Multiple sequence alignment - TraesCS7D01G440000

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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 TraesCS7D01G440000 chr7D 100.000 3555 0 0 1 3555 559457885 559461439 0.000000e+00 6565.0
1 TraesCS7D01G440000 chr7A 91.963 983 45 11 1614 2569 644133262 644134237 0.000000e+00 1347.0
2 TraesCS7D01G440000 chr7A 88.843 959 53 21 31 958 644127069 644128004 0.000000e+00 1129.0
3 TraesCS7D01G440000 chr7A 89.812 903 50 10 2669 3555 644134241 644135117 0.000000e+00 1120.0
4 TraesCS7D01G440000 chr7A 90.735 626 27 14 954 1578 644132562 644133157 0.000000e+00 806.0
5 TraesCS7D01G440000 chr7A 91.870 123 5 2 952 1072 644128029 644128148 2.200000e-37 167.0
6 TraesCS7D01G440000 chr7A 79.741 232 27 9 748 965 644132316 644132541 2.210000e-32 150.0
7 TraesCS7D01G440000 chr7A 86.111 72 9 1 2999 3070 489168641 489168571 3.810000e-10 76.8
8 TraesCS7D01G440000 chr7B 88.769 1113 69 33 1614 2716 607642953 607644019 0.000000e+00 1312.0
9 TraesCS7D01G440000 chr7B 90.543 645 38 13 952 1583 607642224 607642858 0.000000e+00 832.0
10 TraesCS7D01G440000 chr7B 84.414 879 59 38 77 927 607641327 607642155 0.000000e+00 793.0
11 TraesCS7D01G440000 chr7B 82.857 490 74 4 3070 3555 607650869 607651352 7.050000e-117 431.0
12 TraesCS7D01G440000 chr7B 88.095 84 9 1 2881 2964 607650666 607650584 8.120000e-17 99.0
13 TraesCS7D01G440000 chr7B 76.720 189 31 8 2894 3070 586248679 586248492 3.780000e-15 93.5
14 TraesCS7D01G440000 chr1D 90.000 80 7 1 2881 2960 447521933 447522011 6.280000e-18 102.0
15 TraesCS7D01G440000 chr1A 86.022 93 13 0 3344 3436 510617385 510617477 2.260000e-17 100.0
16 TraesCS7D01G440000 chr1A 89.706 68 7 0 2893 2960 543505067 543505134 1.760000e-13 87.9
17 TraesCS7D01G440000 chr2B 90.141 71 7 0 2894 2964 653841154 653841224 3.780000e-15 93.5
18 TraesCS7D01G440000 chr5D 91.045 67 6 0 2898 2964 298471371 298471437 1.360000e-14 91.6
19 TraesCS7D01G440000 chr3B 88.732 71 8 0 2894 2964 766324470 766324540 1.760000e-13 87.9
20 TraesCS7D01G440000 chr2D 88.732 71 8 0 2894 2964 547602336 547602406 1.760000e-13 87.9
21 TraesCS7D01G440000 chr5B 87.671 73 9 0 2899 2971 290813516 290813588 6.320000e-13 86.1
22 TraesCS7D01G440000 chr2A 78.226 124 27 0 3348 3471 133991527 133991650 2.940000e-11 80.5
23 TraesCS7D01G440000 chr2A 88.060 67 7 1 3327 3392 185707576 185707642 1.060000e-10 78.7
24 TraesCS7D01G440000 chr3D 80.000 85 17 0 3344 3428 568428300 568428216 2.960000e-06 63.9
25 TraesCS7D01G440000 chr4D 85.714 56 6 2 3344 3398 500885975 500885921 1.380000e-04 58.4
26 TraesCS7D01G440000 chr4D 85.714 56 6 2 3344 3398 500913851 500913797 1.380000e-04 58.4
27 TraesCS7D01G440000 chr4D 85.714 56 6 2 3344 3398 500951707 500951653 1.380000e-04 58.4


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 TraesCS7D01G440000 chr7D 559457885 559461439 3554 False 6565.00 6565 100.000000 1 3555 1 chr7D.!!$F1 3554
1 TraesCS7D01G440000 chr7A 644132316 644135117 2801 False 855.75 1347 88.062750 748 3555 4 chr7A.!!$F2 2807
2 TraesCS7D01G440000 chr7A 644127069 644128148 1079 False 648.00 1129 90.356500 31 1072 2 chr7A.!!$F1 1041
3 TraesCS7D01G440000 chr7B 607641327 607644019 2692 False 979.00 1312 87.908667 77 2716 3 chr7B.!!$F2 2639

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
471 496 0.955919 GGCGAGTGGGGAGAAACAAG 60.956 60.0 0.00 0.00 0.00 3.16 F
1459 1585 0.034337 GTCCCCGCAGTGTTGACTTA 59.966 55.0 0.00 0.00 0.00 2.24 F
1620 1775 0.179094 TCTGGTGTTGACGGTGACAC 60.179 55.0 13.23 13.23 44.09 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2047 2265 0.318441 CGTGTCAGCCAGAGAAAGGA 59.682 55.0 0.00 0.0 0.0 3.36 R
2392 2615 0.455815 CACCGTCGAGATCATCACCA 59.544 55.0 0.00 0.0 0.0 4.17 R
2666 2922 0.534203 ACGGTGCGGTTTCATGAAGT 60.534 50.0 8.41 0.0 0.0 3.01 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
157 169 5.174395 CCTCCTCATATTCGATGAACCATC 58.826 45.833 0.00 0.00 37.50 3.51
181 194 4.589908 ACTTAAAAGATGGAGCGGACAAT 58.410 39.130 0.00 0.00 0.00 2.71
204 217 1.199852 GCCAAAACGAACACTGTGCG 61.200 55.000 8.09 8.09 40.93 5.34
348 362 2.719979 CATGCATCAGGCTTCCGC 59.280 61.111 0.00 0.00 45.15 5.54
451 476 2.958016 GCAACGTCACGTCACGGT 60.958 61.111 18.20 6.89 44.41 4.83
471 496 0.955919 GGCGAGTGGGGAGAAACAAG 60.956 60.000 0.00 0.00 0.00 3.16
473 498 1.542547 GCGAGTGGGGAGAAACAAGAA 60.543 52.381 0.00 0.00 0.00 2.52
474 499 2.846193 CGAGTGGGGAGAAACAAGAAA 58.154 47.619 0.00 0.00 0.00 2.52
475 500 2.808543 CGAGTGGGGAGAAACAAGAAAG 59.191 50.000 0.00 0.00 0.00 2.62
476 501 3.494398 CGAGTGGGGAGAAACAAGAAAGA 60.494 47.826 0.00 0.00 0.00 2.52
477 502 4.461198 GAGTGGGGAGAAACAAGAAAGAA 58.539 43.478 0.00 0.00 0.00 2.52
478 503 5.066913 AGTGGGGAGAAACAAGAAAGAAT 57.933 39.130 0.00 0.00 0.00 2.40
479 504 6.200878 AGTGGGGAGAAACAAGAAAGAATA 57.799 37.500 0.00 0.00 0.00 1.75
480 505 6.610830 AGTGGGGAGAAACAAGAAAGAATAA 58.389 36.000 0.00 0.00 0.00 1.40
481 506 6.717084 AGTGGGGAGAAACAAGAAAGAATAAG 59.283 38.462 0.00 0.00 0.00 1.73
482 507 5.476945 TGGGGAGAAACAAGAAAGAATAAGC 59.523 40.000 0.00 0.00 0.00 3.09
486 511 7.087007 GGAGAAACAAGAAAGAATAAGCAAGG 58.913 38.462 0.00 0.00 0.00 3.61
518 543 2.202932 GGATCGCGTGGACTGCAT 60.203 61.111 5.77 0.00 0.00 3.96
598 623 1.442520 CACAATGGAAAGGCGCACG 60.443 57.895 10.83 0.00 0.00 5.34
683 719 2.753043 GGGTGCAGCATCCCAGTG 60.753 66.667 14.62 0.00 42.95 3.66
736 773 1.679977 CACTTGCATCCCCACCCAG 60.680 63.158 0.00 0.00 0.00 4.45
765 808 1.075482 CCTGGTTGTCCCATGCACT 59.925 57.895 0.00 0.00 44.15 4.40
852 907 8.960591 CACCATTTGTCTCTTTCCATATAAGTT 58.039 33.333 0.00 0.00 0.00 2.66
1180 1300 1.001293 TCTGCTCTACACAGTTGCCAG 59.999 52.381 0.00 0.00 36.50 4.85
1181 1301 0.758734 TGCTCTACACAGTTGCCAGT 59.241 50.000 0.00 0.00 0.00 4.00
1182 1302 1.151668 GCTCTACACAGTTGCCAGTG 58.848 55.000 0.00 0.00 41.40 3.66
1183 1303 1.151668 CTCTACACAGTTGCCAGTGC 58.848 55.000 0.00 0.00 39.30 4.40
1184 1304 0.250295 TCTACACAGTTGCCAGTGCC 60.250 55.000 0.00 0.00 39.30 5.01
1185 1305 0.534877 CTACACAGTTGCCAGTGCCA 60.535 55.000 0.00 0.00 39.30 4.92
1191 1311 1.065491 CAGTTGCCAGTGCCACCTATA 60.065 52.381 0.00 0.00 33.74 1.31
1193 1313 2.017049 GTTGCCAGTGCCACCTATAAG 58.983 52.381 0.00 0.00 36.33 1.73
1201 1321 4.330074 CAGTGCCACCTATAAGTTCTTTCG 59.670 45.833 0.00 0.00 0.00 3.46
1262 1388 3.039988 CTCCGTGTGTCCGTCAGT 58.960 61.111 0.00 0.00 0.00 3.41
1357 1483 4.415332 GGAGCTTCGACGACGCCA 62.415 66.667 21.13 0.00 39.58 5.69
1360 1486 2.506217 GCTTCGACGACGCCATCA 60.506 61.111 14.87 0.00 39.58 3.07
1361 1487 1.878522 GCTTCGACGACGCCATCAT 60.879 57.895 14.87 0.00 39.58 2.45
1365 1491 2.104331 GACGACGCCATCATCGGT 59.896 61.111 0.00 0.00 42.67 4.69
1372 1498 2.823593 CCATCATCGGTTGCGCCA 60.824 61.111 4.18 0.00 36.97 5.69
1459 1585 0.034337 GTCCCCGCAGTGTTGACTTA 59.966 55.000 0.00 0.00 0.00 2.24
1462 1588 1.468520 CCCCGCAGTGTTGACTTATTG 59.531 52.381 0.00 0.00 0.00 1.90
1470 1596 3.006967 AGTGTTGACTTATTGCTCCGTCT 59.993 43.478 0.00 0.00 0.00 4.18
1477 1603 6.042777 TGACTTATTGCTCCGTCTTTGATAG 58.957 40.000 0.00 0.00 0.00 2.08
1537 1663 8.828644 GTCTCTACTAAATCTCGATCTGTACAA 58.171 37.037 0.00 0.00 0.00 2.41
1539 1665 8.502105 TCTACTAAATCTCGATCTGTACAACA 57.498 34.615 0.00 0.00 0.00 3.33
1540 1666 9.121658 TCTACTAAATCTCGATCTGTACAACAT 57.878 33.333 0.00 0.00 0.00 2.71
1541 1667 9.737427 CTACTAAATCTCGATCTGTACAACATT 57.263 33.333 0.00 0.00 0.00 2.71
1543 1669 8.873830 ACTAAATCTCGATCTGTACAACATTTG 58.126 33.333 0.00 0.00 0.00 2.32
1604 1759 6.642683 AATTTTACGTGTTAGTCGGATCTG 57.357 37.500 0.00 0.00 0.00 2.90
1613 1768 0.243907 AGTCGGATCTGGTGTTGACG 59.756 55.000 0.62 0.00 0.00 4.35
1614 1769 0.736325 GTCGGATCTGGTGTTGACGG 60.736 60.000 0.62 0.00 0.00 4.79
1615 1770 1.183030 TCGGATCTGGTGTTGACGGT 61.183 55.000 0.62 0.00 0.00 4.83
1616 1771 1.014044 CGGATCTGGTGTTGACGGTG 61.014 60.000 0.00 0.00 0.00 4.94
1617 1772 0.320374 GGATCTGGTGTTGACGGTGA 59.680 55.000 0.00 0.00 0.00 4.02
1618 1773 1.429463 GATCTGGTGTTGACGGTGAC 58.571 55.000 0.00 0.00 0.00 3.67
1619 1774 0.756294 ATCTGGTGTTGACGGTGACA 59.244 50.000 0.00 0.00 0.00 3.58
1620 1775 0.179094 TCTGGTGTTGACGGTGACAC 60.179 55.000 13.23 13.23 44.09 3.67
1751 1945 0.612453 GGGTCGTCTTCACCTCCTCT 60.612 60.000 0.00 0.00 33.96 3.69
1761 1955 1.531840 ACCTCCTCTGTCAGCACGT 60.532 57.895 0.00 0.00 0.00 4.49
1811 2005 2.677979 CGACGAGTCGTGCCTCAGA 61.678 63.158 25.31 0.00 46.99 3.27
2014 2208 2.764010 TGCTGTCTCCCATAACACGTAT 59.236 45.455 0.00 0.00 0.00 3.06
2015 2209 3.181479 TGCTGTCTCCCATAACACGTATC 60.181 47.826 0.00 0.00 0.00 2.24
2018 2212 5.759963 CTGTCTCCCATAACACGTATCTAC 58.240 45.833 0.00 0.00 0.00 2.59
2019 2213 5.443283 TGTCTCCCATAACACGTATCTACT 58.557 41.667 0.00 0.00 0.00 2.57
2020 2214 5.298527 TGTCTCCCATAACACGTATCTACTG 59.701 44.000 0.00 0.00 0.00 2.74
2021 2215 4.277672 TCTCCCATAACACGTATCTACTGC 59.722 45.833 0.00 0.00 0.00 4.40
2022 2216 4.212716 TCCCATAACACGTATCTACTGCT 58.787 43.478 0.00 0.00 0.00 4.24
2042 2260 2.048603 GCTCAGAAGCCGGCCATTT 61.049 57.895 26.15 11.76 43.10 2.32
2043 2261 1.598701 GCTCAGAAGCCGGCCATTTT 61.599 55.000 26.15 11.30 43.10 1.82
2044 2262 0.453390 CTCAGAAGCCGGCCATTTTC 59.547 55.000 26.15 20.30 0.00 2.29
2045 2263 0.251121 TCAGAAGCCGGCCATTTTCA 60.251 50.000 26.15 2.24 0.00 2.69
2047 2265 1.205417 CAGAAGCCGGCCATTTTCATT 59.795 47.619 26.15 8.13 0.00 2.57
2285 2503 3.057547 CTGCTCGCCTCGCACTACT 62.058 63.158 0.00 0.00 33.19 2.57
2319 2541 2.357034 GAAGAGGCACGCGGTTGA 60.357 61.111 12.47 0.00 0.00 3.18
2320 2542 2.665185 AAGAGGCACGCGGTTGAC 60.665 61.111 12.47 1.72 0.00 3.18
2321 2543 4.681978 AGAGGCACGCGGTTGACC 62.682 66.667 12.47 6.57 0.00 4.02
2322 2544 4.681978 GAGGCACGCGGTTGACCT 62.682 66.667 12.47 11.40 0.00 3.85
2323 2545 4.681978 AGGCACGCGGTTGACCTC 62.682 66.667 12.47 0.00 0.00 3.85
2366 2588 2.213499 GTGTTTGAGTGGTCTGGTCTG 58.787 52.381 0.00 0.00 0.00 3.51
2392 2615 4.869861 GTGAAGTTGTTTTGATGCAGGTTT 59.130 37.500 0.00 0.00 0.00 3.27
2562 2785 5.516044 TGGTGGATGTGACTAGTACAGTAT 58.484 41.667 0.00 0.00 37.72 2.12
2568 2791 7.832685 TGGATGTGACTAGTACAGTATTAGTGT 59.167 37.037 18.02 9.08 37.72 3.55
2569 2792 9.334947 GGATGTGACTAGTACAGTATTAGTGTA 57.665 37.037 18.02 7.19 37.72 2.90
2595 2818 8.839310 AAAAACGCTATCATATTATGAGCTCT 57.161 30.769 16.19 3.04 43.53 4.09
2596 2819 8.839310 AAAACGCTATCATATTATGAGCTCTT 57.161 30.769 16.19 11.54 43.53 2.85
2597 2820 9.929180 AAAACGCTATCATATTATGAGCTCTTA 57.071 29.630 16.19 10.40 43.53 2.10
2610 2833 5.635417 TGAGCTCTTATATCATGAGACGG 57.365 43.478 16.19 0.00 31.50 4.79
2611 2834 4.460731 TGAGCTCTTATATCATGAGACGGG 59.539 45.833 16.19 0.00 31.50 5.28
2612 2835 4.667573 AGCTCTTATATCATGAGACGGGA 58.332 43.478 0.09 0.00 31.50 5.14
2613 2836 4.704540 AGCTCTTATATCATGAGACGGGAG 59.295 45.833 0.09 7.38 31.50 4.30
2614 2837 4.142271 GCTCTTATATCATGAGACGGGAGG 60.142 50.000 0.09 0.00 31.50 4.30
2615 2838 5.256806 TCTTATATCATGAGACGGGAGGA 57.743 43.478 0.09 0.00 0.00 3.71
2616 2839 5.257262 TCTTATATCATGAGACGGGAGGAG 58.743 45.833 0.09 0.00 0.00 3.69
2617 2840 3.534357 ATATCATGAGACGGGAGGAGT 57.466 47.619 0.09 0.00 0.00 3.85
2618 2841 4.659529 ATATCATGAGACGGGAGGAGTA 57.340 45.455 0.09 0.00 0.00 2.59
2619 2842 3.534357 ATCATGAGACGGGAGGAGTAT 57.466 47.619 0.09 0.00 0.00 2.12
2666 2922 7.340256 TGGAAGGCTCCGTTAATTTTCTATTA 58.660 34.615 0.00 0.00 45.85 0.98
2680 2936 8.911247 AATTTTCTATTACTTCATGAAACCGC 57.089 30.769 9.88 0.00 0.00 5.68
2720 2976 5.796935 CGCCTGAATGTATTTCAAACTTGAG 59.203 40.000 0.00 0.00 43.64 3.02
2732 2988 6.377327 TTCAAACTTGAGGAGCTTTTACAG 57.623 37.500 0.00 0.00 38.61 2.74
2733 2989 5.680619 TCAAACTTGAGGAGCTTTTACAGA 58.319 37.500 0.00 0.00 32.50 3.41
2734 2990 5.760253 TCAAACTTGAGGAGCTTTTACAGAG 59.240 40.000 0.00 0.00 32.50 3.35
2735 2991 4.965200 ACTTGAGGAGCTTTTACAGAGT 57.035 40.909 0.00 0.00 0.00 3.24
2736 2992 4.888917 ACTTGAGGAGCTTTTACAGAGTC 58.111 43.478 0.00 0.00 0.00 3.36
2737 2993 3.577649 TGAGGAGCTTTTACAGAGTCG 57.422 47.619 0.00 0.00 0.00 4.18
2738 2994 3.154710 TGAGGAGCTTTTACAGAGTCGA 58.845 45.455 0.00 0.00 0.00 4.20
2739 2995 3.191581 TGAGGAGCTTTTACAGAGTCGAG 59.808 47.826 0.00 0.00 0.00 4.04
2740 2996 3.158676 AGGAGCTTTTACAGAGTCGAGT 58.841 45.455 0.00 0.00 0.00 4.18
2741 2997 3.191791 AGGAGCTTTTACAGAGTCGAGTC 59.808 47.826 12.54 12.54 0.00 3.36
2742 2998 3.191791 GGAGCTTTTACAGAGTCGAGTCT 59.808 47.826 17.22 17.22 0.00 3.24
2743 2999 4.408694 GAGCTTTTACAGAGTCGAGTCTC 58.591 47.826 19.99 7.38 34.96 3.36
2744 3000 3.821600 AGCTTTTACAGAGTCGAGTCTCA 59.178 43.478 19.99 8.29 36.97 3.27
2745 3001 3.915569 GCTTTTACAGAGTCGAGTCTCAC 59.084 47.826 19.99 1.53 36.97 3.51
2746 3002 3.808116 TTTACAGAGTCGAGTCTCACG 57.192 47.619 19.99 11.67 36.97 4.35
2747 3003 1.077123 TACAGAGTCGAGTCTCACGC 58.923 55.000 19.99 0.00 36.97 5.34
2748 3004 1.135731 CAGAGTCGAGTCTCACGCC 59.864 63.158 19.99 0.00 36.97 5.68
2749 3005 1.302591 AGAGTCGAGTCTCACGCCA 60.303 57.895 17.22 0.00 36.97 5.69
2750 3006 1.154188 GAGTCGAGTCTCACGCCAC 60.154 63.158 13.16 0.00 34.88 5.01
2751 3007 1.853114 GAGTCGAGTCTCACGCCACA 61.853 60.000 13.16 0.00 34.88 4.17
2795 3051 6.657541 ACTCATTTGATTTTAGCCGGTTAGAA 59.342 34.615 1.90 2.99 0.00 2.10
2797 3053 4.932268 TTGATTTTAGCCGGTTAGAACG 57.068 40.909 1.90 0.00 0.00 3.95
2855 3111 2.635915 ACCAGTGTCGATGTTAAGGGAA 59.364 45.455 0.00 0.00 0.00 3.97
2872 3128 2.360844 GGAAGGAAAGGCTTGCTAGAC 58.639 52.381 4.95 0.00 32.08 2.59
2873 3129 2.290323 GGAAGGAAAGGCTTGCTAGACA 60.290 50.000 4.95 0.00 32.08 3.41
2875 3131 1.280421 AGGAAAGGCTTGCTAGACAGG 59.720 52.381 4.95 0.00 30.26 4.00
2886 3142 7.663493 AGGCTTGCTAGACAGGAATTTAATATC 59.337 37.037 3.21 0.00 31.00 1.63
2897 3153 7.283807 ACAGGAATTTAATATCCGGGTTTGTAC 59.716 37.037 0.00 0.00 40.78 2.90
2898 3154 7.283580 CAGGAATTTAATATCCGGGTTTGTACA 59.716 37.037 0.00 0.00 40.78 2.90
2958 3214 6.119536 ACTGGTTCACTTTACAATCTCACAA 58.880 36.000 0.00 0.00 0.00 3.33
2960 3216 7.122055 ACTGGTTCACTTTACAATCTCACAAAA 59.878 33.333 0.00 0.00 0.00 2.44
2979 3245 5.360429 ACAAAATGTGTTAAGTACCCGGTTT 59.640 36.000 0.00 0.00 37.01 3.27
2989 3255 8.153550 TGTTAAGTACCCGGTTTTTATTCTACA 58.846 33.333 0.00 0.00 0.00 2.74
2993 3259 2.686405 CCCGGTTTTTATTCTACAGCCC 59.314 50.000 0.00 0.00 0.00 5.19
2994 3260 3.349022 CCGGTTTTTATTCTACAGCCCA 58.651 45.455 0.00 0.00 0.00 5.36
2999 3265 6.871492 CGGTTTTTATTCTACAGCCCATTTTT 59.129 34.615 0.00 0.00 0.00 1.94
3000 3266 7.062956 CGGTTTTTATTCTACAGCCCATTTTTC 59.937 37.037 0.00 0.00 0.00 2.29
3021 3287 7.560796 TTTCTTCTCTCTCCTCCAACTAAAT 57.439 36.000 0.00 0.00 0.00 1.40
3024 3290 8.666129 TCTTCTCTCTCCTCCAACTAAATAAA 57.334 34.615 0.00 0.00 0.00 1.40
3073 3339 7.605691 AGTCTGCTTATGTAATCCTATTGCATC 59.394 37.037 6.50 0.00 0.00 3.91
3074 3340 6.591448 TCTGCTTATGTAATCCTATTGCATCG 59.409 38.462 6.50 2.44 0.00 3.84
3075 3341 6.463360 TGCTTATGTAATCCTATTGCATCGA 58.537 36.000 6.50 0.00 0.00 3.59
3076 3342 7.105588 TGCTTATGTAATCCTATTGCATCGAT 58.894 34.615 6.50 0.00 0.00 3.59
3077 3343 7.278646 TGCTTATGTAATCCTATTGCATCGATC 59.721 37.037 6.50 0.00 0.00 3.69
3078 3344 7.278646 GCTTATGTAATCCTATTGCATCGATCA 59.721 37.037 6.50 0.00 0.00 2.92
3079 3345 8.707938 TTATGTAATCCTATTGCATCGATCAG 57.292 34.615 6.50 0.00 0.00 2.90
3083 3350 1.802960 CCTATTGCATCGATCAGCCAC 59.197 52.381 0.00 0.00 0.00 5.01
3092 3359 1.542472 TCGATCAGCCACACTTAACGA 59.458 47.619 0.00 0.00 0.00 3.85
3098 3365 2.979813 CAGCCACACTTAACGAATTTGC 59.020 45.455 0.00 0.00 0.00 3.68
3118 3385 4.440127 TCCTAAACGTCGGCGGCC 62.440 66.667 16.39 9.54 43.45 6.13
3164 3434 4.145052 GTCACCCTTCAAATGTCCTCTTT 58.855 43.478 0.00 0.00 0.00 2.52
3171 3441 7.947890 ACCCTTCAAATGTCCTCTTTTACAATA 59.052 33.333 0.00 0.00 0.00 1.90
3251 3522 6.902417 GTCTAAATCTTTGATAGCGCTTGTTC 59.098 38.462 18.68 11.57 0.00 3.18
3273 3544 1.528129 CTCCAAGTCCTTGTTCCTGC 58.472 55.000 6.31 0.00 38.85 4.85
3281 3552 1.966451 CTTGTTCCTGCCCGTGTCC 60.966 63.158 0.00 0.00 0.00 4.02
3321 3592 1.269051 CCAACAAAGCGAAGGTCCAAC 60.269 52.381 0.00 0.00 37.06 3.77
3363 3634 0.888736 TGGGACACAAGGCATTGTCG 60.889 55.000 14.86 12.28 46.90 4.35
3388 3659 1.067821 CCATGTCCTACTCTTCCTCGC 59.932 57.143 0.00 0.00 0.00 5.03
3417 3688 0.107703 TGGCCTCGATGTCACCATTC 60.108 55.000 3.32 0.00 0.00 2.67
3431 3702 0.108138 CCATTCGAGGTGAGGTCCAC 60.108 60.000 1.85 0.00 44.95 4.02
3473 3744 0.250467 CCTGACACCTCCACCACTTG 60.250 60.000 0.00 0.00 0.00 3.16
3487 3758 2.055042 ACTTGGTTTGGTTGCGGCA 61.055 52.632 0.00 0.00 0.00 5.69
3489 3760 0.667184 CTTGGTTTGGTTGCGGCATC 60.667 55.000 2.28 2.36 0.00 3.91
3517 3788 4.814294 GGTCACCCGTAGCGGCTG 62.814 72.222 13.86 0.00 46.86 4.85
3546 3817 4.803426 GCGACTCCACCTCCGCTG 62.803 72.222 0.00 0.00 43.75 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 5.046448 TGGGACGTAGGCAGTAGATTAAAAA 60.046 40.000 0.00 0.00 0.00 1.94
21 22 4.467082 TGGGACGTAGGCAGTAGATTAAAA 59.533 41.667 0.00 0.00 0.00 1.52
22 23 4.025360 TGGGACGTAGGCAGTAGATTAAA 58.975 43.478 0.00 0.00 0.00 1.52
23 24 3.634504 TGGGACGTAGGCAGTAGATTAA 58.365 45.455 0.00 0.00 0.00 1.40
24 25 3.301794 TGGGACGTAGGCAGTAGATTA 57.698 47.619 0.00 0.00 0.00 1.75
25 26 2.154567 TGGGACGTAGGCAGTAGATT 57.845 50.000 0.00 0.00 0.00 2.40
26 27 2.383442 ATGGGACGTAGGCAGTAGAT 57.617 50.000 0.00 0.00 0.00 1.98
27 28 3.301794 TTATGGGACGTAGGCAGTAGA 57.698 47.619 0.00 0.00 0.00 2.59
28 29 5.916661 ATATTATGGGACGTAGGCAGTAG 57.083 43.478 0.00 0.00 0.00 2.57
29 30 7.121759 GTCTTATATTATGGGACGTAGGCAGTA 59.878 40.741 0.00 0.00 0.00 2.74
30 31 6.014647 TCTTATATTATGGGACGTAGGCAGT 58.985 40.000 0.00 0.00 0.00 4.40
31 32 6.071560 TGTCTTATATTATGGGACGTAGGCAG 60.072 42.308 0.00 0.00 0.00 4.85
32 33 5.776208 TGTCTTATATTATGGGACGTAGGCA 59.224 40.000 0.00 0.00 0.00 4.75
33 34 6.276832 TGTCTTATATTATGGGACGTAGGC 57.723 41.667 0.00 0.00 0.00 3.93
34 35 9.720769 AAAATGTCTTATATTATGGGACGTAGG 57.279 33.333 0.00 0.00 0.00 3.18
64 65 7.012943 TCGCAATGTAAGACTAAATTTGAACG 58.987 34.615 0.00 0.00 0.00 3.95
69 70 7.602644 TCTGTCTCGCAATGTAAGACTAAATTT 59.397 33.333 14.79 0.00 40.07 1.82
86 98 2.478200 GCTGTTACTACCTCTGTCTCGC 60.478 54.545 0.00 0.00 0.00 5.03
127 139 6.233434 TCATCGAATATGAGGAGGGAAAATG 58.767 40.000 0.00 0.00 0.00 2.32
157 169 2.603560 GTCCGCTCCATCTTTTAAGTCG 59.396 50.000 0.00 0.00 0.00 4.18
169 182 0.326595 TGGCTTTATTGTCCGCTCCA 59.673 50.000 0.00 0.00 0.00 3.86
181 194 3.732471 GCACAGTGTTCGTTTTGGCTTTA 60.732 43.478 1.61 0.00 0.00 1.85
204 217 2.109126 GCCAGAGATGGTGAACCGC 61.109 63.158 0.00 0.00 39.43 5.68
377 391 3.628280 GACCTGGACACGACGAGCC 62.628 68.421 0.00 0.04 0.00 4.70
451 476 1.701031 TTGTTTCTCCCCACTCGCCA 61.701 55.000 0.00 0.00 0.00 5.69
471 496 7.770897 TCTGGACTTATCCTTGCTTATTCTTTC 59.229 37.037 0.00 0.00 46.43 2.62
473 498 7.051000 GTCTGGACTTATCCTTGCTTATTCTT 58.949 38.462 0.00 0.00 46.43 2.52
474 499 6.587273 GTCTGGACTTATCCTTGCTTATTCT 58.413 40.000 0.00 0.00 46.43 2.40
475 500 5.463724 CGTCTGGACTTATCCTTGCTTATTC 59.536 44.000 0.00 0.00 46.43 1.75
476 501 5.360591 CGTCTGGACTTATCCTTGCTTATT 58.639 41.667 0.00 0.00 46.43 1.40
477 502 4.740934 GCGTCTGGACTTATCCTTGCTTAT 60.741 45.833 0.00 0.00 46.43 1.73
478 503 3.430374 GCGTCTGGACTTATCCTTGCTTA 60.430 47.826 0.00 0.00 46.43 3.09
479 504 2.678190 GCGTCTGGACTTATCCTTGCTT 60.678 50.000 0.00 0.00 46.43 3.91
480 505 1.134670 GCGTCTGGACTTATCCTTGCT 60.135 52.381 0.00 0.00 46.43 3.91
481 506 1.291132 GCGTCTGGACTTATCCTTGC 58.709 55.000 0.00 0.00 46.43 4.01
482 507 1.560923 CGCGTCTGGACTTATCCTTG 58.439 55.000 0.00 0.00 46.43 3.61
486 511 1.663445 CGATCCGCGTCTGGACTTATC 60.663 57.143 4.92 0.00 41.85 1.75
518 543 2.567169 ACCGATCTTCTGGTGATGTTGA 59.433 45.455 0.00 0.00 37.02 3.18
668 704 3.807538 CGCACTGGGATGCTGCAC 61.808 66.667 3.57 0.00 43.80 4.57
674 710 2.514592 ATTCCGCGCACTGGGATG 60.515 61.111 8.75 0.00 31.11 3.51
765 808 1.200716 GATCGTCACGTCACCCTGTAA 59.799 52.381 0.00 0.00 0.00 2.41
796 851 3.753434 AGCCGACACTCGCTCAGG 61.753 66.667 0.00 0.00 38.82 3.86
852 907 2.299013 CACAGTGCTACAGTTCCCACTA 59.701 50.000 0.00 0.00 36.47 2.74
1180 1300 4.501071 TCGAAAGAACTTATAGGTGGCAC 58.499 43.478 9.70 9.70 37.03 5.01
1181 1301 4.382685 CCTCGAAAGAACTTATAGGTGGCA 60.383 45.833 0.00 0.00 41.32 4.92
1182 1302 4.120589 CCTCGAAAGAACTTATAGGTGGC 58.879 47.826 0.00 0.00 41.32 5.01
1183 1303 5.340439 ACCTCGAAAGAACTTATAGGTGG 57.660 43.478 11.76 0.00 41.32 4.61
1184 1304 5.035443 CGACCTCGAAAGAACTTATAGGTG 58.965 45.833 15.25 8.02 43.02 4.00
1185 1305 4.946157 TCGACCTCGAAAGAACTTATAGGT 59.054 41.667 12.15 12.15 46.30 3.08
1357 1483 3.195002 CGTGGCGCAACCGATGAT 61.195 61.111 9.90 0.00 43.94 2.45
1372 1498 2.733593 GGCGACGTGAAAGAGCGT 60.734 61.111 0.00 0.00 44.50 5.07
1441 1567 0.981183 ATAAGTCAACACTGCGGGGA 59.019 50.000 0.00 0.00 31.06 4.81
1459 1585 3.118629 TCAGCTATCAAAGACGGAGCAAT 60.119 43.478 0.00 0.00 35.55 3.56
1462 1588 2.586258 TCAGCTATCAAAGACGGAGC 57.414 50.000 0.00 0.00 0.00 4.70
1470 1596 7.388776 GTGGTAATCAGCATATCAGCTATCAAA 59.611 37.037 0.00 0.00 44.54 2.69
1477 1603 4.384056 AGTGTGGTAATCAGCATATCAGC 58.616 43.478 0.00 0.00 34.05 4.26
1537 1663 9.965824 CTAACTAAACTTGGTCAAATCAAATGT 57.034 29.630 0.00 0.00 0.00 2.71
1539 1665 9.965824 CACTAACTAAACTTGGTCAAATCAAAT 57.034 29.630 0.00 0.00 0.00 2.32
1540 1666 7.918562 GCACTAACTAAACTTGGTCAAATCAAA 59.081 33.333 0.00 0.00 0.00 2.69
1541 1667 7.422399 GCACTAACTAAACTTGGTCAAATCAA 58.578 34.615 0.00 0.00 0.00 2.57
1542 1668 6.293190 CGCACTAACTAAACTTGGTCAAATCA 60.293 38.462 0.00 0.00 0.00 2.57
1543 1669 6.077838 CGCACTAACTAAACTTGGTCAAATC 58.922 40.000 0.00 0.00 0.00 2.17
1604 1759 1.519898 ACGTGTCACCGTCAACACC 60.520 57.895 0.00 0.00 42.18 4.16
1613 1768 1.666700 TGCAAGTTTACACGTGTCACC 59.333 47.619 27.16 13.59 35.04 4.02
1614 1769 3.095738 GTTGCAAGTTTACACGTGTCAC 58.904 45.455 27.16 22.11 35.04 3.67
1615 1770 3.004171 AGTTGCAAGTTTACACGTGTCA 58.996 40.909 27.16 12.37 35.04 3.58
1616 1771 3.668596 AGTTGCAAGTTTACACGTGTC 57.331 42.857 27.16 11.43 35.04 3.67
1617 1772 3.753842 CAAGTTGCAAGTTTACACGTGT 58.246 40.909 26.52 26.52 35.04 4.49
1618 1773 2.529894 GCAAGTTGCAAGTTTACACGTG 59.470 45.455 22.90 15.48 44.26 4.49
1619 1774 2.792749 GCAAGTTGCAAGTTTACACGT 58.207 42.857 22.90 0.00 44.26 4.49
1776 1970 2.360852 GACGACTGACCCCTCGGA 60.361 66.667 0.00 0.00 34.07 4.55
1778 1972 2.745100 TCGACGACTGACCCCTCG 60.745 66.667 0.00 0.00 35.96 4.63
1809 2003 3.126225 GACGTCGCCGAGGTCTCT 61.126 66.667 27.20 0.04 42.09 3.10
2000 2194 4.212716 AGCAGTAGATACGTGTTATGGGA 58.787 43.478 0.00 0.00 0.00 4.37
2037 2255 4.465305 AGCCAGAGAAAGGAATGAAAATGG 59.535 41.667 0.00 0.00 0.00 3.16
2042 2260 3.072915 TGTCAGCCAGAGAAAGGAATGAA 59.927 43.478 0.00 0.00 0.00 2.57
2043 2261 2.639347 TGTCAGCCAGAGAAAGGAATGA 59.361 45.455 0.00 0.00 0.00 2.57
2044 2262 2.746362 GTGTCAGCCAGAGAAAGGAATG 59.254 50.000 0.00 0.00 0.00 2.67
2045 2263 2.613977 CGTGTCAGCCAGAGAAAGGAAT 60.614 50.000 0.00 0.00 0.00 3.01
2047 2265 0.318441 CGTGTCAGCCAGAGAAAGGA 59.682 55.000 0.00 0.00 0.00 3.36
2269 2487 2.278271 GAGTAGTGCGAGGCGAGC 60.278 66.667 0.35 0.35 0.00 5.03
2285 2503 0.828762 TTCTCGGGGTTGAACGGAGA 60.829 55.000 7.86 7.86 40.91 3.71
2319 2541 2.363147 GGAGCTCCGAGGTGAGGT 60.363 66.667 19.06 0.00 45.27 3.85
2320 2542 1.333636 AATGGAGCTCCGAGGTGAGG 61.334 60.000 27.43 0.00 39.43 3.86
2321 2543 0.539051 AAATGGAGCTCCGAGGTGAG 59.461 55.000 27.43 0.00 39.43 3.51
2322 2544 0.984230 AAAATGGAGCTCCGAGGTGA 59.016 50.000 27.43 9.59 39.43 4.02
2323 2545 1.740025 GAAAAATGGAGCTCCGAGGTG 59.260 52.381 27.43 0.00 39.43 4.00
2366 2588 4.293415 CTGCATCAAAACAACTTCACCTC 58.707 43.478 0.00 0.00 0.00 3.85
2392 2615 0.455815 CACCGTCGAGATCATCACCA 59.544 55.000 0.00 0.00 0.00 4.17
2426 2649 2.738521 CCGCTTGGACGACACCTG 60.739 66.667 0.00 0.00 34.06 4.00
2427 2650 4.681978 GCCGCTTGGACGACACCT 62.682 66.667 0.00 0.00 34.06 4.00
2570 2793 8.839310 AGAGCTCATAATATGATAGCGTTTTT 57.161 30.769 17.77 0.00 38.85 1.94
2571 2794 8.839310 AAGAGCTCATAATATGATAGCGTTTT 57.161 30.769 17.77 0.92 38.85 2.43
2584 2807 8.412456 CCGTCTCATGATATAAGAGCTCATAAT 58.588 37.037 17.77 8.50 0.00 1.28
2585 2808 7.148000 CCCGTCTCATGATATAAGAGCTCATAA 60.148 40.741 17.77 0.24 0.00 1.90
2586 2809 6.319911 CCCGTCTCATGATATAAGAGCTCATA 59.680 42.308 17.77 9.11 0.00 2.15
2587 2810 5.126869 CCCGTCTCATGATATAAGAGCTCAT 59.873 44.000 17.77 6.59 0.00 2.90
2588 2811 4.460731 CCCGTCTCATGATATAAGAGCTCA 59.539 45.833 17.77 0.00 0.00 4.26
2589 2812 4.702612 TCCCGTCTCATGATATAAGAGCTC 59.297 45.833 5.27 5.27 0.00 4.09
2590 2813 4.667573 TCCCGTCTCATGATATAAGAGCT 58.332 43.478 0.00 0.00 0.00 4.09
2591 2814 4.142271 CCTCCCGTCTCATGATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
2592 2815 5.257262 TCCTCCCGTCTCATGATATAAGAG 58.743 45.833 0.00 0.66 0.00 2.85
2593 2816 5.222151 ACTCCTCCCGTCTCATGATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
2594 2817 5.013547 ACTCCTCCCGTCTCATGATATAAG 58.986 45.833 0.00 0.00 0.00 1.73
2595 2818 4.999310 ACTCCTCCCGTCTCATGATATAA 58.001 43.478 0.00 0.00 0.00 0.98
2596 2819 4.659529 ACTCCTCCCGTCTCATGATATA 57.340 45.455 0.00 0.00 0.00 0.86
2597 2820 3.534357 ACTCCTCCCGTCTCATGATAT 57.466 47.619 0.00 0.00 0.00 1.63
2598 2821 4.659529 ATACTCCTCCCGTCTCATGATA 57.340 45.455 0.00 0.00 0.00 2.15
2599 2822 3.534357 ATACTCCTCCCGTCTCATGAT 57.466 47.619 0.00 0.00 0.00 2.45
2600 2823 3.314307 AATACTCCTCCCGTCTCATGA 57.686 47.619 0.00 0.00 0.00 3.07
2601 2824 4.585162 AGTTAATACTCCTCCCGTCTCATG 59.415 45.833 0.00 0.00 0.00 3.07
2602 2825 4.805744 AGTTAATACTCCTCCCGTCTCAT 58.194 43.478 0.00 0.00 0.00 2.90
2603 2826 4.246712 AGTTAATACTCCTCCCGTCTCA 57.753 45.455 0.00 0.00 0.00 3.27
2604 2827 4.216042 GCTAGTTAATACTCCTCCCGTCTC 59.784 50.000 0.00 0.00 35.78 3.36
2605 2828 4.141205 AGCTAGTTAATACTCCTCCCGTCT 60.141 45.833 0.00 0.00 35.78 4.18
2606 2829 4.143543 AGCTAGTTAATACTCCTCCCGTC 58.856 47.826 0.00 0.00 35.78 4.79
2607 2830 4.181799 AGCTAGTTAATACTCCTCCCGT 57.818 45.455 0.00 0.00 35.78 5.28
2608 2831 5.181622 CACTAGCTAGTTAATACTCCTCCCG 59.818 48.000 23.94 3.81 35.78 5.14
2609 2832 5.477637 CCACTAGCTAGTTAATACTCCTCCC 59.522 48.000 23.94 0.00 35.78 4.30
2610 2833 5.047872 GCCACTAGCTAGTTAATACTCCTCC 60.048 48.000 23.94 0.00 38.99 4.30
2611 2834 5.335035 CGCCACTAGCTAGTTAATACTCCTC 60.335 48.000 23.94 3.33 40.39 3.71
2612 2835 4.519730 CGCCACTAGCTAGTTAATACTCCT 59.480 45.833 23.94 0.00 40.39 3.69
2613 2836 4.277921 ACGCCACTAGCTAGTTAATACTCC 59.722 45.833 23.94 5.46 40.39 3.85
2614 2837 5.435820 ACGCCACTAGCTAGTTAATACTC 57.564 43.478 23.94 7.07 40.39 2.59
2615 2838 5.848833 AACGCCACTAGCTAGTTAATACT 57.151 39.130 23.94 4.64 40.39 2.12
2616 2839 6.898912 AAAACGCCACTAGCTAGTTAATAC 57.101 37.500 23.94 10.34 40.39 1.89
2617 2840 7.654520 CCATAAAACGCCACTAGCTAGTTAATA 59.345 37.037 23.94 10.35 40.39 0.98
2618 2841 6.482308 CCATAAAACGCCACTAGCTAGTTAAT 59.518 38.462 23.94 7.23 40.39 1.40
2619 2842 5.813672 CCATAAAACGCCACTAGCTAGTTAA 59.186 40.000 23.94 4.04 40.39 2.01
2641 2864 4.028993 AGAAAATTAACGGAGCCTTCCA 57.971 40.909 0.00 0.00 44.26 3.53
2645 2901 8.044908 TGAAGTAATAGAAAATTAACGGAGCCT 58.955 33.333 0.00 0.00 0.00 4.58
2666 2922 0.534203 ACGGTGCGGTTTCATGAAGT 60.534 50.000 8.41 0.00 0.00 3.01
2680 2936 2.260434 CGGGAGTGTACCACGGTG 59.740 66.667 0.00 0.00 39.64 4.94
2720 2976 3.191791 AGACTCGACTCTGTAAAAGCTCC 59.808 47.826 0.00 0.00 0.00 4.70
2732 2988 1.154188 GTGGCGTGAGACTCGACTC 60.154 63.158 0.00 0.00 42.42 3.36
2733 2989 1.897137 TGTGGCGTGAGACTCGACT 60.897 57.895 0.00 0.00 42.42 4.18
2734 2990 1.729838 GTGTGGCGTGAGACTCGAC 60.730 63.158 0.00 0.00 42.42 4.20
2735 2991 2.190841 TGTGTGGCGTGAGACTCGA 61.191 57.895 0.00 0.00 42.42 4.04
2736 2992 2.016704 GTGTGTGGCGTGAGACTCG 61.017 63.158 0.00 0.00 42.42 4.18
2737 2993 1.664965 GGTGTGTGGCGTGAGACTC 60.665 63.158 0.00 0.00 42.42 3.36
2738 2994 2.421739 GGTGTGTGGCGTGAGACT 59.578 61.111 0.00 0.00 42.42 3.24
2739 2995 3.036084 CGGTGTGTGGCGTGAGAC 61.036 66.667 0.00 0.00 42.12 3.36
2740 2996 4.293648 CCGGTGTGTGGCGTGAGA 62.294 66.667 0.00 0.00 0.00 3.27
2747 3003 3.041940 GAAGACGCCGGTGTGTGG 61.042 66.667 28.44 0.00 34.74 4.17
2748 3004 1.227999 AATGAAGACGCCGGTGTGTG 61.228 55.000 28.44 1.41 34.74 3.82
2749 3005 0.534203 AAATGAAGACGCCGGTGTGT 60.534 50.000 28.44 20.55 38.09 3.72
2750 3006 1.434555 TAAATGAAGACGCCGGTGTG 58.565 50.000 28.44 7.22 0.00 3.82
2751 3007 1.802365 GTTAAATGAAGACGCCGGTGT 59.198 47.619 23.19 23.19 0.00 4.16
2787 3043 2.507769 GACCGCCCGTTCTAACCG 60.508 66.667 0.00 0.00 0.00 4.44
2795 3051 3.284449 GTTGCTTTGACCGCCCGT 61.284 61.111 0.00 0.00 0.00 5.28
2797 3053 2.975799 TCGTTGCTTTGACCGCCC 60.976 61.111 0.00 0.00 0.00 6.13
2855 3111 1.280421 CCTGTCTAGCAAGCCTTTCCT 59.720 52.381 0.00 0.00 0.00 3.36
2872 3128 6.709018 ACAAACCCGGATATTAAATTCCTG 57.291 37.500 0.73 0.23 0.00 3.86
2873 3129 7.348033 TGTACAAACCCGGATATTAAATTCCT 58.652 34.615 0.73 0.00 0.00 3.36
2886 3142 6.806388 AAACTTACTATTGTACAAACCCGG 57.194 37.500 13.23 0.00 0.00 5.73
2958 3214 6.468333 AAAAACCGGGTACTTAACACATTT 57.532 33.333 6.32 0.00 0.00 2.32
2960 3216 7.666804 AGAATAAAAACCGGGTACTTAACACAT 59.333 33.333 6.32 0.00 0.00 3.21
2967 3223 5.645067 GCTGTAGAATAAAAACCGGGTACTT 59.355 40.000 6.32 0.00 0.00 2.24
2972 3238 2.686405 GGGCTGTAGAATAAAAACCGGG 59.314 50.000 6.32 0.00 0.00 5.73
2979 3245 8.650143 AGAAGAAAAATGGGCTGTAGAATAAA 57.350 30.769 0.00 0.00 0.00 1.40
2989 3255 3.591079 AGGAGAGAGAAGAAAAATGGGCT 59.409 43.478 0.00 0.00 0.00 5.19
2993 3259 6.237154 AGTTGGAGGAGAGAGAAGAAAAATG 58.763 40.000 0.00 0.00 0.00 2.32
2994 3260 6.446909 AGTTGGAGGAGAGAGAAGAAAAAT 57.553 37.500 0.00 0.00 0.00 1.82
2999 3265 8.666129 TTTATTTAGTTGGAGGAGAGAGAAGA 57.334 34.615 0.00 0.00 0.00 2.87
3000 3266 8.754080 TCTTTATTTAGTTGGAGGAGAGAGAAG 58.246 37.037 0.00 0.00 0.00 2.85
3045 3311 8.090831 TGCAATAGGATTACATAAGCAGACTAG 58.909 37.037 0.00 0.00 0.00 2.57
3073 3339 1.990799 TCGTTAAGTGTGGCTGATCG 58.009 50.000 0.00 0.00 0.00 3.69
3074 3340 4.946784 AATTCGTTAAGTGTGGCTGATC 57.053 40.909 0.00 0.00 0.00 2.92
3075 3341 4.615912 GCAAATTCGTTAAGTGTGGCTGAT 60.616 41.667 0.00 0.00 0.00 2.90
3076 3342 3.304391 GCAAATTCGTTAAGTGTGGCTGA 60.304 43.478 0.00 0.00 0.00 4.26
3077 3343 2.979813 GCAAATTCGTTAAGTGTGGCTG 59.020 45.455 0.00 0.00 0.00 4.85
3078 3344 2.030274 GGCAAATTCGTTAAGTGTGGCT 60.030 45.455 0.00 0.00 0.00 4.75
3079 3345 2.324860 GGCAAATTCGTTAAGTGTGGC 58.675 47.619 0.00 0.00 0.00 5.01
3083 3350 3.081804 AGGAGGGCAAATTCGTTAAGTG 58.918 45.455 0.00 0.00 0.00 3.16
3092 3359 2.081462 CGACGTTTAGGAGGGCAAATT 58.919 47.619 0.00 0.00 0.00 1.82
3098 3365 2.202703 CGCCGACGTTTAGGAGGG 60.203 66.667 9.42 0.00 33.53 4.30
3118 3385 4.308458 TGTTCACGGGCAGACGGG 62.308 66.667 0.00 0.00 38.97 5.28
3121 3388 1.069090 TCACTGTTCACGGGCAGAC 59.931 57.895 0.00 0.00 36.62 3.51
3122 3389 1.069090 GTCACTGTTCACGGGCAGA 59.931 57.895 0.00 0.00 36.62 4.26
3124 3391 2.279851 CGTCACTGTTCACGGGCA 60.280 61.111 1.90 0.00 32.19 5.36
3251 3522 0.955919 GGAACAAGGACTTGGAGGCG 60.956 60.000 15.72 0.00 44.45 5.52
3360 3631 1.677052 GAGTAGGACATGGGAGACGAC 59.323 57.143 0.00 0.00 0.00 4.34
3363 3634 2.696187 GGAAGAGTAGGACATGGGAGAC 59.304 54.545 0.00 0.00 0.00 3.36
3473 3744 1.080569 CTGATGCCGCAACCAAACC 60.081 57.895 0.00 0.00 0.00 3.27
3474 3745 1.734117 GCTGATGCCGCAACCAAAC 60.734 57.895 0.00 0.00 0.00 2.93
3475 3746 2.650196 GCTGATGCCGCAACCAAA 59.350 55.556 0.00 0.00 0.00 3.28
3476 3747 3.736100 CGCTGATGCCGCAACCAA 61.736 61.111 0.00 0.00 35.36 3.67
3524 3795 2.126424 GAGGTGGAGTCGCACGTC 60.126 66.667 14.45 14.45 0.00 4.34


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

AutoCloner maintained by Alex Coulton.