Multiple sequence alignment - TraesCS6B01G224700

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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 TraesCS6B01G224700 chr6B 100.000 2341 0 0 1 2341 343112746 343110406 0.000000e+00 4324.0
1 TraesCS6B01G224700 chr2B 91.606 1656 110 16 648 2283 400026573 400028219 0.000000e+00 2261.0
2 TraesCS6B01G224700 chr2B 82.616 558 60 14 1430 1983 647444975 647444451 2.120000e-125 459.0
3 TraesCS6B01G224700 chr2B 88.168 262 29 2 391 652 383542148 383542407 6.280000e-81 311.0
4 TraesCS6B01G224700 chr5B 89.349 1643 114 21 705 2341 100776429 100774842 0.000000e+00 2008.0
5 TraesCS6B01G224700 chr6A 88.462 1456 111 26 795 2219 533836138 533837567 0.000000e+00 1705.0
6 TraesCS6B01G224700 chr1B 88.379 1024 86 18 800 1819 604626584 604627578 0.000000e+00 1201.0
7 TraesCS6B01G224700 chr1B 81.720 558 65 14 1430 1983 633433309 633432785 4.620000e-117 431.0
8 TraesCS6B01G224700 chr1B 84.135 208 22 4 1978 2183 604634907 604635105 8.540000e-45 191.0
9 TraesCS6B01G224700 chr3A 86.667 855 71 18 645 1468 80251582 80250740 0.000000e+00 907.0
10 TraesCS6B01G224700 chr3A 87.925 265 32 0 389 653 136609601 136609865 1.750000e-81 313.0
11 TraesCS6B01G224700 chr3A 87.273 275 33 2 388 661 403426806 403427079 1.750000e-81 313.0
12 TraesCS6B01G224700 chr7D 84.828 580 54 16 1410 1980 18396834 18397388 9.450000e-154 553.0
13 TraesCS6B01G224700 chr7D 86.909 275 35 1 388 661 155691 155965 8.130000e-80 307.0
14 TraesCS6B01G224700 chr6D 83.427 356 51 5 38 386 224742276 224742630 8.070000e-85 324.0
15 TraesCS6B01G224700 chr6D 88.302 265 31 0 388 652 154351962 154351698 3.750000e-83 318.0
16 TraesCS6B01G224700 chr6D 92.500 80 6 0 38 117 224741814 224741893 5.290000e-22 115.0
17 TraesCS6B01G224700 chr2D 88.346 266 31 0 389 654 143327316 143327051 1.040000e-83 320.0
18 TraesCS6B01G224700 chr5D 88.346 266 27 4 389 652 464120132 464120395 1.350000e-82 316.0
19 TraesCS6B01G224700 chr1D 88.258 264 31 0 389 652 131404414 131404677 1.350000e-82 316.0
20 TraesCS6B01G224700 chr4D 87.925 265 32 0 388 652 372202587 372202323 1.750000e-81 313.0
21 TraesCS6B01G224700 chr7B 91.935 62 5 0 39 100 677885361 677885300 1.150000e-13 87.9


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 TraesCS6B01G224700 chr6B 343110406 343112746 2340 True 4324.0 4324 100.0000 1 2341 1 chr6B.!!$R1 2340
1 TraesCS6B01G224700 chr2B 400026573 400028219 1646 False 2261.0 2261 91.6060 648 2283 1 chr2B.!!$F2 1635
2 TraesCS6B01G224700 chr2B 647444451 647444975 524 True 459.0 459 82.6160 1430 1983 1 chr2B.!!$R1 553
3 TraesCS6B01G224700 chr5B 100774842 100776429 1587 True 2008.0 2008 89.3490 705 2341 1 chr5B.!!$R1 1636
4 TraesCS6B01G224700 chr6A 533836138 533837567 1429 False 1705.0 1705 88.4620 795 2219 1 chr6A.!!$F1 1424
5 TraesCS6B01G224700 chr1B 604626584 604627578 994 False 1201.0 1201 88.3790 800 1819 1 chr1B.!!$F1 1019
6 TraesCS6B01G224700 chr1B 633432785 633433309 524 True 431.0 431 81.7200 1430 1983 1 chr1B.!!$R1 553
7 TraesCS6B01G224700 chr3A 80250740 80251582 842 True 907.0 907 86.6670 645 1468 1 chr3A.!!$R1 823
8 TraesCS6B01G224700 chr7D 18396834 18397388 554 False 553.0 553 84.8280 1410 1980 1 chr7D.!!$F2 570
9 TraesCS6B01G224700 chr6D 224741814 224742630 816 False 219.5 324 87.9635 38 386 2 chr6D.!!$F1 348

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
360 827 0.036388 AACACCGCGATGATGAACCT 60.036 50.0 7.92 0.0 0.00 3.50 F
363 830 0.249120 ACCGCGATGATGAACCTGAA 59.751 50.0 8.23 0.0 0.00 3.02 F
483 950 0.251165 GGGTCACAAGCTTAGGGCAA 60.251 55.0 0.00 0.0 44.79 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1285 1795 0.251209 ACGGCTAGCTGGGATCGATA 60.251 55.0 26.9 0.0 0.00 2.92 R
1286 1796 0.251209 TACGGCTAGCTGGGATCGAT 60.251 55.0 26.9 0.0 0.00 3.59 R
1387 1897 2.480642 GGGAATCACTACTCCCTCCT 57.519 55.0 0.0 0.0 46.91 3.69 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
17 18 4.496336 GGGCCTTCATGCTCGCCT 62.496 66.667 0.84 0.00 41.35 5.52
18 19 3.207669 GGCCTTCATGCTCGCCTG 61.208 66.667 0.00 0.00 38.41 4.85
19 20 2.124983 GCCTTCATGCTCGCCTGA 60.125 61.111 0.00 0.00 0.00 3.86
20 21 2.467826 GCCTTCATGCTCGCCTGAC 61.468 63.158 0.00 0.00 0.00 3.51
21 22 1.817099 CCTTCATGCTCGCCTGACC 60.817 63.158 0.00 0.00 0.00 4.02
22 23 1.078918 CTTCATGCTCGCCTGACCA 60.079 57.895 0.00 0.00 0.00 4.02
23 24 1.078918 TTCATGCTCGCCTGACCAG 60.079 57.895 0.00 0.00 0.00 4.00
24 25 3.200593 CATGCTCGCCTGACCAGC 61.201 66.667 0.00 0.00 0.00 4.85
25 26 4.479993 ATGCTCGCCTGACCAGCC 62.480 66.667 0.00 0.00 31.68 4.85
28 29 4.803426 CTCGCCTGACCAGCCGAC 62.803 72.222 0.00 0.00 0.00 4.79
66 67 3.417779 GGGTGGCCTCCCTTACCC 61.418 72.222 31.98 21.86 45.32 3.69
105 568 0.961358 CCGTCTTCTCGTCCTCCACT 60.961 60.000 0.00 0.00 0.00 4.00
109 572 1.587043 CTTCTCGTCCTCCACTGCGA 61.587 60.000 0.00 0.00 0.00 5.10
110 573 2.487428 CTCGTCCTCCACTGCGAG 59.513 66.667 0.00 0.00 43.42 5.03
115 578 0.171455 GTCCTCCACTGCGAGTGTAG 59.829 60.000 13.06 8.16 44.50 2.74
116 579 0.251209 TCCTCCACTGCGAGTGTAGT 60.251 55.000 13.06 0.00 44.50 2.73
122 585 1.730612 CACTGCGAGTGTAGTCGTCTA 59.269 52.381 10.43 0.00 41.19 2.59
129 592 2.850439 TGTAGTCGTCTACGCTGCT 58.150 52.632 13.81 7.51 46.70 4.24
130 593 2.014335 TGTAGTCGTCTACGCTGCTA 57.986 50.000 13.81 6.80 46.70 3.49
166 630 1.155390 ACCTTCTCGTCCTCCACCA 59.845 57.895 0.00 0.00 0.00 4.17
167 631 0.252284 ACCTTCTCGTCCTCCACCAT 60.252 55.000 0.00 0.00 0.00 3.55
178 642 1.601419 CTCCACCATGCTGCAAAGGG 61.601 60.000 22.96 18.81 0.00 3.95
191 655 2.505407 TGCAAAGGGAGCAGCTAGATAA 59.495 45.455 0.00 0.00 37.02 1.75
198 662 5.588845 AGGGAGCAGCTAGATAAGATACAT 58.411 41.667 0.00 0.00 0.00 2.29
199 663 6.736581 AGGGAGCAGCTAGATAAGATACATA 58.263 40.000 0.00 0.00 0.00 2.29
215 679 6.584950 AGATACATAATATGGAGGGGAAGGT 58.415 40.000 5.16 0.00 33.60 3.50
221 685 0.120377 ATGGAGGGGAAGGTGTACCA 59.880 55.000 3.56 0.00 38.89 3.25
222 686 0.120377 TGGAGGGGAAGGTGTACCAT 59.880 55.000 3.56 0.00 38.89 3.55
223 687 1.366787 TGGAGGGGAAGGTGTACCATA 59.633 52.381 3.56 0.00 38.89 2.74
225 689 2.628829 GGAGGGGAAGGTGTACCATAGT 60.629 54.545 3.56 0.00 38.89 2.12
226 690 3.113043 GAGGGGAAGGTGTACCATAGTT 58.887 50.000 3.56 0.00 38.89 2.24
256 720 3.708451 CCTAATGTTAGGGGGTTTTGCT 58.292 45.455 10.39 0.00 45.29 3.91
297 761 6.239458 CCTCAGATATCCACTTAAGAAGGGAC 60.239 46.154 10.09 2.29 32.08 4.46
300 764 6.098982 CAGATATCCACTTAAGAAGGGACTGT 59.901 42.308 10.09 3.38 40.86 3.55
301 765 6.674419 AGATATCCACTTAAGAAGGGACTGTT 59.326 38.462 10.09 1.41 40.86 3.16
360 827 0.036388 AACACCGCGATGATGAACCT 60.036 50.000 7.92 0.00 0.00 3.50
361 828 0.740868 ACACCGCGATGATGAACCTG 60.741 55.000 7.92 0.00 0.00 4.00
362 829 0.460109 CACCGCGATGATGAACCTGA 60.460 55.000 8.23 0.00 0.00 3.86
363 830 0.249120 ACCGCGATGATGAACCTGAA 59.751 50.000 8.23 0.00 0.00 3.02
364 831 0.933097 CCGCGATGATGAACCTGAAG 59.067 55.000 8.23 0.00 0.00 3.02
365 832 1.471501 CCGCGATGATGAACCTGAAGA 60.472 52.381 8.23 0.00 0.00 2.87
366 833 2.270923 CGCGATGATGAACCTGAAGAA 58.729 47.619 0.00 0.00 0.00 2.52
367 834 2.283617 CGCGATGATGAACCTGAAGAAG 59.716 50.000 0.00 0.00 0.00 2.85
368 835 2.031437 GCGATGATGAACCTGAAGAAGC 59.969 50.000 0.00 0.00 0.00 3.86
369 836 3.264947 CGATGATGAACCTGAAGAAGCA 58.735 45.455 0.00 0.00 0.00 3.91
370 837 3.686241 CGATGATGAACCTGAAGAAGCAA 59.314 43.478 0.00 0.00 0.00 3.91
371 838 4.334759 CGATGATGAACCTGAAGAAGCAAT 59.665 41.667 0.00 0.00 0.00 3.56
372 839 5.578005 ATGATGAACCTGAAGAAGCAATG 57.422 39.130 0.00 0.00 0.00 2.82
373 840 3.192001 TGATGAACCTGAAGAAGCAATGC 59.808 43.478 0.00 0.00 0.00 3.56
374 841 2.585330 TGAACCTGAAGAAGCAATGCA 58.415 42.857 8.35 0.00 0.00 3.96
375 842 3.159472 TGAACCTGAAGAAGCAATGCAT 58.841 40.909 8.35 0.00 0.00 3.96
376 843 3.057104 TGAACCTGAAGAAGCAATGCATG 60.057 43.478 8.35 0.00 0.00 4.06
394 861 9.917129 CAATGCATGCTTTATTAAAGATATGGA 57.083 29.630 20.33 19.22 41.02 3.41
395 862 9.918630 AATGCATGCTTTATTAAAGATATGGAC 57.081 29.630 20.33 10.40 41.02 4.02
396 863 7.584108 TGCATGCTTTATTAAAGATATGGACG 58.416 34.615 20.33 3.66 41.02 4.79
397 864 7.228507 TGCATGCTTTATTAAAGATATGGACGT 59.771 33.333 20.33 0.00 41.02 4.34
398 865 7.746475 GCATGCTTTATTAAAGATATGGACGTC 59.254 37.037 18.25 7.13 41.02 4.34
399 866 7.724305 TGCTTTATTAAAGATATGGACGTCC 57.276 36.000 28.17 28.17 41.02 4.79
400 867 7.276658 TGCTTTATTAAAGATATGGACGTCCA 58.723 34.615 37.79 37.79 45.01 4.02
401 868 7.225931 TGCTTTATTAAAGATATGGACGTCCAC 59.774 37.037 38.46 25.57 44.28 4.02
402 869 7.568861 GCTTTATTAAAGATATGGACGTCCACG 60.569 40.741 38.46 10.39 44.28 4.94
403 870 7.095774 CTTTATTAAAGATATGGACGTCCACGG 60.096 40.741 38.46 10.84 44.28 4.94
424 891 2.480555 CGCTGGCGGTCATTGAAC 59.519 61.111 7.12 0.00 35.56 3.18
425 892 2.480555 GCTGGCGGTCATTGAACG 59.519 61.111 19.53 19.53 46.38 3.95
426 893 3.039202 GCTGGCGGTCATTGAACGG 62.039 63.158 24.27 9.99 43.57 4.44
427 894 1.375396 CTGGCGGTCATTGAACGGA 60.375 57.895 24.27 0.00 43.57 4.69
428 895 0.744414 CTGGCGGTCATTGAACGGAT 60.744 55.000 24.27 0.00 43.57 4.18
429 896 1.024046 TGGCGGTCATTGAACGGATG 61.024 55.000 24.27 0.00 43.57 3.51
430 897 0.742990 GGCGGTCATTGAACGGATGA 60.743 55.000 24.27 0.00 43.57 2.92
431 898 1.299541 GCGGTCATTGAACGGATGAT 58.700 50.000 24.27 0.00 43.57 2.45
432 899 1.670811 GCGGTCATTGAACGGATGATT 59.329 47.619 24.27 0.00 43.57 2.57
433 900 2.097466 GCGGTCATTGAACGGATGATTT 59.903 45.455 24.27 0.00 43.57 2.17
434 901 3.788797 GCGGTCATTGAACGGATGATTTC 60.789 47.826 24.27 2.53 43.57 2.17
435 902 3.373748 CGGTCATTGAACGGATGATTTCA 59.626 43.478 16.28 0.00 39.28 2.69
436 903 4.035558 CGGTCATTGAACGGATGATTTCAT 59.964 41.667 16.28 0.00 39.28 2.57
437 904 5.449041 CGGTCATTGAACGGATGATTTCATT 60.449 40.000 16.28 0.00 39.28 2.57
438 905 5.973565 GGTCATTGAACGGATGATTTCATTC 59.026 40.000 0.00 0.00 36.57 2.67
439 906 6.404623 GGTCATTGAACGGATGATTTCATTCA 60.405 38.462 0.03 0.00 36.57 2.57
440 907 7.198390 GTCATTGAACGGATGATTTCATTCAT 58.802 34.615 0.03 0.00 39.04 2.57
441 908 7.166970 GTCATTGAACGGATGATTTCATTCATG 59.833 37.037 0.03 0.00 36.48 3.07
442 909 6.513806 TTGAACGGATGATTTCATTCATGT 57.486 33.333 0.03 0.00 36.48 3.21
443 910 6.122850 TGAACGGATGATTTCATTCATGTC 57.877 37.500 0.03 0.00 36.48 3.06
444 911 5.882000 TGAACGGATGATTTCATTCATGTCT 59.118 36.000 0.03 0.00 36.48 3.41
445 912 7.047271 TGAACGGATGATTTCATTCATGTCTA 58.953 34.615 0.03 0.00 36.48 2.59
446 913 7.716560 TGAACGGATGATTTCATTCATGTCTAT 59.283 33.333 0.03 0.00 36.48 1.98
447 914 7.430992 ACGGATGATTTCATTCATGTCTATG 57.569 36.000 0.03 0.00 36.48 2.23
448 915 7.219322 ACGGATGATTTCATTCATGTCTATGA 58.781 34.615 0.03 0.00 41.44 2.15
449 916 7.172190 ACGGATGATTTCATTCATGTCTATGAC 59.828 37.037 7.20 0.00 42.79 3.06
450 917 7.172019 CGGATGATTTCATTCATGTCTATGACA 59.828 37.037 2.77 2.77 42.79 3.58
451 918 9.011095 GGATGATTTCATTCATGTCTATGACAT 57.989 33.333 7.31 7.31 44.03 3.06
462 929 5.762825 TGTCTATGACATACCGAACCTAC 57.237 43.478 0.00 0.00 37.67 3.18
463 930 5.443283 TGTCTATGACATACCGAACCTACT 58.557 41.667 0.00 0.00 37.67 2.57
464 931 5.298527 TGTCTATGACATACCGAACCTACTG 59.701 44.000 0.00 0.00 37.67 2.74
465 932 4.825634 TCTATGACATACCGAACCTACTGG 59.174 45.833 0.00 0.00 39.83 4.00
466 933 2.104967 TGACATACCGAACCTACTGGG 58.895 52.381 0.00 0.00 41.89 4.45
478 945 3.252974 CCTACTGGGTCACAAGCTTAG 57.747 52.381 0.00 0.00 0.00 2.18
479 946 2.093447 CCTACTGGGTCACAAGCTTAGG 60.093 54.545 0.00 0.00 0.00 2.69
480 947 0.693049 ACTGGGTCACAAGCTTAGGG 59.307 55.000 0.00 0.00 0.00 3.53
481 948 0.678048 CTGGGTCACAAGCTTAGGGC 60.678 60.000 0.00 0.00 42.19 5.19
482 949 1.378762 GGGTCACAAGCTTAGGGCA 59.621 57.895 0.00 0.00 44.79 5.36
483 950 0.251165 GGGTCACAAGCTTAGGGCAA 60.251 55.000 0.00 0.00 44.79 4.52
484 951 1.616994 GGGTCACAAGCTTAGGGCAAT 60.617 52.381 0.00 0.00 44.79 3.56
485 952 1.745653 GGTCACAAGCTTAGGGCAATC 59.254 52.381 0.00 0.00 44.79 2.67
486 953 2.436417 GTCACAAGCTTAGGGCAATCA 58.564 47.619 0.00 0.00 44.79 2.57
487 954 3.019564 GTCACAAGCTTAGGGCAATCAT 58.980 45.455 0.00 0.00 44.79 2.45
488 955 3.018856 TCACAAGCTTAGGGCAATCATG 58.981 45.455 0.00 0.00 44.79 3.07
489 956 3.018856 CACAAGCTTAGGGCAATCATGA 58.981 45.455 0.00 0.00 44.79 3.07
490 957 3.635373 CACAAGCTTAGGGCAATCATGAT 59.365 43.478 1.18 1.18 44.79 2.45
491 958 3.887716 ACAAGCTTAGGGCAATCATGATC 59.112 43.478 9.06 0.00 44.79 2.92
492 959 4.142790 CAAGCTTAGGGCAATCATGATCT 58.857 43.478 9.06 4.27 44.79 2.75
493 960 3.752665 AGCTTAGGGCAATCATGATCTG 58.247 45.455 9.06 10.51 44.79 2.90
494 961 3.137913 AGCTTAGGGCAATCATGATCTGT 59.862 43.478 9.06 0.00 44.79 3.41
495 962 3.887716 GCTTAGGGCAATCATGATCTGTT 59.112 43.478 9.06 0.00 41.35 3.16
496 963 4.261489 GCTTAGGGCAATCATGATCTGTTG 60.261 45.833 9.06 5.53 41.35 3.33
497 964 3.657398 AGGGCAATCATGATCTGTTGA 57.343 42.857 9.06 0.00 0.00 3.18
498 965 3.552875 AGGGCAATCATGATCTGTTGAG 58.447 45.455 9.06 0.00 0.00 3.02
499 966 3.053842 AGGGCAATCATGATCTGTTGAGT 60.054 43.478 9.06 0.00 0.00 3.41
500 967 3.066342 GGGCAATCATGATCTGTTGAGTG 59.934 47.826 9.06 13.37 40.05 3.51
501 968 3.693085 GGCAATCATGATCTGTTGAGTGT 59.307 43.478 9.06 0.00 39.45 3.55
502 969 4.157289 GGCAATCATGATCTGTTGAGTGTT 59.843 41.667 9.06 0.00 39.45 3.32
503 970 5.355071 GGCAATCATGATCTGTTGAGTGTTA 59.645 40.000 9.06 0.00 39.45 2.41
504 971 6.457934 GGCAATCATGATCTGTTGAGTGTTAG 60.458 42.308 9.06 0.00 39.45 2.34
505 972 6.093219 GCAATCATGATCTGTTGAGTGTTAGT 59.907 38.462 9.06 0.00 39.45 2.24
506 973 7.278646 GCAATCATGATCTGTTGAGTGTTAGTA 59.721 37.037 9.06 0.00 39.45 1.82
507 974 8.598924 CAATCATGATCTGTTGAGTGTTAGTAC 58.401 37.037 9.06 0.00 34.26 2.73
508 975 6.322491 TCATGATCTGTTGAGTGTTAGTACG 58.678 40.000 0.00 0.00 0.00 3.67
509 976 5.952526 TGATCTGTTGAGTGTTAGTACGA 57.047 39.130 0.00 0.00 0.00 3.43
510 977 6.510879 TGATCTGTTGAGTGTTAGTACGAT 57.489 37.500 0.00 0.00 0.00 3.73
511 978 6.322491 TGATCTGTTGAGTGTTAGTACGATG 58.678 40.000 0.00 0.00 0.00 3.84
512 979 5.055642 TCTGTTGAGTGTTAGTACGATGG 57.944 43.478 0.00 0.00 0.00 3.51
513 980 4.082408 TCTGTTGAGTGTTAGTACGATGGG 60.082 45.833 0.00 0.00 0.00 4.00
514 981 3.827876 TGTTGAGTGTTAGTACGATGGGA 59.172 43.478 0.00 0.00 0.00 4.37
515 982 4.464951 TGTTGAGTGTTAGTACGATGGGAT 59.535 41.667 0.00 0.00 0.00 3.85
516 983 5.046878 TGTTGAGTGTTAGTACGATGGGATT 60.047 40.000 0.00 0.00 0.00 3.01
517 984 5.258456 TGAGTGTTAGTACGATGGGATTC 57.742 43.478 0.00 0.00 0.00 2.52
518 985 4.707934 TGAGTGTTAGTACGATGGGATTCA 59.292 41.667 0.00 0.00 0.00 2.57
519 986 5.362717 TGAGTGTTAGTACGATGGGATTCAT 59.637 40.000 0.00 0.00 39.13 2.57
520 987 5.601662 AGTGTTAGTACGATGGGATTCATG 58.398 41.667 0.00 0.00 35.97 3.07
521 988 5.362717 AGTGTTAGTACGATGGGATTCATGA 59.637 40.000 0.00 0.00 35.97 3.07
522 989 5.692204 GTGTTAGTACGATGGGATTCATGAG 59.308 44.000 0.00 0.00 35.97 2.90
523 990 5.596772 TGTTAGTACGATGGGATTCATGAGA 59.403 40.000 0.00 0.00 35.97 3.27
524 991 6.097696 TGTTAGTACGATGGGATTCATGAGAA 59.902 38.462 0.00 0.00 35.97 2.87
525 992 5.815233 AGTACGATGGGATTCATGAGAAT 57.185 39.130 0.00 0.00 46.85 2.40
526 993 6.918067 AGTACGATGGGATTCATGAGAATA 57.082 37.500 0.00 0.00 44.30 1.75
527 994 7.487822 AGTACGATGGGATTCATGAGAATAT 57.512 36.000 0.00 0.00 44.30 1.28
528 995 8.595362 AGTACGATGGGATTCATGAGAATATA 57.405 34.615 0.00 0.00 44.30 0.86
529 996 9.206690 AGTACGATGGGATTCATGAGAATATAT 57.793 33.333 0.00 0.00 44.30 0.86
530 997 9.823647 GTACGATGGGATTCATGAGAATATATT 57.176 33.333 0.00 0.00 44.30 1.28
532 999 9.170734 ACGATGGGATTCATGAGAATATATTTG 57.829 33.333 0.00 0.00 44.30 2.32
533 1000 9.170734 CGATGGGATTCATGAGAATATATTTGT 57.829 33.333 0.00 0.00 44.30 2.83
535 1002 8.640063 TGGGATTCATGAGAATATATTTGTGG 57.360 34.615 0.00 0.00 44.30 4.17
536 1003 7.670979 TGGGATTCATGAGAATATATTTGTGGG 59.329 37.037 0.00 0.00 44.30 4.61
537 1004 7.890127 GGGATTCATGAGAATATATTTGTGGGA 59.110 37.037 0.00 0.00 44.30 4.37
538 1005 9.471702 GGATTCATGAGAATATATTTGTGGGAT 57.528 33.333 0.00 0.00 44.30 3.85
557 1024 9.800572 TGTGGGATTATTTCATAAATATTCGGA 57.199 29.630 0.00 0.00 35.83 4.55
593 1060 3.790691 TGAAAGCGTTTCAGGGTCA 57.209 47.368 8.47 0.00 44.21 4.02
594 1061 1.305201 TGAAAGCGTTTCAGGGTCAC 58.695 50.000 8.47 0.00 44.21 3.67
595 1062 0.591659 GAAAGCGTTTCAGGGTCACC 59.408 55.000 0.00 0.00 39.45 4.02
596 1063 1.164041 AAAGCGTTTCAGGGTCACCG 61.164 55.000 0.00 0.00 43.47 4.94
597 1064 2.029964 GCGTTTCAGGGTCACCGA 59.970 61.111 0.00 0.00 43.47 4.69
598 1065 1.595929 GCGTTTCAGGGTCACCGAA 60.596 57.895 0.00 0.00 43.47 4.30
599 1066 1.161563 GCGTTTCAGGGTCACCGAAA 61.162 55.000 0.00 0.00 43.47 3.46
600 1067 0.865769 CGTTTCAGGGTCACCGAAAG 59.134 55.000 0.00 0.00 43.47 2.62
617 1084 4.708601 CGAAAGGTTTTTGGTGAGTATCG 58.291 43.478 0.00 0.00 38.61 2.92
618 1085 4.378046 CGAAAGGTTTTTGGTGAGTATCGG 60.378 45.833 0.00 0.00 38.61 4.18
619 1086 3.067684 AGGTTTTTGGTGAGTATCGGG 57.932 47.619 0.00 0.00 38.61 5.14
620 1087 2.374170 AGGTTTTTGGTGAGTATCGGGT 59.626 45.455 0.00 0.00 38.61 5.28
621 1088 3.583966 AGGTTTTTGGTGAGTATCGGGTA 59.416 43.478 0.00 0.00 38.61 3.69
622 1089 4.041938 AGGTTTTTGGTGAGTATCGGGTAA 59.958 41.667 0.00 0.00 38.61 2.85
623 1090 4.945543 GGTTTTTGGTGAGTATCGGGTAAT 59.054 41.667 0.00 0.00 38.61 1.89
624 1091 6.070078 AGGTTTTTGGTGAGTATCGGGTAATA 60.070 38.462 0.00 0.00 38.61 0.98
625 1092 6.037500 GGTTTTTGGTGAGTATCGGGTAATAC 59.962 42.308 0.00 0.00 38.61 1.89
626 1093 4.942761 TTGGTGAGTATCGGGTAATACC 57.057 45.455 0.00 0.00 38.61 2.73
693 1160 4.890988 TCCCAGGAGTACATATTCCTTCA 58.109 43.478 0.35 0.00 40.05 3.02
717 1196 2.124529 TGCAGTTGCCCACGTGAA 60.125 55.556 19.30 0.00 41.18 3.18
732 1211 0.733223 GTGAACGTTCCTCTCCTCGC 60.733 60.000 24.78 1.49 0.00 5.03
829 1312 3.302740 CGATTTTTCTGGCGCTCTCATAC 60.303 47.826 7.64 0.00 0.00 2.39
841 1324 3.574396 CGCTCTCATACCTTATCCTTCCA 59.426 47.826 0.00 0.00 0.00 3.53
850 1333 0.679505 TTATCCTTCCATCCGCCTCG 59.320 55.000 0.00 0.00 0.00 4.63
954 1441 4.039730 ACCGATCTAGATTACAGCTTGCAT 59.960 41.667 6.70 0.00 0.00 3.96
1002 1491 3.123804 CCGTCCGAACCTGAGATTTATG 58.876 50.000 0.00 0.00 0.00 1.90
1005 1494 2.158813 TCCGAACCTGAGATTTATGGGC 60.159 50.000 0.00 0.00 0.00 5.36
1052 1548 3.932710 TGGACGTTCTCTGCATGTTAATC 59.067 43.478 0.00 0.00 0.00 1.75
1060 1556 3.554934 TCTGCATGTTAATCCCATGTCC 58.445 45.455 6.45 0.00 41.38 4.02
1069 1565 1.051812 ATCCCATGTCCAGATCCGTC 58.948 55.000 0.00 0.00 0.00 4.79
1186 1696 8.198109 TGAATTTTTGTGGACGGAAGAATTTTA 58.802 29.630 0.00 0.00 0.00 1.52
1209 1719 3.153919 GGTGCTTTGTGGATGTTCCTTA 58.846 45.455 0.00 0.00 37.46 2.69
1225 1735 1.006766 TTATGGATGGGGGCTGGGA 59.993 57.895 0.00 0.00 0.00 4.37
1285 1795 0.726827 CAATGCCGTAGTGTCGCATT 59.273 50.000 0.83 0.83 37.71 3.56
1286 1796 1.930503 CAATGCCGTAGTGTCGCATTA 59.069 47.619 6.21 0.00 36.58 1.90
1326 1836 8.223769 GCCGTAAACAGATTGACATATATCTTG 58.776 37.037 0.00 0.00 0.00 3.02
1367 1877 6.146837 GGACGTATGATCAAATGGATTCAGAG 59.853 42.308 0.00 0.00 36.00 3.35
1375 1885 8.712103 TGATCAAATGGATTCAGAGATACTCTT 58.288 33.333 0.00 0.00 35.96 2.85
1387 1897 7.735917 TCAGAGATACTCTTTCTGTTCCAAAA 58.264 34.615 0.00 0.00 38.99 2.44
1427 1937 2.684881 CGCTGCTATTTCATCTTTGGGT 59.315 45.455 0.00 0.00 0.00 4.51
1434 1944 7.630082 TGCTATTTCATCTTTGGGTAAGTAGT 58.370 34.615 0.00 0.00 35.28 2.73
1475 1989 5.770162 AACAGTAGCTCTGGTTGCTAATTTT 59.230 36.000 14.88 0.00 42.00 1.82
1549 2063 8.579850 TGCCATCTTTCTTTATATGTTCAGTT 57.420 30.769 0.00 0.00 0.00 3.16
1608 2124 4.895668 AAGGAACGTACATTTCCCTGTA 57.104 40.909 16.32 0.00 43.29 2.74
1665 2181 7.931407 CCTTCTGTGTTTAGTGCCATATATACA 59.069 37.037 0.00 0.00 0.00 2.29
1796 2313 6.371809 TCTTTTAACTCATTGCAACGACTT 57.628 33.333 0.00 0.00 0.00 3.01
2049 2578 8.557450 ACAAGTATATACTCCCCTGTCAAAAAT 58.443 33.333 15.72 0.00 34.99 1.82
2160 2693 8.301252 TCACATACAAAAGCTGGTATAGACTA 57.699 34.615 5.84 0.00 0.00 2.59
2219 2759 2.093658 AGTATGCAACTACCGGAACAGG 60.094 50.000 9.46 0.00 36.36 4.00
2284 2824 3.865745 AGCAAGTATGAGACGCATTGTAC 59.134 43.478 0.00 0.00 38.44 2.90
2332 2872 2.063266 GTGCATGTGATTGTTGCCTTG 58.937 47.619 0.00 0.00 35.51 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.496336 AGGCGAGCATGAAGGCCC 62.496 66.667 15.16 0.76 46.75 5.80
1 2 3.207669 CAGGCGAGCATGAAGGCC 61.208 66.667 3.41 11.96 45.91 5.19
2 3 2.124983 TCAGGCGAGCATGAAGGC 60.125 61.111 10.10 0.00 33.63 4.35
3 4 1.817099 GGTCAGGCGAGCATGAAGG 60.817 63.158 14.09 0.00 38.50 3.46
4 5 1.078918 TGGTCAGGCGAGCATGAAG 60.079 57.895 14.09 0.00 44.51 3.02
5 6 3.067985 TGGTCAGGCGAGCATGAA 58.932 55.556 14.09 0.00 44.51 2.57
32 33 3.437795 CTTGCTGCGCTCCCAAGG 61.438 66.667 20.14 8.06 33.96 3.61
33 34 3.437795 CCTTGCTGCGCTCCCAAG 61.438 66.667 20.63 20.63 36.58 3.61
89 552 1.587043 CGCAGTGGAGGACGAGAAGA 61.587 60.000 0.00 0.00 0.00 2.87
105 568 0.717784 CGTAGACGACTACACTCGCA 59.282 55.000 21.74 0.00 46.47 5.10
109 572 0.447011 GCAGCGTAGACGACTACACT 59.553 55.000 21.74 15.81 46.47 3.55
110 573 0.447011 AGCAGCGTAGACGACTACAC 59.553 55.000 21.74 13.96 46.47 2.90
115 578 1.647702 GTTGTTAGCAGCGTAGACGAC 59.352 52.381 6.19 0.00 43.02 4.34
116 579 1.538512 AGTTGTTAGCAGCGTAGACGA 59.461 47.619 6.19 0.00 43.02 4.20
122 585 3.244105 CGCAGTTGTTAGCAGCGT 58.756 55.556 3.95 0.00 43.08 5.07
126 589 3.722295 GCGGCGCAGTTGTTAGCA 61.722 61.111 29.21 0.00 0.00 3.49
129 592 4.323477 AGGGCGGCGCAGTTGTTA 62.323 61.111 34.36 0.00 0.00 2.41
191 655 6.445139 CACCTTCCCCTCCATATTATGTATCT 59.555 42.308 3.10 0.00 0.00 1.98
198 662 4.237018 GGTACACCTTCCCCTCCATATTA 58.763 47.826 0.00 0.00 0.00 0.98
199 663 3.053826 GGTACACCTTCCCCTCCATATT 58.946 50.000 0.00 0.00 0.00 1.28
264 728 5.461032 AGTGGATATCTGAGGAACGATTC 57.539 43.478 2.05 0.00 0.00 2.52
269 733 7.213678 CCTTCTTAAGTGGATATCTGAGGAAC 58.786 42.308 1.63 0.00 0.00 3.62
272 736 5.841237 TCCCTTCTTAAGTGGATATCTGAGG 59.159 44.000 15.44 0.00 0.00 3.86
277 741 6.487299 ACAGTCCCTTCTTAAGTGGATATC 57.513 41.667 15.44 0.00 32.78 1.63
343 810 0.460109 TCAGGTTCATCATCGCGGTG 60.460 55.000 14.66 14.66 0.00 4.94
344 811 0.249120 TTCAGGTTCATCATCGCGGT 59.751 50.000 6.13 0.00 0.00 5.68
346 813 1.926561 TCTTCAGGTTCATCATCGCG 58.073 50.000 0.00 0.00 0.00 5.87
351 818 3.192001 GCATTGCTTCTTCAGGTTCATCA 59.808 43.478 0.16 0.00 0.00 3.07
353 820 3.159472 TGCATTGCTTCTTCAGGTTCAT 58.841 40.909 10.49 0.00 0.00 2.57
368 835 9.917129 TCCATATCTTTAATAAAGCATGCATTG 57.083 29.630 21.98 1.09 38.39 2.82
369 836 9.918630 GTCCATATCTTTAATAAAGCATGCATT 57.081 29.630 21.98 17.42 38.39 3.56
370 837 8.239314 CGTCCATATCTTTAATAAAGCATGCAT 58.761 33.333 21.98 4.57 38.39 3.96
371 838 7.228507 ACGTCCATATCTTTAATAAAGCATGCA 59.771 33.333 21.98 0.00 38.39 3.96
372 839 7.584987 ACGTCCATATCTTTAATAAAGCATGC 58.415 34.615 10.51 10.51 38.39 4.06
373 840 8.230486 GGACGTCCATATCTTTAATAAAGCATG 58.770 37.037 29.75 12.09 35.78 4.06
374 841 7.936847 TGGACGTCCATATCTTTAATAAAGCAT 59.063 33.333 33.23 5.67 42.01 3.79
375 842 7.276658 TGGACGTCCATATCTTTAATAAAGCA 58.723 34.615 33.23 3.66 42.01 3.91
376 843 7.724305 TGGACGTCCATATCTTTAATAAAGC 57.276 36.000 33.23 0.84 42.01 3.51
407 874 2.480555 GTTCAATGACCGCCAGCG 59.519 61.111 4.75 4.75 39.44 5.18
408 875 2.480555 CGTTCAATGACCGCCAGC 59.519 61.111 0.00 0.00 0.00 4.85
409 876 0.744414 ATCCGTTCAATGACCGCCAG 60.744 55.000 0.00 0.00 0.00 4.85
410 877 1.024046 CATCCGTTCAATGACCGCCA 61.024 55.000 0.00 0.00 0.00 5.69
411 878 0.742990 TCATCCGTTCAATGACCGCC 60.743 55.000 0.00 0.00 0.00 6.13
412 879 1.299541 ATCATCCGTTCAATGACCGC 58.700 50.000 0.00 0.00 36.04 5.68
413 880 3.373748 TGAAATCATCCGTTCAATGACCG 59.626 43.478 0.00 0.00 36.04 4.79
414 881 4.963276 TGAAATCATCCGTTCAATGACC 57.037 40.909 0.00 0.00 36.04 4.02
415 882 6.554419 TGAATGAAATCATCCGTTCAATGAC 58.446 36.000 0.00 0.00 37.31 3.06
416 883 6.756299 TGAATGAAATCATCCGTTCAATGA 57.244 33.333 0.00 0.00 37.31 2.57
417 884 6.976349 ACATGAATGAAATCATCCGTTCAATG 59.024 34.615 0.00 0.00 37.96 2.82
418 885 7.067859 AGACATGAATGAAATCATCCGTTCAAT 59.932 33.333 0.00 0.00 37.96 2.57
419 886 6.375174 AGACATGAATGAAATCATCCGTTCAA 59.625 34.615 0.00 0.00 37.96 2.69
420 887 5.882000 AGACATGAATGAAATCATCCGTTCA 59.118 36.000 0.00 0.00 37.96 3.18
421 888 6.369059 AGACATGAATGAAATCATCCGTTC 57.631 37.500 0.00 0.00 37.96 3.95
422 889 7.716560 TCATAGACATGAATGAAATCATCCGTT 59.283 33.333 0.00 0.00 38.25 4.44
423 890 7.172190 GTCATAGACATGAATGAAATCATCCGT 59.828 37.037 0.00 0.00 42.79 4.69
424 891 7.172019 TGTCATAGACATGAATGAAATCATCCG 59.828 37.037 0.00 0.00 42.79 4.18
425 892 8.387190 TGTCATAGACATGAATGAAATCATCC 57.613 34.615 0.00 0.00 42.79 3.51
440 907 5.298527 CAGTAGGTTCGGTATGTCATAGACA 59.701 44.000 1.95 1.95 46.90 3.41
441 908 5.278364 CCAGTAGGTTCGGTATGTCATAGAC 60.278 48.000 0.00 0.00 0.00 2.59
442 909 4.825634 CCAGTAGGTTCGGTATGTCATAGA 59.174 45.833 0.00 0.00 0.00 1.98
443 910 4.022242 CCCAGTAGGTTCGGTATGTCATAG 60.022 50.000 0.00 0.00 0.00 2.23
444 911 3.893200 CCCAGTAGGTTCGGTATGTCATA 59.107 47.826 0.00 0.00 0.00 2.15
445 912 2.698797 CCCAGTAGGTTCGGTATGTCAT 59.301 50.000 0.00 0.00 0.00 3.06
446 913 2.104967 CCCAGTAGGTTCGGTATGTCA 58.895 52.381 0.00 0.00 0.00 3.58
447 914 2.884894 CCCAGTAGGTTCGGTATGTC 57.115 55.000 0.00 0.00 0.00 3.06
458 925 2.093447 CCTAAGCTTGTGACCCAGTAGG 60.093 54.545 9.86 0.00 43.78 3.18
459 926 2.093447 CCCTAAGCTTGTGACCCAGTAG 60.093 54.545 9.86 0.00 0.00 2.57
460 927 1.906574 CCCTAAGCTTGTGACCCAGTA 59.093 52.381 9.86 0.00 0.00 2.74
461 928 0.693049 CCCTAAGCTTGTGACCCAGT 59.307 55.000 9.86 0.00 0.00 4.00
462 929 0.678048 GCCCTAAGCTTGTGACCCAG 60.678 60.000 9.86 0.00 38.99 4.45
463 930 1.378762 GCCCTAAGCTTGTGACCCA 59.621 57.895 9.86 0.00 38.99 4.51
464 931 0.251165 TTGCCCTAAGCTTGTGACCC 60.251 55.000 9.86 0.00 44.23 4.46
465 932 1.745653 GATTGCCCTAAGCTTGTGACC 59.254 52.381 9.86 0.00 44.23 4.02
466 933 2.436417 TGATTGCCCTAAGCTTGTGAC 58.564 47.619 9.86 0.00 44.23 3.67
467 934 2.877097 TGATTGCCCTAAGCTTGTGA 57.123 45.000 9.86 0.00 44.23 3.58
468 935 3.018856 TCATGATTGCCCTAAGCTTGTG 58.981 45.455 9.86 1.52 44.23 3.33
469 936 3.370840 TCATGATTGCCCTAAGCTTGT 57.629 42.857 9.86 0.00 44.23 3.16
470 937 4.023107 CAGATCATGATTGCCCTAAGCTTG 60.023 45.833 10.14 0.00 44.23 4.01
471 938 4.142790 CAGATCATGATTGCCCTAAGCTT 58.857 43.478 10.14 3.48 44.23 3.74
472 939 3.137913 ACAGATCATGATTGCCCTAAGCT 59.862 43.478 10.14 0.00 44.23 3.74
473 940 3.484407 ACAGATCATGATTGCCCTAAGC 58.516 45.455 10.14 0.00 44.14 3.09
474 941 5.128205 TCAACAGATCATGATTGCCCTAAG 58.872 41.667 10.14 0.00 0.00 2.18
475 942 5.114764 TCAACAGATCATGATTGCCCTAA 57.885 39.130 10.14 0.00 0.00 2.69
476 943 4.164796 ACTCAACAGATCATGATTGCCCTA 59.835 41.667 10.14 0.00 0.00 3.53
477 944 3.053842 ACTCAACAGATCATGATTGCCCT 60.054 43.478 10.14 0.00 0.00 5.19
478 945 3.066342 CACTCAACAGATCATGATTGCCC 59.934 47.826 10.14 0.00 0.00 5.36
479 946 3.693085 ACACTCAACAGATCATGATTGCC 59.307 43.478 10.14 0.00 31.55 4.52
480 947 4.959596 ACACTCAACAGATCATGATTGC 57.040 40.909 10.14 0.00 31.55 3.56
481 948 7.606858 ACTAACACTCAACAGATCATGATTG 57.393 36.000 10.14 12.06 33.78 2.67
482 949 7.489435 CGTACTAACACTCAACAGATCATGATT 59.511 37.037 10.14 0.00 0.00 2.57
483 950 6.975197 CGTACTAACACTCAACAGATCATGAT 59.025 38.462 8.25 8.25 0.00 2.45
484 951 6.150474 TCGTACTAACACTCAACAGATCATGA 59.850 38.462 0.00 0.00 0.00 3.07
485 952 6.322491 TCGTACTAACACTCAACAGATCATG 58.678 40.000 0.00 0.00 0.00 3.07
486 953 6.510879 TCGTACTAACACTCAACAGATCAT 57.489 37.500 0.00 0.00 0.00 2.45
487 954 5.952526 TCGTACTAACACTCAACAGATCA 57.047 39.130 0.00 0.00 0.00 2.92
488 955 5.744345 CCATCGTACTAACACTCAACAGATC 59.256 44.000 0.00 0.00 0.00 2.75
489 956 5.394224 CCCATCGTACTAACACTCAACAGAT 60.394 44.000 0.00 0.00 0.00 2.90
490 957 4.082408 CCCATCGTACTAACACTCAACAGA 60.082 45.833 0.00 0.00 0.00 3.41
491 958 4.082408 TCCCATCGTACTAACACTCAACAG 60.082 45.833 0.00 0.00 0.00 3.16
492 959 3.827876 TCCCATCGTACTAACACTCAACA 59.172 43.478 0.00 0.00 0.00 3.33
493 960 4.445452 TCCCATCGTACTAACACTCAAC 57.555 45.455 0.00 0.00 0.00 3.18
494 961 5.186215 TGAATCCCATCGTACTAACACTCAA 59.814 40.000 0.00 0.00 0.00 3.02
495 962 4.707934 TGAATCCCATCGTACTAACACTCA 59.292 41.667 0.00 0.00 0.00 3.41
496 963 5.258456 TGAATCCCATCGTACTAACACTC 57.742 43.478 0.00 0.00 0.00 3.51
497 964 5.362717 TCATGAATCCCATCGTACTAACACT 59.637 40.000 0.00 0.00 31.94 3.55
498 965 5.597806 TCATGAATCCCATCGTACTAACAC 58.402 41.667 0.00 0.00 31.94 3.32
499 966 5.596772 TCTCATGAATCCCATCGTACTAACA 59.403 40.000 0.00 0.00 31.94 2.41
500 967 6.085555 TCTCATGAATCCCATCGTACTAAC 57.914 41.667 0.00 0.00 31.94 2.34
501 968 6.724893 TTCTCATGAATCCCATCGTACTAA 57.275 37.500 0.00 0.00 31.94 2.24
502 969 6.918067 ATTCTCATGAATCCCATCGTACTA 57.082 37.500 0.00 0.00 38.42 1.82
503 970 5.815233 ATTCTCATGAATCCCATCGTACT 57.185 39.130 0.00 0.00 38.42 2.73
504 971 9.823647 AATATATTCTCATGAATCCCATCGTAC 57.176 33.333 0.00 0.00 41.55 3.67
506 973 9.170734 CAAATATATTCTCATGAATCCCATCGT 57.829 33.333 0.00 0.00 41.55 3.73
507 974 9.170734 ACAAATATATTCTCATGAATCCCATCG 57.829 33.333 0.00 0.00 41.55 3.84
509 976 9.251440 CCACAAATATATTCTCATGAATCCCAT 57.749 33.333 0.00 0.00 41.55 4.00
510 977 7.670979 CCCACAAATATATTCTCATGAATCCCA 59.329 37.037 0.00 0.00 41.55 4.37
511 978 7.890127 TCCCACAAATATATTCTCATGAATCCC 59.110 37.037 0.00 0.00 41.55 3.85
512 979 8.868522 TCCCACAAATATATTCTCATGAATCC 57.131 34.615 0.00 0.00 41.55 3.01
531 998 9.800572 TCCGAATATTTATGAAATAATCCCACA 57.199 29.630 0.00 0.00 38.83 4.17
555 1022 4.145807 TCAGATCCTCTCGGAACTATTCC 58.854 47.826 0.00 0.00 44.02 3.01
556 1023 5.776173 TTCAGATCCTCTCGGAACTATTC 57.224 43.478 0.00 0.00 44.02 1.75
557 1024 5.452636 GCTTTCAGATCCTCTCGGAACTATT 60.453 44.000 0.00 0.00 44.02 1.73
558 1025 4.038642 GCTTTCAGATCCTCTCGGAACTAT 59.961 45.833 0.00 0.00 44.02 2.12
559 1026 3.381908 GCTTTCAGATCCTCTCGGAACTA 59.618 47.826 0.00 0.00 44.02 2.24
560 1027 2.167487 GCTTTCAGATCCTCTCGGAACT 59.833 50.000 0.00 0.00 44.02 3.01
561 1028 2.545731 GCTTTCAGATCCTCTCGGAAC 58.454 52.381 0.00 0.00 44.02 3.62
562 1029 1.135139 CGCTTTCAGATCCTCTCGGAA 59.865 52.381 0.00 0.00 44.02 4.30
563 1030 0.741326 CGCTTTCAGATCCTCTCGGA 59.259 55.000 0.00 0.00 45.16 4.55
564 1031 0.457851 ACGCTTTCAGATCCTCTCGG 59.542 55.000 0.00 0.00 0.00 4.63
565 1032 2.285827 AACGCTTTCAGATCCTCTCG 57.714 50.000 0.00 0.00 0.00 4.04
566 1033 3.589988 TGAAACGCTTTCAGATCCTCTC 58.410 45.455 8.47 0.00 44.21 3.20
567 1034 3.685139 TGAAACGCTTTCAGATCCTCT 57.315 42.857 8.47 0.00 44.21 3.69
575 1042 1.305201 GTGACCCTGAAACGCTTTCA 58.695 50.000 11.07 11.07 46.68 2.69
576 1043 0.591659 GGTGACCCTGAAACGCTTTC 59.408 55.000 0.00 4.24 40.08 2.62
577 1044 1.164041 CGGTGACCCTGAAACGCTTT 61.164 55.000 0.00 0.00 0.00 3.51
578 1045 1.597027 CGGTGACCCTGAAACGCTT 60.597 57.895 0.00 0.00 0.00 4.68
579 1046 2.030562 CGGTGACCCTGAAACGCT 59.969 61.111 0.00 0.00 0.00 5.07
580 1047 1.161563 TTTCGGTGACCCTGAAACGC 61.162 55.000 0.00 0.00 32.27 4.84
581 1048 0.865769 CTTTCGGTGACCCTGAAACG 59.134 55.000 0.00 0.00 33.11 3.60
582 1049 1.235724 CCTTTCGGTGACCCTGAAAC 58.764 55.000 0.00 0.00 33.11 2.78
583 1050 0.841289 ACCTTTCGGTGACCCTGAAA 59.159 50.000 0.00 0.01 43.51 2.69
584 1051 0.841289 AACCTTTCGGTGACCCTGAA 59.159 50.000 0.00 0.00 44.73 3.02
585 1052 0.841289 AAACCTTTCGGTGACCCTGA 59.159 50.000 0.00 0.00 44.73 3.86
586 1053 1.687563 AAAACCTTTCGGTGACCCTG 58.312 50.000 0.00 0.00 44.73 4.45
587 1054 2.028876 CAAAAACCTTTCGGTGACCCT 58.971 47.619 0.00 0.00 44.73 4.34
588 1055 1.067974 CCAAAAACCTTTCGGTGACCC 59.932 52.381 0.00 0.00 44.73 4.46
589 1056 1.752498 ACCAAAAACCTTTCGGTGACC 59.248 47.619 0.00 0.00 44.73 4.02
590 1057 2.424246 TCACCAAAAACCTTTCGGTGAC 59.576 45.455 7.66 0.00 44.73 3.67
591 1058 2.685897 CTCACCAAAAACCTTTCGGTGA 59.314 45.455 10.64 10.64 44.73 4.02
592 1059 2.425668 ACTCACCAAAAACCTTTCGGTG 59.574 45.455 3.31 3.31 44.73 4.94
594 1061 4.378046 CGATACTCACCAAAAACCTTTCGG 60.378 45.833 0.00 0.00 0.00 4.30
595 1062 4.378046 CCGATACTCACCAAAAACCTTTCG 60.378 45.833 0.00 0.00 0.00 3.46
596 1063 4.082949 CCCGATACTCACCAAAAACCTTTC 60.083 45.833 0.00 0.00 0.00 2.62
597 1064 3.824443 CCCGATACTCACCAAAAACCTTT 59.176 43.478 0.00 0.00 0.00 3.11
598 1065 3.181437 ACCCGATACTCACCAAAAACCTT 60.181 43.478 0.00 0.00 0.00 3.50
599 1066 2.374170 ACCCGATACTCACCAAAAACCT 59.626 45.455 0.00 0.00 0.00 3.50
600 1067 2.786777 ACCCGATACTCACCAAAAACC 58.213 47.619 0.00 0.00 0.00 3.27
601 1068 6.037500 GGTATTACCCGATACTCACCAAAAAC 59.962 42.308 0.98 0.00 33.86 2.43
602 1069 6.114767 GGTATTACCCGATACTCACCAAAAA 58.885 40.000 0.98 0.00 33.86 1.94
603 1070 5.673514 GGTATTACCCGATACTCACCAAAA 58.326 41.667 0.98 0.00 33.86 2.44
604 1071 5.280654 GGTATTACCCGATACTCACCAAA 57.719 43.478 0.98 0.00 33.86 3.28
605 1072 4.942761 GGTATTACCCGATACTCACCAA 57.057 45.455 0.98 0.00 33.86 3.67
655 1122 7.196637 CTCCTGGGAGTACTAACCTATTTTT 57.803 40.000 15.06 0.00 37.47 1.94
683 1150 5.028549 ACTGCAGACGAATGAAGGAATAT 57.971 39.130 23.35 0.00 29.06 1.28
686 1153 2.807967 CAACTGCAGACGAATGAAGGAA 59.192 45.455 23.35 0.00 29.06 3.36
693 1160 1.073025 TGGGCAACTGCAGACGAAT 59.927 52.632 23.35 0.00 44.36 3.34
717 1196 0.894184 TGAAGCGAGGAGAGGAACGT 60.894 55.000 0.00 0.00 0.00 3.99
766 1249 0.248907 ATCACTCGTAACGGATGCGG 60.249 55.000 12.44 0.00 37.76 5.69
804 1287 0.521735 GAGCGCCAGAAAAATCGGTT 59.478 50.000 2.29 0.00 32.60 4.44
829 1312 1.002544 GAGGCGGATGGAAGGATAAGG 59.997 57.143 0.00 0.00 0.00 2.69
841 1324 4.241555 GGGATGTGCGAGGCGGAT 62.242 66.667 0.00 0.00 0.00 4.18
850 1333 0.386731 CGTTTCGGTTTGGGATGTGC 60.387 55.000 0.00 0.00 0.00 4.57
954 1441 3.833645 CTCCGATCCGTTGGCCGA 61.834 66.667 0.00 0.00 39.56 5.54
1002 1491 3.567478 AATCACTGACCTCTTATGCCC 57.433 47.619 0.00 0.00 0.00 5.36
1005 1494 8.449397 CAAGAGAAAAATCACTGACCTCTTATG 58.551 37.037 0.00 0.00 37.40 1.90
1052 1548 0.179073 GTGACGGATCTGGACATGGG 60.179 60.000 6.47 0.00 0.00 4.00
1060 1556 1.482182 TGGGAAGATGTGACGGATCTG 59.518 52.381 0.00 0.00 30.30 2.90
1069 1565 4.535781 TGGTTAATGGATGGGAAGATGTG 58.464 43.478 0.00 0.00 0.00 3.21
1186 1696 0.951558 GAACATCCACAAAGCACCGT 59.048 50.000 0.00 0.00 0.00 4.83
1209 1719 2.780040 CTCCCAGCCCCCATCCAT 60.780 66.667 0.00 0.00 0.00 3.41
1225 1735 4.543590 ATCAATTCTTCCACGTGAGACT 57.456 40.909 19.30 4.11 0.00 3.24
1285 1795 0.251209 ACGGCTAGCTGGGATCGATA 60.251 55.000 26.90 0.00 0.00 2.92
1286 1796 0.251209 TACGGCTAGCTGGGATCGAT 60.251 55.000 26.90 0.00 0.00 3.59
1387 1897 2.480642 GGGAATCACTACTCCCTCCT 57.519 55.000 0.00 0.00 46.91 3.69
1406 1916 2.684881 ACCCAAAGATGAAATAGCAGCG 59.315 45.455 0.00 0.00 0.00 5.18
1427 1937 6.543430 TCTTTTTGCGGGGTATACTACTTA 57.457 37.500 2.25 0.00 0.00 2.24
1434 1944 4.400120 ACTGTTTCTTTTTGCGGGGTATA 58.600 39.130 0.00 0.00 0.00 1.47
1441 1955 4.214437 CAGAGCTACTGTTTCTTTTTGCG 58.786 43.478 0.00 0.00 41.30 4.85
1475 1989 8.593679 TCAATGAAAGGTTTCTACAGAGTGATA 58.406 33.333 4.19 0.00 38.02 2.15
1549 2063 5.048782 AGCAGCAATTTCATACAAAGACGAA 60.049 36.000 0.00 0.00 0.00 3.85
1556 2070 5.664294 ATTCCAGCAGCAATTTCATACAA 57.336 34.783 0.00 0.00 0.00 2.41
1557 2071 6.964807 ATATTCCAGCAGCAATTTCATACA 57.035 33.333 0.00 0.00 0.00 2.29
1608 2124 5.231991 CGCAGAAAAATAAAGCACTTGTTGT 59.768 36.000 0.00 0.00 0.00 3.32
1950 2470 6.645884 TTTTTGGTGGGGAGTATATACTGT 57.354 37.500 20.13 0.00 36.50 3.55
2124 2657 9.817365 CAGCTTTTGTATGTGATTATATACTGC 57.183 33.333 6.06 5.54 33.50 4.40
2160 2693 8.322091 GCAACATATATACTACTTTGGGGAGAT 58.678 37.037 0.00 0.00 0.00 2.75
2219 2759 3.060895 GTCTACGCACAAGCATGAACTAC 59.939 47.826 0.00 0.00 42.27 2.73
2316 2856 2.884012 TCGTTCAAGGCAACAATCACAT 59.116 40.909 0.00 0.00 41.41 3.21
2318 2858 3.042887 GTTCGTTCAAGGCAACAATCAC 58.957 45.455 0.00 0.00 41.41 3.06


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

AutoCloner maintained by Alex Coulton.