Multiple sequence alignment - TraesCS7B01G444300

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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 TraesCS7B01G444300 chr7B 100.000 3284 0 0 1 3284 708911542 708914825 0.000000e+00 6065
1 TraesCS7B01G444300 chr7B 90.333 2369 188 24 1 2359 708900269 708902606 0.000000e+00 3068
2 TraesCS7B01G444300 chr7B 81.197 952 145 24 980 1917 708899590 708900521 0.000000e+00 736
3 TraesCS7B01G444300 chr7B 80.289 761 125 15 1785 2528 708864064 708864816 4.790000e-153 551
4 TraesCS7B01G444300 chr7A 84.494 1393 197 14 1010 2397 708613180 708614558 0.000000e+00 1358
5 TraesCS7B01G444300 chr7A 80.781 1358 219 30 987 2322 708597869 708599206 0.000000e+00 1024
6 TraesCS7B01G444300 chr7A 80.821 1267 195 38 986 2236 708558747 708559981 0.000000e+00 950
7 TraesCS7B01G444300 chr7A 84.672 822 118 6 986 1802 708607770 708608588 0.000000e+00 813
8 TraesCS7B01G444300 chr7A 81.600 625 111 4 1737 2361 708358918 708358298 6.280000e-142 514
9 TraesCS7B01G444300 chr7A 84.493 503 75 3 1872 2373 708608584 708609084 8.190000e-136 494
10 TraesCS7B01G444300 chr7A 81.639 305 43 7 2162 2461 708604018 708604314 1.180000e-59 241
11 TraesCS7B01G444300 chr7A 83.448 145 14 4 2239 2374 708561022 708561165 3.440000e-25 126
12 TraesCS7B01G444300 chr7D 81.786 1120 173 23 1351 2463 615893498 615894593 0.000000e+00 909
13 TraesCS7B01G444300 chr7D 87.500 280 25 5 3005 3284 615895384 615895653 6.840000e-82 315
14 TraesCS7B01G444300 chr5D 87.500 208 18 3 3077 3284 523686906 523687105 1.970000e-57 233
15 TraesCS7B01G444300 chr1D 86.538 208 20 3 3077 3284 32078063 32077864 4.270000e-54 222


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 TraesCS7B01G444300 chr7B 708911542 708914825 3283 False 6065 6065 100.000000 1 3284 1 chr7B.!!$F2 3283
1 TraesCS7B01G444300 chr7B 708899590 708902606 3016 False 1902 3068 85.765000 1 2359 2 chr7B.!!$F3 2358
2 TraesCS7B01G444300 chr7B 708864064 708864816 752 False 551 551 80.289000 1785 2528 1 chr7B.!!$F1 743
3 TraesCS7B01G444300 chr7A 708613180 708614558 1378 False 1358 1358 84.494000 1010 2397 1 chr7A.!!$F2 1387
4 TraesCS7B01G444300 chr7A 708597869 708599206 1337 False 1024 1024 80.781000 987 2322 1 chr7A.!!$F1 1335
5 TraesCS7B01G444300 chr7A 708558747 708561165 2418 False 538 950 82.134500 986 2374 2 chr7A.!!$F3 1388
6 TraesCS7B01G444300 chr7A 708604018 708609084 5066 False 516 813 83.601333 986 2461 3 chr7A.!!$F4 1475
7 TraesCS7B01G444300 chr7A 708358298 708358918 620 True 514 514 81.600000 1737 2361 1 chr7A.!!$R1 624
8 TraesCS7B01G444300 chr7D 615893498 615895653 2155 False 612 909 84.643000 1351 3284 2 chr7D.!!$F1 1933

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
517 1197 0.527385 CCAACTGTGGTGGTTTTGCG 60.527 55.0 0.00 0.0 40.42 4.85 F
1458 4235 0.107703 CGGGACCTTGCATGCTAAGA 60.108 55.0 20.33 0.0 0.00 2.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2051 4838 0.449388 GAAAACGAGCAGCTCATGGG 59.551 55.0 22.49 8.28 0.00 4.00 R
3264 7455 0.035036 TGGGACCGATTTGCGTTGTA 59.965 50.0 0.00 0.00 38.67 2.41 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
212 892 2.348872 GCGCCATTGTTCATAGATGACG 60.349 50.000 0.00 0.00 36.36 4.35
307 987 4.386711 GGTATAGTAATTGACAGGTGGGC 58.613 47.826 0.00 0.00 0.00 5.36
354 1034 4.811555 TGGTCAAAGTTGTTGATCTTCG 57.188 40.909 0.00 0.00 31.12 3.79
517 1197 0.527385 CCAACTGTGGTGGTTTTGCG 60.527 55.000 0.00 0.00 40.42 4.85
778 1458 1.618074 GGCAAGATTCAGCTTCCCCTT 60.618 52.381 0.00 0.00 0.00 3.95
1257 4028 2.125350 GGCCGCTCAGTTGAGGAG 60.125 66.667 10.88 0.00 42.29 3.69
1392 4163 4.180057 GCTATCTGCTGCACTATATGGAC 58.820 47.826 0.00 0.00 38.95 4.02
1399 4176 4.202493 TGCTGCACTATATGGACATGGATT 60.202 41.667 0.00 0.00 0.00 3.01
1401 4178 5.352569 GCTGCACTATATGGACATGGATTAC 59.647 44.000 0.00 0.00 0.00 1.89
1432 4209 5.277828 GCTTTATTGTACAATCGGATGACCC 60.278 44.000 24.00 2.08 32.50 4.46
1443 4220 1.987855 GATGACCCTGTCCACGGGA 60.988 63.158 6.11 0.00 45.36 5.14
1458 4235 0.107703 CGGGACCTTGCATGCTAAGA 60.108 55.000 20.33 0.00 0.00 2.10
1464 4241 4.694509 GGACCTTGCATGCTAAGAGATATG 59.305 45.833 20.33 9.00 0.00 1.78
1467 4244 5.762218 ACCTTGCATGCTAAGAGATATGTTC 59.238 40.000 20.33 0.00 0.00 3.18
1473 4250 5.620738 TGCTAAGAGATATGTTCCTGCTT 57.379 39.130 0.00 0.00 0.00 3.91
1495 4272 3.072915 TGAGAATCAGCTTCCTTGGTTGA 59.927 43.478 0.00 0.00 42.56 3.18
1497 4274 4.670765 AGAATCAGCTTCCTTGGTTGATT 58.329 39.130 5.70 5.70 43.58 2.57
1500 4277 4.908601 TCAGCTTCCTTGGTTGATTCTA 57.091 40.909 0.00 0.00 0.00 2.10
1542 4326 7.921786 TTTTATGCCATATCCTGCATACTAC 57.078 36.000 9.51 0.00 46.86 2.73
1543 4327 6.619329 TTATGCCATATCCTGCATACTACA 57.381 37.500 9.51 0.00 46.86 2.74
1569 4353 7.321745 TGTTATTGGTTTGGCGAAAAATTTT 57.678 28.000 0.00 0.00 0.00 1.82
1595 4379 8.889445 TGATATCACCCCACAATATTTATCAGA 58.111 33.333 0.00 0.00 0.00 3.27
1626 4410 2.086610 ATGGTGCAAGGGTTTCTGTT 57.913 45.000 0.00 0.00 0.00 3.16
1629 4413 1.067060 GGTGCAAGGGTTTCTGTTGAC 59.933 52.381 0.00 0.00 0.00 3.18
1640 4424 4.511826 GGTTTCTGTTGACGAACTCAAGAT 59.488 41.667 0.00 0.00 39.69 2.40
1641 4425 5.694910 GGTTTCTGTTGACGAACTCAAGATA 59.305 40.000 0.00 0.00 39.69 1.98
1718 4502 6.401394 TGACTGGAAAAGATCATACTCACAG 58.599 40.000 0.00 0.00 0.00 3.66
1735 4519 1.342819 ACAGTCTCACTTGCTCCTCAC 59.657 52.381 0.00 0.00 0.00 3.51
1740 4524 0.898320 TCACTTGCTCCTCACTAGCC 59.102 55.000 0.00 0.00 39.30 3.93
1749 4533 1.808799 CTCACTAGCCAGCAGTGCG 60.809 63.158 10.00 4.69 42.58 5.34
1751 4535 2.097038 CACTAGCCAGCAGTGCGAC 61.097 63.158 10.00 3.06 37.22 5.19
1803 4587 1.069049 GCCAACAGCAAGACATGGTTT 59.931 47.619 0.00 0.00 42.97 3.27
1818 4602 1.542472 TGGTTTGCAGACATGAGCATG 59.458 47.619 9.87 8.82 40.94 4.06
1821 4605 2.949826 TGCAGACATGAGCATGCAA 58.050 47.368 21.98 8.14 45.09 4.08
1832 4616 2.507058 TGAGCATGCAAAGAGACCCTAT 59.493 45.455 21.98 0.00 0.00 2.57
1834 4618 2.776536 AGCATGCAAAGAGACCCTATCT 59.223 45.455 21.98 0.00 41.91 1.98
1836 4620 3.314635 GCATGCAAAGAGACCCTATCTTG 59.685 47.826 14.21 0.00 38.00 3.02
1884 4671 7.226918 CCATTGTTTATAAATGATGCCAATGCA 59.773 33.333 20.73 0.00 40.03 3.96
1911 4698 2.283298 CTCGTCAACATGGCAGCTTAT 58.717 47.619 0.00 0.00 0.00 1.73
1939 4726 2.621763 GTGTCCAGCACAACTCCAG 58.378 57.895 0.00 0.00 46.91 3.86
1972 4759 3.005155 CGTCATCAGCTCATACATCTCCA 59.995 47.826 0.00 0.00 0.00 3.86
1974 4761 5.105997 CGTCATCAGCTCATACATCTCCATA 60.106 44.000 0.00 0.00 0.00 2.74
1987 4774 1.202568 TCTCCATACTGGCAATGCTCG 60.203 52.381 4.82 0.00 37.47 5.03
1996 4783 0.955428 GGCAATGCTCGTGGACAAGA 60.955 55.000 4.82 0.00 0.00 3.02
2285 6119 3.634072 GCAGCATCAGCCGTAGCG 61.634 66.667 0.00 0.00 46.67 4.26
2322 6168 5.543716 CATGTGCGCTGTCAAATTATTTTG 58.456 37.500 9.73 4.10 42.98 2.44
2374 6223 2.931969 AGTGTGATCGATGTCGTACGTA 59.068 45.455 16.05 6.30 40.80 3.57
2375 6224 3.024991 GTGTGATCGATGTCGTACGTAC 58.975 50.000 15.90 15.90 40.80 3.67
2415 6264 1.371467 TCCCATCACATCCACCTTGT 58.629 50.000 0.00 0.00 0.00 3.16
2434 6283 7.281100 CACCTTGTTTTGATCCCTTACTAGATC 59.719 40.741 0.00 0.00 39.50 2.75
2437 6286 9.535878 CTTGTTTTGATCCCTTACTAGATCTAC 57.464 37.037 0.00 0.00 39.72 2.59
2448 6302 6.321435 CCTTACTAGATCTACATGGTGTGACA 59.679 42.308 0.00 0.00 0.00 3.58
2453 6307 6.352016 AGATCTACATGGTGTGACATATCC 57.648 41.667 0.00 0.00 0.00 2.59
2507 6363 4.161377 TGTGTATACCTGCTTGTGCTATCA 59.839 41.667 0.00 0.00 40.48 2.15
2511 6367 7.116948 GTGTATACCTGCTTGTGCTATCATTAG 59.883 40.741 0.00 0.00 40.48 1.73
2522 6378 9.107177 CTTGTGCTATCATTAGAAATCTGTCTT 57.893 33.333 0.00 0.00 0.00 3.01
2530 6419 7.268586 TCATTAGAAATCTGTCTTAGTCAGCC 58.731 38.462 1.71 0.00 33.48 4.85
2540 6429 1.210722 CTTAGTCAGCCCCTTCCCTTC 59.789 57.143 0.00 0.00 0.00 3.46
2541 6430 0.976073 TAGTCAGCCCCTTCCCTTCG 60.976 60.000 0.00 0.00 0.00 3.79
2542 6431 2.121832 TCAGCCCCTTCCCTTCGA 59.878 61.111 0.00 0.00 0.00 3.71
2543 6432 1.306997 TCAGCCCCTTCCCTTCGAT 60.307 57.895 0.00 0.00 0.00 3.59
2544 6433 1.147153 CAGCCCCTTCCCTTCGATC 59.853 63.158 0.00 0.00 0.00 3.69
2545 6434 2.109181 GCCCCTTCCCTTCGATCG 59.891 66.667 9.36 9.36 0.00 3.69
2547 6436 2.109181 CCCTTCCCTTCGATCGCC 59.891 66.667 11.09 0.00 0.00 5.54
2548 6437 2.435693 CCCTTCCCTTCGATCGCCT 61.436 63.158 11.09 0.00 0.00 5.52
2549 6438 1.068250 CCTTCCCTTCGATCGCCTC 59.932 63.158 11.09 0.00 0.00 4.70
2550 6439 1.395826 CCTTCCCTTCGATCGCCTCT 61.396 60.000 11.09 0.00 0.00 3.69
2551 6440 0.461961 CTTCCCTTCGATCGCCTCTT 59.538 55.000 11.09 0.00 0.00 2.85
2553 6442 1.319541 TCCCTTCGATCGCCTCTTAG 58.680 55.000 11.09 0.70 0.00 2.18
2554 6443 1.033574 CCCTTCGATCGCCTCTTAGT 58.966 55.000 11.09 0.00 0.00 2.24
2556 6445 2.159085 CCCTTCGATCGCCTCTTAGTTT 60.159 50.000 11.09 0.00 0.00 2.66
2558 6447 2.579207 TCGATCGCCTCTTAGTTTGG 57.421 50.000 11.09 0.00 0.00 3.28
2559 6448 1.822990 TCGATCGCCTCTTAGTTTGGT 59.177 47.619 11.09 0.00 0.00 3.67
2560 6449 1.927174 CGATCGCCTCTTAGTTTGGTG 59.073 52.381 0.26 0.00 0.00 4.17
2561 6450 2.674177 CGATCGCCTCTTAGTTTGGTGT 60.674 50.000 0.26 0.00 33.50 4.16
2562 6451 2.163818 TCGCCTCTTAGTTTGGTGTG 57.836 50.000 0.00 0.00 33.50 3.82
2563 6452 1.414919 TCGCCTCTTAGTTTGGTGTGT 59.585 47.619 0.00 0.00 33.50 3.72
2564 6453 1.531149 CGCCTCTTAGTTTGGTGTGTG 59.469 52.381 0.00 0.00 0.00 3.82
2566 6455 2.548480 GCCTCTTAGTTTGGTGTGTGTC 59.452 50.000 0.00 0.00 0.00 3.67
2570 6459 4.699637 TCTTAGTTTGGTGTGTGTCGAAT 58.300 39.130 0.00 0.00 0.00 3.34
2572 6461 1.333619 AGTTTGGTGTGTGTCGAATGC 59.666 47.619 0.00 0.00 0.00 3.56
2573 6462 1.064803 GTTTGGTGTGTGTCGAATGCA 59.935 47.619 0.00 0.00 0.00 3.96
2585 6737 2.034053 GTCGAATGCACCTGTTTTCCAA 59.966 45.455 0.00 0.00 0.00 3.53
2588 6740 3.674753 CGAATGCACCTGTTTTCCAATTC 59.325 43.478 0.00 0.00 0.00 2.17
2594 6746 4.037446 GCACCTGTTTTCCAATTCTACACA 59.963 41.667 0.00 0.00 0.00 3.72
2595 6747 5.278957 GCACCTGTTTTCCAATTCTACACAT 60.279 40.000 0.00 0.00 0.00 3.21
2601 6753 9.912634 CTGTTTTCCAATTCTACACATGTTTAT 57.087 29.630 0.00 0.00 0.00 1.40
2630 6782 7.487484 ACGATAATCACAGATATAGCATCCTG 58.513 38.462 0.00 0.00 0.00 3.86
2641 6801 7.177216 CAGATATAGCATCCTGAAGTCTCTTCT 59.823 40.741 10.21 0.00 0.00 2.85
2652 6812 6.219417 TGAAGTCTCTTCTCTTGGATCATC 57.781 41.667 10.21 0.00 0.00 2.92
2662 6822 4.764308 TCTCTTGGATCATCGATTCGATCT 59.236 41.667 18.28 9.19 45.19 2.75
2663 6823 5.940470 TCTCTTGGATCATCGATTCGATCTA 59.060 40.000 18.28 13.89 45.19 1.98
2664 6824 6.431234 TCTCTTGGATCATCGATTCGATCTAA 59.569 38.462 18.28 18.59 45.19 2.10
2667 6827 7.543520 TCTTGGATCATCGATTCGATCTAATTG 59.456 37.037 18.28 8.49 45.19 2.32
2672 6832 9.989869 GATCATCGATTCGATCTAATTGTACTA 57.010 33.333 18.28 0.00 45.19 1.82
2706 6896 0.903454 AGGGACTGGACTTACCACCG 60.903 60.000 0.00 0.00 44.64 4.94
2714 6904 0.320697 GACTTACCACCGCCACTCTT 59.679 55.000 0.00 0.00 0.00 2.85
2722 6912 2.093447 CCACCGCCACTCTTCTTATTCT 60.093 50.000 0.00 0.00 0.00 2.40
2723 6913 3.190874 CACCGCCACTCTTCTTATTCTC 58.809 50.000 0.00 0.00 0.00 2.87
2737 6927 5.235516 TCTTATTCTCGAACCCTGTTTGAC 58.764 41.667 0.00 0.00 0.00 3.18
2739 6929 0.032952 TCTCGAACCCTGTTTGACGG 59.967 55.000 0.00 0.00 0.00 4.79
2747 6937 1.677820 CCCTGTTTGACGGTGTATCCC 60.678 57.143 0.00 0.00 0.00 3.85
2748 6938 1.677820 CCTGTTTGACGGTGTATCCCC 60.678 57.143 0.00 0.00 0.00 4.81
2757 6947 1.762957 CGGTGTATCCCCAGAACAGAT 59.237 52.381 0.00 0.00 0.00 2.90
2758 6948 2.963101 CGGTGTATCCCCAGAACAGATA 59.037 50.000 0.00 0.00 0.00 1.98
2763 6953 2.940514 TCCCCAGAACAGATAGTGGA 57.059 50.000 0.00 0.00 31.04 4.02
2793 6983 2.229543 GCTCATGCAGTTTTGACATGGA 59.770 45.455 0.00 0.00 38.37 3.41
2795 6985 4.096833 GCTCATGCAGTTTTGACATGGATA 59.903 41.667 0.00 0.00 38.37 2.59
2803 6993 6.767902 GCAGTTTTGACATGGATAGGAAGATA 59.232 38.462 0.00 0.00 0.00 1.98
2806 6996 7.770897 AGTTTTGACATGGATAGGAAGATACAC 59.229 37.037 0.00 0.00 0.00 2.90
2814 7004 5.249163 TGGATAGGAAGATACACATGGATGG 59.751 44.000 0.00 0.00 0.00 3.51
2825 7015 1.202417 ACATGGATGGACGTTCGCTAG 60.202 52.381 0.00 0.00 0.00 3.42
2826 7016 1.112113 ATGGATGGACGTTCGCTAGT 58.888 50.000 0.00 0.00 0.00 2.57
2827 7017 0.454600 TGGATGGACGTTCGCTAGTC 59.545 55.000 0.00 0.00 36.70 2.59
2828 7018 0.454600 GGATGGACGTTCGCTAGTCA 59.545 55.000 0.00 0.00 39.01 3.41
2829 7019 1.534175 GGATGGACGTTCGCTAGTCAG 60.534 57.143 0.00 0.00 39.01 3.51
2830 7020 1.400846 GATGGACGTTCGCTAGTCAGA 59.599 52.381 0.00 0.00 39.01 3.27
2831 7021 0.520404 TGGACGTTCGCTAGTCAGAC 59.480 55.000 0.00 0.00 39.01 3.51
2832 7022 0.803740 GGACGTTCGCTAGTCAGACT 59.196 55.000 8.50 8.50 39.01 3.24
2833 7023 2.005451 GGACGTTCGCTAGTCAGACTA 58.995 52.381 10.02 10.02 39.01 2.59
2834 7024 2.417933 GGACGTTCGCTAGTCAGACTAA 59.582 50.000 11.57 0.00 39.01 2.24
2835 7025 3.485546 GGACGTTCGCTAGTCAGACTAAG 60.486 52.174 11.57 8.69 39.01 2.18
2836 7026 3.332919 ACGTTCGCTAGTCAGACTAAGA 58.667 45.455 11.57 10.70 29.00 2.10
2837 7027 3.371591 ACGTTCGCTAGTCAGACTAAGAG 59.628 47.826 11.57 3.27 29.00 2.85
2838 7028 3.617706 CGTTCGCTAGTCAGACTAAGAGA 59.382 47.826 11.57 9.69 29.00 3.10
2839 7029 4.271533 CGTTCGCTAGTCAGACTAAGAGAT 59.728 45.833 11.57 0.00 29.00 2.75
2840 7030 5.220700 CGTTCGCTAGTCAGACTAAGAGATT 60.221 44.000 11.57 0.00 29.00 2.40
2841 7031 5.994887 TCGCTAGTCAGACTAAGAGATTC 57.005 43.478 11.57 0.00 29.00 2.52
2842 7032 4.817464 TCGCTAGTCAGACTAAGAGATTCC 59.183 45.833 11.57 0.00 29.00 3.01
2843 7033 4.576873 CGCTAGTCAGACTAAGAGATTCCA 59.423 45.833 11.57 0.00 29.00 3.53
2844 7034 5.066634 CGCTAGTCAGACTAAGAGATTCCAA 59.933 44.000 11.57 0.00 29.00 3.53
2845 7035 6.238897 CGCTAGTCAGACTAAGAGATTCCAAT 60.239 42.308 11.57 0.00 29.00 3.16
2846 7036 7.145323 GCTAGTCAGACTAAGAGATTCCAATC 58.855 42.308 11.57 0.00 31.16 2.67
2847 7037 7.201866 GCTAGTCAGACTAAGAGATTCCAATCA 60.202 40.741 11.57 0.00 32.41 2.57
2848 7038 7.673641 AGTCAGACTAAGAGATTCCAATCAT 57.326 36.000 0.00 0.00 37.89 2.45
2849 7039 8.088463 AGTCAGACTAAGAGATTCCAATCATT 57.912 34.615 0.00 0.00 37.89 2.57
2850 7040 8.547173 AGTCAGACTAAGAGATTCCAATCATTT 58.453 33.333 0.00 0.00 37.89 2.32
2851 7041 8.825745 GTCAGACTAAGAGATTCCAATCATTTC 58.174 37.037 2.21 0.00 37.89 2.17
2852 7042 8.542926 TCAGACTAAGAGATTCCAATCATTTCA 58.457 33.333 2.21 0.00 37.89 2.69
2853 7043 8.828644 CAGACTAAGAGATTCCAATCATTTCAG 58.171 37.037 2.21 0.00 37.89 3.02
2873 7063 5.789521 TCAGGTCGATCTCAAAACAATACA 58.210 37.500 0.00 0.00 0.00 2.29
2875 7065 6.147164 TCAGGTCGATCTCAAAACAATACAAC 59.853 38.462 0.00 0.00 0.00 3.32
2899 7090 8.589701 ACACCTAAAAGATATAAAACCAAGGG 57.410 34.615 0.00 0.00 0.00 3.95
2903 7094 7.837187 CCTAAAAGATATAAAACCAAGGGACCA 59.163 37.037 0.00 0.00 0.00 4.02
2911 7102 5.443230 AAAACCAAGGGACCAATTGAAAA 57.557 34.783 7.12 0.00 0.00 2.29
2924 7115 2.492012 ATTGAAAAGCAATTGCGGCAA 58.508 38.095 24.02 23.15 44.68 4.52
2927 7118 4.614078 ATTGAAAAGCAATTGCGGCAAATG 60.614 37.500 23.01 23.01 44.68 2.32
2928 7119 6.767536 ATTGAAAAGCAATTGCGGCAAATGA 61.768 36.000 29.46 10.92 44.68 2.57
2929 7120 8.007572 ATTGAAAAGCAATTGCGGCAAATGAT 62.008 34.615 29.46 22.86 44.68 2.45
2930 7121 9.385292 ATTGAAAAGCAATTGCGGCAAATGATT 62.385 33.333 29.46 26.70 44.68 2.57
2932 7123 1.005766 GCAATTGCGGCAAATGATTCG 60.006 47.619 29.46 7.67 0.00 3.34
2933 7124 1.589320 CAATTGCGGCAAATGATTCGG 59.411 47.619 22.94 0.00 0.00 4.30
2934 7125 0.102844 ATTGCGGCAAATGATTCGGG 59.897 50.000 20.48 0.00 0.00 5.14
2936 7127 1.247419 TGCGGCAAATGATTCGGGTT 61.247 50.000 0.00 0.00 0.00 4.11
2937 7128 0.736053 GCGGCAAATGATTCGGGTTA 59.264 50.000 0.00 0.00 0.00 2.85
2938 7129 1.336755 GCGGCAAATGATTCGGGTTAT 59.663 47.619 0.00 0.00 0.00 1.89
2939 7130 2.223711 GCGGCAAATGATTCGGGTTATT 60.224 45.455 0.00 0.00 0.00 1.40
2940 7131 3.371168 CGGCAAATGATTCGGGTTATTG 58.629 45.455 0.00 0.00 0.00 1.90
2941 7132 3.123050 GGCAAATGATTCGGGTTATTGC 58.877 45.455 0.00 0.00 40.56 3.56
2942 7133 3.430098 GGCAAATGATTCGGGTTATTGCA 60.430 43.478 9.44 0.00 42.45 4.08
2943 7134 3.798337 GCAAATGATTCGGGTTATTGCAG 59.202 43.478 0.00 0.00 40.86 4.41
2945 7136 4.900635 AATGATTCGGGTTATTGCAGAC 57.099 40.909 0.00 0.00 0.00 3.51
2946 7137 3.342377 TGATTCGGGTTATTGCAGACA 57.658 42.857 0.00 0.00 0.00 3.41
2947 7138 3.884895 TGATTCGGGTTATTGCAGACAT 58.115 40.909 0.00 0.00 0.00 3.06
2948 7139 3.627123 TGATTCGGGTTATTGCAGACATG 59.373 43.478 0.00 0.00 0.00 3.21
2963 7154 5.488645 CAGACATGCACATATTAACAGCA 57.511 39.130 0.00 0.00 39.79 4.41
2964 7155 5.882553 CAGACATGCACATATTAACAGCAA 58.117 37.500 0.00 0.00 38.85 3.91
2965 7156 6.324042 CAGACATGCACATATTAACAGCAAA 58.676 36.000 0.00 0.00 38.85 3.68
2966 7157 6.807720 CAGACATGCACATATTAACAGCAAAA 59.192 34.615 0.00 0.00 38.85 2.44
2967 7158 7.328982 CAGACATGCACATATTAACAGCAAAAA 59.671 33.333 0.00 0.00 38.85 1.94
2968 7159 7.543172 AGACATGCACATATTAACAGCAAAAAG 59.457 33.333 0.00 0.00 38.85 2.27
2969 7160 7.377398 ACATGCACATATTAACAGCAAAAAGA 58.623 30.769 0.00 0.00 38.85 2.52
2970 7161 7.871973 ACATGCACATATTAACAGCAAAAAGAA 59.128 29.630 0.00 0.00 38.85 2.52
2971 7162 8.710551 CATGCACATATTAACAGCAAAAAGAAA 58.289 29.630 0.00 0.00 38.85 2.52
2972 7163 8.654230 TGCACATATTAACAGCAAAAAGAAAA 57.346 26.923 0.00 0.00 31.42 2.29
2973 7164 8.763356 TGCACATATTAACAGCAAAAAGAAAAG 58.237 29.630 0.00 0.00 31.42 2.27
2974 7165 8.223100 GCACATATTAACAGCAAAAAGAAAAGG 58.777 33.333 0.00 0.00 0.00 3.11
2975 7166 9.260002 CACATATTAACAGCAAAAAGAAAAGGT 57.740 29.630 0.00 0.00 0.00 3.50
2980 7171 6.961359 AACAGCAAAAAGAAAAGGTAACAC 57.039 33.333 0.00 0.00 41.41 3.32
2981 7172 6.031751 ACAGCAAAAAGAAAAGGTAACACA 57.968 33.333 0.00 0.00 41.41 3.72
2982 7173 6.459923 ACAGCAAAAAGAAAAGGTAACACAA 58.540 32.000 0.00 0.00 41.41 3.33
2983 7174 6.367695 ACAGCAAAAAGAAAAGGTAACACAAC 59.632 34.615 0.00 0.00 41.41 3.32
2984 7175 6.367422 CAGCAAAAAGAAAAGGTAACACAACA 59.633 34.615 0.00 0.00 41.41 3.33
2985 7176 6.367695 AGCAAAAAGAAAAGGTAACACAACAC 59.632 34.615 0.00 0.00 41.41 3.32
2986 7177 6.146347 GCAAAAAGAAAAGGTAACACAACACA 59.854 34.615 0.00 0.00 41.41 3.72
2987 7178 7.307455 GCAAAAAGAAAAGGTAACACAACACAA 60.307 33.333 0.00 0.00 41.41 3.33
2988 7179 8.716909 CAAAAAGAAAAGGTAACACAACACAAT 58.283 29.630 0.00 0.00 41.41 2.71
2989 7180 8.474006 AAAAGAAAAGGTAACACAACACAATC 57.526 30.769 0.00 0.00 41.41 2.67
2990 7181 6.767524 AGAAAAGGTAACACAACACAATCA 57.232 33.333 0.00 0.00 41.41 2.57
2991 7182 6.560711 AGAAAAGGTAACACAACACAATCAC 58.439 36.000 0.00 0.00 41.41 3.06
2992 7183 5.906113 AAAGGTAACACAACACAATCACA 57.094 34.783 0.00 0.00 41.41 3.58
2993 7184 5.499139 AAGGTAACACAACACAATCACAG 57.501 39.130 0.00 0.00 41.41 3.66
2994 7185 4.776349 AGGTAACACAACACAATCACAGA 58.224 39.130 0.00 0.00 41.41 3.41
2995 7186 4.574828 AGGTAACACAACACAATCACAGAC 59.425 41.667 0.00 0.00 41.41 3.51
2996 7187 4.334203 GGTAACACAACACAATCACAGACA 59.666 41.667 0.00 0.00 0.00 3.41
2997 7188 4.621068 AACACAACACAATCACAGACAG 57.379 40.909 0.00 0.00 0.00 3.51
2998 7189 3.609853 ACACAACACAATCACAGACAGT 58.390 40.909 0.00 0.00 0.00 3.55
2999 7190 4.009675 ACACAACACAATCACAGACAGTT 58.990 39.130 0.00 0.00 0.00 3.16
3000 7191 4.458989 ACACAACACAATCACAGACAGTTT 59.541 37.500 0.00 0.00 0.00 2.66
3001 7192 4.794762 CACAACACAATCACAGACAGTTTG 59.205 41.667 0.00 0.00 0.00 2.93
3002 7193 4.458989 ACAACACAATCACAGACAGTTTGT 59.541 37.500 0.00 0.00 31.13 2.83
3039 7230 9.490379 ACACATTTAAAAACAAACACCAAGTTA 57.510 25.926 0.00 0.00 40.26 2.24
3041 7232 9.930693 ACATTTAAAAACAAACACCAAGTTAGA 57.069 25.926 0.00 0.00 40.26 2.10
3046 7237 7.883229 AAAACAAACACCAAGTTAGAAAGTG 57.117 32.000 0.00 0.00 40.26 3.16
3113 7304 6.274157 AGTACTGAACTAGAATGTCACCAG 57.726 41.667 0.00 0.00 36.36 4.00
3160 7351 7.069085 ACAACATGGAAATAAATCCCATCAGAG 59.931 37.037 0.00 0.00 38.53 3.35
3161 7352 5.537674 ACATGGAAATAAATCCCATCAGAGC 59.462 40.000 0.00 0.00 38.53 4.09
3162 7353 4.473444 TGGAAATAAATCCCATCAGAGCC 58.527 43.478 0.00 0.00 38.82 4.70
3163 7354 4.168675 TGGAAATAAATCCCATCAGAGCCT 59.831 41.667 0.00 0.00 38.82 4.58
3164 7355 4.522022 GGAAATAAATCCCATCAGAGCCTG 59.478 45.833 0.00 0.00 33.05 4.85
3182 7373 5.832221 AGCCTGCCTCTATATATACTGTCA 58.168 41.667 0.00 0.00 0.00 3.58
3184 7375 5.888724 GCCTGCCTCTATATATACTGTCAGA 59.111 44.000 6.91 0.00 0.00 3.27
3200 7391 4.635223 TGTCAGAATACATATGCTGGCTC 58.365 43.478 11.86 3.14 43.06 4.70
3201 7392 4.346127 TGTCAGAATACATATGCTGGCTCT 59.654 41.667 11.86 2.22 43.06 4.09
3202 7393 4.928615 GTCAGAATACATATGCTGGCTCTC 59.071 45.833 1.58 0.00 40.17 3.20
3214 7405 2.141517 CTGGCTCTCGCTTATTGGATG 58.858 52.381 0.00 0.00 36.09 3.51
3218 7409 2.487934 CTCTCGCTTATTGGATGGGTG 58.512 52.381 0.00 0.00 0.00 4.61
3231 7422 2.368875 GGATGGGTGGATACTACACTGG 59.631 54.545 0.00 0.00 38.83 4.00
3238 7429 5.338871 GGGTGGATACTACACTGGAAAATCA 60.339 44.000 0.00 0.00 38.83 2.57
3239 7430 5.585047 GGTGGATACTACACTGGAAAATCAC 59.415 44.000 0.00 0.00 38.83 3.06
3258 7449 0.529378 CCCTCTTGCAATGTTGGCTC 59.471 55.000 0.00 0.00 0.00 4.70
3259 7450 0.529378 CCTCTTGCAATGTTGGCTCC 59.471 55.000 0.00 0.00 0.00 4.70
3260 7451 1.250328 CTCTTGCAATGTTGGCTCCA 58.750 50.000 0.00 0.00 0.00 3.86
3264 7455 3.071312 TCTTGCAATGTTGGCTCCATTTT 59.929 39.130 0.00 0.00 30.28 1.82
3269 7460 4.152223 GCAATGTTGGCTCCATTTTACAAC 59.848 41.667 0.00 0.00 41.18 3.32
3277 7468 3.300590 GCTCCATTTTACAACGCAAATCG 59.699 43.478 0.00 0.00 45.38 3.34
3279 7470 3.253677 TCCATTTTACAACGCAAATCGGT 59.746 39.130 0.00 0.00 43.86 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.325296 ATAGTGTCGGAGGAGCCCAA 60.325 55.000 0.00 0.00 0.00 4.12
4 5 1.681538 TCTGATAGTGTCGGAGGAGC 58.318 55.000 0.00 0.00 37.31 4.70
191 871 2.348872 CGTCATCTATGAACAATGGCGC 60.349 50.000 0.00 0.00 40.96 6.53
212 892 3.914312 TGACTAGTTAGCAAGCAGTGAC 58.086 45.455 0.00 0.00 0.00 3.67
307 987 1.303236 TGGCAAATGAGACGTGGGG 60.303 57.895 0.00 0.00 0.00 4.96
587 1267 9.057089 AGTAGTTATTATTTTATCACTGCAGGC 57.943 33.333 19.93 0.00 0.00 4.85
1257 4028 3.969995 GAGGATCTTGCCGTAGACC 57.030 57.895 0.00 0.00 0.00 3.85
1392 4163 8.169977 ACAATAAAGCATACTGGTAATCCATG 57.830 34.615 0.00 0.00 43.43 3.66
1399 4176 7.439955 CCGATTGTACAATAAAGCATACTGGTA 59.560 37.037 20.83 0.00 0.00 3.25
1401 4178 6.481976 TCCGATTGTACAATAAAGCATACTGG 59.518 38.462 20.83 11.04 0.00 4.00
1404 4181 8.009974 GTCATCCGATTGTACAATAAAGCATAC 58.990 37.037 20.83 10.38 0.00 2.39
1406 4183 6.017109 GGTCATCCGATTGTACAATAAAGCAT 60.017 38.462 20.83 5.12 0.00 3.79
1418 4195 0.541863 GGACAGGGTCATCCGATTGT 59.458 55.000 0.00 0.00 41.52 2.71
1443 4220 5.301835 ACATATCTCTTAGCATGCAAGGT 57.698 39.130 21.98 10.17 0.00 3.50
1458 4235 6.244552 TGATTCTCAAGCAGGAACATATCT 57.755 37.500 0.00 0.00 0.00 1.98
1464 4241 2.709213 AGCTGATTCTCAAGCAGGAAC 58.291 47.619 3.85 0.00 44.74 3.62
1467 4244 2.015587 GGAAGCTGATTCTCAAGCAGG 58.984 52.381 5.56 0.00 44.74 4.85
1473 4250 3.072915 TCAACCAAGGAAGCTGATTCTCA 59.927 43.478 5.56 0.00 38.07 3.27
1495 4272 4.173290 AGTCCGTAAGAGCCTCTAGAAT 57.827 45.455 0.00 0.00 43.02 2.40
1497 4274 3.648507 AAGTCCGTAAGAGCCTCTAGA 57.351 47.619 0.00 0.00 43.02 2.43
1524 4301 5.248640 ACAATGTAGTATGCAGGATATGGC 58.751 41.667 0.00 0.00 31.11 4.40
1529 4306 7.290061 ACCAATAACAATGTAGTATGCAGGAT 58.710 34.615 0.00 0.00 31.11 3.24
1535 4312 6.690957 CGCCAAACCAATAACAATGTAGTATG 59.309 38.462 0.00 0.00 0.00 2.39
1536 4320 6.600032 TCGCCAAACCAATAACAATGTAGTAT 59.400 34.615 0.00 0.00 0.00 2.12
1540 4324 5.707242 TTCGCCAAACCAATAACAATGTA 57.293 34.783 0.00 0.00 0.00 2.29
1542 4326 5.914085 TTTTCGCCAAACCAATAACAATG 57.086 34.783 0.00 0.00 0.00 2.82
1543 4327 7.503521 AATTTTTCGCCAAACCAATAACAAT 57.496 28.000 0.00 0.00 0.00 2.71
1569 4353 8.889445 TCTGATAAATATTGTGGGGTGATATCA 58.111 33.333 0.00 0.00 0.00 2.15
1589 4373 6.829811 TGCACCATTTGAATCTGAATCTGATA 59.170 34.615 3.06 0.00 0.00 2.15
1595 4379 4.081309 CCCTTGCACCATTTGAATCTGAAT 60.081 41.667 0.00 0.00 0.00 2.57
1612 4396 1.305201 TCGTCAACAGAAACCCTTGC 58.695 50.000 0.00 0.00 0.00 4.01
1626 4410 4.202121 GGCCTGTATATCTTGAGTTCGTCA 60.202 45.833 0.00 0.00 0.00 4.35
1629 4413 3.309388 CGGCCTGTATATCTTGAGTTCG 58.691 50.000 0.00 0.00 0.00 3.95
1640 4424 0.679505 GAGATGTGGCGGCCTGTATA 59.320 55.000 21.46 0.00 0.00 1.47
1641 4425 1.447643 GAGATGTGGCGGCCTGTAT 59.552 57.895 21.46 11.45 0.00 2.29
1718 4502 2.416701 GCTAGTGAGGAGCAAGTGAGAC 60.417 54.545 0.00 0.00 39.84 3.36
1735 4519 1.808799 CAGTCGCACTGCTGGCTAG 60.809 63.158 0.00 0.00 39.62 3.42
1740 4524 2.048409 AGCTCAGTCGCACTGCTG 60.048 61.111 10.36 7.62 45.54 4.41
1749 4533 1.475441 CGATTTCCGCGAGCTCAGTC 61.475 60.000 15.40 0.89 0.00 3.51
1751 4535 2.233654 CCGATTTCCGCGAGCTCAG 61.234 63.158 15.40 6.88 36.84 3.35
1803 4587 1.201414 CTTTGCATGCTCATGTCTGCA 59.799 47.619 20.33 11.63 42.48 4.41
1818 4602 2.680339 GCACAAGATAGGGTCTCTTTGC 59.320 50.000 0.00 0.00 35.67 3.68
1821 4605 1.482593 CCGCACAAGATAGGGTCTCTT 59.517 52.381 0.00 0.00 35.67 2.85
1832 4616 3.596066 GAGAGCTGGCCGCACAAGA 62.596 63.158 19.30 0.00 42.61 3.02
1834 4618 3.939939 TGAGAGCTGGCCGCACAA 61.940 61.111 19.30 5.61 42.61 3.33
1836 4620 4.385405 AGTGAGAGCTGGCCGCAC 62.385 66.667 19.30 13.92 42.61 5.34
1851 4638 6.849085 TCATTTATAAACAATGGTGCCAGT 57.151 33.333 0.00 0.00 33.17 4.00
1857 4644 7.227116 GCATTGGCATCATTTATAAACAATGGT 59.773 33.333 24.03 7.72 42.32 3.55
1884 4671 1.028330 CCATGTTGACGAGCCAGCAT 61.028 55.000 0.00 0.00 38.28 3.79
1911 4698 4.007644 CTGGACACGCAGGCCTCA 62.008 66.667 0.00 0.00 0.00 3.86
1939 4726 0.935898 CTGATGACGAAGCCATCTGC 59.064 55.000 0.00 0.00 40.65 4.26
1972 4759 0.541392 TCCACGAGCATTGCCAGTAT 59.459 50.000 4.70 0.00 0.00 2.12
1974 4761 1.672356 GTCCACGAGCATTGCCAGT 60.672 57.895 4.70 2.78 0.00 4.00
1987 4774 2.135933 CACGTCCTCTTTCTTGTCCAC 58.864 52.381 0.00 0.00 0.00 4.02
1996 4783 1.664965 GCTCGTGCACGTCCTCTTT 60.665 57.895 35.74 0.00 40.80 2.52
2051 4838 0.449388 GAAAACGAGCAGCTCATGGG 59.551 55.000 22.49 8.28 0.00 4.00
2285 6119 2.325082 ACATGCTTCACCGCGAACC 61.325 57.895 8.23 0.00 0.00 3.62
2291 6125 3.425713 AGCGCACATGCTTCACCG 61.426 61.111 11.47 0.00 44.46 4.94
2322 6168 5.120830 AGCACGAAAACTGTAGATGAATCAC 59.879 40.000 0.00 0.00 0.00 3.06
2353 6202 1.736126 ACGTACGACATCGATCACACT 59.264 47.619 24.41 0.00 43.02 3.55
2374 6223 5.820947 GGATAATTTTACACATGGAGTCCGT 59.179 40.000 4.30 0.00 0.00 4.69
2375 6224 5.238650 GGGATAATTTTACACATGGAGTCCG 59.761 44.000 4.30 0.00 0.00 4.79
2376 6225 6.126409 TGGGATAATTTTACACATGGAGTCC 58.874 40.000 0.73 0.73 0.00 3.85
2377 6226 7.502226 TGATGGGATAATTTTACACATGGAGTC 59.498 37.037 0.00 0.00 0.00 3.36
2378 6227 7.285401 GTGATGGGATAATTTTACACATGGAGT 59.715 37.037 0.00 0.00 0.00 3.85
2383 6232 7.784073 TGGATGTGATGGGATAATTTTACACAT 59.216 33.333 0.00 0.00 45.82 3.21
2415 6264 8.651389 CCATGTAGATCTAGTAAGGGATCAAAA 58.349 37.037 1.64 0.00 40.32 2.44
2434 6283 6.203530 GTGATTGGATATGTCACACCATGTAG 59.796 42.308 0.00 0.00 41.35 2.74
2437 6286 4.883006 TGTGATTGGATATGTCACACCATG 59.117 41.667 3.53 0.00 45.10 3.66
2482 6336 2.038426 AGCACAAGCAGGTATACACACA 59.962 45.455 5.01 0.00 45.49 3.72
2485 6339 4.693283 TGATAGCACAAGCAGGTATACAC 58.307 43.478 5.01 0.00 45.49 2.90
2495 6349 7.226325 AGACAGATTTCTAATGATAGCACAAGC 59.774 37.037 0.00 0.00 42.56 4.01
2507 6363 6.408662 GGGGCTGACTAAGACAGATTTCTAAT 60.409 42.308 5.34 0.00 34.40 1.73
2511 6367 3.198853 AGGGGCTGACTAAGACAGATTTC 59.801 47.826 5.34 0.00 34.40 2.17
2522 6378 0.976073 CGAAGGGAAGGGGCTGACTA 60.976 60.000 0.00 0.00 0.00 2.59
2530 6419 2.109181 GGCGATCGAAGGGAAGGG 59.891 66.667 21.57 0.00 0.00 3.95
2540 6429 1.927174 CACCAAACTAAGAGGCGATCG 59.073 52.381 11.69 11.69 0.00 3.69
2541 6430 2.673368 CACACCAAACTAAGAGGCGATC 59.327 50.000 0.00 0.00 0.00 3.69
2542 6431 2.038557 ACACACCAAACTAAGAGGCGAT 59.961 45.455 0.00 0.00 0.00 4.58
2543 6432 1.414919 ACACACCAAACTAAGAGGCGA 59.585 47.619 0.00 0.00 0.00 5.54
2544 6433 1.531149 CACACACCAAACTAAGAGGCG 59.469 52.381 0.00 0.00 0.00 5.52
2545 6434 2.548480 GACACACACCAAACTAAGAGGC 59.452 50.000 0.00 0.00 0.00 4.70
2547 6436 3.713288 TCGACACACACCAAACTAAGAG 58.287 45.455 0.00 0.00 0.00 2.85
2548 6437 3.804786 TCGACACACACCAAACTAAGA 57.195 42.857 0.00 0.00 0.00 2.10
2549 6438 4.772434 CATTCGACACACACCAAACTAAG 58.228 43.478 0.00 0.00 0.00 2.18
2550 6439 3.002862 GCATTCGACACACACCAAACTAA 59.997 43.478 0.00 0.00 0.00 2.24
2551 6440 2.546368 GCATTCGACACACACCAAACTA 59.454 45.455 0.00 0.00 0.00 2.24
2553 6442 1.064803 TGCATTCGACACACACCAAAC 59.935 47.619 0.00 0.00 0.00 2.93
2554 6443 1.064803 GTGCATTCGACACACACCAAA 59.935 47.619 6.74 0.00 37.96 3.28
2556 6445 2.316237 GTGCATTCGACACACACCA 58.684 52.632 6.74 0.00 37.96 4.17
2558 6447 0.235665 CAGGTGCATTCGACACACAC 59.764 55.000 12.23 6.31 39.87 3.82
2559 6448 0.179059 ACAGGTGCATTCGACACACA 60.179 50.000 12.23 0.00 39.87 3.72
2560 6449 0.944386 AACAGGTGCATTCGACACAC 59.056 50.000 6.93 5.26 39.87 3.82
2561 6450 1.674359 AAACAGGTGCATTCGACACA 58.326 45.000 6.93 0.00 39.87 3.72
2562 6451 2.604614 GGAAAACAGGTGCATTCGACAC 60.605 50.000 0.00 0.00 37.31 3.67
2563 6452 1.606668 GGAAAACAGGTGCATTCGACA 59.393 47.619 0.00 0.00 0.00 4.35
2564 6453 1.606668 TGGAAAACAGGTGCATTCGAC 59.393 47.619 0.00 0.00 0.00 4.20
2566 6455 2.791383 TTGGAAAACAGGTGCATTCG 57.209 45.000 0.00 0.00 0.00 3.34
2570 6459 4.037446 GTGTAGAATTGGAAAACAGGTGCA 59.963 41.667 0.00 0.00 0.00 4.57
2572 6461 5.766150 TGTGTAGAATTGGAAAACAGGTG 57.234 39.130 0.00 0.00 0.00 4.00
2573 6462 5.833131 ACATGTGTAGAATTGGAAAACAGGT 59.167 36.000 0.00 0.00 0.00 4.00
2611 6763 6.725369 AGACTTCAGGATGCTATATCTGTGAT 59.275 38.462 0.00 0.00 34.76 3.06
2621 6773 4.865905 AGAGAAGAGACTTCAGGATGCTA 58.134 43.478 12.86 0.00 34.76 3.49
2623 6775 4.183101 CAAGAGAAGAGACTTCAGGATGC 58.817 47.826 12.86 0.00 34.76 3.91
2624 6776 4.465660 TCCAAGAGAAGAGACTTCAGGATG 59.534 45.833 12.86 6.85 37.54 3.51
2625 6777 4.682563 TCCAAGAGAAGAGACTTCAGGAT 58.317 43.478 12.86 0.00 0.00 3.24
2626 6778 4.119556 TCCAAGAGAAGAGACTTCAGGA 57.880 45.455 12.86 10.79 0.00 3.86
2627 6779 4.465660 TGATCCAAGAGAAGAGACTTCAGG 59.534 45.833 12.86 9.10 0.00 3.86
2630 6782 5.067153 TCGATGATCCAAGAGAAGAGACTTC 59.933 44.000 0.00 0.00 0.00 3.01
2641 6801 6.575162 TTAGATCGAATCGATGATCCAAGA 57.425 37.500 23.67 0.00 47.00 3.02
2662 6822 9.165035 CTCCGTTTGGGTAAAATAGTACAATTA 57.835 33.333 0.00 0.00 37.00 1.40
2663 6823 7.121611 CCTCCGTTTGGGTAAAATAGTACAATT 59.878 37.037 0.00 0.00 37.00 2.32
2664 6824 6.600427 CCTCCGTTTGGGTAAAATAGTACAAT 59.400 38.462 0.00 0.00 37.00 2.71
2667 6827 4.877823 CCCTCCGTTTGGGTAAAATAGTAC 59.122 45.833 0.00 0.00 39.82 2.73
2672 6832 2.377531 AGTCCCTCCGTTTGGGTAAAAT 59.622 45.455 0.00 0.00 44.84 1.82
2673 6833 1.776063 AGTCCCTCCGTTTGGGTAAAA 59.224 47.619 0.00 0.00 44.84 1.52
2674 6834 1.072648 CAGTCCCTCCGTTTGGGTAAA 59.927 52.381 0.00 0.00 44.84 2.01
2680 6870 0.396811 AAGTCCAGTCCCTCCGTTTG 59.603 55.000 0.00 0.00 0.00 2.93
2681 6871 1.622312 GTAAGTCCAGTCCCTCCGTTT 59.378 52.381 0.00 0.00 0.00 3.60
2706 6896 3.866327 GGTTCGAGAATAAGAAGAGTGGC 59.134 47.826 0.00 0.00 0.00 5.01
2714 6904 5.235516 GTCAAACAGGGTTCGAGAATAAGA 58.764 41.667 0.00 0.00 0.00 2.10
2722 6912 0.531090 CACCGTCAAACAGGGTTCGA 60.531 55.000 0.00 0.00 41.66 3.71
2723 6913 0.812412 ACACCGTCAAACAGGGTTCG 60.812 55.000 0.00 0.00 41.66 3.95
2737 6927 1.191535 TCTGTTCTGGGGATACACCG 58.808 55.000 0.00 0.00 42.17 4.94
2739 6929 4.202264 CCACTATCTGTTCTGGGGATACAC 60.202 50.000 0.00 0.00 44.44 2.90
2747 6937 4.080919 TGGATTGTCCACTATCTGTTCTGG 60.081 45.833 0.00 0.00 42.67 3.86
2748 6938 5.089970 TGGATTGTCCACTATCTGTTCTG 57.910 43.478 0.00 0.00 42.67 3.02
2788 6978 6.364568 TCCATGTGTATCTTCCTATCCATG 57.635 41.667 0.00 0.00 0.00 3.66
2793 6983 5.047021 CGTCCATCCATGTGTATCTTCCTAT 60.047 44.000 0.00 0.00 0.00 2.57
2795 6985 3.070159 CGTCCATCCATGTGTATCTTCCT 59.930 47.826 0.00 0.00 0.00 3.36
2803 6993 1.019278 GCGAACGTCCATCCATGTGT 61.019 55.000 0.00 0.00 0.00 3.72
2806 6996 1.202417 ACTAGCGAACGTCCATCCATG 60.202 52.381 0.00 0.00 0.00 3.66
2814 7004 3.370366 TCTTAGTCTGACTAGCGAACGTC 59.630 47.826 16.36 0.00 31.47 4.34
2825 7015 8.729805 AAATGATTGGAATCTCTTAGTCTGAC 57.270 34.615 0.00 0.00 36.39 3.51
2826 7016 8.542926 TGAAATGATTGGAATCTCTTAGTCTGA 58.457 33.333 1.26 0.00 36.39 3.27
2827 7017 8.728337 TGAAATGATTGGAATCTCTTAGTCTG 57.272 34.615 1.26 0.00 36.39 3.51
2828 7018 7.992033 CCTGAAATGATTGGAATCTCTTAGTCT 59.008 37.037 1.26 0.00 36.39 3.24
2829 7019 7.772757 ACCTGAAATGATTGGAATCTCTTAGTC 59.227 37.037 1.26 0.00 36.39 2.59
2830 7020 7.637511 ACCTGAAATGATTGGAATCTCTTAGT 58.362 34.615 1.26 0.00 36.39 2.24
2831 7021 7.042187 CGACCTGAAATGATTGGAATCTCTTAG 60.042 40.741 1.26 0.00 36.39 2.18
2832 7022 6.763135 CGACCTGAAATGATTGGAATCTCTTA 59.237 38.462 1.26 0.00 36.39 2.10
2833 7023 5.587844 CGACCTGAAATGATTGGAATCTCTT 59.412 40.000 1.26 0.00 36.39 2.85
2834 7024 5.104776 TCGACCTGAAATGATTGGAATCTCT 60.105 40.000 1.26 0.00 36.39 3.10
2835 7025 5.118990 TCGACCTGAAATGATTGGAATCTC 58.881 41.667 1.26 0.00 36.39 2.75
2836 7026 5.102953 TCGACCTGAAATGATTGGAATCT 57.897 39.130 1.26 0.00 36.39 2.40
2837 7027 5.762218 AGATCGACCTGAAATGATTGGAATC 59.238 40.000 0.00 0.00 35.97 2.52
2838 7028 5.688807 AGATCGACCTGAAATGATTGGAAT 58.311 37.500 0.00 0.00 0.00 3.01
2839 7029 5.102953 AGATCGACCTGAAATGATTGGAA 57.897 39.130 0.00 0.00 0.00 3.53
2840 7030 4.162131 TGAGATCGACCTGAAATGATTGGA 59.838 41.667 0.00 0.00 0.00 3.53
2841 7031 4.445453 TGAGATCGACCTGAAATGATTGG 58.555 43.478 0.00 0.00 0.00 3.16
2842 7032 6.426980 TTTGAGATCGACCTGAAATGATTG 57.573 37.500 0.00 0.00 0.00 2.67
2843 7033 6.430925 TGTTTTGAGATCGACCTGAAATGATT 59.569 34.615 0.00 0.00 0.00 2.57
2844 7034 5.939883 TGTTTTGAGATCGACCTGAAATGAT 59.060 36.000 0.00 0.00 0.00 2.45
2845 7035 5.304778 TGTTTTGAGATCGACCTGAAATGA 58.695 37.500 0.00 0.00 0.00 2.57
2846 7036 5.611796 TGTTTTGAGATCGACCTGAAATG 57.388 39.130 0.00 0.00 0.00 2.32
2847 7037 6.824305 ATTGTTTTGAGATCGACCTGAAAT 57.176 33.333 0.00 0.00 0.00 2.17
2848 7038 6.708502 TGTATTGTTTTGAGATCGACCTGAAA 59.291 34.615 0.00 0.00 0.00 2.69
2849 7039 6.227522 TGTATTGTTTTGAGATCGACCTGAA 58.772 36.000 0.00 0.00 0.00 3.02
2850 7040 5.789521 TGTATTGTTTTGAGATCGACCTGA 58.210 37.500 0.00 0.00 0.00 3.86
2851 7041 6.073276 TGTTGTATTGTTTTGAGATCGACCTG 60.073 38.462 0.00 0.00 0.00 4.00
2852 7042 5.995282 TGTTGTATTGTTTTGAGATCGACCT 59.005 36.000 0.00 0.00 0.00 3.85
2853 7043 6.077838 GTGTTGTATTGTTTTGAGATCGACC 58.922 40.000 0.00 0.00 0.00 4.79
2873 7063 9.031537 CCCTTGGTTTTATATCTTTTAGGTGTT 57.968 33.333 0.00 0.00 0.00 3.32
2875 7065 8.683615 GTCCCTTGGTTTTATATCTTTTAGGTG 58.316 37.037 0.00 0.00 0.00 4.00
2911 7102 2.273557 GAATCATTTGCCGCAATTGCT 58.726 42.857 26.86 9.94 39.32 3.91
2920 7111 3.123050 GCAATAACCCGAATCATTTGCC 58.877 45.455 0.00 0.00 0.00 4.52
2924 7115 4.269183 TGTCTGCAATAACCCGAATCATT 58.731 39.130 0.00 0.00 0.00 2.57
2927 7118 4.214980 CATGTCTGCAATAACCCGAATC 57.785 45.455 0.00 0.00 0.00 2.52
2941 7132 5.488645 TGCTGTTAATATGTGCATGTCTG 57.511 39.130 0.00 0.00 0.00 3.51
2942 7133 6.513806 TTTGCTGTTAATATGTGCATGTCT 57.486 33.333 0.00 0.00 33.50 3.41
2943 7134 7.541783 TCTTTTTGCTGTTAATATGTGCATGTC 59.458 33.333 0.00 0.00 33.50 3.06
2945 7136 7.815398 TCTTTTTGCTGTTAATATGTGCATG 57.185 32.000 0.00 0.00 33.50 4.06
2946 7137 8.830201 TTTCTTTTTGCTGTTAATATGTGCAT 57.170 26.923 0.00 0.00 33.50 3.96
2947 7138 8.654230 TTTTCTTTTTGCTGTTAATATGTGCA 57.346 26.923 0.00 0.00 0.00 4.57
2948 7139 8.223100 CCTTTTCTTTTTGCTGTTAATATGTGC 58.777 33.333 0.00 0.00 0.00 4.57
2949 7140 9.260002 ACCTTTTCTTTTTGCTGTTAATATGTG 57.740 29.630 0.00 0.00 0.00 3.21
2954 7145 9.093970 GTGTTACCTTTTCTTTTTGCTGTTAAT 57.906 29.630 0.00 0.00 0.00 1.40
2955 7146 8.088981 TGTGTTACCTTTTCTTTTTGCTGTTAA 58.911 29.630 0.00 0.00 0.00 2.01
2956 7147 7.603651 TGTGTTACCTTTTCTTTTTGCTGTTA 58.396 30.769 0.00 0.00 0.00 2.41
2957 7148 6.459923 TGTGTTACCTTTTCTTTTTGCTGTT 58.540 32.000 0.00 0.00 0.00 3.16
2958 7149 6.031751 TGTGTTACCTTTTCTTTTTGCTGT 57.968 33.333 0.00 0.00 0.00 4.40
2959 7150 6.367422 TGTTGTGTTACCTTTTCTTTTTGCTG 59.633 34.615 0.00 0.00 0.00 4.41
2960 7151 6.367695 GTGTTGTGTTACCTTTTCTTTTTGCT 59.632 34.615 0.00 0.00 0.00 3.91
2961 7152 6.146347 TGTGTTGTGTTACCTTTTCTTTTTGC 59.854 34.615 0.00 0.00 0.00 3.68
2962 7153 7.644986 TGTGTTGTGTTACCTTTTCTTTTTG 57.355 32.000 0.00 0.00 0.00 2.44
2963 7154 8.840833 ATTGTGTTGTGTTACCTTTTCTTTTT 57.159 26.923 0.00 0.00 0.00 1.94
2964 7155 8.091449 TGATTGTGTTGTGTTACCTTTTCTTTT 58.909 29.630 0.00 0.00 0.00 2.27
2965 7156 7.544217 GTGATTGTGTTGTGTTACCTTTTCTTT 59.456 33.333 0.00 0.00 0.00 2.52
2966 7157 7.033185 GTGATTGTGTTGTGTTACCTTTTCTT 58.967 34.615 0.00 0.00 0.00 2.52
2967 7158 6.151985 TGTGATTGTGTTGTGTTACCTTTTCT 59.848 34.615 0.00 0.00 0.00 2.52
2968 7159 6.326375 TGTGATTGTGTTGTGTTACCTTTTC 58.674 36.000 0.00 0.00 0.00 2.29
2969 7160 6.151985 TCTGTGATTGTGTTGTGTTACCTTTT 59.848 34.615 0.00 0.00 0.00 2.27
2970 7161 5.650266 TCTGTGATTGTGTTGTGTTACCTTT 59.350 36.000 0.00 0.00 0.00 3.11
2971 7162 5.065988 GTCTGTGATTGTGTTGTGTTACCTT 59.934 40.000 0.00 0.00 0.00 3.50
2972 7163 4.574828 GTCTGTGATTGTGTTGTGTTACCT 59.425 41.667 0.00 0.00 0.00 3.08
2973 7164 4.334203 TGTCTGTGATTGTGTTGTGTTACC 59.666 41.667 0.00 0.00 0.00 2.85
2974 7165 5.064707 ACTGTCTGTGATTGTGTTGTGTTAC 59.935 40.000 0.00 0.00 0.00 2.50
2975 7166 5.182487 ACTGTCTGTGATTGTGTTGTGTTA 58.818 37.500 0.00 0.00 0.00 2.41
2976 7167 4.009675 ACTGTCTGTGATTGTGTTGTGTT 58.990 39.130 0.00 0.00 0.00 3.32
2977 7168 3.609853 ACTGTCTGTGATTGTGTTGTGT 58.390 40.909 0.00 0.00 0.00 3.72
2978 7169 4.621068 AACTGTCTGTGATTGTGTTGTG 57.379 40.909 0.00 0.00 0.00 3.33
2979 7170 4.458989 ACAAACTGTCTGTGATTGTGTTGT 59.541 37.500 0.00 0.00 30.88 3.32
2980 7171 4.985413 ACAAACTGTCTGTGATTGTGTTG 58.015 39.130 0.00 0.00 30.88 3.33
2981 7172 5.235305 GACAAACTGTCTGTGATTGTGTT 57.765 39.130 0.00 0.00 43.73 3.32
2982 7173 4.882671 GACAAACTGTCTGTGATTGTGT 57.117 40.909 0.00 0.00 43.73 3.72
2994 7185 7.750229 ATGTGTATCTTGAATGACAAACTGT 57.250 32.000 0.00 0.00 38.08 3.55
3011 7202 9.660180 ACTTGGTGTTTGTTTTTAAATGTGTAT 57.340 25.926 0.00 0.00 0.00 2.29
3013 7204 7.971183 ACTTGGTGTTTGTTTTTAAATGTGT 57.029 28.000 0.00 0.00 0.00 3.72
3025 7216 6.827586 TTCACTTTCTAACTTGGTGTTTGT 57.172 33.333 0.00 0.00 39.89 2.83
3053 7244 5.221303 CCATCTTCATTTGTGTGACCTGTTT 60.221 40.000 0.00 0.00 0.00 2.83
3137 7328 5.537674 GCTCTGATGGGATTTATTTCCATGT 59.462 40.000 0.00 0.00 40.96 3.21
3142 7333 4.022503 GCAGGCTCTGATGGGATTTATTTC 60.023 45.833 6.40 0.00 32.44 2.17
3160 7351 5.888724 TCTGACAGTATATATAGAGGCAGGC 59.111 44.000 19.70 0.00 0.00 4.85
3161 7352 7.946381 TTCTGACAGTATATATAGAGGCAGG 57.054 40.000 19.70 8.01 0.00 4.85
3163 7354 9.975218 TGTATTCTGACAGTATATATAGAGGCA 57.025 33.333 1.59 0.00 0.00 4.75
3178 7369 4.346127 AGAGCCAGCATATGTATTCTGACA 59.654 41.667 4.29 0.00 30.04 3.58
3182 7373 4.185467 CGAGAGCCAGCATATGTATTCT 57.815 45.455 4.29 1.39 0.00 2.40
3200 7391 1.140852 TCCACCCATCCAATAAGCGAG 59.859 52.381 0.00 0.00 0.00 5.03
3201 7392 1.208706 TCCACCCATCCAATAAGCGA 58.791 50.000 0.00 0.00 0.00 4.93
3202 7393 2.276732 ATCCACCCATCCAATAAGCG 57.723 50.000 0.00 0.00 0.00 4.68
3214 7405 4.563140 TTTTCCAGTGTAGTATCCACCC 57.437 45.455 0.00 0.00 33.20 4.61
3218 7409 5.104485 AGGGTGATTTTCCAGTGTAGTATCC 60.104 44.000 0.00 0.00 0.00 2.59
3231 7422 4.525912 ACATTGCAAGAGGGTGATTTTC 57.474 40.909 4.94 0.00 0.00 2.29
3238 7429 0.178953 AGCCAACATTGCAAGAGGGT 60.179 50.000 4.94 6.70 0.00 4.34
3239 7430 0.529378 GAGCCAACATTGCAAGAGGG 59.471 55.000 4.94 5.09 0.00 4.30
3258 7449 3.570559 ACCGATTTGCGTTGTAAAATGG 58.429 40.909 0.00 0.00 38.67 3.16
3259 7450 3.606346 GGACCGATTTGCGTTGTAAAATG 59.394 43.478 0.00 0.00 38.67 2.32
3260 7451 3.366577 GGGACCGATTTGCGTTGTAAAAT 60.367 43.478 0.00 0.00 38.67 1.82
3264 7455 0.035036 TGGGACCGATTTGCGTTGTA 59.965 50.000 0.00 0.00 38.67 2.41


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

AutoCloner maintained by Alex Coulton.