Multiple sequence alignment - TraesCS4B01G327500

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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 TraesCS4B01G327500 chr4B 100.000 3187 0 0 1 3187 618346174 618349360 0.000000e+00 5886
1 TraesCS4B01G327500 chr4D 90.948 2353 121 37 1 2273 485162425 485164765 0.000000e+00 3081
2 TraesCS4B01G327500 chr4D 94.333 300 14 2 2386 2682 485165239 485165538 1.040000e-124 457
3 TraesCS4B01G327500 chr4D 91.003 289 18 2 2903 3183 485165529 485165817 1.790000e-102 383
4 TraesCS4B01G327500 chr4D 91.489 94 8 0 2297 2390 485165098 485165191 2.580000e-26 130
5 TraesCS4B01G327500 chr5A 92.209 1476 83 13 793 2238 666203797 666205270 0.000000e+00 2060
6 TraesCS4B01G327500 chr5A 92.252 413 22 5 2277 2682 666208820 666209229 7.670000e-161 577
7 TraesCS4B01G327500 chr5A 85.307 456 23 23 30 474 666202876 666203298 6.320000e-117 431
8 TraesCS4B01G327500 chr5A 88.515 357 18 8 462 795 666203324 666203680 8.230000e-111 411
9 TraesCS4B01G327500 chr5A 90.972 288 24 2 2902 3187 666209219 666209506 1.390000e-103 387
10 TraesCS4B01G327500 chr6B 99.554 224 1 0 2683 2906 686179085 686178862 2.960000e-110 409
11 TraesCS4B01G327500 chr2D 95.067 223 9 2 2683 2904 526224763 526224542 1.820000e-92 350
12 TraesCS4B01G327500 chr2D 74.832 298 47 18 1314 1606 517264483 517264209 3.360000e-20 110
13 TraesCS4B01G327500 chr2B 94.595 222 10 2 2683 2903 361564040 361564260 3.040000e-90 342
14 TraesCS4B01G327500 chr2B 75.085 293 47 17 1314 1602 609202086 609201816 2.600000e-21 113
15 TraesCS4B01G327500 chr5B 94.595 222 9 3 2683 2903 248778954 248779173 1.090000e-89 340
16 TraesCS4B01G327500 chr5B 94.196 224 11 2 2683 2905 694312340 694312562 1.090000e-89 340
17 TraesCS4B01G327500 chr5B 93.805 226 12 2 2681 2905 239413970 239413746 3.940000e-89 339
18 TraesCS4B01G327500 chr5B 93.750 224 11 2 2683 2903 355402640 355402863 1.830000e-87 333
19 TraesCS4B01G327500 chr1B 94.118 221 12 1 2683 2903 17377742 17377523 5.090000e-88 335
20 TraesCS4B01G327500 chr1B 86.538 156 20 1 1921 2076 394116969 394117123 1.520000e-38 171
21 TraesCS4B01G327500 chr1A 92.952 227 14 2 2682 2906 530169968 530170194 2.370000e-86 329
22 TraesCS4B01G327500 chr1D 86.875 160 20 1 1921 2080 293291859 293292017 9.080000e-41 178
23 TraesCS4B01G327500 chr6D 90.179 112 11 0 1964 2075 7434250 7434139 2.560000e-31 147
24 TraesCS4B01G327500 chr2A 75.170 294 45 18 1314 1602 661585610 661585340 2.600000e-21 113


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 TraesCS4B01G327500 chr4B 618346174 618349360 3186 False 5886.00 5886 100.00000 1 3187 1 chr4B.!!$F1 3186
1 TraesCS4B01G327500 chr4D 485162425 485165817 3392 False 1012.75 3081 91.94325 1 3183 4 chr4D.!!$F1 3182
2 TraesCS4B01G327500 chr5A 666202876 666209506 6630 False 773.20 2060 89.85100 30 3187 5 chr5A.!!$F1 3157


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
834 1035 0.237761 CAAGACTGCAAGCTCAGTGC 59.762 55.0 12.47 7.35 46.4 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2738 6648 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.0 13.12 2.86 0.0 3.41 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
148 153 4.021925 GGTGGCGCCAGAGAAGGT 62.022 66.667 33.73 0.00 37.17 3.50
151 156 1.609501 TGGCGCCAGAGAAGGTAGT 60.610 57.895 29.03 0.00 0.00 2.73
158 163 2.541466 CCAGAGAAGGTAGTTGTCCCT 58.459 52.381 0.00 0.00 0.00 4.20
165 170 0.963962 GGTAGTTGTCCCTGTCGTCA 59.036 55.000 0.00 0.00 0.00 4.35
172 177 4.065281 CCCTGTCGTCACCCGTCC 62.065 72.222 0.00 0.00 37.94 4.79
174 179 3.359523 CTGTCGTCACCCGTCCGA 61.360 66.667 0.00 0.00 37.94 4.55
330 342 2.670592 GGCGTGGGGTAGCGTTTT 60.671 61.111 0.00 0.00 0.00 2.43
474 490 0.389948 CGCGCCACTCCTACTCTTTT 60.390 55.000 0.00 0.00 0.00 2.27
475 491 1.809684 GCGCCACTCCTACTCTTTTT 58.190 50.000 0.00 0.00 0.00 1.94
569 636 2.579738 GAGGGTCAAGCTCGTCCC 59.420 66.667 0.00 0.00 40.16 4.46
600 672 1.655350 GCACACAAGTCAACTGCGC 60.655 57.895 0.00 0.00 0.00 6.09
777 859 3.152341 ACTTTTGCCAGAGTCTTCCATG 58.848 45.455 0.00 0.00 0.00 3.66
779 861 0.329261 TTGCCAGAGTCTTCCATGGG 59.671 55.000 13.02 0.00 33.23 4.00
795 877 4.787871 GGAAGATGATCTGCCCGG 57.212 61.111 8.39 0.00 36.09 5.73
796 878 1.072159 GGAAGATGATCTGCCCGGG 59.928 63.158 19.09 19.09 36.09 5.73
834 1035 0.237761 CAAGACTGCAAGCTCAGTGC 59.762 55.000 12.47 7.35 46.40 4.40
865 1073 4.024725 TGAAAAAGTAATCCAACGTGTCCG 60.025 41.667 0.00 0.00 40.83 4.79
921 1141 0.700269 ATCCACTCATCCCCATGCCT 60.700 55.000 0.00 0.00 0.00 4.75
927 1151 3.357952 ATCCCCATGCCTTGCCCA 61.358 61.111 0.00 0.00 0.00 5.36
976 1200 3.078837 ACACCACCCTATAAAAACAGCG 58.921 45.455 0.00 0.00 0.00 5.18
978 1202 2.290705 ACCACCCTATAAAAACAGCGCT 60.291 45.455 2.64 2.64 0.00 5.92
1028 1252 1.611851 CCACCAGCTCCAGGAGACT 60.612 63.158 21.89 13.65 46.44 3.24
1049 1273 2.513666 ACGACGTACGCCGGGATA 60.514 61.111 26.98 0.00 46.94 2.59
1173 1416 0.171455 ACAAGAAGCTCTCCTACGCG 59.829 55.000 3.53 3.53 0.00 6.01
1245 1488 4.147322 CACGACGCCGCCAATGAC 62.147 66.667 0.00 0.00 39.95 3.06
1248 1491 3.195698 GACGCCGCCAATGACCTC 61.196 66.667 0.00 0.00 0.00 3.85
1498 1747 1.071385 CACTCCTGTCCTTGAAGCAGT 59.929 52.381 0.00 0.00 0.00 4.40
1593 1842 3.872728 TCGGACCGCGACATCTCG 61.873 66.667 8.23 8.38 43.28 4.04
1962 2211 2.043852 GAGGACGAGAGGAGGGCA 60.044 66.667 0.00 0.00 0.00 5.36
2134 2390 9.594478 TGATTGATTTGATTCCATTGATCTTTG 57.406 29.630 0.00 0.00 0.00 2.77
2142 2398 7.765307 TGATTCCATTGATCTTTGTTAGCTTC 58.235 34.615 0.00 0.00 0.00 3.86
2213 2471 6.511767 CGAGATTGTAATTAGGCGAAATGCTT 60.512 38.462 0.00 0.00 45.43 3.91
2223 2525 9.869757 AATTAGGCGAAATGCTTAGTAAATTTT 57.130 25.926 0.00 0.00 45.43 1.82
2273 2575 5.066634 TCGTCCAAATTTTGCAGTTGTTCTA 59.933 36.000 3.50 0.00 0.00 2.10
2274 2576 5.173131 CGTCCAAATTTTGCAGTTGTTCTAC 59.827 40.000 3.50 0.00 0.00 2.59
2275 2577 5.173131 GTCCAAATTTTGCAGTTGTTCTACG 59.827 40.000 3.50 0.00 0.00 3.51
2282 6070 4.106029 TGCAGTTGTTCTACGTAGATCC 57.894 45.455 25.17 18.36 31.40 3.36
2318 6172 2.764010 ACGTATACTCATCTTGGGTGCA 59.236 45.455 0.56 0.00 30.82 4.57
2367 6221 6.484818 TGCCATTACGGTAAAGTTTAGTTC 57.515 37.500 4.47 0.00 36.97 3.01
2416 6324 4.163268 TGTGTGGATAAGTTAGCTATGCCA 59.837 41.667 0.00 0.00 0.00 4.92
2424 6332 1.815003 GTTAGCTATGCCATGCCATCC 59.185 52.381 0.00 0.00 0.00 3.51
2453 6361 1.269569 TGCCGAGTGTAAGTGACTGTG 60.270 52.381 0.00 0.00 0.00 3.66
2505 6413 9.668497 AACTGTTTACTAGATATTTTCTGGTCC 57.332 33.333 0.00 0.00 41.98 4.46
2531 6439 4.775253 TGAATATCATAGGCCGACATGGTA 59.225 41.667 13.09 11.32 41.21 3.25
2630 6538 8.170061 TCCAGGATTATTCCAAGAAAGAAAAGA 58.830 33.333 6.44 0.00 45.30 2.52
2670 6579 1.216990 CCAGGCAGATTCCCTAACCT 58.783 55.000 0.00 0.00 32.47 3.50
2682 6592 9.726438 CAGATTCCCTAACCTACCTTTATATTG 57.274 37.037 0.00 0.00 0.00 1.90
2683 6593 8.891501 AGATTCCCTAACCTACCTTTATATTGG 58.108 37.037 0.00 0.00 0.00 3.16
2684 6594 8.823810 ATTCCCTAACCTACCTTTATATTGGA 57.176 34.615 0.00 0.00 0.00 3.53
2685 6595 8.641498 TTCCCTAACCTACCTTTATATTGGAA 57.359 34.615 0.00 0.00 0.00 3.53
2686 6596 8.641498 TCCCTAACCTACCTTTATATTGGAAA 57.359 34.615 0.00 0.00 0.00 3.13
2687 6597 9.071334 TCCCTAACCTACCTTTATATTGGAAAA 57.929 33.333 0.00 0.00 0.00 2.29
2688 6598 9.350951 CCCTAACCTACCTTTATATTGGAAAAG 57.649 37.037 0.00 0.00 33.41 2.27
2704 6614 7.928307 TTGGAAAAGAATTCTATGAGACCAG 57.072 36.000 8.75 0.00 0.00 4.00
2705 6615 6.418101 TGGAAAAGAATTCTATGAGACCAGG 58.582 40.000 8.75 0.00 0.00 4.45
2706 6616 6.012508 TGGAAAAGAATTCTATGAGACCAGGT 60.013 38.462 8.75 0.00 0.00 4.00
2707 6617 6.540551 GGAAAAGAATTCTATGAGACCAGGTC 59.459 42.308 12.25 12.25 0.00 3.85
2708 6618 6.882768 AAAGAATTCTATGAGACCAGGTCT 57.117 37.500 23.18 23.18 46.42 3.85
2716 6626 3.560226 AGACCAGGTCTCACAGGTT 57.440 52.632 17.31 0.00 38.71 3.50
2717 6627 2.696526 AGACCAGGTCTCACAGGTTA 57.303 50.000 17.31 0.00 38.71 2.85
2718 6628 2.530701 AGACCAGGTCTCACAGGTTAG 58.469 52.381 17.31 0.00 38.71 2.34
2719 6629 0.977395 ACCAGGTCTCACAGGTTAGC 59.023 55.000 0.00 0.00 0.00 3.09
2720 6630 0.976641 CCAGGTCTCACAGGTTAGCA 59.023 55.000 0.00 0.00 0.00 3.49
2721 6631 1.066573 CCAGGTCTCACAGGTTAGCAG 60.067 57.143 0.00 0.00 0.00 4.24
2722 6632 1.066573 CAGGTCTCACAGGTTAGCAGG 60.067 57.143 0.00 0.00 0.00 4.85
2723 6633 0.977395 GGTCTCACAGGTTAGCAGGT 59.023 55.000 0.00 0.00 0.00 4.00
2724 6634 1.338200 GGTCTCACAGGTTAGCAGGTG 60.338 57.143 0.88 0.88 0.00 4.00
2725 6635 1.618837 GTCTCACAGGTTAGCAGGTGA 59.381 52.381 8.23 8.23 37.89 4.02
2727 6637 2.009681 TCACAGGTTAGCAGGTGAGA 57.990 50.000 5.15 0.00 35.51 3.27
2728 6638 1.618837 TCACAGGTTAGCAGGTGAGAC 59.381 52.381 5.15 0.00 35.51 3.36
2729 6639 0.977395 ACAGGTTAGCAGGTGAGACC 59.023 55.000 0.00 0.00 38.99 3.85
2730 6640 0.250513 CAGGTTAGCAGGTGAGACCC 59.749 60.000 0.00 0.00 39.75 4.46
2731 6641 0.178903 AGGTTAGCAGGTGAGACCCA 60.179 55.000 0.00 0.00 39.75 4.51
2732 6642 0.912486 GGTTAGCAGGTGAGACCCAT 59.088 55.000 0.00 0.00 39.75 4.00
2733 6643 1.134371 GGTTAGCAGGTGAGACCCATC 60.134 57.143 0.00 0.00 39.75 3.51
2734 6644 1.134371 GTTAGCAGGTGAGACCCATCC 60.134 57.143 0.00 0.00 39.75 3.51
2735 6645 0.339859 TAGCAGGTGAGACCCATCCT 59.660 55.000 0.00 0.00 39.75 3.24
2736 6646 1.222936 GCAGGTGAGACCCATCCTG 59.777 63.158 5.79 5.79 39.75 3.86
2737 6647 1.267574 GCAGGTGAGACCCATCCTGA 61.268 60.000 13.26 0.00 42.00 3.86
2738 6648 1.504912 CAGGTGAGACCCATCCTGAT 58.495 55.000 4.28 0.00 42.00 2.90
2739 6649 1.140452 CAGGTGAGACCCATCCTGATG 59.860 57.143 4.28 0.00 42.00 3.07
2751 6661 0.536724 TCCTGATGGATGACACGTGG 59.463 55.000 21.57 1.66 37.46 4.94
2752 6662 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
2753 6663 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
2755 6665 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
2756 6666 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
2757 6667 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
2758 6668 0.447801 GGATGACACGTGGCATTCAC 59.552 55.000 36.07 24.74 45.42 3.18
2759 6669 1.155889 GATGACACGTGGCATTCACA 58.844 50.000 36.07 9.07 45.42 3.58
2760 6670 1.535028 GATGACACGTGGCATTCACAA 59.465 47.619 36.07 8.22 45.42 3.33
2761 6671 1.383523 TGACACGTGGCATTCACAAA 58.616 45.000 23.03 0.00 46.36 2.83
2762 6672 1.952990 TGACACGTGGCATTCACAAAT 59.047 42.857 23.03 0.00 46.36 2.32
2763 6673 2.031245 TGACACGTGGCATTCACAAATC 60.031 45.455 23.03 3.54 46.36 2.17
2764 6674 1.952990 ACACGTGGCATTCACAAATCA 59.047 42.857 21.57 0.00 46.36 2.57
2765 6675 2.287547 ACACGTGGCATTCACAAATCAC 60.288 45.455 21.57 0.00 46.36 3.06
2766 6676 1.952990 ACGTGGCATTCACAAATCACA 59.047 42.857 0.00 0.00 46.36 3.58
2767 6677 2.360483 ACGTGGCATTCACAAATCACAA 59.640 40.909 0.00 0.00 46.36 3.33
2768 6678 3.181482 ACGTGGCATTCACAAATCACAAA 60.181 39.130 0.00 0.00 46.36 2.83
2769 6679 3.426191 CGTGGCATTCACAAATCACAAAG 59.574 43.478 0.00 0.00 46.36 2.77
2770 6680 3.184986 GTGGCATTCACAAATCACAAAGC 59.815 43.478 0.00 0.00 45.39 3.51
2771 6681 3.181468 TGGCATTCACAAATCACAAAGCA 60.181 39.130 0.00 0.00 0.00 3.91
2772 6682 3.998341 GGCATTCACAAATCACAAAGCAT 59.002 39.130 0.00 0.00 0.00 3.79
2773 6683 4.453136 GGCATTCACAAATCACAAAGCATT 59.547 37.500 0.00 0.00 0.00 3.56
2774 6684 5.049267 GGCATTCACAAATCACAAAGCATTT 60.049 36.000 0.00 0.00 40.26 2.32
2775 6685 6.147492 GGCATTCACAAATCACAAAGCATTTA 59.853 34.615 0.00 0.00 35.03 1.40
2776 6686 7.011189 GCATTCACAAATCACAAAGCATTTAC 58.989 34.615 0.00 0.00 35.03 2.01
2777 6687 7.512297 CATTCACAAATCACAAAGCATTTACC 58.488 34.615 0.00 0.00 35.03 2.85
2778 6688 6.154203 TCACAAATCACAAAGCATTTACCA 57.846 33.333 0.00 0.00 35.03 3.25
2779 6689 5.982516 TCACAAATCACAAAGCATTTACCAC 59.017 36.000 0.00 0.00 35.03 4.16
2780 6690 5.752472 CACAAATCACAAAGCATTTACCACA 59.248 36.000 0.00 0.00 35.03 4.17
2781 6691 5.752955 ACAAATCACAAAGCATTTACCACAC 59.247 36.000 0.00 0.00 35.03 3.82
2782 6692 4.519540 ATCACAAAGCATTTACCACACC 57.480 40.909 0.00 0.00 35.03 4.16
2783 6693 2.625790 TCACAAAGCATTTACCACACCC 59.374 45.455 0.00 0.00 35.03 4.61
2784 6694 1.967779 ACAAAGCATTTACCACACCCC 59.032 47.619 0.00 0.00 35.03 4.95
2785 6695 1.275010 CAAAGCATTTACCACACCCCC 59.725 52.381 0.00 0.00 35.03 5.40
2786 6696 0.485099 AAGCATTTACCACACCCCCA 59.515 50.000 0.00 0.00 0.00 4.96
2787 6697 0.251608 AGCATTTACCACACCCCCAC 60.252 55.000 0.00 0.00 0.00 4.61
2788 6698 1.254975 GCATTTACCACACCCCCACC 61.255 60.000 0.00 0.00 0.00 4.61
2789 6699 0.407918 CATTTACCACACCCCCACCT 59.592 55.000 0.00 0.00 0.00 4.00
2790 6700 0.407918 ATTTACCACACCCCCACCTG 59.592 55.000 0.00 0.00 0.00 4.00
2791 6701 0.698198 TTTACCACACCCCCACCTGA 60.698 55.000 0.00 0.00 0.00 3.86
2792 6702 0.698198 TTACCACACCCCCACCTGAA 60.698 55.000 0.00 0.00 0.00 3.02
2793 6703 0.698198 TACCACACCCCCACCTGAAA 60.698 55.000 0.00 0.00 0.00 2.69
2794 6704 1.368268 ACCACACCCCCACCTGAAAT 61.368 55.000 0.00 0.00 0.00 2.17
2795 6705 0.611896 CCACACCCCCACCTGAAATC 60.612 60.000 0.00 0.00 0.00 2.17
2796 6706 0.112218 CACACCCCCACCTGAAATCA 59.888 55.000 0.00 0.00 0.00 2.57
2797 6707 0.405585 ACACCCCCACCTGAAATCAG 59.594 55.000 3.37 3.37 43.40 2.90
2807 6717 2.706339 CTGAAATCAGGGGAGGACAG 57.294 55.000 2.38 0.00 40.20 3.51
2808 6718 2.191400 CTGAAATCAGGGGAGGACAGA 58.809 52.381 2.38 0.00 40.20 3.41
2809 6719 2.776536 CTGAAATCAGGGGAGGACAGAT 59.223 50.000 2.38 0.00 40.20 2.90
2810 6720 3.192944 TGAAATCAGGGGAGGACAGATT 58.807 45.455 0.00 0.00 0.00 2.40
2811 6721 4.370776 TGAAATCAGGGGAGGACAGATTA 58.629 43.478 0.00 0.00 0.00 1.75
2812 6722 4.410228 TGAAATCAGGGGAGGACAGATTAG 59.590 45.833 0.00 0.00 0.00 1.73
2813 6723 4.286813 AATCAGGGGAGGACAGATTAGA 57.713 45.455 0.00 0.00 0.00 2.10
2814 6724 4.500389 ATCAGGGGAGGACAGATTAGAT 57.500 45.455 0.00 0.00 0.00 1.98
2815 6725 5.623551 ATCAGGGGAGGACAGATTAGATA 57.376 43.478 0.00 0.00 0.00 1.98
2816 6726 4.742012 TCAGGGGAGGACAGATTAGATAC 58.258 47.826 0.00 0.00 0.00 2.24
2817 6727 4.420552 TCAGGGGAGGACAGATTAGATACT 59.579 45.833 0.00 0.00 0.00 2.12
2818 6728 5.103043 TCAGGGGAGGACAGATTAGATACTT 60.103 44.000 0.00 0.00 0.00 2.24
2819 6729 5.604650 CAGGGGAGGACAGATTAGATACTTT 59.395 44.000 0.00 0.00 0.00 2.66
2820 6730 5.604650 AGGGGAGGACAGATTAGATACTTTG 59.395 44.000 0.00 0.00 0.00 2.77
2821 6731 5.367060 GGGGAGGACAGATTAGATACTTTGT 59.633 44.000 0.00 0.00 0.00 2.83
2822 6732 6.284459 GGGAGGACAGATTAGATACTTTGTG 58.716 44.000 0.00 0.00 0.00 3.33
2823 6733 6.098409 GGGAGGACAGATTAGATACTTTGTGA 59.902 42.308 0.00 0.00 0.00 3.58
2824 6734 7.202047 GGGAGGACAGATTAGATACTTTGTGAT 60.202 40.741 0.00 0.00 0.00 3.06
2825 6735 8.207545 GGAGGACAGATTAGATACTTTGTGATT 58.792 37.037 0.00 0.00 0.00 2.57
2826 6736 9.606631 GAGGACAGATTAGATACTTTGTGATTT 57.393 33.333 0.00 0.00 0.00 2.17
2827 6737 9.388506 AGGACAGATTAGATACTTTGTGATTTG 57.611 33.333 0.00 0.00 0.00 2.32
2828 6738 9.167311 GGACAGATTAGATACTTTGTGATTTGT 57.833 33.333 0.00 0.00 0.00 2.83
2829 6739 9.979270 GACAGATTAGATACTTTGTGATTTGTG 57.021 33.333 0.00 0.00 0.00 3.33
2830 6740 9.725019 ACAGATTAGATACTTTGTGATTTGTGA 57.275 29.630 0.00 0.00 0.00 3.58
2834 6744 9.793252 ATTAGATACTTTGTGATTTGTGAATGC 57.207 29.630 0.00 0.00 0.00 3.56
2835 6745 6.624423 AGATACTTTGTGATTTGTGAATGCC 58.376 36.000 0.00 0.00 0.00 4.40
2836 6746 4.669206 ACTTTGTGATTTGTGAATGCCA 57.331 36.364 0.00 0.00 0.00 4.92
2837 6747 4.370917 ACTTTGTGATTTGTGAATGCCAC 58.629 39.130 0.00 0.00 45.88 5.01
2845 6755 3.975992 GTGAATGCCACGTGTCATC 57.024 52.632 13.12 7.23 35.86 2.92
2846 6756 0.447801 GTGAATGCCACGTGTCATCC 59.552 55.000 13.12 0.00 35.86 3.51
2847 6757 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
2848 6758 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
2849 6759 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
2850 6760 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
2851 6761 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
2852 6762 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
2853 6763 0.462581 CCACGTGTCATCCATCAGGG 60.463 60.000 15.65 0.00 34.83 4.45
2854 6764 1.091771 CACGTGTCATCCATCAGGGC 61.092 60.000 7.58 0.00 36.21 5.19
2855 6765 1.884464 CGTGTCATCCATCAGGGCG 60.884 63.158 0.00 0.00 36.21 6.13
2856 6766 1.524621 GTGTCATCCATCAGGGCGG 60.525 63.158 0.00 0.00 36.21 6.13
2857 6767 2.111878 GTCATCCATCAGGGCGGG 59.888 66.667 0.00 0.00 36.21 6.13
2858 6768 2.366837 TCATCCATCAGGGCGGGT 60.367 61.111 0.00 0.00 36.21 5.28
2859 6769 2.111878 CATCCATCAGGGCGGGTC 59.888 66.667 0.00 0.00 36.21 4.46
2860 6770 2.040464 ATCCATCAGGGCGGGTCT 60.040 61.111 0.00 0.00 36.21 3.85
2861 6771 2.143419 ATCCATCAGGGCGGGTCTC 61.143 63.158 0.00 0.00 36.21 3.36
2862 6772 2.896677 ATCCATCAGGGCGGGTCTCA 62.897 60.000 0.00 0.00 36.21 3.27
2863 6773 2.187946 CATCAGGGCGGGTCTCAC 59.812 66.667 0.00 0.00 0.00 3.51
2864 6774 3.461773 ATCAGGGCGGGTCTCACG 61.462 66.667 0.00 0.00 0.00 4.35
2865 6775 4.988716 TCAGGGCGGGTCTCACGT 62.989 66.667 0.00 0.00 0.00 4.49
2866 6776 4.742201 CAGGGCGGGTCTCACGTG 62.742 72.222 9.94 9.94 0.00 4.49
2869 6779 4.681978 GGCGGGTCTCACGTGCTT 62.682 66.667 11.67 0.00 0.00 3.91
2870 6780 2.665185 GCGGGTCTCACGTGCTTT 60.665 61.111 11.67 0.00 0.00 3.51
2871 6781 1.373748 GCGGGTCTCACGTGCTTTA 60.374 57.895 11.67 0.00 0.00 1.85
2872 6782 0.739813 GCGGGTCTCACGTGCTTTAT 60.740 55.000 11.67 0.00 0.00 1.40
2873 6783 1.470285 GCGGGTCTCACGTGCTTTATA 60.470 52.381 11.67 0.00 0.00 0.98
2874 6784 2.802057 GCGGGTCTCACGTGCTTTATAT 60.802 50.000 11.67 0.00 0.00 0.86
2875 6785 2.794910 CGGGTCTCACGTGCTTTATATG 59.205 50.000 11.67 0.00 0.00 1.78
2876 6786 3.490249 CGGGTCTCACGTGCTTTATATGA 60.490 47.826 11.67 0.00 0.00 2.15
2877 6787 4.051922 GGGTCTCACGTGCTTTATATGAG 58.948 47.826 11.67 0.00 38.51 2.90
2878 6788 4.202121 GGGTCTCACGTGCTTTATATGAGA 60.202 45.833 11.67 1.89 42.63 3.27
2880 6790 4.933330 TCTCACGTGCTTTATATGAGACC 58.067 43.478 11.67 0.00 40.59 3.85
2881 6791 4.645136 TCTCACGTGCTTTATATGAGACCT 59.355 41.667 11.67 0.00 40.59 3.85
2882 6792 4.682787 TCACGTGCTTTATATGAGACCTG 58.317 43.478 11.67 0.00 0.00 4.00
2883 6793 3.804325 CACGTGCTTTATATGAGACCTGG 59.196 47.826 0.82 0.00 0.00 4.45
2884 6794 3.451178 ACGTGCTTTATATGAGACCTGGT 59.549 43.478 0.00 0.00 0.00 4.00
2885 6795 4.051922 CGTGCTTTATATGAGACCTGGTC 58.948 47.826 19.20 19.20 0.00 4.02
2886 6796 4.202161 CGTGCTTTATATGAGACCTGGTCT 60.202 45.833 28.70 28.70 46.42 3.85
2922 6832 5.806955 TCCCTTTATATTTGGTGGAAGGT 57.193 39.130 0.00 0.00 33.48 3.50
2935 6845 4.044065 TGGTGGAAGGTGGAGATTTTACAT 59.956 41.667 0.00 0.00 0.00 2.29
2953 6863 3.347216 ACATTGCACTACATCCCTGAAC 58.653 45.455 0.00 0.00 0.00 3.18
3051 6962 0.963355 GGCCGTGGCTCCAACAATAA 60.963 55.000 11.25 0.00 41.60 1.40
3071 6989 1.950472 CGTGAATTGAAAGACCACGC 58.050 50.000 0.00 0.00 42.83 5.34
3143 7061 0.388391 CGCGGGCATGAAACATTTGT 60.388 50.000 0.00 0.00 0.00 2.83
3171 7089 5.837438 ACATATGATGAGAGAGTCATGTCCA 59.163 40.000 10.38 0.00 46.64 4.02
3183 7101 5.946377 AGAGTCATGTCCATTTTACCCTTTC 59.054 40.000 0.00 0.00 0.00 2.62
3184 7102 5.892348 AGTCATGTCCATTTTACCCTTTCT 58.108 37.500 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.522355 CGCTGGTGCTGTATCTGGG 60.522 63.158 0.00 0.00 36.97 4.45
148 153 0.963962 GGTGACGACAGGGACAACTA 59.036 55.000 0.00 0.00 0.00 2.24
151 156 3.144285 GGGTGACGACAGGGACAA 58.856 61.111 0.00 0.00 0.00 3.18
172 177 1.934956 CGCACTTCTCCGTCGATCG 60.935 63.158 9.36 9.36 39.52 3.69
174 179 0.248661 CATCGCACTTCTCCGTCGAT 60.249 55.000 0.00 0.00 40.04 3.59
312 324 4.710167 AAACGCTACCCCACGCCC 62.710 66.667 0.00 0.00 0.00 6.13
314 326 2.559330 CAAAACGCTACCCCACGC 59.441 61.111 0.00 0.00 0.00 5.34
322 334 0.820074 CACCACCCACCAAAACGCTA 60.820 55.000 0.00 0.00 0.00 4.26
482 498 8.890718 GGACAGAAACCAAAGAGTATAATAACC 58.109 37.037 0.00 0.00 0.00 2.85
483 499 8.601476 CGGACAGAAACCAAAGAGTATAATAAC 58.399 37.037 0.00 0.00 0.00 1.89
485 501 7.762615 CACGGACAGAAACCAAAGAGTATAATA 59.237 37.037 0.00 0.00 0.00 0.98
486 502 6.594159 CACGGACAGAAACCAAAGAGTATAAT 59.406 38.462 0.00 0.00 0.00 1.28
489 505 4.039973 TCACGGACAGAAACCAAAGAGTAT 59.960 41.667 0.00 0.00 0.00 2.12
524 591 4.565166 GTGGCAGTAACAAACTTTTTGACC 59.435 41.667 5.67 0.00 35.76 4.02
577 649 1.160329 AGTTGACTTGTGTGCGAGCC 61.160 55.000 0.00 0.00 0.00 4.70
600 672 1.829349 GAGCAGAGCAATGATCGCCG 61.829 60.000 10.54 0.00 0.00 6.46
680 762 3.682292 GACCATCCTGCCCGTGACC 62.682 68.421 0.00 0.00 0.00 4.02
761 843 0.547471 TCCCATGGAAGACTCTGGCA 60.547 55.000 15.22 0.00 0.00 4.92
762 844 0.620556 TTCCCATGGAAGACTCTGGC 59.379 55.000 15.22 0.00 36.71 4.85
777 859 1.072159 CCGGGCAGATCATCTTCCC 59.928 63.158 12.30 12.30 45.08 3.97
779 861 1.599240 GCCCGGGCAGATCATCTTC 60.599 63.158 40.73 5.45 41.49 2.87
834 1035 6.636850 CGTTGGATTACTTTTTCACTTTGGAG 59.363 38.462 0.00 0.00 0.00 3.86
888 1096 3.383505 TGAGTGGATACTGGATACGTTGG 59.616 47.826 0.00 0.00 37.25 3.77
889 1097 4.649088 TGAGTGGATACTGGATACGTTG 57.351 45.455 0.00 0.00 37.25 4.10
890 1098 4.281182 GGATGAGTGGATACTGGATACGTT 59.719 45.833 0.00 0.00 37.25 3.99
891 1099 3.827302 GGATGAGTGGATACTGGATACGT 59.173 47.826 0.00 0.00 37.25 3.57
893 1101 3.515901 GGGGATGAGTGGATACTGGATAC 59.484 52.174 0.00 0.00 37.25 2.24
988 1212 2.203153 GACCGTGGTGTGGCAAGT 60.203 61.111 0.00 0.00 0.00 3.16
1023 1247 1.577117 CGTACGTCGTCGCAGTCTC 60.577 63.158 7.22 0.00 41.18 3.36
1049 1273 0.886563 GCTTGCTGTTGCTGGAGATT 59.113 50.000 0.00 0.00 40.48 2.40
1242 1485 2.283676 GTCCACCCGAGGAGGTCA 60.284 66.667 6.36 0.00 38.39 4.02
1286 1535 2.506217 CACCGTCACCGATCCACG 60.506 66.667 0.00 0.00 42.18 4.94
1479 1728 1.428869 ACTGCTTCAAGGACAGGAGT 58.571 50.000 0.00 0.00 36.91 3.85
1617 1866 1.122019 AGCAAGAACGGTGGGAGAGT 61.122 55.000 0.00 0.00 0.00 3.24
1752 2001 4.593864 GATGCGGAGGAGGCGGAC 62.594 72.222 0.00 0.00 0.00 4.79
2050 2299 2.031163 GTTGAGCAGCGACACCCT 59.969 61.111 0.00 0.00 0.00 4.34
2142 2398 8.871686 TGTACATCATGTATACAAGCTACAAG 57.128 34.615 10.14 0.00 35.05 3.16
2223 2525 6.568869 ACGTTTCCAATCAATCAAGAACAAA 58.431 32.000 0.00 0.00 0.00 2.83
2238 2540 2.312722 TTTGGACGAGACGTTTCCAA 57.687 45.000 14.43 14.43 41.37 3.53
2241 2543 3.420904 GCAAAATTTGGACGAGACGTTTC 59.579 43.478 7.89 0.00 41.37 2.78
2273 2575 4.885907 TCTGATTTACCTTCGGATCTACGT 59.114 41.667 0.00 0.00 34.94 3.57
2274 2576 5.434352 TCTGATTTACCTTCGGATCTACG 57.566 43.478 0.00 0.00 0.00 3.51
2275 2577 5.686397 CGTTCTGATTTACCTTCGGATCTAC 59.314 44.000 0.00 0.00 0.00 2.59
2282 6070 7.191551 TGAGTATACGTTCTGATTTACCTTCG 58.808 38.462 0.00 0.00 0.00 3.79
2297 6085 2.764010 TGCACCCAAGATGAGTATACGT 59.236 45.455 0.00 0.00 0.00 3.57
2367 6221 2.332063 ATTGGCTTATGTCACCGGAG 57.668 50.000 9.46 0.00 0.00 4.63
2416 6324 2.590821 GGCAATAGTTGAGGATGGCAT 58.409 47.619 0.00 0.00 36.65 4.40
2424 6332 4.327357 CACTTACACTCGGCAATAGTTGAG 59.673 45.833 0.00 0.00 34.65 3.02
2453 6361 2.159627 CGGTGCAAGAGTCCAAATGTAC 59.840 50.000 0.00 0.00 0.00 2.90
2505 6413 4.271696 TGTCGGCCTATGATATTCAAGG 57.728 45.455 0.00 0.00 31.92 3.61
2531 6439 2.635915 TCCAAACAGTTACGATCCCACT 59.364 45.455 0.00 0.00 0.00 4.00
2630 6538 3.089284 GGTGAGATTTTCCCGTCCATTT 58.911 45.455 0.00 0.00 0.00 2.32
2682 6592 6.418946 ACCTGGTCTCATAGAATTCTTTTCC 58.581 40.000 14.36 8.65 0.00 3.13
2683 6593 7.334858 AGACCTGGTCTCATAGAATTCTTTTC 58.665 38.462 23.49 0.00 38.71 2.29
2684 6594 7.264294 AGACCTGGTCTCATAGAATTCTTTT 57.736 36.000 23.49 0.00 38.71 2.27
2685 6595 6.882768 AGACCTGGTCTCATAGAATTCTTT 57.117 37.500 23.49 2.41 38.71 2.52
2698 6608 2.530701 CTAACCTGTGAGACCTGGTCT 58.469 52.381 28.70 28.70 46.42 3.85
2699 6609 1.066787 GCTAACCTGTGAGACCTGGTC 60.067 57.143 19.20 19.20 35.82 4.02
2700 6610 0.977395 GCTAACCTGTGAGACCTGGT 59.023 55.000 0.00 0.00 38.19 4.00
2701 6611 0.976641 TGCTAACCTGTGAGACCTGG 59.023 55.000 0.00 0.00 0.00 4.45
2702 6612 1.066573 CCTGCTAACCTGTGAGACCTG 60.067 57.143 0.00 0.00 0.00 4.00
2703 6613 1.270907 CCTGCTAACCTGTGAGACCT 58.729 55.000 0.00 0.00 0.00 3.85
2704 6614 0.977395 ACCTGCTAACCTGTGAGACC 59.023 55.000 0.00 0.00 0.00 3.85
2705 6615 1.618837 TCACCTGCTAACCTGTGAGAC 59.381 52.381 0.00 0.00 33.09 3.36
2706 6616 2.009681 TCACCTGCTAACCTGTGAGA 57.990 50.000 0.00 0.00 33.09 3.27
2707 6617 2.376808 CTCACCTGCTAACCTGTGAG 57.623 55.000 4.34 4.34 45.96 3.51
2708 6618 1.618837 GTCTCACCTGCTAACCTGTGA 59.381 52.381 0.00 0.00 36.40 3.58
2709 6619 1.338200 GGTCTCACCTGCTAACCTGTG 60.338 57.143 0.00 0.00 34.73 3.66
2710 6620 0.977395 GGTCTCACCTGCTAACCTGT 59.023 55.000 0.00 0.00 34.73 4.00
2711 6621 0.250513 GGGTCTCACCTGCTAACCTG 59.749 60.000 0.00 0.00 38.64 4.00
2712 6622 0.178903 TGGGTCTCACCTGCTAACCT 60.179 55.000 0.00 0.00 38.64 3.50
2713 6623 0.912486 ATGGGTCTCACCTGCTAACC 59.088 55.000 0.00 0.00 38.64 2.85
2714 6624 1.134371 GGATGGGTCTCACCTGCTAAC 60.134 57.143 0.00 0.00 38.64 2.34
2715 6625 1.204146 GGATGGGTCTCACCTGCTAA 58.796 55.000 0.00 0.00 38.64 3.09
2716 6626 0.339859 AGGATGGGTCTCACCTGCTA 59.660 55.000 0.00 0.00 38.64 3.49
2717 6627 1.081833 AGGATGGGTCTCACCTGCT 59.918 57.895 0.00 0.00 38.64 4.24
2718 6628 1.222936 CAGGATGGGTCTCACCTGC 59.777 63.158 7.99 0.00 42.30 4.85
2720 6630 1.504912 CATCAGGATGGGTCTCACCT 58.495 55.000 1.25 0.00 38.64 4.00
2733 6643 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
2734 6644 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
2735 6645 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
2736 6646 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
2737 6647 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
2738 6648 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
2739 6649 0.447801 GTGAATGCCACGTGTCATCC 59.552 55.000 13.12 0.00 35.86 3.51
2740 6650 3.975992 GTGAATGCCACGTGTCATC 57.024 52.632 13.12 7.23 35.86 2.92
2748 6658 3.184986 GCTTTGTGATTTGTGAATGCCAC 59.815 43.478 0.00 0.00 45.88 5.01
2749 6659 3.181468 TGCTTTGTGATTTGTGAATGCCA 60.181 39.130 0.00 0.00 0.00 4.92
2750 6660 3.391965 TGCTTTGTGATTTGTGAATGCC 58.608 40.909 0.00 0.00 0.00 4.40
2751 6661 5.600908 AATGCTTTGTGATTTGTGAATGC 57.399 34.783 0.00 0.00 0.00 3.56
2752 6662 7.171167 TGGTAAATGCTTTGTGATTTGTGAATG 59.829 33.333 0.00 0.00 0.00 2.67
2753 6663 7.171337 GTGGTAAATGCTTTGTGATTTGTGAAT 59.829 33.333 0.00 0.00 0.00 2.57
2754 6664 6.478344 GTGGTAAATGCTTTGTGATTTGTGAA 59.522 34.615 0.00 0.00 0.00 3.18
2755 6665 5.982516 GTGGTAAATGCTTTGTGATTTGTGA 59.017 36.000 0.00 0.00 0.00 3.58
2756 6666 5.752472 TGTGGTAAATGCTTTGTGATTTGTG 59.248 36.000 0.00 0.00 0.00 3.33
2757 6667 5.752955 GTGTGGTAAATGCTTTGTGATTTGT 59.247 36.000 0.00 0.00 0.00 2.83
2758 6668 5.177327 GGTGTGGTAAATGCTTTGTGATTTG 59.823 40.000 0.00 0.00 0.00 2.32
2759 6669 5.296748 GGTGTGGTAAATGCTTTGTGATTT 58.703 37.500 0.00 0.00 0.00 2.17
2760 6670 4.262420 GGGTGTGGTAAATGCTTTGTGATT 60.262 41.667 0.00 0.00 0.00 2.57
2761 6671 3.258123 GGGTGTGGTAAATGCTTTGTGAT 59.742 43.478 0.00 0.00 0.00 3.06
2762 6672 2.625790 GGGTGTGGTAAATGCTTTGTGA 59.374 45.455 0.00 0.00 0.00 3.58
2763 6673 2.288763 GGGGTGTGGTAAATGCTTTGTG 60.289 50.000 0.00 0.00 0.00 3.33
2764 6674 1.967779 GGGGTGTGGTAAATGCTTTGT 59.032 47.619 0.00 0.00 0.00 2.83
2765 6675 1.275010 GGGGGTGTGGTAAATGCTTTG 59.725 52.381 0.00 0.00 0.00 2.77
2766 6676 1.133009 TGGGGGTGTGGTAAATGCTTT 60.133 47.619 0.00 0.00 0.00 3.51
2767 6677 0.485099 TGGGGGTGTGGTAAATGCTT 59.515 50.000 0.00 0.00 0.00 3.91
2768 6678 0.251608 GTGGGGGTGTGGTAAATGCT 60.252 55.000 0.00 0.00 0.00 3.79
2769 6679 1.254975 GGTGGGGGTGTGGTAAATGC 61.255 60.000 0.00 0.00 0.00 3.56
2770 6680 0.407918 AGGTGGGGGTGTGGTAAATG 59.592 55.000 0.00 0.00 0.00 2.32
2771 6681 0.407918 CAGGTGGGGGTGTGGTAAAT 59.592 55.000 0.00 0.00 0.00 1.40
2772 6682 0.698198 TCAGGTGGGGGTGTGGTAAA 60.698 55.000 0.00 0.00 0.00 2.01
2773 6683 0.698198 TTCAGGTGGGGGTGTGGTAA 60.698 55.000 0.00 0.00 0.00 2.85
2774 6684 0.698198 TTTCAGGTGGGGGTGTGGTA 60.698 55.000 0.00 0.00 0.00 3.25
2775 6685 1.368268 ATTTCAGGTGGGGGTGTGGT 61.368 55.000 0.00 0.00 0.00 4.16
2776 6686 0.611896 GATTTCAGGTGGGGGTGTGG 60.612 60.000 0.00 0.00 0.00 4.17
2777 6687 0.112218 TGATTTCAGGTGGGGGTGTG 59.888 55.000 0.00 0.00 0.00 3.82
2778 6688 0.405585 CTGATTTCAGGTGGGGGTGT 59.594 55.000 0.00 0.00 40.20 4.16
2779 6689 3.271250 CTGATTTCAGGTGGGGGTG 57.729 57.895 0.00 0.00 40.20 4.61
2788 6698 2.191400 TCTGTCCTCCCCTGATTTCAG 58.809 52.381 0.39 0.39 43.40 3.02
2789 6699 2.342406 TCTGTCCTCCCCTGATTTCA 57.658 50.000 0.00 0.00 0.00 2.69
2790 6700 3.941704 AATCTGTCCTCCCCTGATTTC 57.058 47.619 0.00 0.00 29.46 2.17
2791 6701 4.635473 TCTAATCTGTCCTCCCCTGATTT 58.365 43.478 0.00 0.00 33.96 2.17
2792 6702 4.286813 TCTAATCTGTCCTCCCCTGATT 57.713 45.455 0.00 0.00 35.50 2.57
2793 6703 4.500389 ATCTAATCTGTCCTCCCCTGAT 57.500 45.455 0.00 0.00 0.00 2.90
2794 6704 4.420552 AGTATCTAATCTGTCCTCCCCTGA 59.579 45.833 0.00 0.00 0.00 3.86
2795 6705 4.746466 AGTATCTAATCTGTCCTCCCCTG 58.254 47.826 0.00 0.00 0.00 4.45
2796 6706 5.426325 AAGTATCTAATCTGTCCTCCCCT 57.574 43.478 0.00 0.00 0.00 4.79
2797 6707 5.367060 ACAAAGTATCTAATCTGTCCTCCCC 59.633 44.000 0.00 0.00 0.00 4.81
2798 6708 6.098409 TCACAAAGTATCTAATCTGTCCTCCC 59.902 42.308 0.00 0.00 0.00 4.30
2799 6709 7.113658 TCACAAAGTATCTAATCTGTCCTCC 57.886 40.000 0.00 0.00 0.00 4.30
2800 6710 9.606631 AAATCACAAAGTATCTAATCTGTCCTC 57.393 33.333 0.00 0.00 0.00 3.71
2801 6711 9.388506 CAAATCACAAAGTATCTAATCTGTCCT 57.611 33.333 0.00 0.00 0.00 3.85
2802 6712 9.167311 ACAAATCACAAAGTATCTAATCTGTCC 57.833 33.333 0.00 0.00 0.00 4.02
2803 6713 9.979270 CACAAATCACAAAGTATCTAATCTGTC 57.021 33.333 0.00 0.00 0.00 3.51
2804 6714 9.725019 TCACAAATCACAAAGTATCTAATCTGT 57.275 29.630 0.00 0.00 0.00 3.41
2808 6718 9.793252 GCATTCACAAATCACAAAGTATCTAAT 57.207 29.630 0.00 0.00 0.00 1.73
2809 6719 8.243426 GGCATTCACAAATCACAAAGTATCTAA 58.757 33.333 0.00 0.00 0.00 2.10
2810 6720 7.392953 TGGCATTCACAAATCACAAAGTATCTA 59.607 33.333 0.00 0.00 0.00 1.98
2811 6721 6.209192 TGGCATTCACAAATCACAAAGTATCT 59.791 34.615 0.00 0.00 0.00 1.98
2812 6722 6.308766 GTGGCATTCACAAATCACAAAGTATC 59.691 38.462 0.00 0.00 45.39 2.24
2813 6723 6.158598 GTGGCATTCACAAATCACAAAGTAT 58.841 36.000 0.00 0.00 45.39 2.12
2814 6724 5.527951 GTGGCATTCACAAATCACAAAGTA 58.472 37.500 0.00 0.00 45.39 2.24
2815 6725 4.370917 GTGGCATTCACAAATCACAAAGT 58.629 39.130 0.00 0.00 45.39 2.66
2816 6726 3.426191 CGTGGCATTCACAAATCACAAAG 59.574 43.478 0.00 0.00 46.36 2.77
2817 6727 3.181482 ACGTGGCATTCACAAATCACAAA 60.181 39.130 0.00 0.00 46.36 2.83
2818 6728 2.360483 ACGTGGCATTCACAAATCACAA 59.640 40.909 0.00 0.00 46.36 3.33
2819 6729 1.952990 ACGTGGCATTCACAAATCACA 59.047 42.857 0.00 0.00 46.36 3.58
2820 6730 2.287547 ACACGTGGCATTCACAAATCAC 60.288 45.455 21.57 0.00 46.36 3.06
2821 6731 1.952990 ACACGTGGCATTCACAAATCA 59.047 42.857 21.57 0.00 46.36 2.57
2822 6732 2.031245 TGACACGTGGCATTCACAAATC 60.031 45.455 23.03 3.54 46.36 2.17
2823 6733 1.952990 TGACACGTGGCATTCACAAAT 59.047 42.857 23.03 0.00 46.36 2.32
2824 6734 1.383523 TGACACGTGGCATTCACAAA 58.616 45.000 23.03 0.00 46.36 2.83
2825 6735 1.535028 GATGACACGTGGCATTCACAA 59.465 47.619 36.07 8.22 45.42 3.33
2826 6736 1.155889 GATGACACGTGGCATTCACA 58.844 50.000 36.07 9.07 45.42 3.58
2827 6737 0.447801 GGATGACACGTGGCATTCAC 59.552 55.000 36.07 24.74 45.42 3.18
2828 6738 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
2829 6739 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
2830 6740 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
2832 6742 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
2833 6743 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
2834 6744 0.462581 CCCTGATGGATGACACGTGG 60.463 60.000 21.57 1.66 35.39 4.94
2835 6745 1.091771 GCCCTGATGGATGACACGTG 61.092 60.000 15.48 15.48 35.39 4.49
2836 6746 1.221840 GCCCTGATGGATGACACGT 59.778 57.895 0.00 0.00 35.39 4.49
2837 6747 1.884464 CGCCCTGATGGATGACACG 60.884 63.158 0.00 0.00 35.39 4.49
2838 6748 1.524621 CCGCCCTGATGGATGACAC 60.525 63.158 0.00 0.00 35.39 3.67
2839 6749 2.745308 CCCGCCCTGATGGATGACA 61.745 63.158 0.00 0.00 35.39 3.58
2840 6750 2.111878 CCCGCCCTGATGGATGAC 59.888 66.667 0.00 0.00 35.39 3.06
2841 6751 2.366837 ACCCGCCCTGATGGATGA 60.367 61.111 0.00 0.00 35.39 2.92
2842 6752 2.111878 GACCCGCCCTGATGGATG 59.888 66.667 0.00 0.00 35.39 3.51
2843 6753 2.040464 AGACCCGCCCTGATGGAT 60.040 61.111 0.00 0.00 35.39 3.41
2844 6754 2.764128 GAGACCCGCCCTGATGGA 60.764 66.667 0.00 0.00 35.39 3.41
2845 6755 3.083349 TGAGACCCGCCCTGATGG 61.083 66.667 0.00 0.00 37.09 3.51
2846 6756 2.187946 GTGAGACCCGCCCTGATG 59.812 66.667 0.00 0.00 0.00 3.07
2847 6757 3.461773 CGTGAGACCCGCCCTGAT 61.462 66.667 0.00 0.00 0.00 2.90
2848 6758 4.988716 ACGTGAGACCCGCCCTGA 62.989 66.667 0.00 0.00 0.00 3.86
2849 6759 4.742201 CACGTGAGACCCGCCCTG 62.742 72.222 10.90 0.00 0.00 4.45
2852 6762 2.775032 TAAAGCACGTGAGACCCGCC 62.775 60.000 22.23 0.00 0.00 6.13
2853 6763 0.739813 ATAAAGCACGTGAGACCCGC 60.740 55.000 22.23 0.76 0.00 6.13
2854 6764 2.572191 TATAAAGCACGTGAGACCCG 57.428 50.000 22.23 0.00 0.00 5.28
2855 6765 4.051922 CTCATATAAAGCACGTGAGACCC 58.948 47.826 22.23 0.00 38.81 4.46
2856 6766 4.933330 TCTCATATAAAGCACGTGAGACC 58.067 43.478 22.23 0.35 40.06 3.85
2858 6768 4.645136 AGGTCTCATATAAAGCACGTGAGA 59.355 41.667 22.23 6.73 41.99 3.27
2859 6769 4.742167 CAGGTCTCATATAAAGCACGTGAG 59.258 45.833 22.23 4.08 38.07 3.51
2860 6770 4.441495 CCAGGTCTCATATAAAGCACGTGA 60.441 45.833 22.23 0.00 0.00 4.35
2861 6771 3.804325 CCAGGTCTCATATAAAGCACGTG 59.196 47.826 12.28 12.28 0.00 4.49
2862 6772 3.451178 ACCAGGTCTCATATAAAGCACGT 59.549 43.478 0.00 0.00 0.00 4.49
2863 6773 4.051922 GACCAGGTCTCATATAAAGCACG 58.948 47.826 12.94 0.00 0.00 5.34
2864 6774 5.283457 AGACCAGGTCTCATATAAAGCAC 57.717 43.478 17.31 0.00 38.71 4.40
2896 6806 7.514473 ACCTTCCACCAAATATAAAGGGAAAAA 59.486 33.333 0.00 0.00 38.04 1.94
2897 6807 7.020009 ACCTTCCACCAAATATAAAGGGAAAA 58.980 34.615 0.00 0.00 38.04 2.29
2898 6808 6.439058 CACCTTCCACCAAATATAAAGGGAAA 59.561 38.462 0.00 0.00 38.04 3.13
2899 6809 5.955355 CACCTTCCACCAAATATAAAGGGAA 59.045 40.000 0.00 0.00 38.04 3.97
2900 6810 5.515106 CACCTTCCACCAAATATAAAGGGA 58.485 41.667 0.00 0.00 38.04 4.20
2901 6811 4.649218 CCACCTTCCACCAAATATAAAGGG 59.351 45.833 0.00 0.00 38.04 3.95
2902 6812 5.515106 TCCACCTTCCACCAAATATAAAGG 58.485 41.667 0.00 0.00 39.32 3.11
2903 6813 6.423182 TCTCCACCTTCCACCAAATATAAAG 58.577 40.000 0.00 0.00 0.00 1.85
2904 6814 6.395780 TCTCCACCTTCCACCAAATATAAA 57.604 37.500 0.00 0.00 0.00 1.40
2905 6815 6.590656 ATCTCCACCTTCCACCAAATATAA 57.409 37.500 0.00 0.00 0.00 0.98
2906 6816 6.590656 AATCTCCACCTTCCACCAAATATA 57.409 37.500 0.00 0.00 0.00 0.86
2907 6817 5.472301 AATCTCCACCTTCCACCAAATAT 57.528 39.130 0.00 0.00 0.00 1.28
2908 6818 4.946160 AATCTCCACCTTCCACCAAATA 57.054 40.909 0.00 0.00 0.00 1.40
2909 6819 3.833559 AATCTCCACCTTCCACCAAAT 57.166 42.857 0.00 0.00 0.00 2.32
2910 6820 3.611025 AAATCTCCACCTTCCACCAAA 57.389 42.857 0.00 0.00 0.00 3.28
2911 6821 3.611025 AAAATCTCCACCTTCCACCAA 57.389 42.857 0.00 0.00 0.00 3.67
2922 6832 6.318648 GGATGTAGTGCAATGTAAAATCTCCA 59.681 38.462 0.00 0.00 0.00 3.86
2935 6845 3.788227 AAGTTCAGGGATGTAGTGCAA 57.212 42.857 0.00 0.00 0.00 4.08
2972 6882 0.392595 GGACGGGCGAAAGAGGAAAT 60.393 55.000 0.00 0.00 0.00 2.17
3033 6944 0.170339 GTTATTGTTGGAGCCACGGC 59.830 55.000 0.00 0.00 42.33 5.68
3071 6989 0.460284 CCCACGAGGAAATGAGACGG 60.460 60.000 0.00 0.00 38.24 4.79
3143 7061 7.789026 ACATGACTCTCTCATCATATGTTTCA 58.211 34.615 0.00 0.00 37.53 2.69
3154 7072 6.352516 GGTAAAATGGACATGACTCTCTCAT 58.647 40.000 0.00 0.00 40.59 2.90
3157 7075 4.785376 AGGGTAAAATGGACATGACTCTCT 59.215 41.667 0.00 0.00 0.00 3.10



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

AutoCloner maintained by Alex Coulton.