Multiple sequence alignment - TraesCS7A01G093800

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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 TraesCS7A01G093800 chr7A 100.000 3299 0 0 1 3299 57220204 57216906 0.000000e+00 6093
1 TraesCS7A01G093800 chr4A 91.934 2430 140 28 1 2407 668851861 668854257 0.000000e+00 3350
2 TraesCS7A01G093800 chr4A 93.146 1532 55 11 724 2249 669466615 669468102 0.000000e+00 2202
3 TraesCS7A01G093800 chr4A 89.191 1434 116 17 903 2331 707177748 707179147 0.000000e+00 1753
4 TraesCS7A01G093800 chr4A 89.191 1434 116 17 903 2331 707201273 707202672 0.000000e+00 1753
5 TraesCS7A01G093800 chr4A 91.748 1236 95 5 959 2189 707478301 707477068 0.000000e+00 1711
6 TraesCS7A01G093800 chr4A 88.569 1426 125 21 903 2322 707402822 707404215 0.000000e+00 1696
7 TraesCS7A01G093800 chr4A 88.293 1435 130 18 903 2331 705889350 705890752 0.000000e+00 1685
8 TraesCS7A01G093800 chr4A 91.592 559 39 1 2493 3051 668855570 668856120 0.000000e+00 765
9 TraesCS7A01G093800 chr4A 89.088 559 53 1 2493 3051 668710997 668711547 0.000000e+00 688
10 TraesCS7A01G093800 chr4A 85.868 559 48 2 2493 3051 669001736 669002263 1.720000e-157 566
11 TraesCS7A01G093800 chr4A 87.042 409 35 6 2493 2901 668789480 668789090 2.340000e-121 446
12 TraesCS7A01G093800 chr4A 86.179 369 41 2 2533 2901 669483368 669483726 1.110000e-104 390
13 TraesCS7A01G093800 chr4A 88.400 250 10 4 724 972 668792346 668792115 1.940000e-72 283
14 TraesCS7A01G093800 chr4A 86.607 224 26 2 2244 2463 669482959 669483182 9.140000e-61 244
15 TraesCS7A01G093800 chr4A 91.304 115 10 0 55 169 668702708 668702822 1.230000e-34 158
16 TraesCS7A01G093800 chr4A 89.381 113 12 0 57 169 668792864 668792752 3.430000e-30 143
17 TraesCS7A01G093800 chr7D 95.912 1639 47 5 724 2359 53793488 53791867 0.000000e+00 2638
18 TraesCS7A01G093800 chr7D 93.023 559 31 1 2493 3051 53788415 53787865 0.000000e+00 809
19 TraesCS7A01G093800 chr7D 89.744 117 10 1 55 169 53793600 53793484 7.380000e-32 148
20 TraesCS7A01G093800 chr7D 88.298 94 11 0 55 148 53962638 53962731 2.690000e-21 113
21 TraesCS7A01G093800 chrUn 90.560 1197 108 3 951 2143 220054959 220056154 0.000000e+00 1580
22 TraesCS7A01G093800 chr2B 84.130 523 55 16 2534 3032 777778266 777777748 6.400000e-132 481


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 TraesCS7A01G093800 chr7A 57216906 57220204 3298 True 6093.000000 6093 100.000000 1 3299 1 chr7A.!!$R1 3298
1 TraesCS7A01G093800 chr4A 669466615 669468102 1487 False 2202.000000 2202 93.146000 724 2249 1 chr4A.!!$F4 1525
2 TraesCS7A01G093800 chr4A 668851861 668856120 4259 False 2057.500000 3350 91.763000 1 3051 2 chr4A.!!$F9 3050
3 TraesCS7A01G093800 chr4A 707177748 707179147 1399 False 1753.000000 1753 89.191000 903 2331 1 chr4A.!!$F6 1428
4 TraesCS7A01G093800 chr4A 707201273 707202672 1399 False 1753.000000 1753 89.191000 903 2331 1 chr4A.!!$F7 1428
5 TraesCS7A01G093800 chr4A 707477068 707478301 1233 True 1711.000000 1711 91.748000 959 2189 1 chr4A.!!$R1 1230
6 TraesCS7A01G093800 chr4A 707402822 707404215 1393 False 1696.000000 1696 88.569000 903 2322 1 chr4A.!!$F8 1419
7 TraesCS7A01G093800 chr4A 705889350 705890752 1402 False 1685.000000 1685 88.293000 903 2331 1 chr4A.!!$F5 1428
8 TraesCS7A01G093800 chr4A 668710997 668711547 550 False 688.000000 688 89.088000 2493 3051 1 chr4A.!!$F2 558
9 TraesCS7A01G093800 chr4A 669001736 669002263 527 False 566.000000 566 85.868000 2493 3051 1 chr4A.!!$F3 558
10 TraesCS7A01G093800 chr4A 669482959 669483726 767 False 317.000000 390 86.393000 2244 2901 2 chr4A.!!$F10 657
11 TraesCS7A01G093800 chr4A 668789090 668792864 3774 True 290.666667 446 88.274333 57 2901 3 chr4A.!!$R2 2844
12 TraesCS7A01G093800 chr7D 53787865 53793600 5735 True 1198.333333 2638 92.893000 55 3051 3 chr7D.!!$R1 2996
13 TraesCS7A01G093800 chrUn 220054959 220056154 1195 False 1580.000000 1580 90.560000 951 2143 1 chrUn.!!$F1 1192
14 TraesCS7A01G093800 chr2B 777777748 777778266 518 True 481.000000 481 84.130000 2534 3032 1 chr2B.!!$R1 498

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
594 686 0.179192 CACCCAATGCAACATCGACG 60.179 55.0 0.0 0.0 0.00 5.12 F
1578 2883 2.096909 CCACGAAGTCAACAACGACATC 60.097 50.0 0.0 0.0 41.61 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2216 3548 0.608130 AGCGTTACCAGCAGTCATCA 59.392 50.0 0.0 0.0 37.01 3.07 R
3127 8936 0.030235 GGTTCACGTTTCCTTGGCAC 59.970 55.0 0.0 0.0 0.00 5.01 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
94 96 3.257393 GGTCATCCATAATAGCTGCGAG 58.743 50.000 0.00 0.00 0.00 5.03
102 104 0.464554 AATAGCTGCGAGAAAGGGGC 60.465 55.000 0.00 0.00 0.00 5.80
103 105 2.650813 ATAGCTGCGAGAAAGGGGCG 62.651 60.000 0.00 0.00 0.00 6.13
169 173 2.087501 TGAACGCATGGTCGTACAAT 57.912 45.000 0.00 0.00 42.46 2.71
170 174 1.729517 TGAACGCATGGTCGTACAATG 59.270 47.619 0.00 0.00 42.46 2.82
171 175 0.446222 AACGCATGGTCGTACAATGC 59.554 50.000 13.99 13.99 42.46 3.56
174 178 1.529622 CGCATGGTCGTACAATGCTTG 60.530 52.381 18.80 6.75 36.22 4.01
175 179 1.737236 GCATGGTCGTACAATGCTTGA 59.263 47.619 15.77 0.00 35.55 3.02
176 180 2.161410 GCATGGTCGTACAATGCTTGAA 59.839 45.455 15.77 0.00 35.55 2.69
177 181 3.365868 GCATGGTCGTACAATGCTTGAAA 60.366 43.478 15.77 0.00 35.55 2.69
187 194 6.910433 CGTACAATGCTTGAAATACATTACCC 59.090 38.462 0.00 0.00 32.89 3.69
196 203 7.094377 GCTTGAAATACATTACCCACTCAAGAA 60.094 37.037 11.56 0.00 40.48 2.52
203 210 4.967084 TTACCCACTCAAGAAGCAACTA 57.033 40.909 0.00 0.00 0.00 2.24
242 249 5.420409 ACTCTTTTCGAACTGACAAAGAGT 58.580 37.500 24.73 24.73 46.26 3.24
253 260 2.031769 TGACAAAGAGTGAAATGCTGCG 60.032 45.455 0.00 0.00 0.00 5.18
262 269 1.000385 TGAAATGCTGCGAAGGTTTGG 60.000 47.619 0.00 0.00 0.00 3.28
292 353 1.267806 CCATTTGCTCGTGCCATATCC 59.732 52.381 7.05 0.00 38.71 2.59
310 394 3.616956 TCCTCCATGCACTTACAGAAG 57.383 47.619 0.00 0.00 38.76 2.85
383 468 9.739276 TCATTGTATCAACCTGTCTAGATTTTT 57.261 29.630 0.00 0.00 0.00 1.94
466 551 4.981794 GCACGTGCCAAGACTATTAATTT 58.018 39.130 30.12 0.00 34.31 1.82
477 562 9.065871 CCAAGACTATTAATTTTCGCTCAAAAG 57.934 33.333 0.00 0.00 37.40 2.27
494 579 7.148820 CGCTCAAAAGAAGAAGAACAAAACAAA 60.149 33.333 0.00 0.00 0.00 2.83
537 629 3.126343 CAGAAATGGTTAACGGGTGCTAC 59.874 47.826 0.00 0.00 0.00 3.58
563 655 3.855255 ACCCAAATCAAACCCTTTTGG 57.145 42.857 6.67 6.67 45.78 3.28
566 658 3.140623 CCAAATCAAACCCTTTTGGCAG 58.859 45.455 1.13 0.00 41.94 4.85
577 669 1.391157 TTTTGGCAGCAGGTGGTCAC 61.391 55.000 0.86 0.00 0.00 3.67
594 686 0.179192 CACCCAATGCAACATCGACG 60.179 55.000 0.00 0.00 0.00 5.12
660 753 2.223711 GCAACGGTAAAGCCATAATGGG 60.224 50.000 0.00 0.00 38.19 4.00
673 766 7.574021 AGCCATAATGGGATAAGATCTAACA 57.426 36.000 0.00 0.00 38.19 2.41
682 775 8.964476 TGGGATAAGATCTAACAGAAAATGAC 57.036 34.615 0.00 0.00 0.00 3.06
693 786 8.859090 TCTAACAGAAAATGACATTTGACCATT 58.141 29.630 14.05 8.11 31.77 3.16
694 787 9.480053 CTAACAGAAAATGACATTTGACCATTT 57.520 29.630 14.05 6.20 40.86 2.32
696 789 8.816640 ACAGAAAATGACATTTGACCATTTAC 57.183 30.769 14.05 0.00 38.94 2.01
697 790 7.594758 ACAGAAAATGACATTTGACCATTTACG 59.405 33.333 14.05 0.00 38.94 3.18
698 791 6.586082 AGAAAATGACATTTGACCATTTACGC 59.414 34.615 14.05 8.08 38.94 4.42
699 792 3.463533 TGACATTTGACCATTTACGCG 57.536 42.857 3.53 3.53 0.00 6.01
700 793 2.809119 TGACATTTGACCATTTACGCGT 59.191 40.909 19.17 19.17 0.00 6.01
701 794 3.160545 GACATTTGACCATTTACGCGTG 58.839 45.455 24.59 7.05 0.00 5.34
756 857 9.247861 ACTTGGTCTCTTTCAAAGCATATTTAT 57.752 29.630 0.00 0.00 0.00 1.40
825 943 8.731591 TTTCTAAGGAAAACTCTTCTACCCTA 57.268 34.615 0.00 0.00 38.35 3.53
835 953 8.472007 AAACTCTTCTACCCTATAGTCTGATG 57.528 38.462 0.00 0.00 0.00 3.07
900 1018 5.105106 TCCGAATCTCATTAGTAAAGTGCCA 60.105 40.000 0.00 0.00 0.00 4.92
1578 2883 2.096909 CCACGAAGTCAACAACGACATC 60.097 50.000 0.00 0.00 41.61 3.06
2268 3600 1.952296 CCATTATCTGCTGCAGTTCCC 59.048 52.381 27.24 0.00 32.61 3.97
2273 3605 1.673665 CTGCTGCAGTTCCCTGGAC 60.674 63.158 21.21 0.00 39.22 4.02
2333 3665 6.039616 GCCTGATAACGCAAAAATAAATGGA 58.960 36.000 0.00 0.00 0.00 3.41
2338 3741 8.428536 TGATAACGCAAAAATAAATGGAAAACG 58.571 29.630 0.00 0.00 0.00 3.60
2357 3764 6.903883 AAACGCTTATATACAGTTGTCTGG 57.096 37.500 0.47 0.00 45.14 3.86
2370 3777 6.655930 ACAGTTGTCTGGTAGGAAACTTTTA 58.344 36.000 0.47 0.00 45.14 1.52
2398 3805 0.097674 GTCATGTGCCGTTGATGCTC 59.902 55.000 0.00 0.00 0.00 4.26
2407 3814 2.636830 CCGTTGATGCTCTTCCAATCT 58.363 47.619 0.00 0.00 0.00 2.40
2414 3821 0.391661 GCTCTTCCAATCTCGTGGCA 60.392 55.000 0.00 0.00 38.68 4.92
2426 4935 7.602644 TCCAATCTCGTGGCATATATTTCTAAC 59.397 37.037 0.00 0.00 38.68 2.34
2428 4937 5.790593 TCTCGTGGCATATATTTCTAACCC 58.209 41.667 0.00 0.00 0.00 4.11
2429 4938 5.305902 TCTCGTGGCATATATTTCTAACCCA 59.694 40.000 0.00 0.00 0.00 4.51
2437 4980 2.990740 ATTTCTAACCCAACTGCCCA 57.009 45.000 0.00 0.00 0.00 5.36
2438 4981 2.757894 TTTCTAACCCAACTGCCCAA 57.242 45.000 0.00 0.00 0.00 4.12
2439 4982 2.757894 TTCTAACCCAACTGCCCAAA 57.242 45.000 0.00 0.00 0.00 3.28
2440 4983 2.990740 TCTAACCCAACTGCCCAAAT 57.009 45.000 0.00 0.00 0.00 2.32
2441 4984 4.390129 TTCTAACCCAACTGCCCAAATA 57.610 40.909 0.00 0.00 0.00 1.40
2442 4985 4.390129 TCTAACCCAACTGCCCAAATAA 57.610 40.909 0.00 0.00 0.00 1.40
2444 4987 3.762407 AACCCAACTGCCCAAATAAAC 57.238 42.857 0.00 0.00 0.00 2.01
2452 8083 4.415596 ACTGCCCAAATAAACCTGATTCA 58.584 39.130 0.00 0.00 0.00 2.57
2471 8216 4.649088 TCAAGAAAATCTCTCCGCGATA 57.351 40.909 8.23 0.00 31.02 2.92
2472 8217 4.360563 TCAAGAAAATCTCTCCGCGATAC 58.639 43.478 8.23 0.00 31.02 2.24
2525 8283 0.764890 ACAACTGCTTCAGGTAGCCA 59.235 50.000 0.00 0.00 40.49 4.75
2526 8284 1.271054 ACAACTGCTTCAGGTAGCCAG 60.271 52.381 0.00 0.00 40.49 4.85
2527 8285 1.059913 AACTGCTTCAGGTAGCCAGT 58.940 50.000 0.00 0.00 40.49 4.00
2528 8286 0.322975 ACTGCTTCAGGTAGCCAGTG 59.677 55.000 0.77 0.00 40.49 3.66
2529 8287 1.003355 TGCTTCAGGTAGCCAGTGC 60.003 57.895 0.00 0.00 40.49 4.40
2597 8355 2.111932 CTCTCTCCGATGACCTCGCG 62.112 65.000 0.00 0.00 46.25 5.87
2623 8381 2.671177 CGCCGTCTTGCTTCACCAG 61.671 63.158 0.00 0.00 0.00 4.00
2638 8396 0.341961 ACCAGTAGGACCATGCCCTA 59.658 55.000 7.72 7.72 38.69 3.53
2644 8402 0.341961 AGGACCATGCCCTACTACCA 59.658 55.000 3.35 0.00 30.92 3.25
2667 8447 0.035820 TCCCCATCACGCTGGTAAAC 60.036 55.000 0.00 0.00 34.23 2.01
2790 8599 4.631131 TGTTCATATCTTGATTCGGCGAT 58.369 39.130 11.76 0.10 33.34 4.58
2805 8614 1.399727 GGCGATTTTTCACAGGTGTCG 60.400 52.381 0.00 2.56 0.00 4.35
2836 8645 3.512329 TGTCCGTTGTGTACACCATATCT 59.488 43.478 22.91 0.00 0.00 1.98
2840 8649 5.653330 TCCGTTGTGTACACCATATCTTCTA 59.347 40.000 22.91 0.00 0.00 2.10
2842 8651 6.327154 CGTTGTGTACACCATATCTTCTACA 58.673 40.000 22.91 0.00 0.00 2.74
2955 8764 3.816994 AGTTCTGTTCCCAAAGTACCAC 58.183 45.455 0.00 0.00 0.00 4.16
3055 8864 7.581011 ATTTCTTTTTGTATCCATTTCGTGC 57.419 32.000 0.00 0.00 0.00 5.34
3056 8865 5.054390 TCTTTTTGTATCCATTTCGTGCC 57.946 39.130 0.00 0.00 0.00 5.01
3057 8866 4.764823 TCTTTTTGTATCCATTTCGTGCCT 59.235 37.500 0.00 0.00 0.00 4.75
3058 8867 4.695217 TTTTGTATCCATTTCGTGCCTC 57.305 40.909 0.00 0.00 0.00 4.70
3059 8868 1.934589 TGTATCCATTTCGTGCCTCG 58.065 50.000 0.00 0.00 41.41 4.63
3060 8869 0.582005 GTATCCATTTCGTGCCTCGC 59.418 55.000 0.00 0.00 39.67 5.03
3061 8870 0.176910 TATCCATTTCGTGCCTCGCA 59.823 50.000 0.00 0.00 39.67 5.10
3062 8871 1.091771 ATCCATTTCGTGCCTCGCAG 61.092 55.000 0.00 0.00 40.08 5.18
3063 8872 2.753966 CCATTTCGTGCCTCGCAGG 61.754 63.158 0.00 0.00 44.42 4.85
3064 8873 2.034879 CATTTCGTGCCTCGCAGGT 61.035 57.895 6.25 0.00 43.65 4.00
3065 8874 1.302511 ATTTCGTGCCTCGCAGGTT 60.303 52.632 6.25 0.00 43.65 3.50
3066 8875 1.298859 ATTTCGTGCCTCGCAGGTTC 61.299 55.000 6.25 0.00 43.65 3.62
3067 8876 4.717629 TCGTGCCTCGCAGGTTCG 62.718 66.667 6.25 8.58 43.65 3.95
3068 8877 4.717629 CGTGCCTCGCAGGTTCGA 62.718 66.667 11.93 0.00 40.08 3.71
3069 8878 3.112709 GTGCCTCGCAGGTTCGAC 61.113 66.667 4.45 0.00 40.08 4.20
3070 8879 4.717629 TGCCTCGCAGGTTCGACG 62.718 66.667 4.45 0.00 37.80 5.12
3094 8903 3.434452 GTACGTACGATCGAGCAGG 57.566 57.895 24.34 13.67 34.70 4.85
3095 8904 0.933097 GTACGTACGATCGAGCAGGA 59.067 55.000 24.34 3.71 34.70 3.86
3096 8905 1.328680 GTACGTACGATCGAGCAGGAA 59.671 52.381 24.34 0.00 34.70 3.36
3097 8906 0.806868 ACGTACGATCGAGCAGGAAA 59.193 50.000 24.34 0.00 34.70 3.13
3098 8907 1.189403 CGTACGATCGAGCAGGAAAC 58.811 55.000 24.34 5.50 0.00 2.78
3099 8908 1.189403 GTACGATCGAGCAGGAAACG 58.811 55.000 24.34 0.00 0.00 3.60
3100 8909 0.524816 TACGATCGAGCAGGAAACGC 60.525 55.000 24.34 0.00 0.00 4.84
3101 8910 1.805539 CGATCGAGCAGGAAACGCA 60.806 57.895 10.26 0.00 33.30 5.24
3102 8911 1.148157 CGATCGAGCAGGAAACGCAT 61.148 55.000 10.26 0.00 33.30 4.73
3103 8912 1.009829 GATCGAGCAGGAAACGCATT 58.990 50.000 0.00 0.00 33.30 3.56
3104 8913 1.004504 GATCGAGCAGGAAACGCATTC 60.005 52.381 0.00 0.00 37.31 2.67
3105 8914 0.037326 TCGAGCAGGAAACGCATTCT 60.037 50.000 2.09 0.00 38.18 2.40
3106 8915 0.798776 CGAGCAGGAAACGCATTCTT 59.201 50.000 2.09 0.00 38.18 2.52
3107 8916 1.197721 CGAGCAGGAAACGCATTCTTT 59.802 47.619 2.09 0.00 38.18 2.52
3108 8917 2.726066 CGAGCAGGAAACGCATTCTTTC 60.726 50.000 2.09 0.00 38.18 2.62
3109 8918 2.226437 GAGCAGGAAACGCATTCTTTCA 59.774 45.455 2.09 0.00 38.18 2.69
3110 8919 2.821969 AGCAGGAAACGCATTCTTTCAT 59.178 40.909 2.09 0.00 38.18 2.57
3111 8920 3.256631 AGCAGGAAACGCATTCTTTCATT 59.743 39.130 2.09 0.00 38.18 2.57
3112 8921 3.609807 GCAGGAAACGCATTCTTTCATTC 59.390 43.478 2.09 0.00 38.18 2.67
3113 8922 4.797471 CAGGAAACGCATTCTTTCATTCA 58.203 39.130 2.09 0.00 38.18 2.57
3114 8923 5.404946 CAGGAAACGCATTCTTTCATTCAT 58.595 37.500 2.09 0.00 38.18 2.57
3115 8924 5.287752 CAGGAAACGCATTCTTTCATTCATG 59.712 40.000 2.09 0.00 38.18 3.07
3116 8925 5.047802 AGGAAACGCATTCTTTCATTCATGT 60.048 36.000 0.00 0.00 38.18 3.21
3117 8926 5.061311 GGAAACGCATTCTTTCATTCATGTG 59.939 40.000 0.00 0.00 38.18 3.21
3118 8927 3.504863 ACGCATTCTTTCATTCATGTGC 58.495 40.909 0.00 0.00 31.53 4.57
3119 8928 2.528688 CGCATTCTTTCATTCATGTGCG 59.471 45.455 5.76 5.76 46.15 5.34
3120 8929 3.504863 GCATTCTTTCATTCATGTGCGT 58.495 40.909 0.00 0.00 0.00 5.24
3121 8930 3.302434 GCATTCTTTCATTCATGTGCGTG 59.698 43.478 0.00 0.00 0.00 5.34
3122 8931 2.617250 TCTTTCATTCATGTGCGTGC 57.383 45.000 0.00 0.00 0.00 5.34
3123 8932 1.136000 TCTTTCATTCATGTGCGTGCG 60.136 47.619 0.00 0.00 0.00 5.34
3124 8933 0.590682 TTTCATTCATGTGCGTGCGT 59.409 45.000 0.00 0.00 0.00 5.24
3125 8934 0.110283 TTCATTCATGTGCGTGCGTG 60.110 50.000 0.00 0.00 0.00 5.34
3126 8935 2.147749 CATTCATGTGCGTGCGTGC 61.148 57.895 0.00 0.00 0.00 5.34
3127 8936 3.649896 ATTCATGTGCGTGCGTGCG 62.650 57.895 0.00 0.00 37.81 5.34
3138 8947 3.959975 GCGTGCGTGCCAAGGAAA 61.960 61.111 0.00 0.00 0.00 3.13
3139 8948 2.051345 CGTGCGTGCCAAGGAAAC 60.051 61.111 0.00 0.00 0.00 2.78
3140 8949 2.051345 GTGCGTGCCAAGGAAACG 60.051 61.111 9.55 9.55 40.22 3.60
3141 8950 2.515057 TGCGTGCCAAGGAAACGT 60.515 55.556 13.77 0.00 39.45 3.99
3142 8951 2.051345 GCGTGCCAAGGAAACGTG 60.051 61.111 13.77 0.00 39.45 4.49
3143 8952 2.539338 GCGTGCCAAGGAAACGTGA 61.539 57.895 13.77 0.00 42.98 4.35
3144 8953 2.018544 CGTGCCAAGGAAACGTGAA 58.981 52.632 0.00 0.00 42.98 3.18
3145 8954 0.316689 CGTGCCAAGGAAACGTGAAC 60.317 55.000 0.00 0.00 42.98 3.18
3146 8955 0.030235 GTGCCAAGGAAACGTGAACC 59.970 55.000 0.00 0.00 42.98 3.62
3147 8956 0.106918 TGCCAAGGAAACGTGAACCT 60.107 50.000 0.00 0.00 42.98 3.50
3148 8957 0.591659 GCCAAGGAAACGTGAACCTC 59.408 55.000 8.50 0.00 42.98 3.85
3149 8958 1.235724 CCAAGGAAACGTGAACCTCC 58.764 55.000 8.50 1.80 42.98 4.30
3150 8959 0.865769 CAAGGAAACGTGAACCTCCG 59.134 55.000 8.50 1.53 42.98 4.63
3151 8960 0.754472 AAGGAAACGTGAACCTCCGA 59.246 50.000 8.50 0.00 33.16 4.55
3152 8961 0.033090 AGGAAACGTGAACCTCCGAC 59.967 55.000 0.00 0.00 32.91 4.79
3153 8962 0.249573 GGAAACGTGAACCTCCGACA 60.250 55.000 0.00 0.00 0.00 4.35
3154 8963 0.857287 GAAACGTGAACCTCCGACAC 59.143 55.000 0.00 0.00 0.00 3.67
3155 8964 0.531311 AAACGTGAACCTCCGACACC 60.531 55.000 0.00 0.00 0.00 4.16
3156 8965 2.048503 CGTGAACCTCCGACACCC 60.049 66.667 0.00 0.00 0.00 4.61
3157 8966 2.863346 CGTGAACCTCCGACACCCA 61.863 63.158 0.00 0.00 0.00 4.51
3158 8967 1.677552 GTGAACCTCCGACACCCAT 59.322 57.895 0.00 0.00 0.00 4.00
3159 8968 0.673644 GTGAACCTCCGACACCCATG 60.674 60.000 0.00 0.00 0.00 3.66
3160 8969 0.834261 TGAACCTCCGACACCCATGA 60.834 55.000 0.00 0.00 0.00 3.07
3161 8970 0.323629 GAACCTCCGACACCCATGAA 59.676 55.000 0.00 0.00 0.00 2.57
3162 8971 0.324943 AACCTCCGACACCCATGAAG 59.675 55.000 0.00 0.00 0.00 3.02
3163 8972 0.544357 ACCTCCGACACCCATGAAGA 60.544 55.000 0.00 0.00 0.00 2.87
3164 8973 0.613260 CCTCCGACACCCATGAAGAA 59.387 55.000 0.00 0.00 0.00 2.52
3165 8974 1.406069 CCTCCGACACCCATGAAGAAG 60.406 57.143 0.00 0.00 0.00 2.85
3166 8975 1.550524 CTCCGACACCCATGAAGAAGA 59.449 52.381 0.00 0.00 0.00 2.87
3167 8976 1.974957 TCCGACACCCATGAAGAAGAA 59.025 47.619 0.00 0.00 0.00 2.52
3168 8977 2.028112 TCCGACACCCATGAAGAAGAAG 60.028 50.000 0.00 0.00 0.00 2.85
3169 8978 1.734465 CGACACCCATGAAGAAGAAGC 59.266 52.381 0.00 0.00 0.00 3.86
3170 8979 2.783135 GACACCCATGAAGAAGAAGCA 58.217 47.619 0.00 0.00 0.00 3.91
3171 8980 2.746362 GACACCCATGAAGAAGAAGCAG 59.254 50.000 0.00 0.00 0.00 4.24
3172 8981 2.373169 ACACCCATGAAGAAGAAGCAGA 59.627 45.455 0.00 0.00 0.00 4.26
3173 8982 3.008330 CACCCATGAAGAAGAAGCAGAG 58.992 50.000 0.00 0.00 0.00 3.35
3174 8983 2.909006 ACCCATGAAGAAGAAGCAGAGA 59.091 45.455 0.00 0.00 0.00 3.10
3175 8984 3.328931 ACCCATGAAGAAGAAGCAGAGAA 59.671 43.478 0.00 0.00 0.00 2.87
3176 8985 3.940221 CCCATGAAGAAGAAGCAGAGAAG 59.060 47.826 0.00 0.00 0.00 2.85
3177 8986 4.323333 CCCATGAAGAAGAAGCAGAGAAGA 60.323 45.833 0.00 0.00 0.00 2.87
3178 8987 4.630940 CCATGAAGAAGAAGCAGAGAAGAC 59.369 45.833 0.00 0.00 0.00 3.01
3179 8988 3.906998 TGAAGAAGAAGCAGAGAAGACG 58.093 45.455 0.00 0.00 0.00 4.18
3180 8989 3.570125 TGAAGAAGAAGCAGAGAAGACGA 59.430 43.478 0.00 0.00 0.00 4.20
3181 8990 4.219507 TGAAGAAGAAGCAGAGAAGACGAT 59.780 41.667 0.00 0.00 0.00 3.73
3182 8991 4.108699 AGAAGAAGCAGAGAAGACGATG 57.891 45.455 0.00 0.00 0.00 3.84
3183 8992 2.957491 AGAAGCAGAGAAGACGATGG 57.043 50.000 0.00 0.00 0.00 3.51
3184 8993 2.451490 AGAAGCAGAGAAGACGATGGA 58.549 47.619 0.00 0.00 0.00 3.41
3185 8994 2.828520 AGAAGCAGAGAAGACGATGGAA 59.171 45.455 0.00 0.00 0.00 3.53
3186 8995 3.259374 AGAAGCAGAGAAGACGATGGAAA 59.741 43.478 0.00 0.00 0.00 3.13
3187 8996 3.685139 AGCAGAGAAGACGATGGAAAA 57.315 42.857 0.00 0.00 0.00 2.29
3188 8997 3.330267 AGCAGAGAAGACGATGGAAAAC 58.670 45.455 0.00 0.00 0.00 2.43
3189 8998 2.092838 GCAGAGAAGACGATGGAAAACG 59.907 50.000 0.00 0.00 0.00 3.60
3190 8999 2.092838 CAGAGAAGACGATGGAAAACGC 59.907 50.000 0.00 0.00 0.00 4.84
3191 9000 1.059264 GAGAAGACGATGGAAAACGCG 59.941 52.381 3.53 3.53 0.00 6.01
3192 9001 1.065358 GAAGACGATGGAAAACGCGA 58.935 50.000 15.93 0.00 0.00 5.87
3193 9002 1.659098 GAAGACGATGGAAAACGCGAT 59.341 47.619 15.93 0.00 0.00 4.58
3194 9003 1.278238 AGACGATGGAAAACGCGATC 58.722 50.000 15.93 8.03 0.00 3.69
3195 9004 4.851989 CGATGGAAAACGCGATCG 57.148 55.556 15.93 11.69 39.45 3.69
3205 9014 4.537533 CGCGATCGTGTTTCGGCG 62.538 66.667 20.28 0.00 39.99 6.46
3206 9015 3.176578 GCGATCGTGTTTCGGCGA 61.177 61.111 17.81 4.99 41.50 5.54
3207 9016 2.987593 CGATCGTGTTTCGGCGAG 59.012 61.111 10.46 0.00 40.56 5.03
3208 9017 2.505498 CGATCGTGTTTCGGCGAGG 61.505 63.158 10.46 0.00 40.56 4.63
3209 9018 2.125673 ATCGTGTTTCGGCGAGGG 60.126 61.111 10.46 0.00 40.56 4.30
3210 9019 2.552585 GATCGTGTTTCGGCGAGGGA 62.553 60.000 10.46 4.84 40.56 4.20
3211 9020 2.830704 ATCGTGTTTCGGCGAGGGAC 62.831 60.000 10.46 11.14 40.56 4.46
3212 9021 2.029964 GTGTTTCGGCGAGGGACA 59.970 61.111 10.46 13.66 0.00 4.02
3213 9022 2.029964 TGTTTCGGCGAGGGACAC 59.970 61.111 10.46 4.12 0.00 3.67
3214 9023 2.741211 GTTTCGGCGAGGGACACC 60.741 66.667 10.46 0.00 0.00 4.16
3223 9032 4.217112 AGGGACACCTCTGACACC 57.783 61.111 0.00 0.00 46.95 4.16
3224 9033 1.536662 AGGGACACCTCTGACACCC 60.537 63.158 0.00 0.00 46.95 4.61
3225 9034 1.841556 GGGACACCTCTGACACCCA 60.842 63.158 0.00 0.00 37.50 4.51
3226 9035 1.201429 GGGACACCTCTGACACCCAT 61.201 60.000 0.00 0.00 37.50 4.00
3227 9036 0.036010 GGACACCTCTGACACCCATG 60.036 60.000 0.00 0.00 0.00 3.66
3228 9037 0.976641 GACACCTCTGACACCCATGA 59.023 55.000 0.00 0.00 0.00 3.07
3229 9038 1.347707 GACACCTCTGACACCCATGAA 59.652 52.381 0.00 0.00 0.00 2.57
3230 9039 1.349026 ACACCTCTGACACCCATGAAG 59.651 52.381 0.00 0.00 0.00 3.02
3231 9040 0.326264 ACCTCTGACACCCATGAAGC 59.674 55.000 0.00 0.00 0.00 3.86
3232 9041 0.742281 CCTCTGACACCCATGAAGCG 60.742 60.000 0.00 0.00 0.00 4.68
3233 9042 0.742281 CTCTGACACCCATGAAGCGG 60.742 60.000 0.00 0.00 0.00 5.52
3234 9043 1.003355 CTGACACCCATGAAGCGGT 60.003 57.895 0.00 0.00 0.00 5.68
3235 9044 1.003839 TGACACCCATGAAGCGGTC 60.004 57.895 0.00 0.00 0.00 4.79
3236 9045 1.003839 GACACCCATGAAGCGGTCA 60.004 57.895 0.00 0.00 41.67 4.02
3237 9046 1.003355 ACACCCATGAAGCGGTCAG 60.003 57.895 0.00 0.00 40.43 3.51
3238 9047 1.746615 CACCCATGAAGCGGTCAGG 60.747 63.158 0.00 0.00 40.43 3.86
3239 9048 2.224159 ACCCATGAAGCGGTCAGGT 61.224 57.895 0.00 2.46 40.43 4.00
3240 9049 0.907704 ACCCATGAAGCGGTCAGGTA 60.908 55.000 0.00 0.00 40.43 3.08
3241 9050 0.179073 CCCATGAAGCGGTCAGGTAG 60.179 60.000 0.00 0.00 40.43 3.18
3242 9051 0.811616 CCATGAAGCGGTCAGGTAGC 60.812 60.000 0.00 0.00 40.43 3.58
3261 9070 2.897658 CGATACATCGTTTACCGCAC 57.102 50.000 3.45 0.00 44.74 5.34
3262 9071 1.186408 CGATACATCGTTTACCGCACG 59.814 52.381 3.45 0.00 44.74 5.34
3263 9072 1.519758 GATACATCGTTTACCGCACGG 59.480 52.381 7.71 7.71 38.23 4.94
3264 9073 1.077645 TACATCGTTTACCGCACGGC 61.078 55.000 9.43 0.00 38.23 5.68
3265 9074 2.816520 ATCGTTTACCGCACGGCC 60.817 61.111 9.43 0.00 38.23 6.13
3266 9075 3.305177 ATCGTTTACCGCACGGCCT 62.305 57.895 9.43 0.00 38.23 5.19
3267 9076 2.791501 ATCGTTTACCGCACGGCCTT 62.792 55.000 9.43 0.00 38.23 4.35
3268 9077 2.609759 CGTTTACCGCACGGCCTTT 61.610 57.895 9.43 0.00 39.32 3.11
3269 9078 1.081708 GTTTACCGCACGGCCTTTG 60.082 57.895 9.43 0.00 39.32 2.77
3270 9079 1.526455 TTTACCGCACGGCCTTTGT 60.526 52.632 9.43 0.00 39.32 2.83
3271 9080 1.102222 TTTACCGCACGGCCTTTGTT 61.102 50.000 9.43 0.00 39.32 2.83
3272 9081 0.250209 TTACCGCACGGCCTTTGTTA 60.250 50.000 9.43 0.00 39.32 2.41
3273 9082 0.036199 TACCGCACGGCCTTTGTTAT 60.036 50.000 9.43 0.00 39.32 1.89
3274 9083 0.036199 ACCGCACGGCCTTTGTTATA 60.036 50.000 9.43 0.00 39.32 0.98
3275 9084 1.088306 CCGCACGGCCTTTGTTATAA 58.912 50.000 0.00 0.00 0.00 0.98
3276 9085 1.673920 CCGCACGGCCTTTGTTATAAT 59.326 47.619 0.00 0.00 0.00 1.28
3277 9086 2.098443 CCGCACGGCCTTTGTTATAATT 59.902 45.455 0.00 0.00 0.00 1.40
3278 9087 3.428316 CCGCACGGCCTTTGTTATAATTT 60.428 43.478 0.00 0.00 0.00 1.82
3279 9088 4.170256 CGCACGGCCTTTGTTATAATTTT 58.830 39.130 0.00 0.00 0.00 1.82
3280 9089 4.623595 CGCACGGCCTTTGTTATAATTTTT 59.376 37.500 0.00 0.00 0.00 1.94
3281 9090 5.443955 CGCACGGCCTTTGTTATAATTTTTG 60.444 40.000 0.00 0.00 0.00 2.44
3282 9091 5.635700 GCACGGCCTTTGTTATAATTTTTGA 59.364 36.000 0.00 0.00 0.00 2.69
3283 9092 6.312672 GCACGGCCTTTGTTATAATTTTTGAT 59.687 34.615 0.00 0.00 0.00 2.57
3284 9093 7.489757 GCACGGCCTTTGTTATAATTTTTGATA 59.510 33.333 0.00 0.00 0.00 2.15
3285 9094 8.803799 CACGGCCTTTGTTATAATTTTTGATAC 58.196 33.333 0.00 0.00 0.00 2.24
3286 9095 8.524487 ACGGCCTTTGTTATAATTTTTGATACA 58.476 29.630 0.00 0.00 0.00 2.29
3287 9096 8.803799 CGGCCTTTGTTATAATTTTTGATACAC 58.196 33.333 0.00 0.00 0.00 2.90
3288 9097 9.869757 GGCCTTTGTTATAATTTTTGATACACT 57.130 29.630 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 15 4.525912 CCTGCACAGGCTAGAAATTTTT 57.474 40.909 3.23 0.00 42.44 1.94
39 41 1.195115 GTCCACTAGTCATCAGCCCA 58.805 55.000 0.00 0.00 0.00 5.36
94 96 1.587043 GAGAAGCAACCGCCCCTTTC 61.587 60.000 0.00 0.00 39.83 2.62
102 104 2.126463 TCGCGAGAGAAGCAACCG 60.126 61.111 3.71 0.00 34.84 4.44
169 173 5.565509 TGAGTGGGTAATGTATTTCAAGCA 58.434 37.500 0.00 0.00 0.00 3.91
170 174 6.374333 TCTTGAGTGGGTAATGTATTTCAAGC 59.626 38.462 6.13 0.00 39.83 4.01
171 175 7.921786 TCTTGAGTGGGTAATGTATTTCAAG 57.078 36.000 4.91 4.91 40.79 3.02
174 178 6.374333 TGCTTCTTGAGTGGGTAATGTATTTC 59.626 38.462 0.00 0.00 0.00 2.17
175 179 6.245408 TGCTTCTTGAGTGGGTAATGTATTT 58.755 36.000 0.00 0.00 0.00 1.40
176 180 5.815581 TGCTTCTTGAGTGGGTAATGTATT 58.184 37.500 0.00 0.00 0.00 1.89
177 181 5.435686 TGCTTCTTGAGTGGGTAATGTAT 57.564 39.130 0.00 0.00 0.00 2.29
218 225 5.968387 TCTTTGTCAGTTCGAAAAGAGTC 57.032 39.130 0.00 0.00 34.56 3.36
219 226 5.975410 CTCTTTGTCAGTTCGAAAAGAGT 57.025 39.130 19.82 0.00 45.40 3.24
232 239 2.031769 CGCAGCATTTCACTCTTTGTCA 60.032 45.455 0.00 0.00 0.00 3.58
233 240 2.224079 TCGCAGCATTTCACTCTTTGTC 59.776 45.455 0.00 0.00 0.00 3.18
242 249 1.000385 CCAAACCTTCGCAGCATTTCA 60.000 47.619 0.00 0.00 0.00 2.69
253 260 0.526211 GGTTGCCGATCCAAACCTTC 59.474 55.000 10.26 0.00 0.00 3.46
292 353 3.930336 TGTCTTCTGTAAGTGCATGGAG 58.070 45.455 0.00 0.00 34.13 3.86
310 394 1.537202 AGCAGCTTTTCGTGGAATGTC 59.463 47.619 0.00 0.00 0.00 3.06
349 433 9.295825 AGACAGGTTGATACAATGATTTAACAA 57.704 29.630 0.00 0.00 0.00 2.83
383 468 6.834451 TCGTTAAATTGGGCCTCCATAATTAA 59.166 34.615 4.53 0.00 43.63 1.40
392 477 1.129811 CGTGTCGTTAAATTGGGCCTC 59.870 52.381 4.53 0.00 0.00 4.70
405 490 4.314096 GTGCTACACACGTGTCGT 57.686 55.556 20.49 21.18 43.74 4.34
445 530 5.732647 CGAAAATTAATAGTCTTGGCACGTG 59.267 40.000 12.28 12.28 0.00 4.49
448 533 5.880341 AGCGAAAATTAATAGTCTTGGCAC 58.120 37.500 0.00 0.00 0.00 5.01
450 535 6.119144 TGAGCGAAAATTAATAGTCTTGGC 57.881 37.500 0.00 0.00 0.00 4.52
466 551 5.811399 TTGTTCTTCTTCTTTTGAGCGAA 57.189 34.783 0.00 0.00 0.00 4.70
505 597 7.094549 CCCGTTAACCATTTCTGTTTCTCATTA 60.095 37.037 0.00 0.00 0.00 1.90
515 607 2.159382 AGCACCCGTTAACCATTTCTG 58.841 47.619 0.00 0.00 0.00 3.02
525 617 1.205417 GGTTAGCAGTAGCACCCGTTA 59.795 52.381 0.00 0.00 45.49 3.18
526 618 0.036671 GGTTAGCAGTAGCACCCGTT 60.037 55.000 0.00 0.00 45.49 4.44
527 619 1.595357 GGTTAGCAGTAGCACCCGT 59.405 57.895 0.00 0.00 45.49 5.28
529 621 4.957164 GGGTTAGCAGTAGCACCC 57.043 61.111 0.93 0.93 46.13 4.61
537 629 3.165071 AGGGTTTGATTTGGGTTAGCAG 58.835 45.455 0.00 0.00 0.00 4.24
577 669 0.801872 TTCGTCGATGTTGCATTGGG 59.198 50.000 4.21 0.00 0.00 4.12
579 671 5.171874 CCATATTTTCGTCGATGTTGCATTG 59.828 40.000 4.21 0.00 0.00 2.82
580 672 5.163663 ACCATATTTTCGTCGATGTTGCATT 60.164 36.000 4.21 0.00 0.00 3.56
581 673 4.335315 ACCATATTTTCGTCGATGTTGCAT 59.665 37.500 4.21 0.00 0.00 3.96
582 674 3.687212 ACCATATTTTCGTCGATGTTGCA 59.313 39.130 4.21 0.00 0.00 4.08
583 675 4.271687 GACCATATTTTCGTCGATGTTGC 58.728 43.478 4.21 0.00 0.00 4.17
648 740 7.988937 TGTTAGATCTTATCCCATTATGGCTT 58.011 34.615 5.57 0.00 35.79 4.35
650 742 7.624549 TCTGTTAGATCTTATCCCATTATGGC 58.375 38.462 5.57 0.00 35.79 4.40
673 766 6.586082 GCGTAAATGGTCAAATGTCATTTTCT 59.414 34.615 8.12 0.00 40.33 2.52
682 775 3.160545 GTCACGCGTAAATGGTCAAATG 58.839 45.455 13.44 0.00 0.00 2.32
699 792 1.129624 TGCCAATTATTGACGCGTCAC 59.870 47.619 39.38 25.20 39.66 3.67
700 793 1.396648 CTGCCAATTATTGACGCGTCA 59.603 47.619 36.40 36.40 37.91 4.35
701 794 1.663643 TCTGCCAATTATTGACGCGTC 59.336 47.619 31.66 31.66 0.00 5.19
788 889 9.401058 AGTTTTCCTTAGAAATATGTCTCCATG 57.599 33.333 0.00 0.00 41.55 3.66
789 890 9.620259 GAGTTTTCCTTAGAAATATGTCTCCAT 57.380 33.333 0.00 0.00 41.55 3.41
790 891 8.826765 AGAGTTTTCCTTAGAAATATGTCTCCA 58.173 33.333 0.00 0.00 41.55 3.86
791 892 9.674068 AAGAGTTTTCCTTAGAAATATGTCTCC 57.326 33.333 0.00 0.00 41.55 3.71
798 899 9.335211 AGGGTAGAAGAGTTTTCCTTAGAAATA 57.665 33.333 0.00 0.00 41.55 1.40
799 900 8.220898 AGGGTAGAAGAGTTTTCCTTAGAAAT 57.779 34.615 0.00 0.00 41.55 2.17
800 901 7.628501 AGGGTAGAAGAGTTTTCCTTAGAAA 57.371 36.000 0.00 0.00 40.26 2.52
801 902 8.912614 ATAGGGTAGAAGAGTTTTCCTTAGAA 57.087 34.615 0.00 0.00 0.00 2.10
822 940 5.105146 GCATTACCTCCCATCAGACTATAGG 60.105 48.000 4.43 0.00 0.00 2.57
825 943 4.234550 TGCATTACCTCCCATCAGACTAT 58.765 43.478 0.00 0.00 0.00 2.12
835 953 1.490490 TGGTCTGATGCATTACCTCCC 59.510 52.381 20.83 9.93 32.99 4.30
952 1070 3.163630 ACGCTTGTTTTGAATTGTGCT 57.836 38.095 0.00 0.00 0.00 4.40
1084 2387 2.584418 CTCGATGCTGCCGTCCTG 60.584 66.667 0.00 0.00 0.00 3.86
1578 2883 1.227764 CAGCCCCTCGATGTCCATG 60.228 63.158 0.00 0.00 0.00 3.66
1635 2940 3.121030 CACGCGAGCTCCAAAGGG 61.121 66.667 15.93 4.99 0.00 3.95
1809 3123 1.070957 GCTATCCTTACCGGCCACC 59.929 63.158 0.00 0.00 0.00 4.61
2216 3548 0.608130 AGCGTTACCAGCAGTCATCA 59.392 50.000 0.00 0.00 37.01 3.07
2268 3600 3.879295 AGTTGTTGATCACACAAGTCCAG 59.121 43.478 17.95 0.00 33.98 3.86
2273 3605 6.369059 AGAAGAAGTTGTTGATCACACAAG 57.631 37.500 17.95 0.00 33.98 3.16
2333 3665 6.877322 ACCAGACAACTGTATATAAGCGTTTT 59.123 34.615 0.00 0.00 42.05 2.43
2338 3741 7.286215 TCCTACCAGACAACTGTATATAAGC 57.714 40.000 0.00 0.00 42.05 3.09
2357 3764 5.485620 ACCCGTCTGATAAAAGTTTCCTAC 58.514 41.667 0.00 0.00 0.00 3.18
2370 3777 1.221840 GGCACATGACCCGTCTGAT 59.778 57.895 0.00 0.00 0.00 2.90
2398 3805 6.652481 AGAAATATATGCCACGAGATTGGAAG 59.348 38.462 0.00 0.00 39.24 3.46
2407 3814 5.554437 TGGGTTAGAAATATATGCCACGA 57.446 39.130 0.00 0.00 0.00 4.35
2414 3821 6.274322 TGGGCAGTTGGGTTAGAAATATAT 57.726 37.500 0.00 0.00 0.00 0.86
2426 4935 2.028203 CAGGTTTATTTGGGCAGTTGGG 60.028 50.000 0.00 0.00 0.00 4.12
2428 4937 4.806640 ATCAGGTTTATTTGGGCAGTTG 57.193 40.909 0.00 0.00 0.00 3.16
2429 4938 4.837860 TGAATCAGGTTTATTTGGGCAGTT 59.162 37.500 0.00 0.00 0.00 3.16
2439 4982 9.183368 GGAGAGATTTTCTTGAATCAGGTTTAT 57.817 33.333 0.00 0.00 38.27 1.40
2440 4983 7.334421 CGGAGAGATTTTCTTGAATCAGGTTTA 59.666 37.037 0.00 0.00 38.27 2.01
2441 4984 6.150140 CGGAGAGATTTTCTTGAATCAGGTTT 59.850 38.462 0.00 0.00 38.27 3.27
2442 4985 5.645497 CGGAGAGATTTTCTTGAATCAGGTT 59.355 40.000 0.00 0.00 38.27 3.50
2444 4987 4.034975 GCGGAGAGATTTTCTTGAATCAGG 59.965 45.833 1.07 0.00 38.27 3.86
2471 8216 3.001406 GTGGTGGCGGAGGTAGGT 61.001 66.667 0.00 0.00 0.00 3.08
2472 8217 3.782443 GGTGGTGGCGGAGGTAGG 61.782 72.222 0.00 0.00 0.00 3.18
2597 8355 2.182030 CAAGACGGCGAGAGGGAC 59.818 66.667 16.62 0.00 0.00 4.46
2638 8396 1.807814 GTGATGGGGAGGATGGTAGT 58.192 55.000 0.00 0.00 0.00 2.73
2644 8402 2.446848 CCAGCGTGATGGGGAGGAT 61.447 63.158 0.00 0.00 36.64 3.24
2667 8447 3.791353 GCTTCTTTGTGAAACTGAAACGG 59.209 43.478 0.00 0.00 38.04 4.44
2715 8495 2.460757 TTAAGTTGTACCAGGGCGAC 57.539 50.000 0.00 0.00 0.00 5.19
2790 8599 4.323417 AGCATATCGACACCTGTGAAAAA 58.677 39.130 3.94 0.00 0.00 1.94
2805 8614 4.390603 TGTACACAACGGACAAAGCATATC 59.609 41.667 0.00 0.00 0.00 1.63
2955 8764 4.640805 ACATAACAAAGTAGCACGAACG 57.359 40.909 0.00 0.00 0.00 3.95
3051 8860 4.717629 TCGAACCTGCGAGGCACG 62.718 66.667 0.00 0.00 39.63 5.34
3052 8861 3.112709 GTCGAACCTGCGAGGCAC 61.113 66.667 0.00 0.00 41.49 5.01
3053 8862 4.717629 CGTCGAACCTGCGAGGCA 62.718 66.667 0.00 0.00 41.49 4.75
3076 8885 0.933097 TCCTGCTCGATCGTACGTAC 59.067 55.000 15.90 15.90 34.70 3.67
3077 8886 1.655484 TTCCTGCTCGATCGTACGTA 58.345 50.000 15.94 2.34 34.70 3.57
3078 8887 0.806868 TTTCCTGCTCGATCGTACGT 59.193 50.000 15.94 2.33 34.70 3.57
3079 8888 1.189403 GTTTCCTGCTCGATCGTACG 58.811 55.000 15.94 9.53 0.00 3.67
3080 8889 1.189403 CGTTTCCTGCTCGATCGTAC 58.811 55.000 15.94 9.03 0.00 3.67
3081 8890 0.524816 GCGTTTCCTGCTCGATCGTA 60.525 55.000 15.94 0.90 0.00 3.43
3082 8891 1.805945 GCGTTTCCTGCTCGATCGT 60.806 57.895 15.94 0.00 0.00 3.73
3083 8892 1.148157 ATGCGTTTCCTGCTCGATCG 61.148 55.000 9.36 9.36 0.00 3.69
3084 8893 1.004504 GAATGCGTTTCCTGCTCGATC 60.005 52.381 0.00 0.00 0.00 3.69
3085 8894 1.009829 GAATGCGTTTCCTGCTCGAT 58.990 50.000 0.00 0.00 0.00 3.59
3086 8895 0.037326 AGAATGCGTTTCCTGCTCGA 60.037 50.000 0.00 0.00 34.67 4.04
3087 8896 0.798776 AAGAATGCGTTTCCTGCTCG 59.201 50.000 0.00 0.00 34.67 5.03
3088 8897 2.226437 TGAAAGAATGCGTTTCCTGCTC 59.774 45.455 0.00 0.00 34.67 4.26
3089 8898 2.229792 TGAAAGAATGCGTTTCCTGCT 58.770 42.857 0.00 0.00 34.67 4.24
3090 8899 2.704725 TGAAAGAATGCGTTTCCTGC 57.295 45.000 0.00 0.00 34.67 4.85
3091 8900 4.797471 TGAATGAAAGAATGCGTTTCCTG 58.203 39.130 0.00 0.00 34.67 3.86
3092 8901 5.047802 ACATGAATGAAAGAATGCGTTTCCT 60.048 36.000 0.00 0.00 34.67 3.36
3093 8902 5.061311 CACATGAATGAAAGAATGCGTTTCC 59.939 40.000 0.00 0.00 34.67 3.13
3094 8903 5.443693 GCACATGAATGAAAGAATGCGTTTC 60.444 40.000 0.00 0.00 34.95 2.78
3095 8904 4.386652 GCACATGAATGAAAGAATGCGTTT 59.613 37.500 0.00 0.00 0.00 3.60
3096 8905 3.922240 GCACATGAATGAAAGAATGCGTT 59.078 39.130 0.00 0.00 0.00 4.84
3097 8906 3.504863 GCACATGAATGAAAGAATGCGT 58.495 40.909 0.00 0.00 0.00 5.24
3099 8908 3.302434 CACGCACATGAATGAAAGAATGC 59.698 43.478 0.00 0.00 0.00 3.56
3100 8909 3.302434 GCACGCACATGAATGAAAGAATG 59.698 43.478 0.00 0.00 0.00 2.67
3101 8910 3.504863 GCACGCACATGAATGAAAGAAT 58.495 40.909 0.00 0.00 0.00 2.40
3102 8911 2.665245 CGCACGCACATGAATGAAAGAA 60.665 45.455 0.00 0.00 0.00 2.52
3103 8912 1.136000 CGCACGCACATGAATGAAAGA 60.136 47.619 0.00 0.00 0.00 2.52
3104 8913 1.253116 CGCACGCACATGAATGAAAG 58.747 50.000 0.00 0.00 0.00 2.62
3105 8914 0.590682 ACGCACGCACATGAATGAAA 59.409 45.000 0.00 0.00 0.00 2.69
3106 8915 0.110283 CACGCACGCACATGAATGAA 60.110 50.000 0.00 0.00 0.00 2.57
3107 8916 1.496835 CACGCACGCACATGAATGA 59.503 52.632 0.00 0.00 0.00 2.57
3108 8917 2.147749 GCACGCACGCACATGAATG 61.148 57.895 0.00 0.00 0.00 2.67
3109 8918 2.176546 GCACGCACGCACATGAAT 59.823 55.556 0.00 0.00 0.00 2.57
3110 8919 4.367340 CGCACGCACGCACATGAA 62.367 61.111 0.00 0.00 0.00 2.57
3121 8930 3.959975 TTTCCTTGGCACGCACGC 61.960 61.111 0.00 0.00 0.00 5.34
3122 8931 2.051345 GTTTCCTTGGCACGCACG 60.051 61.111 0.00 0.00 0.00 5.34
3123 8932 2.051345 CGTTTCCTTGGCACGCAC 60.051 61.111 0.00 0.00 0.00 5.34
3124 8933 2.515057 ACGTTTCCTTGGCACGCA 60.515 55.556 9.96 0.00 37.44 5.24
3125 8934 2.051345 CACGTTTCCTTGGCACGC 60.051 61.111 9.96 0.00 37.44 5.34
3126 8935 0.316689 GTTCACGTTTCCTTGGCACG 60.317 55.000 8.88 8.88 39.86 5.34
3127 8936 0.030235 GGTTCACGTTTCCTTGGCAC 59.970 55.000 0.00 0.00 0.00 5.01
3128 8937 0.106918 AGGTTCACGTTTCCTTGGCA 60.107 50.000 0.00 0.00 0.00 4.92
3129 8938 0.591659 GAGGTTCACGTTTCCTTGGC 59.408 55.000 4.74 0.00 0.00 4.52
3130 8939 1.235724 GGAGGTTCACGTTTCCTTGG 58.764 55.000 4.74 0.00 0.00 3.61
3131 8940 0.865769 CGGAGGTTCACGTTTCCTTG 59.134 55.000 4.74 0.00 0.00 3.61
3132 8941 0.754472 TCGGAGGTTCACGTTTCCTT 59.246 50.000 4.74 0.00 0.00 3.36
3133 8942 0.033090 GTCGGAGGTTCACGTTTCCT 59.967 55.000 3.06 3.06 0.00 3.36
3134 8943 0.249573 TGTCGGAGGTTCACGTTTCC 60.250 55.000 0.00 0.00 0.00 3.13
3135 8944 0.857287 GTGTCGGAGGTTCACGTTTC 59.143 55.000 0.00 0.00 0.00 2.78
3136 8945 0.531311 GGTGTCGGAGGTTCACGTTT 60.531 55.000 0.00 0.00 33.51 3.60
3137 8946 1.068585 GGTGTCGGAGGTTCACGTT 59.931 57.895 0.00 0.00 33.51 3.99
3138 8947 2.732658 GGTGTCGGAGGTTCACGT 59.267 61.111 0.00 0.00 33.51 4.49
3139 8948 2.048503 GGGTGTCGGAGGTTCACG 60.049 66.667 0.00 0.00 33.51 4.35
3140 8949 0.673644 CATGGGTGTCGGAGGTTCAC 60.674 60.000 0.00 0.00 0.00 3.18
3141 8950 0.834261 TCATGGGTGTCGGAGGTTCA 60.834 55.000 0.00 0.00 0.00 3.18
3142 8951 0.323629 TTCATGGGTGTCGGAGGTTC 59.676 55.000 0.00 0.00 0.00 3.62
3143 8952 0.324943 CTTCATGGGTGTCGGAGGTT 59.675 55.000 0.00 0.00 0.00 3.50
3144 8953 0.544357 TCTTCATGGGTGTCGGAGGT 60.544 55.000 0.00 0.00 0.00 3.85
3145 8954 0.613260 TTCTTCATGGGTGTCGGAGG 59.387 55.000 0.00 0.00 0.00 4.30
3146 8955 1.550524 TCTTCTTCATGGGTGTCGGAG 59.449 52.381 0.00 0.00 0.00 4.63
3147 8956 1.639722 TCTTCTTCATGGGTGTCGGA 58.360 50.000 0.00 0.00 0.00 4.55
3148 8957 2.350522 CTTCTTCTTCATGGGTGTCGG 58.649 52.381 0.00 0.00 0.00 4.79
3149 8958 1.734465 GCTTCTTCTTCATGGGTGTCG 59.266 52.381 0.00 0.00 0.00 4.35
3150 8959 2.746362 CTGCTTCTTCTTCATGGGTGTC 59.254 50.000 0.00 0.00 0.00 3.67
3151 8960 2.373169 TCTGCTTCTTCTTCATGGGTGT 59.627 45.455 0.00 0.00 0.00 4.16
3152 8961 3.008330 CTCTGCTTCTTCTTCATGGGTG 58.992 50.000 0.00 0.00 0.00 4.61
3153 8962 2.909006 TCTCTGCTTCTTCTTCATGGGT 59.091 45.455 0.00 0.00 0.00 4.51
3154 8963 3.623906 TCTCTGCTTCTTCTTCATGGG 57.376 47.619 0.00 0.00 0.00 4.00
3155 8964 4.630940 GTCTTCTCTGCTTCTTCTTCATGG 59.369 45.833 0.00 0.00 0.00 3.66
3156 8965 4.326817 CGTCTTCTCTGCTTCTTCTTCATG 59.673 45.833 0.00 0.00 0.00 3.07
3157 8966 4.219507 TCGTCTTCTCTGCTTCTTCTTCAT 59.780 41.667 0.00 0.00 0.00 2.57
3158 8967 3.570125 TCGTCTTCTCTGCTTCTTCTTCA 59.430 43.478 0.00 0.00 0.00 3.02
3159 8968 4.167554 TCGTCTTCTCTGCTTCTTCTTC 57.832 45.455 0.00 0.00 0.00 2.87
3160 8969 4.493547 CATCGTCTTCTCTGCTTCTTCTT 58.506 43.478 0.00 0.00 0.00 2.52
3161 8970 3.119173 CCATCGTCTTCTCTGCTTCTTCT 60.119 47.826 0.00 0.00 0.00 2.85
3162 8971 3.119316 TCCATCGTCTTCTCTGCTTCTTC 60.119 47.826 0.00 0.00 0.00 2.87
3163 8972 2.828520 TCCATCGTCTTCTCTGCTTCTT 59.171 45.455 0.00 0.00 0.00 2.52
3164 8973 2.451490 TCCATCGTCTTCTCTGCTTCT 58.549 47.619 0.00 0.00 0.00 2.85
3165 8974 2.949451 TCCATCGTCTTCTCTGCTTC 57.051 50.000 0.00 0.00 0.00 3.86
3166 8975 3.685139 TTTCCATCGTCTTCTCTGCTT 57.315 42.857 0.00 0.00 0.00 3.91
3167 8976 3.330267 GTTTTCCATCGTCTTCTCTGCT 58.670 45.455 0.00 0.00 0.00 4.24
3168 8977 2.092838 CGTTTTCCATCGTCTTCTCTGC 59.907 50.000 0.00 0.00 0.00 4.26
3169 8978 2.092838 GCGTTTTCCATCGTCTTCTCTG 59.907 50.000 0.00 0.00 0.00 3.35
3170 8979 2.338500 GCGTTTTCCATCGTCTTCTCT 58.662 47.619 0.00 0.00 0.00 3.10
3171 8980 1.059264 CGCGTTTTCCATCGTCTTCTC 59.941 52.381 0.00 0.00 0.00 2.87
3172 8981 1.068474 CGCGTTTTCCATCGTCTTCT 58.932 50.000 0.00 0.00 0.00 2.85
3173 8982 1.065358 TCGCGTTTTCCATCGTCTTC 58.935 50.000 5.77 0.00 0.00 2.87
3174 8983 1.659098 GATCGCGTTTTCCATCGTCTT 59.341 47.619 5.77 0.00 0.00 3.01
3175 8984 1.278238 GATCGCGTTTTCCATCGTCT 58.722 50.000 5.77 0.00 0.00 4.18
3176 8985 0.044161 CGATCGCGTTTTCCATCGTC 60.044 55.000 15.07 0.00 34.69 4.20
3177 8986 1.995991 CGATCGCGTTTTCCATCGT 59.004 52.632 15.07 0.00 34.69 3.73
3178 8987 4.851989 CGATCGCGTTTTCCATCG 57.148 55.556 5.77 8.73 32.83 3.84
3188 8997 4.537533 CGCCGAAACACGATCGCG 62.538 66.667 16.60 8.62 45.77 5.87
3189 8998 3.126722 CTCGCCGAAACACGATCGC 62.127 63.158 16.60 0.00 45.77 4.58
3190 8999 2.505498 CCTCGCCGAAACACGATCG 61.505 63.158 14.88 14.88 45.77 3.69
3191 9000 2.165301 CCCTCGCCGAAACACGATC 61.165 63.158 0.00 0.00 45.77 3.69
3192 9001 2.125673 CCCTCGCCGAAACACGAT 60.126 61.111 0.00 0.00 45.77 3.73
3193 9002 3.296836 TCCCTCGCCGAAACACGA 61.297 61.111 0.00 0.00 45.77 4.35
3194 9003 3.110178 GTCCCTCGCCGAAACACG 61.110 66.667 0.00 0.00 42.18 4.49
3195 9004 2.029964 TGTCCCTCGCCGAAACAC 59.970 61.111 0.00 0.00 0.00 3.32
3196 9005 2.029964 GTGTCCCTCGCCGAAACA 59.970 61.111 0.00 0.00 0.00 2.83
3197 9006 2.741211 GGTGTCCCTCGCCGAAAC 60.741 66.667 0.00 0.00 36.95 2.78
3206 9015 1.536662 GGGTGTCAGAGGTGTCCCT 60.537 63.158 0.00 0.00 46.66 4.20
3207 9016 1.201429 ATGGGTGTCAGAGGTGTCCC 61.201 60.000 0.00 0.00 33.74 4.46
3208 9017 0.036010 CATGGGTGTCAGAGGTGTCC 60.036 60.000 0.00 0.00 0.00 4.02
3209 9018 0.976641 TCATGGGTGTCAGAGGTGTC 59.023 55.000 0.00 0.00 0.00 3.67
3210 9019 1.349026 CTTCATGGGTGTCAGAGGTGT 59.651 52.381 0.00 0.00 0.00 4.16
3211 9020 1.947678 GCTTCATGGGTGTCAGAGGTG 60.948 57.143 0.00 0.00 0.00 4.00
3212 9021 0.326264 GCTTCATGGGTGTCAGAGGT 59.674 55.000 0.00 0.00 0.00 3.85
3213 9022 0.742281 CGCTTCATGGGTGTCAGAGG 60.742 60.000 0.00 0.00 0.00 3.69
3214 9023 0.742281 CCGCTTCATGGGTGTCAGAG 60.742 60.000 0.00 0.00 0.00 3.35
3215 9024 1.296392 CCGCTTCATGGGTGTCAGA 59.704 57.895 0.00 0.00 0.00 3.27
3216 9025 1.003355 ACCGCTTCATGGGTGTCAG 60.003 57.895 0.00 0.00 34.58 3.51
3217 9026 1.003839 GACCGCTTCATGGGTGTCA 60.004 57.895 0.00 0.00 36.46 3.58
3218 9027 1.003839 TGACCGCTTCATGGGTGTC 60.004 57.895 0.00 1.71 36.46 3.67
3219 9028 1.003355 CTGACCGCTTCATGGGTGT 60.003 57.895 0.00 0.00 36.46 4.16
3220 9029 1.746615 CCTGACCGCTTCATGGGTG 60.747 63.158 0.00 0.00 36.46 4.61
3221 9030 0.907704 TACCTGACCGCTTCATGGGT 60.908 55.000 0.00 0.00 36.82 4.51
3222 9031 0.179073 CTACCTGACCGCTTCATGGG 60.179 60.000 0.00 0.00 32.17 4.00
3223 9032 0.811616 GCTACCTGACCGCTTCATGG 60.812 60.000 0.00 0.00 32.17 3.66
3224 9033 1.148157 CGCTACCTGACCGCTTCATG 61.148 60.000 0.00 0.00 32.17 3.07
3225 9034 1.141881 CGCTACCTGACCGCTTCAT 59.858 57.895 0.00 0.00 32.17 2.57
3226 9035 1.320344 ATCGCTACCTGACCGCTTCA 61.320 55.000 0.00 0.00 0.00 3.02
3227 9036 0.666913 TATCGCTACCTGACCGCTTC 59.333 55.000 0.00 0.00 0.00 3.86
3228 9037 0.384669 GTATCGCTACCTGACCGCTT 59.615 55.000 0.00 0.00 0.00 4.68
3229 9038 0.750546 TGTATCGCTACCTGACCGCT 60.751 55.000 0.00 0.00 0.00 5.52
3230 9039 0.314302 ATGTATCGCTACCTGACCGC 59.686 55.000 0.00 0.00 0.00 5.68
3231 9040 1.399855 CGATGTATCGCTACCTGACCG 60.400 57.143 0.92 0.00 43.84 4.79
3232 9041 2.333389 CGATGTATCGCTACCTGACC 57.667 55.000 0.92 0.00 43.84 4.02
3251 9060 1.081708 CAAAGGCCGTGCGGTAAAC 60.082 57.895 12.46 1.21 37.65 2.01
3252 9061 1.102222 AACAAAGGCCGTGCGGTAAA 61.102 50.000 12.46 0.00 37.65 2.01
3253 9062 0.250209 TAACAAAGGCCGTGCGGTAA 60.250 50.000 12.46 0.00 37.65 2.85
3254 9063 0.036199 ATAACAAAGGCCGTGCGGTA 60.036 50.000 12.46 0.00 37.65 4.02
3255 9064 0.036199 TATAACAAAGGCCGTGCGGT 60.036 50.000 12.46 0.00 37.65 5.68
3256 9065 1.088306 TTATAACAAAGGCCGTGCGG 58.912 50.000 6.22 6.22 38.57 5.69
3257 9066 3.414549 AATTATAACAAAGGCCGTGCG 57.585 42.857 9.20 0.00 0.00 5.34
3258 9067 5.635700 TCAAAAATTATAACAAAGGCCGTGC 59.364 36.000 9.20 0.00 0.00 5.34
3259 9068 7.826260 ATCAAAAATTATAACAAAGGCCGTG 57.174 32.000 7.84 7.84 0.00 4.94
3260 9069 8.524487 TGTATCAAAAATTATAACAAAGGCCGT 58.476 29.630 0.00 0.00 0.00 5.68
3261 9070 8.803799 GTGTATCAAAAATTATAACAAAGGCCG 58.196 33.333 0.00 0.00 0.00 6.13
3262 9071 9.869757 AGTGTATCAAAAATTATAACAAAGGCC 57.130 29.630 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.