Multiple sequence alignment - TraesCS7D01G467300

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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 TraesCS7D01G467300 chr7D 100.000 3261 0 0 1 3261 580740761 580744021 0.000000e+00 6023
1 TraesCS7D01G467300 chr7D 83.703 2117 269 54 793 2865 580756509 580758593 0.000000e+00 1929
2 TraesCS7D01G467300 chr7D 79.873 1416 223 36 876 2253 580763360 580764751 0.000000e+00 979
3 TraesCS7D01G467300 chr7D 92.308 390 29 1 1 389 597705565 597705954 1.320000e-153 553
4 TraesCS7D01G467300 chr7D 84.630 540 81 2 1 539 50643829 50644367 1.330000e-148 536
5 TraesCS7D01G467300 chr7D 76.292 561 112 15 8 557 541236430 541236980 2.480000e-71 279
6 TraesCS7D01G467300 chr7D 76.262 535 81 24 2342 2835 580759257 580759786 3.250000e-60 243
7 TraesCS7D01G467300 chr7D 83.500 200 23 2 910 1109 580762668 580762857 9.300000e-41 178
8 TraesCS7D01G467300 chr7A 93.038 1939 96 20 556 2481 672315626 672317538 0.000000e+00 2796
9 TraesCS7D01G467300 chr7A 81.527 1716 220 48 598 2261 672311076 672312746 0.000000e+00 1323
10 TraesCS7D01G467300 chr7A 92.986 556 35 3 1 555 565701991 565701439 0.000000e+00 808
11 TraesCS7D01G467300 chr7A 76.867 683 114 33 1080 1743 673028932 673029589 2.410000e-91 346
12 TraesCS7D01G467300 chr7A 90.421 261 23 1 2379 2637 672319040 672319300 3.120000e-90 342
13 TraesCS7D01G467300 chr7A 94.064 219 11 2 2063 2280 672318816 672319033 6.740000e-87 331
14 TraesCS7D01G467300 chr7A 89.855 207 19 2 1130 1335 673993700 673993905 6.940000e-67 265
15 TraesCS7D01G467300 chr7A 88.532 218 19 4 1117 1328 672950172 672950389 3.230000e-65 259
16 TraesCS7D01G467300 chr7A 92.517 147 11 0 2160 2306 672322327 672322473 9.170000e-51 211
17 TraesCS7D01G467300 chr7A 90.062 161 11 3 3058 3216 672258441 672258598 1.530000e-48 204
18 TraesCS7D01G467300 chr7A 83.230 161 22 4 553 710 672313787 672313945 3.390000e-30 143
19 TraesCS7D01G467300 chr7B 81.588 1499 211 46 793 2253 648378235 648379706 0.000000e+00 1179
20 TraesCS7D01G467300 chr7B 94.473 579 32 0 1319 1897 648388798 648389376 0.000000e+00 893
21 TraesCS7D01G467300 chr7B 92.115 558 43 1 1 557 62821875 62821318 0.000000e+00 785
22 TraesCS7D01G467300 chr7B 79.044 711 117 21 1580 2269 648425317 648426016 2.970000e-125 459
23 TraesCS7D01G467300 chr7B 92.808 292 21 0 970 1261 648389373 648389664 1.080000e-114 424
24 TraesCS7D01G467300 chr7B 80.184 217 26 7 2827 3040 646286228 646286026 2.620000e-31 147
25 TraesCS7D01G467300 chr7B 86.486 111 7 4 570 678 648376869 648376973 7.390000e-22 115
26 TraesCS7D01G467300 chr1D 93.680 538 33 1 21 557 319621195 319620658 0.000000e+00 804
27 TraesCS7D01G467300 chrUn 92.639 557 39 2 1 556 153413501 153412946 0.000000e+00 800
28 TraesCS7D01G467300 chr5A 88.937 461 47 4 98 556 46489240 46489698 1.700000e-157 566
29 TraesCS7D01G467300 chr5A 87.852 461 53 3 98 556 46433736 46434195 3.700000e-149 538
30 TraesCS7D01G467300 chr2D 85.039 508 70 6 35 539 74964079 74963575 2.240000e-141 512


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 TraesCS7D01G467300 chr7D 580740761 580744021 3260 False 6023.000000 6023 100.000000 1 3261 1 chr7D.!!$F3 3260
1 TraesCS7D01G467300 chr7D 580756509 580764751 8242 False 832.250000 1929 80.834500 793 2865 4 chr7D.!!$F5 2072
2 TraesCS7D01G467300 chr7D 50643829 50644367 538 False 536.000000 536 84.630000 1 539 1 chr7D.!!$F1 538
3 TraesCS7D01G467300 chr7D 541236430 541236980 550 False 279.000000 279 76.292000 8 557 1 chr7D.!!$F2 549
4 TraesCS7D01G467300 chr7A 672311076 672322473 11397 False 857.666667 2796 89.132833 553 2637 6 chr7A.!!$F5 2084
5 TraesCS7D01G467300 chr7A 565701439 565701991 552 True 808.000000 808 92.986000 1 555 1 chr7A.!!$R1 554
6 TraesCS7D01G467300 chr7A 673028932 673029589 657 False 346.000000 346 76.867000 1080 1743 1 chr7A.!!$F3 663
7 TraesCS7D01G467300 chr7B 62821318 62821875 557 True 785.000000 785 92.115000 1 557 1 chr7B.!!$R1 556
8 TraesCS7D01G467300 chr7B 648388798 648389664 866 False 658.500000 893 93.640500 970 1897 2 chr7B.!!$F3 927
9 TraesCS7D01G467300 chr7B 648376869 648379706 2837 False 647.000000 1179 84.037000 570 2253 2 chr7B.!!$F2 1683
10 TraesCS7D01G467300 chr7B 648425317 648426016 699 False 459.000000 459 79.044000 1580 2269 1 chr7B.!!$F1 689
11 TraesCS7D01G467300 chr1D 319620658 319621195 537 True 804.000000 804 93.680000 21 557 1 chr1D.!!$R1 536
12 TraesCS7D01G467300 chrUn 153412946 153413501 555 True 800.000000 800 92.639000 1 556 1 chrUn.!!$R1 555
13 TraesCS7D01G467300 chr2D 74963575 74964079 504 True 512.000000 512 85.039000 35 539 1 chr2D.!!$R1 504

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
419 428 0.393808 GGAAGCGAATAGGGTTGCCA 60.394 55.0 0.0 0.0 30.72 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2276 14875 0.606604 ACGACCAACCAACTAGCGAT 59.393 50.0 0.0 0.0 0.0 4.58 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
33 34 5.659971 ACCCCTAATGTGACTAGTAAACGAT 59.340 40.000 0.00 0.00 0.00 3.73
155 157 9.775854 AGAGATGATAAAGGACATTTCATAGTG 57.224 33.333 0.00 0.00 32.49 2.74
201 203 2.032634 GCGGATGTTCTGACGGCAA 61.033 57.895 0.00 0.00 0.00 4.52
239 247 7.094890 CTAAGATTTGGCTTATATCTGGCACAG 60.095 40.741 4.07 0.00 42.58 3.66
320 328 7.174413 TGATGAAGAATGGAGGACAATTTACA 58.826 34.615 0.00 0.00 0.00 2.41
329 337 2.156098 GGACAATTTACAGGAACGGCA 58.844 47.619 0.00 0.00 0.00 5.69
419 428 0.393808 GGAAGCGAATAGGGTTGCCA 60.394 55.000 0.00 0.00 30.72 4.92
594 603 9.807649 ATTGCAGTTATTAGTGATCAAAATTCC 57.192 29.630 0.00 0.00 0.00 3.01
595 604 8.347004 TGCAGTTATTAGTGATCAAAATTCCA 57.653 30.769 0.00 0.00 0.00 3.53
596 605 8.461222 TGCAGTTATTAGTGATCAAAATTCCAG 58.539 33.333 0.00 0.00 0.00 3.86
597 606 8.462016 GCAGTTATTAGTGATCAAAATTCCAGT 58.538 33.333 0.00 0.00 0.00 4.00
670 679 8.492673 TTTCATCGTGAAGCTTTTATAGATGT 57.507 30.769 20.27 0.00 37.70 3.06
674 683 9.559958 CATCGTGAAGCTTTTATAGATGTTTTT 57.440 29.630 0.00 0.00 32.18 1.94
725 746 7.360691 CGGATGAAGATGGAATACTATGCTTTG 60.361 40.741 0.00 0.00 0.00 2.77
730 753 7.025520 AGATGGAATACTATGCTTTGCCTAT 57.974 36.000 0.00 0.00 0.00 2.57
763 1945 4.815846 GCCCACTGATGTGAAAAACAAAAT 59.184 37.500 0.00 0.00 46.55 1.82
764 1946 5.277442 GCCCACTGATGTGAAAAACAAAATG 60.277 40.000 0.00 0.00 46.55 2.32
830 2012 5.420409 TGTGAAAAACCAAACAATGTACCC 58.580 37.500 0.00 0.00 0.00 3.69
862 2044 1.654954 GCACAGGCCTGAAGATGCAG 61.655 60.000 39.19 16.96 31.64 4.41
901 2086 4.511826 CGAAGGCCCATTGATTTACTAGTC 59.488 45.833 0.00 0.00 0.00 2.59
925 2110 2.238395 GGAGCAGGAAAATCTCAGACCT 59.762 50.000 0.00 0.00 0.00 3.85
945 6734 2.703007 CTGCTAGCCATAGGTTTCCTCT 59.297 50.000 13.29 0.00 34.61 3.69
952 6741 2.022195 CATAGGTTTCCTCTCGTCCGA 58.978 52.381 0.00 0.00 34.61 4.55
957 6746 1.919956 TTTCCTCTCGTCCGACTCGC 61.920 60.000 0.00 0.00 0.00 5.03
962 6751 3.423077 CTCGTCCGACTCGCTCGAC 62.423 68.421 10.55 4.75 46.14 4.20
1101 6890 6.071984 GGATTCTCATCTGTACTCCTCCTTA 58.928 44.000 0.00 0.00 0.00 2.69
1109 6898 4.482772 TCTGTACTCCTCCTTAAGGGATCT 59.517 45.833 21.53 3.61 46.23 2.75
1198 6987 2.878429 CTCACCGACGACCTCCTG 59.122 66.667 0.00 0.00 0.00 3.86
1309 7098 1.286880 CCGCAAAAAGCTCCCACAG 59.713 57.895 0.00 0.00 42.61 3.66
1465 14028 3.770666 CGTCGATCTACTGGATTGTTGT 58.229 45.455 0.00 0.00 37.18 3.32
1467 14030 3.307242 GTCGATCTACTGGATTGTTGTGC 59.693 47.826 0.00 0.00 37.18 4.57
1669 14247 5.651612 TCATGGATCATGATGGTAACCTT 57.348 39.130 14.30 3.02 44.60 3.50
1769 14347 8.319146 ACGAGAATCTTTATTTTCTTGGTCCTA 58.681 33.333 0.00 0.00 37.58 2.94
1846 14427 2.930040 CACGTCATCCCATTGTGTAGTC 59.070 50.000 0.00 0.00 0.00 2.59
1848 14429 2.416836 CGTCATCCCATTGTGTAGTCGT 60.417 50.000 0.00 0.00 0.00 4.34
1955 14542 4.616835 GCTTGCACTATTCCAGTTTTCAGG 60.617 45.833 0.00 0.00 34.26 3.86
2034 14624 5.948162 ACAAAGAGTGGATGTTGAAGCATAT 59.052 36.000 0.00 0.00 0.00 1.78
2103 14696 3.319689 TGTATCGCAATTCATCCGGAGTA 59.680 43.478 11.34 0.00 0.00 2.59
2153 14752 4.338964 TGGCTACCAAAATCATGTGCTATG 59.661 41.667 0.00 0.00 0.00 2.23
2240 14839 5.830799 ATATGTCCCATTGTATGCAGAGA 57.169 39.130 0.00 0.00 0.00 3.10
2261 14860 6.037940 AGAGATACAATCATTGCACACATGAC 59.962 38.462 0.00 0.00 0.00 3.06
2266 14865 5.105513 ACAATCATTGCACACATGACATCAT 60.106 36.000 0.00 0.00 36.96 2.45
2267 14866 6.095720 ACAATCATTGCACACATGACATCATA 59.904 34.615 0.00 0.00 34.26 2.15
2269 14868 5.882553 TCATTGCACACATGACATCATAAC 58.117 37.500 0.00 0.00 34.26 1.89
2270 14869 5.415077 TCATTGCACACATGACATCATAACA 59.585 36.000 0.00 0.00 34.26 2.41
2271 14870 5.702349 TTGCACACATGACATCATAACAA 57.298 34.783 0.00 0.00 34.26 2.83
2272 14871 5.299582 TGCACACATGACATCATAACAAG 57.700 39.130 0.00 0.00 34.26 3.16
2273 14872 4.761227 TGCACACATGACATCATAACAAGT 59.239 37.500 0.00 0.00 34.26 3.16
2274 14873 5.090757 GCACACATGACATCATAACAAGTG 58.909 41.667 0.00 0.00 34.26 3.16
2275 14874 5.633927 CACACATGACATCATAACAAGTGG 58.366 41.667 0.00 1.48 34.26 4.00
2276 14875 5.412286 CACACATGACATCATAACAAGTGGA 59.588 40.000 0.00 0.00 34.26 4.02
2280 14879 3.871006 TGACATCATAACAAGTGGATCGC 59.129 43.478 0.00 0.00 0.00 4.58
2285 14884 5.339008 TCATAACAAGTGGATCGCTAGTT 57.661 39.130 0.00 0.00 0.00 2.24
2291 14890 1.066143 AGTGGATCGCTAGTTGGTTGG 60.066 52.381 0.00 0.00 0.00 3.77
2297 14896 1.200716 TCGCTAGTTGGTTGGTCGTAG 59.799 52.381 0.00 0.00 0.00 3.51
2377 14977 9.444600 CTTTTTAGTTTGGAGCTATGGTAGTTA 57.555 33.333 0.00 0.00 0.00 2.24
2382 14982 8.320338 AGTTTGGAGCTATGGTAGTTAAGTAT 57.680 34.615 0.00 0.00 0.00 2.12
2384 14984 8.827677 GTTTGGAGCTATGGTAGTTAAGTATTG 58.172 37.037 0.00 0.00 0.00 1.90
2386 14986 7.723324 TGGAGCTATGGTAGTTAAGTATTGTC 58.277 38.462 0.00 0.00 0.00 3.18
2396 14996 5.416083 AGTTAAGTATTGTCGCAGCATGTA 58.584 37.500 0.00 0.00 39.31 2.29
2405 15005 3.557185 TGTCGCAGCATGTATGATTTCTC 59.443 43.478 4.46 0.00 39.31 2.87
2423 15023 9.809096 TGATTTCTCTGAGATTAGTTCATGTAC 57.191 33.333 8.42 0.00 0.00 2.90
2469 15069 8.288208 GCTATGATCATTCTGTAAAAGACATGG 58.712 37.037 14.65 0.00 37.45 3.66
2500 15100 9.667989 TGATTATAATCATCAATTTGCAGTTCG 57.332 29.630 21.67 0.00 40.32 3.95
2501 15101 9.121517 GATTATAATCATCAATTTGCAGTTCGG 57.878 33.333 18.67 0.00 35.49 4.30
2503 15103 2.513753 TCATCAATTTGCAGTTCGGGT 58.486 42.857 0.00 0.00 0.00 5.28
2504 15104 3.680490 TCATCAATTTGCAGTTCGGGTA 58.320 40.909 0.00 0.00 0.00 3.69
2509 15200 5.250200 TCAATTTGCAGTTCGGGTAAGTAT 58.750 37.500 0.00 0.00 0.00 2.12
2513 15204 6.913873 TTTGCAGTTCGGGTAAGTATATTC 57.086 37.500 0.00 0.00 0.00 1.75
2516 15207 6.046593 TGCAGTTCGGGTAAGTATATTCTTG 58.953 40.000 4.95 0.00 0.00 3.02
2518 15209 6.537660 GCAGTTCGGGTAAGTATATTCTTGTT 59.462 38.462 4.95 0.00 0.00 2.83
2521 15212 8.316214 AGTTCGGGTAAGTATATTCTTGTTGAA 58.684 33.333 4.95 2.17 39.24 2.69
2545 15236 5.112686 AGAGATCAAGTAAATGACCGCTTC 58.887 41.667 0.00 0.00 30.82 3.86
2546 15237 3.865745 AGATCAAGTAAATGACCGCTTCG 59.134 43.478 0.00 0.00 30.82 3.79
2571 15262 7.161404 GCCTGGTAATGATATAATGTGTGAGA 58.839 38.462 0.00 0.00 0.00 3.27
2611 15306 6.422333 TGCCAGACTTAATTTATGATGGTGA 58.578 36.000 14.04 5.24 0.00 4.02
2623 15318 4.853924 ATGATGGTGAAACACTTTGGAC 57.146 40.909 0.00 0.00 39.98 4.02
2637 15332 5.296780 ACACTTTGGACAGTTACATTGTCAG 59.703 40.000 6.99 0.02 45.23 3.51
2639 15334 3.483808 TGGACAGTTACATTGTCAGCA 57.516 42.857 6.99 0.00 45.23 4.41
2640 15335 4.019792 TGGACAGTTACATTGTCAGCAT 57.980 40.909 6.99 0.00 45.23 3.79
2666 15361 8.882415 ATTTGATGCTAATTAATTCTGGCTTG 57.118 30.769 3.39 0.00 0.00 4.01
2745 15440 9.927668 TCCATTCTTTCATAAACTTCATTTTCC 57.072 29.630 0.00 0.00 0.00 3.13
2746 15441 9.709495 CCATTCTTTCATAAACTTCATTTTCCA 57.291 29.630 0.00 0.00 0.00 3.53
2755 15450 8.877779 CATAAACTTCATTTTCCAAACACAACA 58.122 29.630 0.00 0.00 0.00 3.33
2760 15455 7.605691 ACTTCATTTTCCAAACACAACATTTGA 59.394 29.630 0.00 0.00 39.01 2.69
2773 15468 6.038825 ACACAACATTTGATTCAACGGACTTA 59.961 34.615 0.00 0.00 0.00 2.24
2783 15478 4.451629 TCAACGGACTTAGAAGATGTCC 57.548 45.455 0.00 0.00 45.12 4.02
2789 15484 5.105675 ACGGACTTAGAAGATGTCCTCTTTC 60.106 44.000 9.30 0.00 45.97 2.62
2791 15486 6.350612 CGGACTTAGAAGATGTCCTCTTTCTT 60.351 42.308 9.30 0.00 45.97 2.52
2793 15488 7.333174 GGACTTAGAAGATGTCCTCTTTCTTTG 59.667 40.741 0.00 0.00 44.42 2.77
2796 15491 9.364989 CTTAGAAGATGTCCTCTTTCTTTGTAG 57.635 37.037 0.00 0.00 44.42 2.74
2798 15493 5.428184 AGATGTCCTCTTTCTTTGTAGGG 57.572 43.478 0.00 0.00 0.00 3.53
2801 15496 5.382664 TGTCCTCTTTCTTTGTAGGGTTT 57.617 39.130 0.00 0.00 0.00 3.27
2802 15497 5.762279 TGTCCTCTTTCTTTGTAGGGTTTT 58.238 37.500 0.00 0.00 0.00 2.43
2803 15498 6.192044 TGTCCTCTTTCTTTGTAGGGTTTTT 58.808 36.000 0.00 0.00 0.00 1.94
2805 15500 5.831525 TCCTCTTTCTTTGTAGGGTTTTTCC 59.168 40.000 0.00 0.00 0.00 3.13
2806 15501 5.278315 CCTCTTTCTTTGTAGGGTTTTTCCG 60.278 44.000 0.00 0.00 37.00 4.30
2807 15502 4.581409 TCTTTCTTTGTAGGGTTTTTCCGG 59.419 41.667 0.00 0.00 37.00 5.14
2808 15503 2.866351 TCTTTGTAGGGTTTTTCCGGG 58.134 47.619 0.00 0.00 37.00 5.73
2809 15504 2.175284 TCTTTGTAGGGTTTTTCCGGGT 59.825 45.455 0.00 0.00 37.00 5.28
2811 15506 3.421919 TTGTAGGGTTTTTCCGGGTAG 57.578 47.619 0.00 0.00 37.00 3.18
2812 15507 2.618794 TGTAGGGTTTTTCCGGGTAGA 58.381 47.619 0.00 0.00 37.00 2.59
2813 15508 3.183801 TGTAGGGTTTTTCCGGGTAGAT 58.816 45.455 0.00 0.00 37.00 1.98
2814 15509 4.360889 TGTAGGGTTTTTCCGGGTAGATA 58.639 43.478 0.00 0.00 37.00 1.98
2815 15510 4.406649 TGTAGGGTTTTTCCGGGTAGATAG 59.593 45.833 0.00 0.00 37.00 2.08
2817 15512 3.848377 AGGGTTTTTCCGGGTAGATAGTT 59.152 43.478 0.00 0.00 37.00 2.24
2818 15513 5.032170 AGGGTTTTTCCGGGTAGATAGTTA 58.968 41.667 0.00 0.00 37.00 2.24
2819 15514 5.488561 AGGGTTTTTCCGGGTAGATAGTTAA 59.511 40.000 0.00 0.00 37.00 2.01
2820 15515 6.012596 AGGGTTTTTCCGGGTAGATAGTTAAA 60.013 38.462 0.00 0.00 37.00 1.52
2821 15516 6.658816 GGGTTTTTCCGGGTAGATAGTTAAAA 59.341 38.462 0.00 0.00 37.00 1.52
2822 15517 7.148188 GGGTTTTTCCGGGTAGATAGTTAAAAG 60.148 40.741 0.00 0.00 37.00 2.27
2823 15518 7.607607 GGTTTTTCCGGGTAGATAGTTAAAAGA 59.392 37.037 0.00 0.00 0.00 2.52
2824 15519 8.663025 GTTTTTCCGGGTAGATAGTTAAAAGAG 58.337 37.037 0.00 0.00 0.00 2.85
2825 15520 7.486407 TTTCCGGGTAGATAGTTAAAAGAGT 57.514 36.000 0.00 0.00 0.00 3.24
2826 15521 7.486407 TTCCGGGTAGATAGTTAAAAGAGTT 57.514 36.000 0.00 0.00 0.00 3.01
2827 15522 7.486407 TCCGGGTAGATAGTTAAAAGAGTTT 57.514 36.000 0.00 0.00 0.00 2.66
2828 15523 8.593945 TCCGGGTAGATAGTTAAAAGAGTTTA 57.406 34.615 0.00 0.00 0.00 2.01
2829 15524 8.470002 TCCGGGTAGATAGTTAAAAGAGTTTAC 58.530 37.037 0.00 0.00 0.00 2.01
2830 15525 8.253113 CCGGGTAGATAGTTAAAAGAGTTTACA 58.747 37.037 0.00 0.00 0.00 2.41
2831 15526 9.643693 CGGGTAGATAGTTAAAAGAGTTTACAA 57.356 33.333 0.00 0.00 0.00 2.41
2879 15574 3.245229 ACAATTTGTCACCCCAGATAGCA 60.245 43.478 0.00 0.00 0.00 3.49
2883 15578 1.210234 TGTCACCCCAGATAGCATGTG 59.790 52.381 0.00 0.00 0.00 3.21
2885 15580 1.486310 TCACCCCAGATAGCATGTGTC 59.514 52.381 0.00 0.00 0.00 3.67
2887 15582 0.752658 CCCCAGATAGCATGTGTCGA 59.247 55.000 0.00 0.00 0.00 4.20
2888 15583 1.539065 CCCCAGATAGCATGTGTCGAC 60.539 57.143 9.11 9.11 0.00 4.20
2889 15584 1.136891 CCCAGATAGCATGTGTCGACA 59.863 52.381 15.76 15.76 36.22 4.35
2894 15589 0.879090 TAGCATGTGTCGACACTCGT 59.121 50.000 39.62 26.36 46.55 4.18
2905 15600 2.734723 CACTCGTCACCAGCCACG 60.735 66.667 0.00 0.00 37.36 4.94
2920 15615 2.282180 ACGCCAGCAACCGGAATT 60.282 55.556 9.46 0.00 0.00 2.17
2924 15619 1.388547 GCCAGCAACCGGAATTGATA 58.611 50.000 9.46 0.00 0.00 2.15
2926 15621 2.287788 GCCAGCAACCGGAATTGATATG 60.288 50.000 9.46 3.45 0.00 1.78
2927 15622 2.294233 CCAGCAACCGGAATTGATATGG 59.706 50.000 9.46 8.90 0.00 2.74
2934 15629 3.397618 ACCGGAATTGATATGGGGATTGA 59.602 43.478 9.46 0.00 0.00 2.57
2944 15639 3.872459 ATGGGGATTGATGTCCTTCTC 57.128 47.619 0.00 0.00 38.38 2.87
2966 15661 2.688794 GCAACTGGCTGAGCAGAGC 61.689 63.158 6.82 8.22 40.25 4.09
2980 15675 1.079256 AGAGCTGCAGGTAGGTGGA 59.921 57.895 20.22 0.00 0.00 4.02
2985 15680 2.172483 CTGCAGGTAGGTGGAGCGTT 62.172 60.000 5.57 0.00 0.00 4.84
2987 15682 1.079127 CAGGTAGGTGGAGCGTTGG 60.079 63.158 0.00 0.00 0.00 3.77
2988 15683 2.436115 GGTAGGTGGAGCGTTGGC 60.436 66.667 0.00 0.00 40.37 4.52
3000 15714 2.939103 GAGCGTTGGCATCTTCTGTTAT 59.061 45.455 0.00 0.00 43.41 1.89
3005 15719 4.853196 CGTTGGCATCTTCTGTTATTGTTG 59.147 41.667 0.00 0.00 0.00 3.33
3012 15726 6.569226 GCATCTTCTGTTATTGTTGAAGTGCT 60.569 38.462 3.54 0.00 38.67 4.40
3017 15731 5.003692 TGTTATTGTTGAAGTGCTTGCAA 57.996 34.783 0.00 0.00 0.00 4.08
3018 15732 5.414360 TGTTATTGTTGAAGTGCTTGCAAA 58.586 33.333 0.00 0.00 0.00 3.68
3029 15743 5.772825 AGTGCTTGCAAATCTCTACAAAA 57.227 34.783 0.00 0.00 0.00 2.44
3034 15748 5.356882 TTGCAAATCTCTACAAAACCGAG 57.643 39.130 0.00 0.00 0.00 4.63
3035 15749 3.188460 TGCAAATCTCTACAAAACCGAGC 59.812 43.478 0.00 0.00 0.00 5.03
3036 15750 3.437049 GCAAATCTCTACAAAACCGAGCT 59.563 43.478 0.00 0.00 0.00 4.09
3037 15751 4.670221 GCAAATCTCTACAAAACCGAGCTG 60.670 45.833 0.00 0.00 0.00 4.24
3038 15752 2.080286 TCTCTACAAAACCGAGCTGC 57.920 50.000 0.00 0.00 0.00 5.25
3039 15753 1.618837 TCTCTACAAAACCGAGCTGCT 59.381 47.619 0.00 0.00 0.00 4.24
3040 15754 2.823747 TCTCTACAAAACCGAGCTGCTA 59.176 45.455 0.15 0.00 0.00 3.49
3041 15755 3.447586 TCTCTACAAAACCGAGCTGCTAT 59.552 43.478 0.15 0.00 0.00 2.97
3042 15756 4.643334 TCTCTACAAAACCGAGCTGCTATA 59.357 41.667 0.15 0.00 0.00 1.31
3043 15757 4.933330 TCTACAAAACCGAGCTGCTATAG 58.067 43.478 0.15 0.00 0.00 1.31
3044 15758 3.611766 ACAAAACCGAGCTGCTATAGT 57.388 42.857 0.15 0.00 0.00 2.12
3045 15759 3.939066 ACAAAACCGAGCTGCTATAGTT 58.061 40.909 0.15 3.80 0.00 2.24
3046 15760 3.684788 ACAAAACCGAGCTGCTATAGTTG 59.315 43.478 0.15 6.58 0.00 3.16
3047 15761 3.611766 AAACCGAGCTGCTATAGTTGT 57.388 42.857 0.15 0.00 0.00 3.32
3048 15762 3.611766 AACCGAGCTGCTATAGTTGTT 57.388 42.857 0.15 0.00 0.00 2.83
3049 15763 4.730949 AACCGAGCTGCTATAGTTGTTA 57.269 40.909 0.15 0.00 0.00 2.41
3050 15764 4.043037 ACCGAGCTGCTATAGTTGTTAC 57.957 45.455 0.15 0.00 0.00 2.50
3051 15765 3.700038 ACCGAGCTGCTATAGTTGTTACT 59.300 43.478 0.15 0.00 38.44 2.24
3052 15766 4.045104 CCGAGCTGCTATAGTTGTTACTG 58.955 47.826 0.15 0.00 35.78 2.74
3053 15767 4.202020 CCGAGCTGCTATAGTTGTTACTGA 60.202 45.833 0.15 0.00 35.78 3.41
3054 15768 5.340803 CGAGCTGCTATAGTTGTTACTGAA 58.659 41.667 0.15 0.00 35.78 3.02
3055 15769 5.805486 CGAGCTGCTATAGTTGTTACTGAAA 59.195 40.000 0.15 0.00 35.78 2.69
3056 15770 6.020281 CGAGCTGCTATAGTTGTTACTGAAAG 60.020 42.308 0.15 0.00 42.29 2.62
3057 15771 6.936279 AGCTGCTATAGTTGTTACTGAAAGA 58.064 36.000 0.00 0.00 37.43 2.52
3064 15778 4.455606 AGTTGTTACTGAAAGAGCTGCTT 58.544 39.130 2.53 0.00 37.43 3.91
3067 15781 5.424121 TGTTACTGAAAGAGCTGCTTTTC 57.576 39.130 20.49 20.49 46.52 2.29
3084 15798 1.981256 TTCTTGTTGAAGTGGGAGGC 58.019 50.000 0.00 0.00 0.00 4.70
3089 15803 2.592993 TTGAAGTGGGAGGCCCTCG 61.593 63.158 4.29 0.00 45.70 4.63
3094 15808 2.683933 TGGGAGGCCCTCGTCTTC 60.684 66.667 4.29 0.00 45.70 2.87
3142 15858 6.976088 TCGAATTGTTTCCTATTTTGCTTGA 58.024 32.000 0.00 0.00 0.00 3.02
3145 15861 7.061094 CGAATTGTTTCCTATTTTGCTTGACTC 59.939 37.037 0.00 0.00 0.00 3.36
3146 15862 5.705609 TGTTTCCTATTTTGCTTGACTCC 57.294 39.130 0.00 0.00 0.00 3.85
3164 15880 3.181400 ACTCCTTCCTCCTCTTCTTTCCT 60.181 47.826 0.00 0.00 0.00 3.36
3178 15894 5.823045 TCTTCTTTCCTTTCTGTTGTCCTTC 59.177 40.000 0.00 0.00 0.00 3.46
3186 15902 5.221541 CCTTTCTGTTGTCCTTCTGTAGTCT 60.222 44.000 0.00 0.00 0.00 3.24
3187 15903 4.855715 TCTGTTGTCCTTCTGTAGTCTG 57.144 45.455 0.00 0.00 0.00 3.51
3214 15930 1.174712 ATGGCTGCACAAGTGGTCAC 61.175 55.000 0.50 0.00 0.00 3.67
3226 15942 4.188462 CAAGTGGTCACGATTATAGGCAA 58.812 43.478 0.00 0.00 36.20 4.52
3227 15943 3.793559 AGTGGTCACGATTATAGGCAAC 58.206 45.455 0.00 0.00 36.20 4.17
3230 15946 3.131396 GGTCACGATTATAGGCAACCAG 58.869 50.000 0.00 0.00 37.17 4.00
3231 15947 2.544267 GTCACGATTATAGGCAACCAGC 59.456 50.000 0.00 0.00 44.65 4.85
3244 15960 1.273327 CAACCAGCCAACCAGATTTCC 59.727 52.381 0.00 0.00 0.00 3.13
3258 15974 7.066307 ACCAGATTTCCTAAACTTTTGCAAT 57.934 32.000 0.00 0.00 0.00 3.56
3259 15975 7.508687 ACCAGATTTCCTAAACTTTTGCAATT 58.491 30.769 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
155 157 5.473039 CAATCAATCTTTCAGTTTCCACCC 58.527 41.667 0.00 0.00 0.00 4.61
239 247 1.648467 GACGGTTGCATCCTGCCTTC 61.648 60.000 11.96 0.00 44.23 3.46
329 337 2.076863 GTAGTCATTGAAACTGCCGCT 58.923 47.619 0.00 0.00 0.00 5.52
360 369 5.899631 ACTAGTAAGGGGAAAGTCACAAA 57.100 39.130 0.00 0.00 0.00 2.83
557 566 9.774742 CACTAATAACTGCAATTTCTTAGGTTC 57.225 33.333 11.94 0.00 0.00 3.62
558 567 9.515226 TCACTAATAACTGCAATTTCTTAGGTT 57.485 29.630 11.94 2.40 0.00 3.50
559 568 9.686683 ATCACTAATAACTGCAATTTCTTAGGT 57.313 29.630 11.94 0.00 0.00 3.08
568 577 9.807649 GGAATTTTGATCACTAATAACTGCAAT 57.192 29.630 0.00 0.00 0.00 3.56
591 600 7.537596 AATGGATCAATACACAAAACTGGAA 57.462 32.000 0.00 0.00 0.00 3.53
592 601 8.821686 ATAATGGATCAATACACAAAACTGGA 57.178 30.769 0.00 0.00 0.00 3.86
593 602 9.304731 CAATAATGGATCAATACACAAAACTGG 57.695 33.333 0.00 0.00 0.00 4.00
594 603 9.859427 ACAATAATGGATCAATACACAAAACTG 57.141 29.630 0.00 0.00 0.00 3.16
674 683 9.288124 CGCAAGTTTATTGTATCAATTCATCAA 57.712 29.630 0.37 0.00 0.00 2.57
676 685 8.128582 TCCGCAAGTTTATTGTATCAATTCATC 58.871 33.333 0.37 0.00 0.00 2.92
677 686 7.995289 TCCGCAAGTTTATTGTATCAATTCAT 58.005 30.769 0.37 0.00 0.00 2.57
679 688 8.128582 TCATCCGCAAGTTTATTGTATCAATTC 58.871 33.333 0.37 0.00 0.00 2.17
680 689 7.995289 TCATCCGCAAGTTTATTGTATCAATT 58.005 30.769 0.37 0.00 0.00 2.32
685 694 7.255242 CCATCTTCATCCGCAAGTTTATTGTAT 60.255 37.037 0.00 0.00 0.00 2.29
687 696 5.163622 CCATCTTCATCCGCAAGTTTATTGT 60.164 40.000 0.00 0.00 0.00 2.71
688 697 5.066375 TCCATCTTCATCCGCAAGTTTATTG 59.934 40.000 0.00 0.00 0.00 1.90
689 698 5.192927 TCCATCTTCATCCGCAAGTTTATT 58.807 37.500 0.00 0.00 0.00 1.40
690 699 4.780815 TCCATCTTCATCCGCAAGTTTAT 58.219 39.130 0.00 0.00 0.00 1.40
699 720 5.728471 AGCATAGTATTCCATCTTCATCCG 58.272 41.667 0.00 0.00 0.00 4.18
725 746 1.248785 TGGGCGGTAGATCGATAGGC 61.249 60.000 0.00 0.15 0.00 3.93
730 753 0.467474 ATCAGTGGGCGGTAGATCGA 60.467 55.000 0.00 0.00 0.00 3.59
768 1950 9.921637 AAACCGCTCAAAAAGAATATATCAAAA 57.078 25.926 0.00 0.00 0.00 2.44
769 1951 9.567848 GAAACCGCTCAAAAAGAATATATCAAA 57.432 29.630 0.00 0.00 0.00 2.69
770 1952 8.956426 AGAAACCGCTCAAAAAGAATATATCAA 58.044 29.630 0.00 0.00 0.00 2.57
771 1953 8.506168 AGAAACCGCTCAAAAAGAATATATCA 57.494 30.769 0.00 0.00 0.00 2.15
772 1954 9.788960 AAAGAAACCGCTCAAAAAGAATATATC 57.211 29.630 0.00 0.00 0.00 1.63
774 1956 9.405587 CAAAAGAAACCGCTCAAAAAGAATATA 57.594 29.630 0.00 0.00 0.00 0.86
775 1957 8.141268 TCAAAAGAAACCGCTCAAAAAGAATAT 58.859 29.630 0.00 0.00 0.00 1.28
776 1958 7.484975 TCAAAAGAAACCGCTCAAAAAGAATA 58.515 30.769 0.00 0.00 0.00 1.75
777 1959 6.337356 TCAAAAGAAACCGCTCAAAAAGAAT 58.663 32.000 0.00 0.00 0.00 2.40
778 1960 5.715070 TCAAAAGAAACCGCTCAAAAAGAA 58.285 33.333 0.00 0.00 0.00 2.52
779 1961 5.124776 TCTCAAAAGAAACCGCTCAAAAAGA 59.875 36.000 0.00 0.00 0.00 2.52
780 1962 5.339990 TCTCAAAAGAAACCGCTCAAAAAG 58.660 37.500 0.00 0.00 0.00 2.27
781 1963 5.317733 TCTCAAAAGAAACCGCTCAAAAA 57.682 34.783 0.00 0.00 0.00 1.94
782 1964 4.974368 TCTCAAAAGAAACCGCTCAAAA 57.026 36.364 0.00 0.00 0.00 2.44
783 1965 4.974368 TTCTCAAAAGAAACCGCTCAAA 57.026 36.364 0.00 0.00 38.58 2.69
784 1966 4.974368 TTTCTCAAAAGAAACCGCTCAA 57.026 36.364 0.00 0.00 44.63 3.02
830 2012 0.723414 CCTGTGCATGCGTTAGTGAG 59.277 55.000 14.09 0.68 0.00 3.51
862 2044 0.887387 TTCGGTGGGCTAAACTGTGC 60.887 55.000 0.00 0.00 0.00 4.57
901 2086 2.238144 TCTGAGATTTTCCTGCTCCTGG 59.762 50.000 0.00 0.00 0.00 4.45
925 2110 2.700897 GAGAGGAAACCTATGGCTAGCA 59.299 50.000 18.24 2.97 31.76 3.49
1109 6898 1.063341 CAGATGGAGGAGAGGTGAGGA 60.063 57.143 0.00 0.00 0.00 3.71
1444 14007 3.547868 CACAACAATCCAGTAGATCGACG 59.452 47.826 0.00 0.00 32.47 5.12
1705 14283 0.743345 GAACCCATCTCCCGGTTTCG 60.743 60.000 0.00 0.00 42.48 3.46
1769 14347 2.433436 GAAAACGGTAGATTGGTGCCT 58.567 47.619 0.00 0.00 0.00 4.75
1846 14427 1.377202 CCCCTCCATGTCAACCACG 60.377 63.158 0.00 0.00 0.00 4.94
1848 14429 0.774096 TTCCCCCTCCATGTCAACCA 60.774 55.000 0.00 0.00 0.00 3.67
1955 14542 3.868077 CGAACCACCTCATCTTCATCTTC 59.132 47.826 0.00 0.00 0.00 2.87
2034 14624 7.167535 TCCAGATATGTGTGAAGTTTCAATGA 58.832 34.615 0.00 0.00 39.21 2.57
2103 14696 4.248859 CACGGTGAAGAAGATCAAGTCAT 58.751 43.478 0.74 0.00 0.00 3.06
2153 14752 6.480320 AGTTTGACTTGCCGACTATTCATATC 59.520 38.462 0.00 0.00 0.00 1.63
2240 14839 5.900865 TGTCATGTGTGCAATGATTGTAT 57.099 34.783 7.05 0.00 0.00 2.29
2261 14860 5.292765 ACTAGCGATCCACTTGTTATGATG 58.707 41.667 0.00 0.00 0.00 3.07
2266 14865 3.259876 ACCAACTAGCGATCCACTTGTTA 59.740 43.478 9.00 0.00 32.54 2.41
2267 14866 2.038557 ACCAACTAGCGATCCACTTGTT 59.961 45.455 4.95 4.95 34.18 2.83
2269 14868 2.386661 ACCAACTAGCGATCCACTTG 57.613 50.000 0.00 0.00 0.00 3.16
2270 14869 2.615493 CCAACCAACTAGCGATCCACTT 60.615 50.000 0.00 0.00 0.00 3.16
2271 14870 1.066143 CCAACCAACTAGCGATCCACT 60.066 52.381 0.00 0.00 0.00 4.00
2272 14871 1.338769 ACCAACCAACTAGCGATCCAC 60.339 52.381 0.00 0.00 0.00 4.02
2273 14872 0.981183 ACCAACCAACTAGCGATCCA 59.019 50.000 0.00 0.00 0.00 3.41
2274 14873 1.653151 GACCAACCAACTAGCGATCC 58.347 55.000 0.00 0.00 0.00 3.36
2275 14874 1.278238 CGACCAACCAACTAGCGATC 58.722 55.000 0.00 0.00 0.00 3.69
2276 14875 0.606604 ACGACCAACCAACTAGCGAT 59.393 50.000 0.00 0.00 0.00 4.58
2280 14879 4.400251 TCCATACTACGACCAACCAACTAG 59.600 45.833 0.00 0.00 0.00 2.57
2285 14884 1.826720 GGTCCATACTACGACCAACCA 59.173 52.381 1.38 0.00 46.59 3.67
2291 14890 1.038280 CCCCTGGTCCATACTACGAC 58.962 60.000 0.00 0.00 0.00 4.34
2349 14949 4.462834 ACCATAGCTCCAAACTAAAAAGGC 59.537 41.667 0.00 0.00 0.00 4.35
2377 14977 4.441792 TCATACATGCTGCGACAATACTT 58.558 39.130 0.00 0.00 0.00 2.24
2382 14982 3.940852 AGAAATCATACATGCTGCGACAA 59.059 39.130 0.00 0.00 0.00 3.18
2384 14984 3.806521 AGAGAAATCATACATGCTGCGAC 59.193 43.478 0.00 0.00 0.00 5.19
2386 14986 3.805971 TCAGAGAAATCATACATGCTGCG 59.194 43.478 0.00 0.00 0.00 5.18
2405 15005 8.763049 TTCAACAGTACATGAACTAATCTCAG 57.237 34.615 0.00 0.00 30.94 3.35
2439 15039 8.834465 GTCTTTTACAGAATGATCATAGCATGT 58.166 33.333 9.04 13.08 39.69 3.21
2481 15081 3.511146 ACCCGAACTGCAAATTGATGATT 59.489 39.130 0.00 0.00 0.00 2.57
2484 15084 4.082787 ACTTACCCGAACTGCAAATTGATG 60.083 41.667 0.00 0.00 0.00 3.07
2487 15087 3.915437 ACTTACCCGAACTGCAAATTG 57.085 42.857 0.00 0.00 0.00 2.32
2488 15088 7.773690 AGAATATACTTACCCGAACTGCAAATT 59.226 33.333 0.00 0.00 0.00 1.82
2489 15089 7.280356 AGAATATACTTACCCGAACTGCAAAT 58.720 34.615 0.00 0.00 0.00 2.32
2490 15090 6.646267 AGAATATACTTACCCGAACTGCAAA 58.354 36.000 0.00 0.00 0.00 3.68
2493 15093 6.047231 ACAAGAATATACTTACCCGAACTGC 58.953 40.000 0.00 0.00 0.00 4.40
2494 15094 7.762615 TCAACAAGAATATACTTACCCGAACTG 59.237 37.037 0.00 0.00 0.00 3.16
2495 15095 7.844009 TCAACAAGAATATACTTACCCGAACT 58.156 34.615 0.00 0.00 0.00 3.01
2498 15098 8.533657 TCTTTCAACAAGAATATACTTACCCGA 58.466 33.333 0.00 0.00 35.83 5.14
2499 15099 8.712285 TCTTTCAACAAGAATATACTTACCCG 57.288 34.615 0.00 0.00 35.83 5.28
2500 15100 9.886132 TCTCTTTCAACAAGAATATACTTACCC 57.114 33.333 0.00 0.00 35.83 3.69
2513 15204 9.604626 GTCATTTACTTGATCTCTTTCAACAAG 57.395 33.333 0.00 0.00 42.11 3.16
2516 15207 7.237173 CGGTCATTTACTTGATCTCTTTCAAC 58.763 38.462 0.00 0.00 32.39 3.18
2518 15209 5.351465 GCGGTCATTTACTTGATCTCTTTCA 59.649 40.000 0.00 0.00 0.00 2.69
2521 15212 5.091261 AGCGGTCATTTACTTGATCTCTT 57.909 39.130 0.00 0.00 0.00 2.85
2545 15236 5.931724 TCACACATTATATCATTACCAGGCG 59.068 40.000 0.00 0.00 0.00 5.52
2546 15237 7.161404 TCTCACACATTATATCATTACCAGGC 58.839 38.462 0.00 0.00 0.00 4.85
2584 15276 7.013559 CACCATCATAAATTAAGTCTGGCATCA 59.986 37.037 0.00 0.00 0.00 3.07
2595 15287 9.703892 CCAAAGTGTTTCACCATCATAAATTAA 57.296 29.630 0.00 0.00 34.49 1.40
2597 15289 7.872483 GTCCAAAGTGTTTCACCATCATAAATT 59.128 33.333 0.00 0.00 34.49 1.82
2598 15290 7.015098 TGTCCAAAGTGTTTCACCATCATAAAT 59.985 33.333 0.00 0.00 34.49 1.40
2602 15297 4.214310 TGTCCAAAGTGTTTCACCATCAT 58.786 39.130 0.00 0.00 34.49 2.45
2611 15306 6.151985 TGACAATGTAACTGTCCAAAGTGTTT 59.848 34.615 0.82 0.00 0.00 2.83
2623 15318 7.166970 GCATCAAATATGCTGACAATGTAACTG 59.833 37.037 2.78 0.00 41.52 3.16
2637 15332 8.866956 GCCAGAATTAATTAGCATCAAATATGC 58.133 33.333 0.00 1.74 44.85 3.14
2640 15335 9.970395 CAAGCCAGAATTAATTAGCATCAAATA 57.030 29.630 15.70 0.00 0.00 1.40
2658 15353 6.207810 ACCATTTCGTATTTAAACAAGCCAGA 59.792 34.615 0.00 0.00 0.00 3.86
2664 15359 6.153067 CCAGCACCATTTCGTATTTAAACAA 58.847 36.000 0.00 0.00 0.00 2.83
2666 15361 4.561213 GCCAGCACCATTTCGTATTTAAAC 59.439 41.667 0.00 0.00 0.00 2.01
2675 15370 0.099968 CTGATGCCAGCACCATTTCG 59.900 55.000 0.00 0.00 33.07 3.46
2680 15375 2.674033 GCACTGATGCCAGCACCA 60.674 61.111 0.00 0.00 46.97 4.17
2701 15396 3.096092 TGGATATTTTTGTCCCAGCACC 58.904 45.455 0.00 0.00 33.45 5.01
2735 15430 7.972527 TCAAATGTTGTGTTTGGAAAATGAAG 58.027 30.769 0.00 0.00 37.22 3.02
2738 15433 8.396390 TGAATCAAATGTTGTGTTTGGAAAATG 58.604 29.630 0.00 0.00 37.22 2.32
2739 15434 8.503458 TGAATCAAATGTTGTGTTTGGAAAAT 57.497 26.923 0.00 0.00 37.22 1.82
2743 15438 5.518128 CGTTGAATCAAATGTTGTGTTTGGA 59.482 36.000 0.00 0.00 37.22 3.53
2744 15439 5.276773 CCGTTGAATCAAATGTTGTGTTTGG 60.277 40.000 0.00 0.00 37.22 3.28
2745 15440 5.518128 TCCGTTGAATCAAATGTTGTGTTTG 59.482 36.000 0.00 0.00 37.79 2.93
2746 15441 5.518487 GTCCGTTGAATCAAATGTTGTGTTT 59.482 36.000 0.00 0.00 0.00 2.83
2755 15450 7.607991 ACATCTTCTAAGTCCGTTGAATCAAAT 59.392 33.333 0.00 0.00 0.00 2.32
2760 15455 5.420409 GGACATCTTCTAAGTCCGTTGAAT 58.580 41.667 0.00 0.00 42.02 2.57
2783 15478 5.278315 CCGGAAAAACCCTACAAAGAAAGAG 60.278 44.000 0.00 0.00 34.64 2.85
2789 15484 2.589720 ACCCGGAAAAACCCTACAAAG 58.410 47.619 0.73 0.00 34.64 2.77
2791 15486 2.978278 TCTACCCGGAAAAACCCTACAA 59.022 45.455 0.73 0.00 34.64 2.41
2793 15488 3.920231 ATCTACCCGGAAAAACCCTAC 57.080 47.619 0.73 0.00 34.64 3.18
2796 15491 3.920231 ACTATCTACCCGGAAAAACCC 57.080 47.619 0.73 0.00 34.64 4.11
2798 15493 8.552083 TCTTTTAACTATCTACCCGGAAAAAC 57.448 34.615 0.73 0.00 0.00 2.43
2801 15496 7.486407 ACTCTTTTAACTATCTACCCGGAAA 57.514 36.000 0.73 0.00 0.00 3.13
2802 15497 7.486407 AACTCTTTTAACTATCTACCCGGAA 57.514 36.000 0.73 0.00 0.00 4.30
2803 15498 7.486407 AAACTCTTTTAACTATCTACCCGGA 57.514 36.000 0.73 0.00 0.00 5.14
2805 15500 9.643693 TTGTAAACTCTTTTAACTATCTACCCG 57.356 33.333 0.00 0.00 0.00 5.28
2842 15537 9.672086 GTGACAAATTGTAAACAAACTGCTATA 57.328 29.630 0.00 0.00 39.55 1.31
2843 15538 7.651704 GGTGACAAATTGTAAACAAACTGCTAT 59.348 33.333 0.00 0.00 39.55 2.97
2853 15548 5.722021 ATCTGGGGTGACAAATTGTAAAC 57.278 39.130 0.00 0.00 0.00 2.01
2861 15556 2.308570 ACATGCTATCTGGGGTGACAAA 59.691 45.455 0.00 0.00 0.00 2.83
2862 15557 1.915489 ACATGCTATCTGGGGTGACAA 59.085 47.619 0.00 0.00 0.00 3.18
2887 15582 2.421739 GTGGCTGGTGACGAGTGT 59.578 61.111 0.00 0.00 0.00 3.55
2888 15583 2.734723 CGTGGCTGGTGACGAGTG 60.735 66.667 0.00 0.00 37.81 3.51
2889 15584 4.664677 GCGTGGCTGGTGACGAGT 62.665 66.667 0.00 0.00 37.81 4.18
2905 15600 1.388547 TATCAATTCCGGTTGCTGGC 58.611 50.000 0.00 0.00 0.00 4.85
2912 15607 3.397618 TCAATCCCCATATCAATTCCGGT 59.602 43.478 0.00 0.00 0.00 5.28
2920 15615 4.915809 AGAAGGACATCAATCCCCATATCA 59.084 41.667 0.00 0.00 39.91 2.15
2924 15619 2.105477 CGAGAAGGACATCAATCCCCAT 59.895 50.000 0.00 0.00 39.91 4.00
2926 15621 1.202698 CCGAGAAGGACATCAATCCCC 60.203 57.143 0.00 0.00 45.00 4.81
2927 15622 1.486726 ACCGAGAAGGACATCAATCCC 59.513 52.381 0.00 0.00 45.00 3.85
2934 15629 0.687354 AGTTGCACCGAGAAGGACAT 59.313 50.000 0.00 0.00 45.00 3.06
2944 15639 3.730761 GCTCAGCCAGTTGCACCG 61.731 66.667 0.00 0.00 44.83 4.94
2966 15661 2.172483 AACGCTCCACCTACCTGCAG 62.172 60.000 6.78 6.78 0.00 4.41
2970 15665 2.955881 GCCAACGCTCCACCTACCT 61.956 63.158 0.00 0.00 0.00 3.08
2977 15672 0.674581 CAGAAGATGCCAACGCTCCA 60.675 55.000 0.00 0.00 35.36 3.86
2980 15675 2.472695 TAACAGAAGATGCCAACGCT 57.527 45.000 0.00 0.00 35.36 5.07
2985 15680 5.769662 ACTTCAACAATAACAGAAGATGCCA 59.230 36.000 7.90 0.00 39.78 4.92
2987 15682 5.570589 GCACTTCAACAATAACAGAAGATGC 59.429 40.000 7.90 9.40 39.78 3.91
2988 15683 6.906659 AGCACTTCAACAATAACAGAAGATG 58.093 36.000 7.90 4.36 39.78 2.90
3000 15714 4.098349 AGAGATTTGCAAGCACTTCAACAA 59.902 37.500 0.00 0.00 0.00 2.83
3005 15719 5.362556 TTGTAGAGATTTGCAAGCACTTC 57.637 39.130 0.00 0.00 0.00 3.01
3012 15726 4.320202 GCTCGGTTTTGTAGAGATTTGCAA 60.320 41.667 0.00 0.00 34.13 4.08
3017 15731 3.003480 GCAGCTCGGTTTTGTAGAGATT 58.997 45.455 0.00 0.00 34.13 2.40
3018 15732 2.234908 AGCAGCTCGGTTTTGTAGAGAT 59.765 45.455 0.00 0.00 34.13 2.75
3029 15743 3.700038 AGTAACAACTATAGCAGCTCGGT 59.300 43.478 0.00 0.00 0.00 4.69
3034 15748 6.237969 GCTCTTTCAGTAACAACTATAGCAGC 60.238 42.308 0.00 0.00 0.00 5.25
3035 15749 7.009999 CAGCTCTTTCAGTAACAACTATAGCAG 59.990 40.741 0.00 0.00 0.00 4.24
3036 15750 6.813649 CAGCTCTTTCAGTAACAACTATAGCA 59.186 38.462 0.00 0.00 0.00 3.49
3037 15751 6.237969 GCAGCTCTTTCAGTAACAACTATAGC 60.238 42.308 0.00 0.00 0.00 2.97
3038 15752 7.038659 AGCAGCTCTTTCAGTAACAACTATAG 58.961 38.462 0.00 0.00 0.00 1.31
3039 15753 6.936279 AGCAGCTCTTTCAGTAACAACTATA 58.064 36.000 0.00 0.00 0.00 1.31
3040 15754 5.799213 AGCAGCTCTTTCAGTAACAACTAT 58.201 37.500 0.00 0.00 0.00 2.12
3041 15755 5.215252 AGCAGCTCTTTCAGTAACAACTA 57.785 39.130 0.00 0.00 0.00 2.24
3042 15756 4.078639 AGCAGCTCTTTCAGTAACAACT 57.921 40.909 0.00 0.00 0.00 3.16
3043 15757 4.820284 AAGCAGCTCTTTCAGTAACAAC 57.180 40.909 0.00 0.00 0.00 3.32
3044 15758 5.590259 AGAAAAGCAGCTCTTTCAGTAACAA 59.410 36.000 21.85 0.00 43.84 2.83
3045 15759 5.126067 AGAAAAGCAGCTCTTTCAGTAACA 58.874 37.500 21.85 0.00 43.84 2.41
3046 15760 5.681337 AGAAAAGCAGCTCTTTCAGTAAC 57.319 39.130 21.85 5.24 43.84 2.50
3047 15761 5.590259 ACAAGAAAAGCAGCTCTTTCAGTAA 59.410 36.000 21.85 0.00 43.84 2.24
3048 15762 5.126067 ACAAGAAAAGCAGCTCTTTCAGTA 58.874 37.500 21.85 0.00 43.84 2.74
3049 15763 3.950395 ACAAGAAAAGCAGCTCTTTCAGT 59.050 39.130 21.85 18.15 43.84 3.41
3050 15764 4.564940 ACAAGAAAAGCAGCTCTTTCAG 57.435 40.909 21.85 17.75 43.84 3.02
3051 15765 4.398988 TCAACAAGAAAAGCAGCTCTTTCA 59.601 37.500 21.85 6.94 43.84 2.69
3052 15766 4.925068 TCAACAAGAAAAGCAGCTCTTTC 58.075 39.130 16.32 16.32 43.84 2.62
3053 15767 4.989279 TCAACAAGAAAAGCAGCTCTTT 57.011 36.364 0.00 0.00 46.42 2.52
3054 15768 4.400567 ACTTCAACAAGAAAAGCAGCTCTT 59.599 37.500 0.00 0.00 35.40 2.85
3055 15769 3.950395 ACTTCAACAAGAAAAGCAGCTCT 59.050 39.130 0.00 0.00 35.40 4.09
3056 15770 4.040376 CACTTCAACAAGAAAAGCAGCTC 58.960 43.478 0.00 0.00 35.40 4.09
3057 15771 3.181483 CCACTTCAACAAGAAAAGCAGCT 60.181 43.478 0.00 0.00 35.40 4.24
3064 15778 2.306847 GCCTCCCACTTCAACAAGAAA 58.693 47.619 0.00 0.00 35.40 2.52
3067 15781 0.895559 GGGCCTCCCACTTCAACAAG 60.896 60.000 0.84 0.00 44.65 3.16
3089 15803 0.391793 CTGGGAAGAAGGCGGAAGAC 60.392 60.000 0.00 0.00 42.06 3.01
3094 15808 2.586792 CTCCTGGGAAGAAGGCGG 59.413 66.667 0.00 0.00 34.56 6.13
3119 15835 6.863126 AGTCAAGCAAAATAGGAAACAATTCG 59.137 34.615 0.00 0.00 36.36 3.34
3142 15858 3.178046 GGAAAGAAGAGGAGGAAGGAGT 58.822 50.000 0.00 0.00 0.00 3.85
3145 15861 4.288366 AGAAAGGAAAGAAGAGGAGGAAGG 59.712 45.833 0.00 0.00 0.00 3.46
3146 15862 5.221823 ACAGAAAGGAAAGAAGAGGAGGAAG 60.222 44.000 0.00 0.00 0.00 3.46
3164 15880 5.362717 TCAGACTACAGAAGGACAACAGAAA 59.637 40.000 0.00 0.00 0.00 2.52
3178 15894 2.741228 GCCATGGAAGCTCAGACTACAG 60.741 54.545 18.40 0.00 0.00 2.74
3186 15902 1.676635 GTGCAGCCATGGAAGCTCA 60.677 57.895 18.40 2.06 38.95 4.26
3187 15903 1.246056 TTGTGCAGCCATGGAAGCTC 61.246 55.000 18.40 18.42 38.95 4.09
3226 15942 0.779997 AGGAAATCTGGTTGGCTGGT 59.220 50.000 0.00 0.00 0.00 4.00
3227 15943 2.806945 TAGGAAATCTGGTTGGCTGG 57.193 50.000 0.00 0.00 0.00 4.85
3230 15946 5.468540 AAAGTTTAGGAAATCTGGTTGGC 57.531 39.130 0.00 0.00 0.00 4.52
3231 15947 5.696270 GCAAAAGTTTAGGAAATCTGGTTGG 59.304 40.000 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.