGACAGTTTTGAAAACTCCCCG 59.314 45.455 19.53 11.47 0.00 5.73
826 870 1.224315 CCCCGAGTGATGGCATCAA 59.776 57.895 30.30 13.01 41.69 2.57
831 875 2.223409 CCGAGTGATGGCATCAACATTG 60.223 50.000 30.30 20.95 41.69 2.82
836 880 3.192001 GTGATGGCATCAACATTGTGAGT 59.808 43.478 30.30 0.00 41.69 3.41
863 907 4.607293 TGTCAGTTCACTTGCTCATACT 57.393 40.909 0.00 0.00 0.00 2.12
1192 1249 0.249398 AAGCACGGCCGTCTTATCTT 59.751 50.000 31.80 21.62 0.00 2.40
1193 1250 0.249398 AGCACGGCCGTCTTATCTTT 59.751 50.000 31.80 0.00 0.00 2.52
1199 1256 2.987752 CCGTCTTATCTTTCCCGGC 58.012 57.895 0.00 0.00 0.00 6.13
1200 1257 0.177141 CCGTCTTATCTTTCCCGGCA 59.823 55.000 0.00 0.00 0.00 5.69
1201 1258 1.571919 CGTCTTATCTTTCCCGGCAG 58.428 55.000 0.00 0.00 0.00 4.85
1202 1259 1.136305 CGTCTTATCTTTCCCGGCAGA 59.864 52.381 0.00 0.00 0.00 4.26
1203 1260 2.224066 CGTCTTATCTTTCCCGGCAGAT 60.224 50.000 12.25 12.25 34.08 2.90
1204 1261 3.741388 CGTCTTATCTTTCCCGGCAGATT 60.741 47.826 12.70 1.06 31.89 2.40
1205 1262 3.810386 GTCTTATCTTTCCCGGCAGATTC 59.190 47.826 12.70 1.82 31.89 2.52
1206 1263 2.526304 TATCTTTCCCGGCAGATTCG 57.474 50.000 12.70 0.00 31.89 3.34
1207 1264 0.815615 ATCTTTCCCGGCAGATTCGC 60.816 55.000 0.00 0.00 0.00 4.70
1269 1326 3.044305 GCTTCAGCTTCGCGTGGT 61.044 61.111 5.77 3.07 38.21 4.16
1271 1328 1.941812 CTTCAGCTTCGCGTGGTTT 59.058 52.632 5.77 0.00 0.00 3.27
1272 1329 0.110644 CTTCAGCTTCGCGTGGTTTC 60.111 55.000 5.77 0.00 0.00 2.78
1501 1698 4.094590 GCACTGAGATTTCATCTTCTGGTG 59.905 45.833 0.00 0.00 40.38 4.17
1591 1794 4.587584 TTGATTGCTGCAATTCTGAACA 57.412 36.364 26.87 16.69 33.90 3.18
1795 1998 2.552743 GGTTTGGCTTGTCTGTAAGTCC 59.447 50.000 0.00 0.00 31.36 3.85
1800 2003 1.066071 GCTTGTCTGTAAGTCCCCCTC 60.066 57.143 0.00 0.00 33.76 4.30
1801 2004 1.555533 CTTGTCTGTAAGTCCCCCTCC 59.444 57.143 0.00 0.00 33.76 4.30
1808 2011 4.233521 TCTGTAAGTCCCCCTCCATTACTA 59.766 45.833 0.00 0.00 33.76 1.82
1810 2013 3.797671 AAGTCCCCCTCCATTACTACT 57.202 47.619 0.00 0.00 0.00 2.57
1811 2014 3.047695 AGTCCCCCTCCATTACTACTG 57.952 52.381 0.00 0.00 0.00 2.74
1820 2023 6.472887 CCCTCCATTACTACTGTTTCTTTCA 58.527 40.000 0.00 0.00 0.00 2.69
1866 2083 6.001460 TCTGAAAGTCCGGTTAATGTTCATT 58.999 36.000 0.00 3.55 33.76 2.57
1886 2107 0.780002 CACAGCTGAATGTTTTGCGC 59.220 50.000 23.35 0.00 0.00 6.09
1937 2158 4.582452 GTGGTTCACACGCGAAAC 57.418 55.556 15.93 11.29 40.85 2.78
1996 2217 2.218603 GCTCAACCCTTTTCTGTCGAA 58.781 47.619 0.00 0.00 0.00 3.71
2002 2223 7.012421 GCTCAACCCTTTTCTGTCGAATTATAT 59.988 37.037 0.00 0.00 0.00 0.86
2003 2224 8.208718 TCAACCCTTTTCTGTCGAATTATATG 57.791 34.615 0.00 0.00 0.00 1.78
2006 2227 6.992715 ACCCTTTTCTGTCGAATTATATGAGG 59.007 38.462 0.00 0.00 0.00 3.86
2015 2236 6.770303 TGTCGAATTATATGAGGCATTTCCAA 59.230 34.615 0.00 0.00 37.29 3.53
2142 2363 1.368641 TGCGCCATGTACTGACATTC 58.631 50.000 4.18 0.00 44.18 2.67
2143 2364 0.301687 GCGCCATGTACTGACATTCG 59.698 55.000 0.00 5.57 44.18 3.34
2174 2395 5.412594 TCCTTTTCAGCATGCTTACTACTTG 59.587 40.000 19.98 5.09 34.76 3.16
2325 2547 4.821805 TCAAACTTTCTGGATCACCTTGTC 59.178 41.667 0.00 0.00 37.04 3.18
2414 2636 3.254089 TCCCAGTGGCATGAGATGATAT 58.746 45.455 2.61 0.00 0.00 1.63
2418 2640 4.001652 CAGTGGCATGAGATGATATGGAC 58.998 47.826 0.00 0.00 0.00 4.02
2438 2660 3.764434 GACATGACCTGGAGTTGTCTCTA 59.236 47.826 0.00 0.00 40.29 2.43
2447 2669 6.440647 ACCTGGAGTTGTCTCTAAATATGTCA 59.559 38.462 0.00 0.00 40.29 3.58
2465 2687 9.698309 AATATGTCAATCTCACGAGGTAATAAG 57.302 33.333 0.00 0.00 0.00 1.73
2477 2699 5.183140 ACGAGGTAATAAGTTTTGCAGCATT 59.817 36.000 0.00 0.00 0.00 3.56
2482 2704 8.630037 AGGTAATAAGTTTTGCAGCATTATACC 58.370 33.333 0.00 6.50 0.00 2.73
2531 2753 7.907214 AGTAATATACGATTCAATTCCCTGC 57.093 36.000 0.00 0.00 0.00 4.85
2535 2757 0.664761 CGATTCAATTCCCTGCGCAT 59.335 50.000 12.24 0.00 0.00 4.73
2550 2772 3.659786 TGCGCATGAGGTGGTATATAAC 58.340 45.455 5.66 0.00 0.00 1.89
2558 2780 9.502091 GCATGAGGTGGTATATAACTAATCAAA 57.498 33.333 0.00 0.00 0.00 2.69
2576 2798 1.302907 AATCAGGGTTCAGGGCATCT 58.697 50.000 0.00 0.00 0.00 2.90
2579 2801 0.911769 CAGGGTTCAGGGCATCTGTA 59.088 55.000 6.26 0.00 43.76 2.74
2613 2835 9.959721 ATGTTTCTTTTTCTAGCTATGAGGTAA 57.040 29.630 0.00 0.00 0.00 2.85
2614 2836 9.436957 TGTTTCTTTTTCTAGCTATGAGGTAAG 57.563 33.333 0.00 0.00 0.00 2.34
2615 2837 9.438228 GTTTCTTTTTCTAGCTATGAGGTAAGT 57.562 33.333 0.00 0.00 0.00 2.24
2631 2855 8.534954 TGAGGTAAGTACTAGAAGCATTATGT 57.465 34.615 0.00 0.00 0.00 2.29
2655 2879 4.935702 TGCCATATTTGCAGCTTAATCAC 58.064 39.130 0.00 0.00 34.05 3.06
2666 2890 4.452455 GCAGCTTAATCACGTAATATGCCT 59.548 41.667 0.00 0.00 0.00 4.75
2684 2908 0.804544 CTTTCGATTCCCTGCGCGTA 60.805 55.000 8.43 0.71 0.00 4.42
2696 2920 2.058798 CTGCGCGTAAGGTGGTATATG 58.941 52.381 8.43 0.00 38.28 1.78
2712 2941 7.339466 GGTGGTATATGAATAATAAAGCAGGGG 59.661 40.741 0.00 0.00 0.00 4.79
2722 2951 8.838649 AATAATAAAGCAGGGGTCAAAGTATT 57.161 30.769 0.00 0.00 0.00 1.89
2750 2979 6.122964 GCCCTATTATGTCTCTTTTCCAACT 58.877 40.000 0.00 0.00 0.00 3.16
2770 3248 5.537300 ACTATGAGGTAAGTGGTAGCATG 57.463 43.478 0.00 0.00 32.26 4.06
2796 3274 3.423539 ACCAGAAGTTCTGCTGCATTA 57.576 42.857 24.85 0.00 42.98 1.90
2797 3275 3.960571 ACCAGAAGTTCTGCTGCATTAT 58.039 40.909 24.85 2.26 42.98 1.28
2801 3279 5.220931 CCAGAAGTTCTGCTGCATTATTACC 60.221 44.000 24.85 0.00 42.98 2.85
2817 3295 8.893727 GCATTATTACCAGGGATGTTGATATAC 58.106 37.037 0.00 0.00 0.00 1.47
2830 3308 9.897744 GGATGTTGATATACCATGTAATGTTTG 57.102 33.333 0.00 0.00 44.81 2.93
2831 3309 9.398170 GATGTTGATATACCATGTAATGTTTGC 57.602 33.333 0.00 0.00 44.81 3.68
2877 3355 2.475353 GCTTCTCTTGAAAAGCTAGCGC 60.475 50.000 9.55 0.00 45.70 5.92
2878 3356 2.455674 TCTCTTGAAAAGCTAGCGCA 57.544 45.000 11.47 3.82 45.70 6.09
2889 3367 1.202687 AGCTAGCGCATAAGGCAATCA 60.203 47.619 11.47 0.00 45.17 2.57
2911 3389 7.938140 TCAAATATTGGGTTTCAGACTTAGG 57.062 36.000 0.00 0.00 0.00 2.69
2914 3392 2.561478 TGGGTTTCAGACTTAGGCAC 57.439 50.000 0.00 0.00 0.00 5.01
2915 3393 1.771854 TGGGTTTCAGACTTAGGCACA 59.228 47.619 0.00 0.00 0.00 4.57
2917 3395 3.585289 TGGGTTTCAGACTTAGGCACATA 59.415 43.478 0.00 0.00 0.00 2.29
2921 3399 5.238583 GTTTCAGACTTAGGCACATACAGT 58.761 41.667 0.00 0.00 0.00 3.55
2925 3403 3.055094 AGACTTAGGCACATACAGTTGGG 60.055 47.826 0.00 0.00 0.00 4.12
2928 3406 2.496899 AGGCACATACAGTTGGGAAG 57.503 50.000 0.00 0.00 0.00 3.46
2939 3417 3.910627 ACAGTTGGGAAGATCAAGGTAGT 59.089 43.478 0.00 0.00 0.00 2.73
2947 3425 6.443849 TGGGAAGATCAAGGTAGTATTGACTT 59.556 38.462 0.00 0.00 39.36 3.01
2964 3442 2.354821 GACTTGACGCTGTTTCTTTGGT 59.645 45.455 0.00 0.00 0.00 3.67
2970 3448 1.946768 CGCTGTTTCTTTGGTTGAGGA 59.053 47.619 0.00 0.00 0.00 3.71
2971 3449 2.287009 CGCTGTTTCTTTGGTTGAGGAC 60.287 50.000 0.00 0.00 0.00 3.85
2972 3450 2.952310 GCTGTTTCTTTGGTTGAGGACT 59.048 45.455 0.00 0.00 0.00 3.85
2974 3452 4.734695 GCTGTTTCTTTGGTTGAGGACTTG 60.735 45.833 0.00 0.00 0.00 3.16
2975 3453 4.594970 TGTTTCTTTGGTTGAGGACTTGA 58.405 39.130 0.00 0.00 0.00 3.02
2976 3454 4.640201 TGTTTCTTTGGTTGAGGACTTGAG 59.360 41.667 0.00 0.00 0.00 3.02
2977 3455 2.851195 TCTTTGGTTGAGGACTTGAGC 58.149 47.619 0.00 0.00 0.00 4.26
2978 3456 2.439507 TCTTTGGTTGAGGACTTGAGCT 59.560 45.455 0.00 0.00 0.00 4.09
2979 3457 3.646162 TCTTTGGTTGAGGACTTGAGCTA 59.354 43.478 0.00 0.00 0.00 3.32
2980 3458 3.685139 TTGGTTGAGGACTTGAGCTAG 57.315 47.619 0.00 0.00 0.00 3.42
2981 3459 1.902508 TGGTTGAGGACTTGAGCTAGG 59.097 52.381 0.00 0.00 0.00 3.02
2982 3460 1.208293 GGTTGAGGACTTGAGCTAGGG 59.792 57.143 0.00 0.00 0.00 3.53
3019 3497 0.478072 TTGGAGGCCAGAGCAGAAAA 59.522 50.000 5.01 0.00 42.56 2.29
3021 3499 0.884514 GGAGGCCAGAGCAGAAAAAC 59.115 55.000 5.01 0.00 42.56 2.43
3022 3500 1.609208 GAGGCCAGAGCAGAAAAACA 58.391 50.000 5.01 0.00 42.56 2.83
3032 3510 7.373493 CCAGAGCAGAAAAACATAGTGAAATT 58.627 34.615 0.00 0.00 0.00 1.82
3034 3512 8.909671 CAGAGCAGAAAAACATAGTGAAATTTC 58.090 33.333 11.41 11.41 0.00 2.17
3035 3513 8.632679 AGAGCAGAAAAACATAGTGAAATTTCA 58.367 29.630 16.91 16.91 34.20 2.69
3057 3536 9.890629 TTTCACTGCATCTTAGTATTAGAATGT 57.109 29.630 0.00 0.00 0.00 2.71
3073 3552 8.933522 ATTAGAATGTCCAGGGGTATATATGT 57.066 34.615 0.00 0.00 0.00 2.29
3075 3554 7.979786 AGAATGTCCAGGGGTATATATGTAG 57.020 40.000 0.00 0.00 0.00 2.74
3077 3556 4.359105 TGTCCAGGGGTATATATGTAGGC 58.641 47.826 0.00 0.00 0.00 3.93
3078 3557 4.202847 TGTCCAGGGGTATATATGTAGGCA 60.203 45.833 0.00 0.00 0.00 4.75
3079 3558 4.969359 GTCCAGGGGTATATATGTAGGCAT 59.031 45.833 0.00 0.00 39.03 4.40
3081 3560 4.721776 CCAGGGGTATATATGTAGGCATGT 59.278 45.833 0.00 0.00 36.58 3.21
3082 3561 5.903010 CCAGGGGTATATATGTAGGCATGTA 59.097 44.000 0.00 0.00 36.58 2.29
3083 3562 6.042093 CCAGGGGTATATATGTAGGCATGTAG 59.958 46.154 0.00 0.00 36.58 2.74
3084 3563 5.602978 AGGGGTATATATGTAGGCATGTAGC 59.397 44.000 0.00 0.00 44.65 3.58
3093 3572 2.677228 GCATGTAGCAGGTGGGGT 59.323 61.111 0.00 0.00 44.79 4.95
3094 3573 1.000896 GCATGTAGCAGGTGGGGTT 60.001 57.895 0.00 0.00 44.79 4.11
3095 3574 1.315257 GCATGTAGCAGGTGGGGTTG 61.315 60.000 0.00 0.00 44.79 3.77
3096 3575 1.000896 ATGTAGCAGGTGGGGTTGC 60.001 57.895 0.00 0.00 40.57 4.17
3097 3576 1.788518 ATGTAGCAGGTGGGGTTGCA 61.789 55.000 0.00 0.00 42.67 4.08
3098 3577 1.000896 GTAGCAGGTGGGGTTGCAT 60.001 57.895 0.00 0.00 42.67 3.96
3099 3578 0.611896 GTAGCAGGTGGGGTTGCATT 60.612 55.000 0.00 0.00 42.67 3.56
3100 3579 0.611618 TAGCAGGTGGGGTTGCATTG 60.612 55.000 0.00 0.00 42.67 2.82
3129 3609 1.480137 CTTTTTGGGGTGTGCAGTTGA 59.520 47.619 0.00 0.00 0.00 3.18
3137 3617 2.504367 GGTGTGCAGTTGATTAGGTGT 58.496 47.619 0.00 0.00 0.00 4.16
3147 3627 4.021016 AGTTGATTAGGTGTCTGACTGGAC 60.021 45.833 9.51 0.00 36.81 4.02
3151 3637 0.251832 AGGTGTCTGACTGGACGGAT 60.252 55.000 9.51 0.00 38.91 4.18
3173 3663 6.073276 GGATTTTGGTTTTCACAGTTTATGGC 60.073 38.462 0.00 0.00 0.00 4.40
3189 3679 1.446272 GGCCGGAGAAGAGACGTTG 60.446 63.158 5.05 0.00 0.00 4.10
3196 3686 3.182572 CGGAGAAGAGACGTTGTGAAAAG 59.817 47.826 0.00 0.00 0.00 2.27
3272 3771 8.556213 TGGTGTTAAACTTTACCAGTGATATC 57.444 34.615 0.00 0.00 38.23 1.63
3285 3784 5.180117 ACCAGTGATATCATTTTATCTGCGC 59.820 40.000 9.02 0.00 31.19 6.09
3286 3785 5.410746 CCAGTGATATCATTTTATCTGCGCT 59.589 40.000 9.73 0.00 31.19 5.92
3294 3793 9.712305 ATATCATTTTATCTGCGCTAACTACTT 57.288 29.630 9.73 0.00 0.00 2.24
3295 3794 7.464830 TCATTTTATCTGCGCTAACTACTTC 57.535 36.000 9.73 0.00 0.00 3.01
3296 3795 7.039270 TCATTTTATCTGCGCTAACTACTTCA 58.961 34.615 9.73 0.00 0.00 3.02
3297 3796 6.642683 TTTTATCTGCGCTAACTACTTCAC 57.357 37.500 9.73 0.00 0.00 3.18
3298 3797 3.868757 ATCTGCGCTAACTACTTCACA 57.131 42.857 9.73 0.00 0.00 3.58
3299 3798 3.653539 TCTGCGCTAACTACTTCACAA 57.346 42.857 9.73 0.00 0.00 3.33
3300 3799 3.314553 TCTGCGCTAACTACTTCACAAC 58.685 45.455 9.73 0.00 0.00 3.32
3301 3800 3.005472 TCTGCGCTAACTACTTCACAACT 59.995 43.478 9.73 0.00 0.00 3.16
3302 3801 3.724374 TGCGCTAACTACTTCACAACTT 58.276 40.909 9.73 0.00 0.00 2.66
3303 3802 4.124238 TGCGCTAACTACTTCACAACTTT 58.876 39.130 9.73 0.00 0.00 2.66
3304 3803 4.573201 TGCGCTAACTACTTCACAACTTTT 59.427 37.500 9.73 0.00 0.00 2.27
3305 3804 5.065474 TGCGCTAACTACTTCACAACTTTTT 59.935 36.000 9.73 0.00 0.00 1.94
3306 3805 6.258287 TGCGCTAACTACTTCACAACTTTTTA 59.742 34.615 9.73 0.00 0.00 1.52
3307 3806 7.127686 GCGCTAACTACTTCACAACTTTTTAA 58.872 34.615 0.00 0.00 0.00 1.52
3308 3807 7.641020 GCGCTAACTACTTCACAACTTTTTAAA 59.359 33.333 0.00 0.00 0.00 1.52
3309 3808 9.659830 CGCTAACTACTTCACAACTTTTTAAAT 57.340 29.630 0.00 0.00 0.00 1.40
3317 3816 9.797556 ACTTCACAACTTTTTAAATTGGTAGAC 57.202 29.630 5.31 0.00 0.00 2.59
3318 3817 9.796120 CTTCACAACTTTTTAAATTGGTAGACA 57.204 29.630 5.31 0.00 0.00 3.41
3333 3832 9.668497 AATTGGTAGACATAAGTACCTTTTCTC 57.332 33.333 0.00 0.00 39.68 2.87
3334 3833 7.786046 TGGTAGACATAAGTACCTTTTCTCA 57.214 36.000 0.00 0.00 39.68 3.27
3335 3834 7.837863 TGGTAGACATAAGTACCTTTTCTCAG 58.162 38.462 0.00 0.00 39.68 3.35
3336 3835 7.453752 TGGTAGACATAAGTACCTTTTCTCAGT 59.546 37.037 0.00 0.00 39.68 3.41
3337 3836 8.964772 GGTAGACATAAGTACCTTTTCTCAGTA 58.035 37.037 0.00 0.00 36.51 2.74
3339 3838 7.548967 AGACATAAGTACCTTTTCTCAGTAGC 58.451 38.462 0.00 0.00 0.00 3.58
3340 3839 7.178628 AGACATAAGTACCTTTTCTCAGTAGCA 59.821 37.037 0.00 0.00 0.00 3.49
3341 3840 7.324178 ACATAAGTACCTTTTCTCAGTAGCAG 58.676 38.462 0.00 0.00 0.00 4.24
3342 3841 4.195225 AGTACCTTTTCTCAGTAGCAGC 57.805 45.455 0.00 0.00 0.00 5.25
3343 3842 3.578716 AGTACCTTTTCTCAGTAGCAGCA 59.421 43.478 0.00 0.00 0.00 4.41
3344 3843 3.492102 ACCTTTTCTCAGTAGCAGCAA 57.508 42.857 0.00 0.00 0.00 3.91
3345 3844 4.026356 ACCTTTTCTCAGTAGCAGCAAT 57.974 40.909 0.00 0.00 0.00 3.56
3346 3845 5.165961 ACCTTTTCTCAGTAGCAGCAATA 57.834 39.130 0.00 0.00 0.00 1.90
3347 3846 5.181748 ACCTTTTCTCAGTAGCAGCAATAG 58.818 41.667 0.00 0.00 0.00 1.73
3348 3847 5.181748 CCTTTTCTCAGTAGCAGCAATAGT 58.818 41.667 0.00 0.00 0.00 2.12
3349 3848 6.070767 ACCTTTTCTCAGTAGCAGCAATAGTA 60.071 38.462 0.00 0.00 0.00 1.82
3350 3849 6.818644 CCTTTTCTCAGTAGCAGCAATAGTAA 59.181 38.462 0.00 0.00 0.00 2.24
3351 3850 7.010923 CCTTTTCTCAGTAGCAGCAATAGTAAG 59.989 40.741 0.00 0.00 0.00 2.34
3352 3851 4.938080 TCTCAGTAGCAGCAATAGTAAGC 58.062 43.478 0.00 0.00 0.00 3.09
3353 3852 4.646945 TCTCAGTAGCAGCAATAGTAAGCT 59.353 41.667 0.00 0.00 42.94 3.74
3361 3860 4.826274 AGCAATAGTAAGCTGAACCTGA 57.174 40.909 0.00 0.00 40.13 3.86
3362 3861 5.165961 AGCAATAGTAAGCTGAACCTGAA 57.834 39.130 0.00 0.00 40.13 3.02
3363 3862 5.181748 AGCAATAGTAAGCTGAACCTGAAG 58.818 41.667 0.00 0.00 40.13 3.02
3364 3863 5.046304 AGCAATAGTAAGCTGAACCTGAAGA 60.046 40.000 0.00 0.00 40.13 2.87
3365 3864 5.643777 GCAATAGTAAGCTGAACCTGAAGAA 59.356 40.000 0.00 0.00 0.00 2.52
3366 3865 6.149474 GCAATAGTAAGCTGAACCTGAAGAAA 59.851 38.462 0.00 0.00 0.00 2.52
3367 3866 7.308589 GCAATAGTAAGCTGAACCTGAAGAAAA 60.309 37.037 0.00 0.00 0.00 2.29
3368 3867 8.734386 CAATAGTAAGCTGAACCTGAAGAAAAT 58.266 33.333 0.00 0.00 0.00 1.82
3369 3868 9.959721 AATAGTAAGCTGAACCTGAAGAAAATA 57.040 29.630 0.00 0.00 0.00 1.40
3397 3896 3.690475 TTTCTTCCGGACCTTAACTCC 57.310 47.619 1.83 0.00 0.00 3.85
3398 3897 2.314071 TCTTCCGGACCTTAACTCCA 57.686 50.000 1.83 0.00 0.00 3.86
3399 3898 1.897802 TCTTCCGGACCTTAACTCCAC 59.102 52.381 1.83 0.00 0.00 4.02
3400 3899 1.621814 CTTCCGGACCTTAACTCCACA 59.378 52.381 1.83 0.00 0.00 4.17
3401 3900 1.946984 TCCGGACCTTAACTCCACAT 58.053 50.000 0.00 0.00 0.00 3.21
3402 3901 3.104519 TCCGGACCTTAACTCCACATA 57.895 47.619 0.00 0.00 0.00 2.29
3403 3902 2.762327 TCCGGACCTTAACTCCACATAC 59.238 50.000 0.00 0.00 0.00 2.39
3404 3903 2.159000 CCGGACCTTAACTCCACATACC 60.159 54.545 0.00 0.00 0.00 2.73
3405 3904 2.498481 CGGACCTTAACTCCACATACCA 59.502 50.000 0.00 0.00 0.00 3.25
3406 3905 3.430374 CGGACCTTAACTCCACATACCAG 60.430 52.174 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 3.498397 AGTTGAACTAATTGACAGGCACG 59.502 43.478 0.00 0.00 0.00 5.34
30 31 5.215160 CAAGTTGAACTAATTGACAGGCAC 58.785 41.667 0.00 0.00 0.00 5.01
40 41 5.690865 TCAGTGAACCCAAGTTGAACTAAT 58.309 37.500 3.87 0.00 35.94 1.73
115 116 9.256228 ACTTCTGTCAATCTGAATTACTAGGTA 57.744 33.333 0.00 0.00 34.44 3.08
116 117 8.140112 ACTTCTGTCAATCTGAATTACTAGGT 57.860 34.615 0.00 0.00 34.44 3.08
117 118 8.877779 CAACTTCTGTCAATCTGAATTACTAGG 58.122 37.037 0.00 0.00 34.44 3.02
118 119 9.645059 TCAACTTCTGTCAATCTGAATTACTAG 57.355 33.333 0.00 0.00 34.44 2.57
129 157 7.148340 CCAGAAATACCTCAACTTCTGTCAATC 60.148 40.741 9.19 0.00 42.03 2.67
132 160 5.306937 TCCAGAAATACCTCAACTTCTGTCA 59.693 40.000 9.19 0.00 42.03 3.58
331 359 3.979495 GCAAGCAAAATCTGTGACAGAAG 59.021 43.478 20.26 10.79 44.04 2.85
334 362 3.243301 ACAGCAAGCAAAATCTGTGACAG 60.243 43.478 6.18 6.18 38.25 3.51
340 368 8.867112 ATTATTGATACAGCAAGCAAAATCTG 57.133 30.769 0.00 0.00 0.00 2.90
361 389 9.065798 CATTGGAAGGAAAACCAACAAAATTAT 57.934 29.630 0.00 0.00 46.67 1.28
407 435 2.223548 TGAGCACAAACACATCAGTTGC 60.224 45.455 0.00 0.00 0.00 4.17
468 496 1.414919 ACCGACCAGCTAAAACTGACA 59.585 47.619 0.00 0.00 40.25 3.58
471 499 4.504858 AGATTACCGACCAGCTAAAACTG 58.495 43.478 0.00 0.00 37.42 3.16
472 500 4.820894 AGATTACCGACCAGCTAAAACT 57.179 40.909 0.00 0.00 0.00 2.66
554 582 9.467796 AAATTCAAACCAAACATTTTTAGGGAA 57.532 25.926 0.00 0.00 0.00 3.97
719 751 4.155099 AGGTCTCAGTCGATGCTATATTCG 59.845 45.833 0.00 0.00 36.72 3.34
720 752 5.637006 AGGTCTCAGTCGATGCTATATTC 57.363 43.478 0.00 0.00 0.00 1.75
721 753 6.242396 ACTAGGTCTCAGTCGATGCTATATT 58.758 40.000 0.00 0.00 0.00 1.28
722 754 5.811190 ACTAGGTCTCAGTCGATGCTATAT 58.189 41.667 0.00 0.00 0.00 0.86
723 755 5.230323 ACTAGGTCTCAGTCGATGCTATA 57.770 43.478 0.00 0.00 0.00 1.31
724 756 4.093472 ACTAGGTCTCAGTCGATGCTAT 57.907 45.455 0.00 0.00 0.00 2.97
725 757 3.562343 ACTAGGTCTCAGTCGATGCTA 57.438 47.619 0.00 0.00 0.00 3.49
726 758 2.428544 ACTAGGTCTCAGTCGATGCT 57.571 50.000 0.00 0.00 0.00 3.79
727 759 4.096682 ACTTAACTAGGTCTCAGTCGATGC 59.903 45.833 0.00 0.00 0.00 3.91
728 760 5.587043 AGACTTAACTAGGTCTCAGTCGATG 59.413 44.000 8.37 0.00 38.07 3.84
729 761 5.747342 AGACTTAACTAGGTCTCAGTCGAT 58.253 41.667 8.37 0.00 38.07 3.59
730 762 5.163281 AGACTTAACTAGGTCTCAGTCGA 57.837 43.478 8.37 0.00 38.07 4.20
790 833 3.243068 CGGGGAGTTTTCAAAACTGTCAG 60.243 47.826 20.43 8.69 0.00 3.51
812 856 3.441222 TCACAATGTTGATGCCATCACTC 59.559 43.478 6.94 4.61 39.39 3.51
826 870 3.633525 ACTGACAAATGCACTCACAATGT 59.366 39.130 0.00 0.00 0.00 2.71
831 875 3.313526 AGTGAACTGACAAATGCACTCAC 59.686 43.478 0.00 0.00 31.54 3.51
836 880 2.689471 AGCAAGTGAACTGACAAATGCA 59.311 40.909 0.00 0.00 36.64 3.96
863 907 0.529833 GCTGCTACTGACTGAGCTGA 59.470 55.000 0.00 0.00 39.30 4.26
1183 1234 2.981859 TCTGCCGGGAAAGATAAGAC 57.018 50.000 2.18 0.00 0.00 3.01
1218 1275 1.269257 GGCATCTTCTTTAATGGCGGC 60.269 52.381 0.00 0.00 38.46 6.53
1219 1276 2.781945 GGCATCTTCTTTAATGGCGG 57.218 50.000 0.00 0.00 38.46 6.13
1591 1794 7.125204 ACCTACACACCACAGTATAACATACAT 59.875 37.037 0.00 0.00 0.00 2.29
1603 1806 1.338107 TCCAGACCTACACACCACAG 58.662 55.000 0.00 0.00 0.00 3.66
1795 1998 5.437191 AAGAAACAGTAGTAATGGAGGGG 57.563 43.478 2.24 0.00 0.00 4.79
1800 2003 9.268268 TGTACTTGAAAGAAACAGTAGTAATGG 57.732 33.333 2.24 0.00 0.00 3.16
1808 2011 5.817816 CCTGTCTGTACTTGAAAGAAACAGT 59.182 40.000 19.86 0.00 40.76 3.55
1810 2013 4.574828 GCCTGTCTGTACTTGAAAGAAACA 59.425 41.667 7.81 0.76 0.00 2.83
1811 2014 4.574828 TGCCTGTCTGTACTTGAAAGAAAC 59.425 41.667 7.81 0.00 0.00 2.78
1866 2083 1.600164 GCGCAAAACATTCAGCTGTGA 60.600 47.619 14.67 4.19 0.00 3.58
1886 2107 2.071540 TCGCTTCTCTTCACTGCAATG 58.928 47.619 0.00 0.00 0.00 2.82
1916 2137 2.279851 CGCGTGTGAACCACCTCA 60.280 61.111 0.00 0.00 41.26 3.86
1937 2158 1.453155 AAGCAAGTGGGTTGATAGCG 58.547 50.000 0.00 0.00 38.60 4.26
2002 2223 7.119553 GCAAAGATTAAAATTGGAAATGCCTCA 59.880 33.333 0.00 0.00 37.63 3.86
2003 2224 7.119553 TGCAAAGATTAAAATTGGAAATGCCTC 59.880 33.333 0.00 0.00 37.63 4.70
2006 2227 9.068008 CATTGCAAAGATTAAAATTGGAAATGC 57.932 29.630 1.71 0.00 37.80 3.56
2015 2236 7.818930 ACGGAATGTCATTGCAAAGATTAAAAT 59.181 29.630 16.23 0.00 0.00 1.82
2142 2363 4.095483 AGCATGCTGAAAAGGATAAAGACG 59.905 41.667 21.98 0.00 0.00 4.18
2143 2364 5.573337 AGCATGCTGAAAAGGATAAAGAC 57.427 39.130 21.98 0.00 0.00 3.01
2174 2395 6.294843 GGATCTAGCAGAGTACCTTGTAATCC 60.295 46.154 0.00 0.00 0.00 3.01
2191 2412 4.735873 GCAAGCAGAAAAATGGGATCTAGC 60.736 45.833 0.00 0.00 0.00 3.42
2325 2547 3.883830 AGAGTGACAGTATGCCAAGAG 57.116 47.619 0.00 0.00 42.53 2.85
2414 2636 1.347707 GACAACTCCAGGTCATGTCCA 59.652 52.381 11.70 0.00 35.51 4.02
2418 2640 4.808414 TTAGAGACAACTCCAGGTCATG 57.192 45.455 0.00 0.00 43.53 3.07
2447 2669 6.653320 TGCAAAACTTATTACCTCGTGAGATT 59.347 34.615 0.00 0.00 40.84 2.40
2464 2686 3.131046 GCCAGGTATAATGCTGCAAAACT 59.869 43.478 6.36 0.00 0.00 2.66
2465 2687 3.119173 TGCCAGGTATAATGCTGCAAAAC 60.119 43.478 6.36 2.48 0.00 2.43
2504 2726 9.489084 CAGGGAATTGAATCGTATATTACTTGA 57.511 33.333 0.00 0.00 0.00 3.02
2506 2728 7.117812 CGCAGGGAATTGAATCGTATATTACTT 59.882 37.037 0.00 0.00 0.00 2.24
2507 2729 6.590292 CGCAGGGAATTGAATCGTATATTACT 59.410 38.462 0.00 0.00 0.00 2.24
2508 2730 6.672357 GCGCAGGGAATTGAATCGTATATTAC 60.672 42.308 0.30 0.00 0.00 1.89
2509 2731 5.350365 GCGCAGGGAATTGAATCGTATATTA 59.650 40.000 0.30 0.00 0.00 0.98
2510 2732 4.154195 GCGCAGGGAATTGAATCGTATATT 59.846 41.667 0.30 0.00 0.00 1.28
2511 2733 3.684788 GCGCAGGGAATTGAATCGTATAT 59.315 43.478 0.30 0.00 0.00 0.86
2513 2735 1.873591 GCGCAGGGAATTGAATCGTAT 59.126 47.619 0.30 0.00 0.00 3.06
2514 2736 1.295792 GCGCAGGGAATTGAATCGTA 58.704 50.000 0.30 0.00 0.00 3.43
2515 2737 0.676466 TGCGCAGGGAATTGAATCGT 60.676 50.000 5.66 0.00 0.00 3.73
2517 2739 1.677576 TCATGCGCAGGGAATTGAATC 59.322 47.619 23.25 0.00 0.00 2.52
2518 2740 1.679680 CTCATGCGCAGGGAATTGAAT 59.320 47.619 23.25 0.00 0.00 2.57
2519 2741 1.097232 CTCATGCGCAGGGAATTGAA 58.903 50.000 23.25 0.00 0.00 2.69
2520 2742 0.749091 CCTCATGCGCAGGGAATTGA 60.749 55.000 23.25 15.27 0.00 2.57
2521 2743 1.033746 ACCTCATGCGCAGGGAATTG 61.034 55.000 23.25 11.34 35.01 2.32
2522 2744 1.033746 CACCTCATGCGCAGGGAATT 61.034 55.000 23.25 5.70 35.01 2.17
2523 2745 1.452651 CACCTCATGCGCAGGGAAT 60.453 57.895 23.25 4.55 35.01 3.01
2524 2746 2.046023 CACCTCATGCGCAGGGAA 60.046 61.111 23.25 2.23 35.01 3.97
2525 2747 4.100084 CCACCTCATGCGCAGGGA 62.100 66.667 23.25 17.63 35.01 4.20
2531 2753 7.320399 TGATTAGTTATATACCACCTCATGCG 58.680 38.462 0.00 0.00 0.00 4.73
2550 2772 3.633986 GCCCTGAACCCTGATTTGATTAG 59.366 47.826 0.00 0.00 0.00 1.73
2558 2780 0.549950 CAGATGCCCTGAACCCTGAT 59.450 55.000 0.00 0.00 45.78 2.90
2559 2781 0.842030 ACAGATGCCCTGAACCCTGA 60.842 55.000 9.80 0.00 45.78 3.86
2576 2798 9.667107 CTAGAAAAAGAAACATCATAGGGTACA 57.333 33.333 0.00 0.00 0.00 2.90
2579 2801 7.406104 AGCTAGAAAAAGAAACATCATAGGGT 58.594 34.615 0.00 0.00 0.00 4.34
2586 2808 8.499403 ACCTCATAGCTAGAAAAAGAAACATC 57.501 34.615 0.00 0.00 0.00 3.06
2608 2830 8.634444 CAGACATAATGCTTCTAGTACTTACCT 58.366 37.037 0.00 0.00 0.00 3.08
2613 2835 5.363868 TGGCAGACATAATGCTTCTAGTACT 59.636 40.000 0.00 0.00 43.35 2.73
2614 2836 5.601662 TGGCAGACATAATGCTTCTAGTAC 58.398 41.667 0.00 0.00 43.35 2.73
2615 2837 5.869649 TGGCAGACATAATGCTTCTAGTA 57.130 39.130 0.00 0.00 43.35 1.82
2616 2838 4.760530 TGGCAGACATAATGCTTCTAGT 57.239 40.909 0.00 0.00 43.35 2.57
2617 2839 7.918536 AATATGGCAGACATAATGCTTCTAG 57.081 36.000 0.00 0.00 44.75 2.43
2621 2845 5.535333 GCAAATATGGCAGACATAATGCTT 58.465 37.500 21.94 2.86 45.67 3.91
2655 2879 4.152402 CAGGGAATCGAAAGGCATATTACG 59.848 45.833 0.00 0.00 0.00 3.18
2663 2887 3.102097 CGCAGGGAATCGAAAGGC 58.898 61.111 0.00 0.00 0.00 4.35
2666 2890 0.390078 TTACGCGCAGGGAATCGAAA 60.390 50.000 5.73 0.00 46.37 3.46
2684 2908 9.520515 CCTGCTTTATTATTCATATACCACCTT 57.479 33.333 0.00 0.00 0.00 3.50
2696 2920 6.775594 ACTTTGACCCCTGCTTTATTATTC 57.224 37.500 0.00 0.00 0.00 1.75
2750 2979 3.071023 GCCATGCTACCACTTACCTCATA 59.929 47.826 0.00 0.00 0.00 2.15
2770 3248 1.443802 GCAGAACTTCTGGTACTGCC 58.556 55.000 18.53 0.00 44.43 4.85
2796 3274 7.018550 ACATGGTATATCAACATCCCTGGTAAT 59.981 37.037 0.00 0.00 0.00 1.89
2797 3275 6.331572 ACATGGTATATCAACATCCCTGGTAA 59.668 38.462 0.00 0.00 0.00 2.85
2801 3279 7.884877 ACATTACATGGTATATCAACATCCCTG 59.115 37.037 0.00 0.00 33.60 4.45
2847 3325 7.559835 GCTTTTCAAGAGAAGCTTTATTGTC 57.440 36.000 15.62 0.00 43.69 3.18
2877 3355 7.986320 TGAAACCCAATATTTGATTGCCTTATG 59.014 33.333 0.00 0.00 0.00 1.90
2878 3356 8.088463 TGAAACCCAATATTTGATTGCCTTAT 57.912 30.769 0.00 0.00 0.00 1.73
2889 3367 6.152831 GTGCCTAAGTCTGAAACCCAATATTT 59.847 38.462 0.00 0.00 0.00 1.40
2911 3389 3.609853 TGATCTTCCCAACTGTATGTGC 58.390 45.455 0.00 0.00 0.00 4.57
2914 3392 4.848357 ACCTTGATCTTCCCAACTGTATG 58.152 43.478 0.00 0.00 0.00 2.39
2915 3393 5.726793 ACTACCTTGATCTTCCCAACTGTAT 59.273 40.000 0.00 0.00 0.00 2.29
2917 3395 3.910627 ACTACCTTGATCTTCCCAACTGT 59.089 43.478 0.00 0.00 0.00 3.55
2921 3399 6.443849 AGTCAATACTACCTTGATCTTCCCAA 59.556 38.462 0.00 0.00 35.26 4.12
2925 3403 7.221067 CGTCAAGTCAATACTACCTTGATCTTC 59.779 40.741 4.47 0.00 43.52 2.87
2928 3406 5.232414 GCGTCAAGTCAATACTACCTTGATC 59.768 44.000 4.47 0.00 43.52 2.92
2939 3417 5.277779 CCAAAGAAACAGCGTCAAGTCAATA 60.278 40.000 0.00 0.00 0.00 1.90
2947 3425 2.354510 CTCAACCAAAGAAACAGCGTCA 59.645 45.455 0.00 0.00 0.00 4.35
2964 3442 2.225394 ACTCCCTAGCTCAAGTCCTCAA 60.225 50.000 0.00 0.00 0.00 3.02
2970 3448 3.637769 CTTCCTACTCCCTAGCTCAAGT 58.362 50.000 0.00 0.00 0.00 3.16
2971 3449 2.364002 GCTTCCTACTCCCTAGCTCAAG 59.636 54.545 0.00 0.00 0.00 3.02
2972 3450 2.292257 TGCTTCCTACTCCCTAGCTCAA 60.292 50.000 0.00 0.00 33.15 3.02
2974 3452 2.074729 TGCTTCCTACTCCCTAGCTC 57.925 55.000 0.00 0.00 33.15 4.09
2975 3453 2.324541 CATGCTTCCTACTCCCTAGCT 58.675 52.381 0.00 0.00 33.15 3.32
2976 3454 1.270571 GCATGCTTCCTACTCCCTAGC 60.271 57.143 11.37 0.00 0.00 3.42
2977 3455 2.036992 CTGCATGCTTCCTACTCCCTAG 59.963 54.545 20.33 0.00 0.00 3.02
2978 3456 2.042464 CTGCATGCTTCCTACTCCCTA 58.958 52.381 20.33 0.00 0.00 3.53
2979 3457 0.835941 CTGCATGCTTCCTACTCCCT 59.164 55.000 20.33 0.00 0.00 4.20
2980 3458 0.817229 GCTGCATGCTTCCTACTCCC 60.817 60.000 20.33 0.00 38.95 4.30
2981 3459 2.700329 GCTGCATGCTTCCTACTCC 58.300 57.895 20.33 0.00 38.95 3.85
3032 3510 9.534565 GACATTCTAATACTAAGATGCAGTGAA 57.465 33.333 0.00 0.00 0.00 3.18
3034 3512 7.928167 TGGACATTCTAATACTAAGATGCAGTG 59.072 37.037 0.00 0.00 0.00 3.66
3035 3513 8.023021 TGGACATTCTAATACTAAGATGCAGT 57.977 34.615 0.00 0.00 0.00 4.40
3036 3514 7.601886 CCTGGACATTCTAATACTAAGATGCAG 59.398 40.741 0.00 0.00 0.00 4.41
3037 3515 7.445121 CCTGGACATTCTAATACTAAGATGCA 58.555 38.462 0.00 0.00 0.00 3.96
3038 3516 6.876257 CCCTGGACATTCTAATACTAAGATGC 59.124 42.308 0.00 0.00 0.00 3.91
3039 3517 7.016661 ACCCCTGGACATTCTAATACTAAGATG 59.983 40.741 0.00 0.00 0.00 2.90
3040 3518 7.082972 ACCCCTGGACATTCTAATACTAAGAT 58.917 38.462 0.00 0.00 0.00 2.40
3041 3519 6.449956 ACCCCTGGACATTCTAATACTAAGA 58.550 40.000 0.00 0.00 0.00 2.10
3042 3520 6.749036 ACCCCTGGACATTCTAATACTAAG 57.251 41.667 0.00 0.00 0.00 2.18
3052 3530 6.408206 GCCTACATATATACCCCTGGACATTC 60.408 46.154 0.00 0.00 0.00 2.67
3057 3536 4.703101 TGCCTACATATATACCCCTGGA 57.297 45.455 0.00 0.00 0.00 3.86
3070 3549 1.141657 CCACCTGCTACATGCCTACAT 59.858 52.381 0.00 0.00 42.00 2.29
3072 3551 0.179045 CCCACCTGCTACATGCCTAC 60.179 60.000 0.00 0.00 42.00 3.18
3073 3552 1.344953 CCCCACCTGCTACATGCCTA 61.345 60.000 0.00 0.00 42.00 3.93
3074 3553 2.683465 CCCCACCTGCTACATGCCT 61.683 63.158 0.00 0.00 42.00 4.75
3075 3554 2.124151 CCCCACCTGCTACATGCC 60.124 66.667 0.00 0.00 42.00 4.40
3077 3556 1.315257 GCAACCCCACCTGCTACATG 61.315 60.000 0.00 0.00 35.62 3.21
3078 3557 1.000896 GCAACCCCACCTGCTACAT 60.001 57.895 0.00 0.00 35.62 2.29
3079 3558 1.788518 ATGCAACCCCACCTGCTACA 61.789 55.000 0.00 0.00 39.38 2.74
3081 3560 0.611618 CAATGCAACCCCACCTGCTA 60.612 55.000 0.00 0.00 39.38 3.49
3082 3561 1.909781 CAATGCAACCCCACCTGCT 60.910 57.895 0.00 0.00 39.38 4.24
3083 3562 1.757423 AACAATGCAACCCCACCTGC 61.757 55.000 0.00 0.00 39.09 4.85
3084 3563 0.758123 AAACAATGCAACCCCACCTG 59.242 50.000 0.00 0.00 0.00 4.00
3085 3564 1.047801 GAAACAATGCAACCCCACCT 58.952 50.000 0.00 0.00 0.00 4.00
3087 3566 2.908688 AAGAAACAATGCAACCCCAC 57.091 45.000 0.00 0.00 0.00 4.61
3090 3569 6.435430 AAAAGAAAAGAAACAATGCAACCC 57.565 33.333 0.00 0.00 0.00 4.11
3091 3570 6.746822 CCAAAAAGAAAAGAAACAATGCAACC 59.253 34.615 0.00 0.00 0.00 3.77
3092 3571 6.746822 CCCAAAAAGAAAAGAAACAATGCAAC 59.253 34.615 0.00 0.00 0.00 4.17
3093 3572 6.127786 CCCCAAAAAGAAAAGAAACAATGCAA 60.128 34.615 0.00 0.00 0.00 4.08
3094 3573 5.356470 CCCCAAAAAGAAAAGAAACAATGCA 59.644 36.000 0.00 0.00 0.00 3.96
3095 3574 5.356751 ACCCCAAAAAGAAAAGAAACAATGC 59.643 36.000 0.00 0.00 0.00 3.56
3096 3575 6.374053 ACACCCCAAAAAGAAAAGAAACAATG 59.626 34.615 0.00 0.00 0.00 2.82
3097 3576 6.374053 CACACCCCAAAAAGAAAAGAAACAAT 59.626 34.615 0.00 0.00 0.00 2.71
3098 3577 5.703130 CACACCCCAAAAAGAAAAGAAACAA 59.297 36.000 0.00 0.00 0.00 2.83
3099 3578 5.241662 CACACCCCAAAAAGAAAAGAAACA 58.758 37.500 0.00 0.00 0.00 2.83
3100 3579 4.094294 GCACACCCCAAAAAGAAAAGAAAC 59.906 41.667 0.00 0.00 0.00 2.78
3129 3609 1.825474 CCGTCCAGTCAGACACCTAAT 59.175 52.381 2.66 0.00 36.52 1.73
3137 3617 1.697432 ACCAAAATCCGTCCAGTCAGA 59.303 47.619 0.00 0.00 0.00 3.27
3147 3627 6.145371 CCATAAACTGTGAAAACCAAAATCCG 59.855 38.462 0.00 0.00 0.00 4.18
3151 3637 5.119694 GGCCATAAACTGTGAAAACCAAAA 58.880 37.500 0.00 0.00 0.00 2.44
3173 3663 0.596577 TCACAACGTCTCTTCTCCGG 59.403 55.000 0.00 0.00 0.00 5.14
3196 3686 4.744570 TCATGAGAACGATGTAAGGTGAC 58.255 43.478 0.00 0.00 0.00 3.67
3248 3745 8.556213 TGATATCACTGGTAAAGTTTAACACC 57.444 34.615 9.35 4.27 36.83 4.16
3263 3762 6.477669 AGCGCAGATAAAATGATATCACTG 57.522 37.500 11.47 10.58 35.22 3.66
3272 3771 7.119997 GTGAAGTAGTTAGCGCAGATAAAATG 58.880 38.462 11.47 0.00 41.21 2.32
3283 3782 9.659830 ATTTAAAAAGTTGTGAAGTAGTTAGCG 57.340 29.630 0.00 0.00 0.00 4.26
3322 3821 3.926616 TGCTGCTACTGAGAAAAGGTAC 58.073 45.455 0.00 0.00 0.00 3.34
3323 3822 4.617253 TTGCTGCTACTGAGAAAAGGTA 57.383 40.909 0.00 0.00 0.00 3.08
3324 3823 3.492102 TTGCTGCTACTGAGAAAAGGT 57.508 42.857 0.00 0.00 0.00 3.50
3325 3824 5.181748 ACTATTGCTGCTACTGAGAAAAGG 58.818 41.667 0.00 0.00 0.00 3.11
3326 3825 7.465245 GCTTACTATTGCTGCTACTGAGAAAAG 60.465 40.741 0.00 3.97 0.00 2.27
3327 3826 6.313905 GCTTACTATTGCTGCTACTGAGAAAA 59.686 38.462 0.00 0.00 0.00 2.29
3328 3827 5.812642 GCTTACTATTGCTGCTACTGAGAAA 59.187 40.000 0.00 0.00 0.00 2.52
3329 3828 5.127845 AGCTTACTATTGCTGCTACTGAGAA 59.872 40.000 0.00 0.00 38.21 2.87
3330 3829 4.646945 AGCTTACTATTGCTGCTACTGAGA 59.353 41.667 0.00 0.00 38.21 3.27
3331 3830 4.942852 AGCTTACTATTGCTGCTACTGAG 58.057 43.478 0.00 0.00 38.21 3.35
3340 3839 4.826274 TCAGGTTCAGCTTACTATTGCT 57.174 40.909 0.00 0.00 40.54 3.91
3341 3840 5.178797 TCTTCAGGTTCAGCTTACTATTGC 58.821 41.667 0.00 0.00 0.00 3.56
3342 3841 7.672983 TTTCTTCAGGTTCAGCTTACTATTG 57.327 36.000 0.00 0.00 0.00 1.90
3343 3842 8.870075 ATTTTCTTCAGGTTCAGCTTACTATT 57.130 30.769 0.00 0.00 0.00 1.73
3375 3874 4.141436 TGGAGTTAAGGTCCGGAAGAAAAA 60.141 41.667 5.23 0.00 36.82 1.94
3376 3875 3.391955 TGGAGTTAAGGTCCGGAAGAAAA 59.608 43.478 5.23 0.00 36.82 2.29
3377 3876 2.974099 TGGAGTTAAGGTCCGGAAGAAA 59.026 45.455 5.23 0.00 36.82 2.52
3378 3877 2.301009 GTGGAGTTAAGGTCCGGAAGAA 59.699 50.000 5.23 0.00 36.82 2.52
3379 3878 1.897802 GTGGAGTTAAGGTCCGGAAGA 59.102 52.381 5.23 0.00 36.82 2.87
3380 3879 1.621814 TGTGGAGTTAAGGTCCGGAAG 59.378 52.381 5.23 0.00 36.82 3.46
3381 3880 1.719529 TGTGGAGTTAAGGTCCGGAA 58.280 50.000 5.23 0.00 36.82 4.30
3382 3881 1.946984 ATGTGGAGTTAAGGTCCGGA 58.053 50.000 0.00 0.00 36.82 5.14
3383 3882 2.159000 GGTATGTGGAGTTAAGGTCCGG 60.159 54.545 0.00 0.00 36.82 5.14
3384 3883 2.498481 TGGTATGTGGAGTTAAGGTCCG 59.502 50.000 0.39 0.00 36.82 4.79
3385 3884 4.138487 CTGGTATGTGGAGTTAAGGTCC 57.862 50.000 0.00 0.00 34.31 4.46


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

AutoCloner maintained by Alex Coulton.