Multiple sequence alignment - TraesCS4A01G399100

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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 TraesCS4A01G399100 chr4A 100.000 4318 0 0 1 4318 673855669 673859986 0.000000e+00 7974.0
1 TraesCS4A01G399100 chr4A 83.114 912 126 18 1 897 624768141 624769039 0.000000e+00 806.0
2 TraesCS4A01G399100 chr7A 95.254 1517 55 10 1092 2605 61891823 61890321 0.000000e+00 2386.0
3 TraesCS4A01G399100 chr7A 90.776 1637 109 22 1072 2694 62176084 62177692 0.000000e+00 2148.0
4 TraesCS4A01G399100 chr7A 85.866 283 20 6 2668 2947 61890322 61890057 2.540000e-72 283.0
5 TraesCS4A01G399100 chr7A 83.482 224 17 6 2734 2955 62177962 62178167 1.580000e-44 191.0
6 TraesCS4A01G399100 chr7A 94.737 95 3 1 972 1064 62175929 62176023 3.480000e-31 147.0
7 TraesCS4A01G399100 chr7A 94.624 93 3 1 974 1064 61892004 61891912 4.500000e-30 143.0
8 TraesCS4A01G399100 chr7D 94.087 1539 72 9 1072 2605 57541238 57539714 0.000000e+00 2320.0
9 TraesCS4A01G399100 chr7D 90.520 654 43 10 1072 1720 58054404 58055043 0.000000e+00 846.0
10 TraesCS4A01G399100 chr7D 91.137 519 28 9 2335 2849 58055254 58055758 0.000000e+00 688.0
11 TraesCS4A01G399100 chr7D 89.594 394 33 6 2188 2580 58142773 58143159 1.080000e-135 494.0
12 TraesCS4A01G399100 chr7D 89.189 296 24 7 2668 2960 57539715 57539425 3.170000e-96 363.0
13 TraesCS4A01G399100 chr7D 88.614 202 17 4 1777 1972 58055055 58055256 1.550000e-59 241.0
14 TraesCS4A01G399100 chr7D 89.167 120 10 3 2841 2960 58072477 58072593 3.480000e-31 147.0
15 TraesCS4A01G399100 chr7D 96.491 57 2 0 974 1030 58053286 58053342 1.280000e-15 95.3
16 TraesCS4A01G399100 chr1D 92.429 1400 73 16 2946 4318 267977656 267976263 0.000000e+00 1967.0
17 TraesCS4A01G399100 chr1D 83.787 882 109 23 11 868 454622616 454623487 0.000000e+00 806.0
18 TraesCS4A01G399100 chr4B 90.830 1385 76 21 2941 4318 41315339 41316679 0.000000e+00 1807.0
19 TraesCS4A01G399100 chr4B 89.016 1402 80 24 2947 4318 47627514 47628871 0.000000e+00 1668.0
20 TraesCS4A01G399100 chr4B 81.313 990 150 19 1 960 44946980 44945996 0.000000e+00 771.0
21 TraesCS4A01G399100 chr4B 81.111 990 152 20 1 960 476641746 476642730 0.000000e+00 760.0
22 TraesCS4A01G399100 chr1A 91.210 1149 70 14 3195 4318 334512890 334514032 0.000000e+00 1533.0
23 TraesCS4A01G399100 chr1A 92.135 267 19 2 2946 3211 334510938 334511203 4.080000e-100 375.0
24 TraesCS4A01G399100 chr1A 75.368 272 57 8 1118 1385 586297182 586296917 5.860000e-24 122.0
25 TraesCS4A01G399100 chr1B 82.921 890 122 20 1 868 52491628 52492509 0.000000e+00 774.0
26 TraesCS4A01G399100 chr4D 82.190 904 145 10 69 959 109246133 109247033 0.000000e+00 763.0
27 TraesCS4A01G399100 chr7B 82.414 870 125 17 22 876 672164111 672163255 0.000000e+00 734.0
28 TraesCS4A01G399100 chr7B 80.000 120 17 6 2941 3056 125499207 125499091 9.950000e-12 82.4
29 TraesCS4A01G399100 chr7B 84.615 65 7 3 914 975 425088355 425088291 1.300000e-05 62.1
30 TraesCS4A01G399100 chr3D 83.668 796 111 9 36 815 535653552 535654344 0.000000e+00 732.0
31 TraesCS4A01G399100 chr6B 80.525 991 140 35 3 960 261446279 261447249 0.000000e+00 712.0
32 TraesCS4A01G399100 chr3A 78.292 972 120 51 32 960 691473209 691472286 3.800000e-150 542.0
33 TraesCS4A01G399100 chr2A 90.000 330 28 3 1 328 41914125 41913799 5.160000e-114 422.0
34 TraesCS4A01G399100 chr2A 76.425 386 60 17 3513 3874 4800348 4799970 3.430000e-41 180.0


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 TraesCS4A01G399100 chr4A 673855669 673859986 4317 False 7974.000000 7974 100.000000 1 4318 1 chr4A.!!$F2 4317
1 TraesCS4A01G399100 chr4A 624768141 624769039 898 False 806.000000 806 83.114000 1 897 1 chr4A.!!$F1 896
2 TraesCS4A01G399100 chr7A 61890057 61892004 1947 True 937.333333 2386 91.914667 974 2947 3 chr7A.!!$R1 1973
3 TraesCS4A01G399100 chr7A 62175929 62178167 2238 False 828.666667 2148 89.665000 972 2955 3 chr7A.!!$F1 1983
4 TraesCS4A01G399100 chr7D 57539425 57541238 1813 True 1341.500000 2320 91.638000 1072 2960 2 chr7D.!!$R1 1888
5 TraesCS4A01G399100 chr7D 58053286 58055758 2472 False 467.575000 846 91.690500 974 2849 4 chr7D.!!$F3 1875
6 TraesCS4A01G399100 chr1D 267976263 267977656 1393 True 1967.000000 1967 92.429000 2946 4318 1 chr1D.!!$R1 1372
7 TraesCS4A01G399100 chr1D 454622616 454623487 871 False 806.000000 806 83.787000 11 868 1 chr1D.!!$F1 857
8 TraesCS4A01G399100 chr4B 41315339 41316679 1340 False 1807.000000 1807 90.830000 2941 4318 1 chr4B.!!$F1 1377
9 TraesCS4A01G399100 chr4B 47627514 47628871 1357 False 1668.000000 1668 89.016000 2947 4318 1 chr4B.!!$F2 1371
10 TraesCS4A01G399100 chr4B 44945996 44946980 984 True 771.000000 771 81.313000 1 960 1 chr4B.!!$R1 959
11 TraesCS4A01G399100 chr4B 476641746 476642730 984 False 760.000000 760 81.111000 1 960 1 chr4B.!!$F3 959
12 TraesCS4A01G399100 chr1A 334510938 334514032 3094 False 954.000000 1533 91.672500 2946 4318 2 chr1A.!!$F1 1372
13 TraesCS4A01G399100 chr1B 52491628 52492509 881 False 774.000000 774 82.921000 1 868 1 chr1B.!!$F1 867
14 TraesCS4A01G399100 chr4D 109246133 109247033 900 False 763.000000 763 82.190000 69 959 1 chr4D.!!$F1 890
15 TraesCS4A01G399100 chr7B 672163255 672164111 856 True 734.000000 734 82.414000 22 876 1 chr7B.!!$R3 854
16 TraesCS4A01G399100 chr3D 535653552 535654344 792 False 732.000000 732 83.668000 36 815 1 chr3D.!!$F1 779
17 TraesCS4A01G399100 chr6B 261446279 261447249 970 False 712.000000 712 80.525000 3 960 1 chr6B.!!$F1 957
18 TraesCS4A01G399100 chr3A 691472286 691473209 923 True 542.000000 542 78.292000 32 960 1 chr3A.!!$R1 928

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
969 1578 0.605319 CCAGCTAGACACGCCCAAAA 60.605 55.00 0.0 0.0 0.0 2.44 F
2233 3901 0.171231 TGGATCTCACAGTCGCTTCG 59.829 55.00 0.0 0.0 0.0 3.79 F
2796 4720 4.469657 ACCTTTTTCTGGATGCTTGTGTA 58.530 39.13 0.0 0.0 0.0 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2853 4777 1.001633 TCGTTACTCCCTTTGCTCACC 59.998 52.381 0.00 0.00 0.00 4.02 R
3055 4980 0.318441 GTGAGCCGCCATATCTGCTA 59.682 55.000 0.00 0.00 33.41 3.49 R
4073 7768 3.151554 TCATGTGCACATTCTTCTTGCT 58.848 40.909 29.48 2.68 37.16 3.91 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
34 35 7.867752 TGTTTAGTTGGCTTGTAATGTAGTTC 58.132 34.615 0.00 0.00 0.00 3.01
74 283 5.298989 TGTTTAGTTGGCAGGAAGACTAA 57.701 39.130 4.95 4.95 33.96 2.24
123 537 7.812669 GGCTTGTAATTTAGTTTAGTTGCACAT 59.187 33.333 0.00 0.00 0.00 3.21
171 587 3.837213 AGTTGCACACATATGCTCAAC 57.163 42.857 15.94 15.94 46.28 3.18
188 604 1.635663 AACTGACGCGGCAATGTAGC 61.636 55.000 19.01 0.00 0.00 3.58
189 605 1.811266 CTGACGCGGCAATGTAGCT 60.811 57.895 19.01 0.00 34.17 3.32
244 664 7.629866 GCAGGACTAGTTACACACACATATACA 60.630 40.741 0.00 0.00 0.00 2.29
263 760 1.440850 CAGTTGACGCGGCAATGTG 60.441 57.895 32.77 26.05 0.00 3.21
301 798 4.832266 ACATTGATGTTTAGTTGGCAGGAA 59.168 37.500 0.00 0.00 37.90 3.36
319 818 5.765176 CAGGAATATTGGCACACACATATG 58.235 41.667 0.00 0.00 39.29 1.78
324 823 2.197283 TGGCACACACATATGCTCAA 57.803 45.000 1.58 0.00 41.74 3.02
329 828 3.119388 GCACACACATATGCTCAATTGGT 60.119 43.478 5.42 0.00 38.84 3.67
331 830 5.221106 GCACACACATATGCTCAATTGGTAT 60.221 40.000 5.42 4.40 38.84 2.73
334 833 4.279169 ACACATATGCTCAATTGGTATGGC 59.721 41.667 5.42 3.85 0.00 4.40
342 841 4.794003 GCTCAATTGGTATGGCAATGTAGC 60.794 45.833 5.42 0.00 0.00 3.58
343 842 4.535781 TCAATTGGTATGGCAATGTAGCT 58.464 39.130 5.42 0.00 34.17 3.32
352 851 3.355378 TGGCAATGTAGCTTAGTTGCAT 58.645 40.909 22.62 0.83 46.46 3.96
353 852 3.129113 TGGCAATGTAGCTTAGTTGCATG 59.871 43.478 22.62 0.00 46.46 4.06
360 859 3.226346 AGCTTAGTTGCATGCACATTG 57.774 42.857 22.58 10.92 34.99 2.82
372 871 4.925054 GCATGCACATTGATGTTTAGTTGT 59.075 37.500 14.21 0.00 39.39 3.32
381 880 7.936847 ACATTGATGTTTAGTTGTCAGGACTAA 59.063 33.333 0.65 0.00 37.90 2.24
385 884 9.431887 TGATGTTTAGTTGTCAGGACTAATTAC 57.568 33.333 0.65 0.00 38.84 1.89
386 885 9.431887 GATGTTTAGTTGTCAGGACTAATTACA 57.568 33.333 0.65 5.18 38.84 2.41
387 886 9.959721 ATGTTTAGTTGTCAGGACTAATTACAT 57.040 29.630 8.01 8.01 38.84 2.29
417 995 1.372004 CAGTTGGCGTGGCAATGTG 60.372 57.895 12.17 9.15 0.00 3.21
425 1004 1.359848 CGTGGCAATGTGGTCTAGTC 58.640 55.000 0.00 0.00 0.00 2.59
464 1045 3.059352 AGTTGACAGGACTATTGGCAC 57.941 47.619 0.00 0.00 32.13 5.01
465 1046 2.371841 AGTTGACAGGACTATTGGCACA 59.628 45.455 0.00 0.00 32.13 4.57
466 1047 3.009473 AGTTGACAGGACTATTGGCACAT 59.991 43.478 0.00 0.00 39.30 3.21
467 1048 4.225042 AGTTGACAGGACTATTGGCACATA 59.775 41.667 0.00 0.00 39.30 2.29
468 1049 5.104360 AGTTGACAGGACTATTGGCACATAT 60.104 40.000 0.00 0.00 39.30 1.78
469 1050 4.707105 TGACAGGACTATTGGCACATATG 58.293 43.478 0.00 0.00 39.30 1.78
484 1065 4.277258 CACATATGCTCAATTGACGAAGC 58.723 43.478 3.38 7.25 0.00 3.86
485 1066 3.940852 ACATATGCTCAATTGACGAAGCA 59.059 39.130 18.85 18.85 36.69 3.91
486 1067 4.395854 ACATATGCTCAATTGACGAAGCAA 59.604 37.500 20.00 11.99 35.86 3.91
487 1068 5.066893 ACATATGCTCAATTGACGAAGCAAT 59.933 36.000 20.00 13.28 40.04 3.56
488 1069 3.206034 TGCTCAATTGACGAAGCAATG 57.794 42.857 15.44 0.28 38.42 2.82
489 1070 2.553602 TGCTCAATTGACGAAGCAATGT 59.446 40.909 15.44 0.00 38.42 2.71
490 1071 3.750652 TGCTCAATTGACGAAGCAATGTA 59.249 39.130 15.44 0.00 38.42 2.29
491 1072 4.142838 TGCTCAATTGACGAAGCAATGTAG 60.143 41.667 15.44 0.00 38.42 2.74
492 1073 4.337763 CTCAATTGACGAAGCAATGTAGC 58.662 43.478 3.38 0.00 38.42 3.58
503 1084 3.411446 AGCAATGTAGCTTAGTTGCACA 58.589 40.909 22.97 8.61 46.92 4.57
504 1085 3.189287 AGCAATGTAGCTTAGTTGCACAC 59.811 43.478 22.97 2.25 46.92 3.82
505 1086 3.058293 GCAATGTAGCTTAGTTGCACACA 60.058 43.478 18.78 4.14 44.63 3.72
506 1087 4.379813 GCAATGTAGCTTAGTTGCACACAT 60.380 41.667 18.78 6.08 44.63 3.21
507 1088 5.163764 GCAATGTAGCTTAGTTGCACACATA 60.164 40.000 18.78 0.00 44.63 2.29
508 1089 6.458751 GCAATGTAGCTTAGTTGCACACATAT 60.459 38.462 18.78 0.00 44.63 1.78
509 1090 7.475015 CAATGTAGCTTAGTTGCACACATATT 58.525 34.615 0.00 0.00 38.79 1.28
510 1091 6.421377 TGTAGCTTAGTTGCACACATATTG 57.579 37.500 0.00 0.00 34.99 1.90
511 1092 6.169800 TGTAGCTTAGTTGCACACATATTGA 58.830 36.000 0.00 0.00 34.99 2.57
512 1093 6.823182 TGTAGCTTAGTTGCACACATATTGAT 59.177 34.615 0.00 0.00 34.99 2.57
513 1094 6.127810 AGCTTAGTTGCACACATATTGATG 57.872 37.500 0.00 0.00 35.80 3.07
514 1095 5.649395 AGCTTAGTTGCACACATATTGATGT 59.351 36.000 0.00 0.00 40.18 3.06
515 1096 6.151648 AGCTTAGTTGCACACATATTGATGTT 59.848 34.615 0.00 0.00 38.68 2.71
516 1097 6.808212 GCTTAGTTGCACACATATTGATGTTT 59.192 34.615 0.00 0.00 44.18 2.83
517 1098 7.967854 GCTTAGTTGCACACATATTGATGTTTA 59.032 33.333 0.00 0.00 44.18 2.01
518 1099 9.494479 CTTAGTTGCACACATATTGATGTTTAG 57.506 33.333 0.00 0.00 44.18 1.85
519 1100 7.452880 AGTTGCACACATATTGATGTTTAGT 57.547 32.000 0.00 0.00 44.18 2.24
520 1101 7.885297 AGTTGCACACATATTGATGTTTAGTT 58.115 30.769 0.00 0.00 44.18 2.24
521 1102 7.809331 AGTTGCACACATATTGATGTTTAGTTG 59.191 33.333 0.00 0.00 44.18 3.16
522 1103 6.619744 TGCACACATATTGATGTTTAGTTGG 58.380 36.000 0.00 0.00 44.18 3.77
523 1104 6.432472 TGCACACATATTGATGTTTAGTTGGA 59.568 34.615 0.00 0.00 44.18 3.53
524 1105 7.040132 TGCACACATATTGATGTTTAGTTGGAA 60.040 33.333 0.00 0.00 44.18 3.53
525 1106 7.485913 GCACACATATTGATGTTTAGTTGGAAG 59.514 37.037 0.00 0.00 44.18 3.46
526 1107 7.970061 CACACATATTGATGTTTAGTTGGAAGG 59.030 37.037 0.00 0.00 44.18 3.46
527 1108 7.888021 ACACATATTGATGTTTAGTTGGAAGGA 59.112 33.333 0.00 0.00 44.18 3.36
528 1109 8.184192 CACATATTGATGTTTAGTTGGAAGGAC 58.816 37.037 0.00 0.00 44.18 3.85
529 1110 8.109634 ACATATTGATGTTTAGTTGGAAGGACT 58.890 33.333 0.00 0.00 44.18 3.85
530 1111 9.613428 CATATTGATGTTTAGTTGGAAGGACTA 57.387 33.333 0.00 0.00 0.00 2.59
531 1112 9.838339 ATATTGATGTTTAGTTGGAAGGACTAG 57.162 33.333 0.00 0.00 31.74 2.57
532 1113 6.681729 TGATGTTTAGTTGGAAGGACTAGT 57.318 37.500 0.00 0.00 31.74 2.57
533 1114 7.074653 TGATGTTTAGTTGGAAGGACTAGTT 57.925 36.000 0.00 0.00 31.74 2.24
534 1115 8.197592 TGATGTTTAGTTGGAAGGACTAGTTA 57.802 34.615 0.00 0.00 31.74 2.24
565 1146 4.041917 AGTTGGCGCGGCAATGTG 62.042 61.111 43.73 0.00 0.00 3.21
582 1163 0.859232 GTGGTCTAGTTGCACACACG 59.141 55.000 0.00 0.00 32.58 4.49
623 1204 4.922103 GGAAGACTAGTTCGTCGAAACATT 59.078 41.667 9.70 0.00 38.90 2.71
631 1212 0.801872 CGTCGAAACATTCCCATGCA 59.198 50.000 0.00 0.00 33.05 3.96
644 1225 2.107950 CCATGCAGGGTCGACTTTTA 57.892 50.000 16.46 0.00 0.00 1.52
679 1260 4.728595 GCGTGAGTTTAAACGGTGAAAACT 60.729 41.667 16.52 16.52 44.05 2.66
768 1355 4.331717 ACACGAGAAACGAACACAAGAAAT 59.668 37.500 0.00 0.00 45.77 2.17
773 1360 8.433126 ACGAGAAACGAACACAAGAAATATTAG 58.567 33.333 0.00 0.00 45.77 1.73
786 1373 7.094248 ACAAGAAATATTAGTGCAGCAACATGA 60.094 33.333 0.00 0.00 0.00 3.07
797 1386 2.425668 CAGCAACATGAGCATCCATCAA 59.574 45.455 15.23 0.00 0.00 2.57
909 1500 2.986979 TAGACGTGCTGCCGACCA 60.987 61.111 15.53 0.00 0.00 4.02
961 1570 4.082523 TGGCCGCCAGCTAGACAC 62.083 66.667 8.43 0.00 43.05 3.67
966 1575 4.082523 GCCAGCTAGACACGCCCA 62.083 66.667 0.00 0.00 0.00 5.36
967 1576 2.662596 CCAGCTAGACACGCCCAA 59.337 61.111 0.00 0.00 0.00 4.12
968 1577 1.003839 CCAGCTAGACACGCCCAAA 60.004 57.895 0.00 0.00 0.00 3.28
969 1578 0.605319 CCAGCTAGACACGCCCAAAA 60.605 55.000 0.00 0.00 0.00 2.44
970 1579 1.234821 CAGCTAGACACGCCCAAAAA 58.765 50.000 0.00 0.00 0.00 1.94
998 1607 5.300752 AGTGCACGGATAATTAAGATGGAG 58.699 41.667 12.01 0.00 0.00 3.86
1057 2640 1.131504 CTACCTAGCTCGGATCGATGC 59.868 57.143 11.98 4.17 34.61 3.91
1064 2647 1.269309 GCTCGGATCGATGCACTTACT 60.269 52.381 17.54 0.00 34.61 2.24
1065 2648 2.656085 CTCGGATCGATGCACTTACTC 58.344 52.381 17.54 0.00 34.61 2.59
1070 2706 3.990318 ATCGATGCACTTACTCGATCA 57.010 42.857 14.68 0.00 46.08 2.92
1090 2726 2.032302 CACCCTACTCGATCGTCTTCTG 59.968 54.545 15.94 4.10 0.00 3.02
1183 2829 0.394762 ATACTCCGCGGACTACCACA 60.395 55.000 27.28 0.01 35.59 4.17
1319 2965 1.788229 TAGACAAGATCGATGCCCCA 58.212 50.000 0.54 0.00 0.00 4.96
1331 2977 2.672996 GCCCCAAAGCTCTTCGCA 60.673 61.111 0.00 0.00 42.61 5.10
1365 3011 1.522355 CGCTACATCACCAGCAGGG 60.522 63.158 0.00 0.00 44.81 4.45
1416 3064 1.433879 GAGGTCACCGGTGAGATCG 59.566 63.158 37.04 9.54 40.75 3.69
1426 3074 1.590932 GGTGAGATCGCGGACTACTA 58.409 55.000 6.13 0.00 0.00 1.82
1577 3239 3.440872 GCTACCTCATCTATGACCCTACG 59.559 52.174 0.00 0.00 32.50 3.51
1788 3450 6.627087 ACTCAGACTTTAATTCTGATGGGA 57.373 37.500 13.95 0.00 46.58 4.37
1846 3508 7.072454 ACTCTATGTCCCTTTAAGGCATGATAA 59.928 37.037 5.29 0.00 32.73 1.75
1892 3557 8.400184 ACTACTACTACTCACAATTACACACA 57.600 34.615 0.00 0.00 0.00 3.72
1896 3561 8.799367 ACTACTACTCACAATTACACACATACA 58.201 33.333 0.00 0.00 0.00 2.29
2123 3791 5.557891 AGATTTGGCTTCTTTCTGAATCG 57.442 39.130 0.00 0.00 33.71 3.34
2200 3868 6.414732 CCTGGAGAACATATCCTTGTAAACA 58.585 40.000 0.00 0.00 37.74 2.83
2233 3901 0.171231 TGGATCTCACAGTCGCTTCG 59.829 55.000 0.00 0.00 0.00 3.79
2294 3962 7.845617 TGAAGTTGCAAATAAATACAACGAC 57.154 32.000 0.00 0.00 45.42 4.34
2340 4008 7.948357 TGAATGGGATTCTGATGATGAAAATC 58.052 34.615 0.00 0.00 39.96 2.17
2522 4190 5.070823 ACTTGGGAATAATGGAGCATGAT 57.929 39.130 0.00 0.00 0.00 2.45
2621 4289 8.049655 TGCAAAGTTGTAGTATGCATATTTGA 57.950 30.769 22.04 10.44 41.67 2.69
2796 4720 4.469657 ACCTTTTTCTGGATGCTTGTGTA 58.530 39.130 0.00 0.00 0.00 2.90
2832 4756 6.360370 TCTTTGTAAGCTATCCAAGTCAGT 57.640 37.500 0.00 0.00 0.00 3.41
2844 4768 7.201600 GCTATCCAAGTCAGTCTGATTCTTTTC 60.202 40.741 5.68 0.00 0.00 2.29
2853 4777 7.749570 GTCAGTCTGATTCTTTTCAATGATGTG 59.250 37.037 5.68 0.00 0.00 3.21
2855 4779 6.718454 AGTCTGATTCTTTTCAATGATGTGGT 59.282 34.615 0.00 0.00 0.00 4.16
2858 4782 6.916440 TGATTCTTTTCAATGATGTGGTGAG 58.084 36.000 0.00 0.00 0.00 3.51
3000 4924 6.128007 GCCCGTCCAATATTACAATAGAATGG 60.128 42.308 0.00 0.00 0.00 3.16
3004 4928 8.712363 CGTCCAATATTACAATAGAATGGTCTG 58.288 37.037 0.00 0.00 35.12 3.51
3090 5016 2.664916 CTCACGTTGCATTGGGAAAAG 58.335 47.619 0.00 0.00 0.00 2.27
3133 5059 1.826720 GGAGCATTTGGCCATTCTCAA 59.173 47.619 6.09 0.00 46.50 3.02
3276 6913 8.253113 ACATCATTCTCAAAAAGTGTTGAAGTT 58.747 29.630 0.00 0.00 37.08 2.66
3413 7080 1.797018 TACTCCCTCCGTCCCACAGT 61.797 60.000 0.00 0.00 0.00 3.55
3414 7081 1.000019 CTCCCTCCGTCCCACAGTA 60.000 63.158 0.00 0.00 0.00 2.74
3415 7082 1.000019 TCCCTCCGTCCCACAGTAG 60.000 63.158 0.00 0.00 0.00 2.57
3416 7083 1.305046 CCCTCCGTCCCACAGTAGT 60.305 63.158 0.00 0.00 0.00 2.73
3417 7084 0.033796 CCCTCCGTCCCACAGTAGTA 60.034 60.000 0.00 0.00 0.00 1.82
3418 7085 1.101331 CCTCCGTCCCACAGTAGTAC 58.899 60.000 0.00 0.00 0.00 2.73
3419 7086 1.340795 CCTCCGTCCCACAGTAGTACT 60.341 57.143 0.00 0.00 0.00 2.73
3420 7087 2.444421 CTCCGTCCCACAGTAGTACTT 58.556 52.381 0.00 0.00 0.00 2.24
3421 7088 2.163815 CTCCGTCCCACAGTAGTACTTG 59.836 54.545 0.00 0.00 0.00 3.16
3422 7089 1.203994 CCGTCCCACAGTAGTACTTGG 59.796 57.143 17.76 17.76 0.00 3.61
3423 7090 1.203994 CGTCCCACAGTAGTACTTGGG 59.796 57.143 27.89 27.89 42.64 4.12
3424 7091 2.532843 GTCCCACAGTAGTACTTGGGA 58.467 52.381 30.11 30.11 45.07 4.37
3425 7092 2.496470 GTCCCACAGTAGTACTTGGGAG 59.504 54.545 32.25 18.51 46.39 4.30
3426 7093 2.111255 TCCCACAGTAGTACTTGGGAGT 59.889 50.000 30.11 13.85 43.79 3.85
3427 7094 2.904434 CCCACAGTAGTACTTGGGAGTT 59.096 50.000 28.91 0.00 43.30 3.01
3428 7095 3.306780 CCCACAGTAGTACTTGGGAGTTG 60.307 52.174 28.91 10.93 43.30 3.16
3429 7096 3.323979 CCACAGTAGTACTTGGGAGTTGT 59.676 47.826 17.27 3.62 37.33 3.32
3430 7097 4.202326 CCACAGTAGTACTTGGGAGTTGTT 60.202 45.833 17.27 0.00 37.33 2.83
3431 7098 5.365619 CACAGTAGTACTTGGGAGTTGTTT 58.634 41.667 0.00 0.00 37.33 2.83
3432 7099 5.236478 CACAGTAGTACTTGGGAGTTGTTTG 59.764 44.000 0.00 0.00 37.33 2.93
3433 7100 5.129815 ACAGTAGTACTTGGGAGTTGTTTGA 59.870 40.000 0.00 0.00 37.33 2.69
3434 7101 6.053005 CAGTAGTACTTGGGAGTTGTTTGAA 58.947 40.000 0.00 0.00 37.33 2.69
3435 7102 6.710744 CAGTAGTACTTGGGAGTTGTTTGAAT 59.289 38.462 0.00 0.00 37.33 2.57
3436 7103 7.876068 CAGTAGTACTTGGGAGTTGTTTGAATA 59.124 37.037 0.00 0.00 37.33 1.75
3437 7104 8.095169 AGTAGTACTTGGGAGTTGTTTGAATAG 58.905 37.037 0.00 0.00 37.33 1.73
3438 7105 7.074653 AGTACTTGGGAGTTGTTTGAATAGA 57.925 36.000 0.00 0.00 37.33 1.98
3439 7106 7.690256 AGTACTTGGGAGTTGTTTGAATAGAT 58.310 34.615 0.00 0.00 37.33 1.98
3440 7107 6.824305 ACTTGGGAGTTGTTTGAATAGATG 57.176 37.500 0.00 0.00 29.87 2.90
3755 7435 5.475220 TGCCAACGGAGAAAGATTTTATTGA 59.525 36.000 0.00 0.00 0.00 2.57
3799 7489 4.712337 TGTCCCACAACCTAAAAACACATT 59.288 37.500 0.00 0.00 0.00 2.71
4073 7768 9.130312 GACAAAAACAACTACACAAATACACAA 57.870 29.630 0.00 0.00 0.00 3.33
4215 7911 2.529744 AACCCACTGCCACCTCCTC 61.530 63.158 0.00 0.00 0.00 3.71
4289 7985 9.874205 AAATGTCCATCCAACACAAAATATAAG 57.126 29.630 0.00 0.00 0.00 1.73
4293 7989 8.682710 GTCCATCCAACACAAAATATAAGCTTA 58.317 33.333 8.99 8.99 0.00 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.811722 ACATGAACGTATGTGCAACTG 57.188 42.857 0.00 0.00 37.14 3.16
74 283 5.355071 CCAACTGAGTATATGTGTGTGCAAT 59.645 40.000 0.00 0.00 0.00 3.56
123 537 6.943146 TGTCCTGCCAACTAAACATTAATGTA 59.057 34.615 21.07 6.22 40.80 2.29
171 587 1.361668 AAGCTACATTGCCGCGTCAG 61.362 55.000 4.92 0.00 0.00 3.51
188 604 5.112220 ACATCAATGTGTGTGCAACTAAG 57.888 39.130 0.00 0.00 40.03 2.18
189 605 5.512753 AACATCAATGTGTGTGCAACTAA 57.487 34.783 0.00 0.00 41.61 2.24
244 664 1.891919 ACATTGCCGCGTCAACTGT 60.892 52.632 4.03 8.33 0.00 3.55
263 760 3.138304 TCAATGTGTGTGCAACTAGACC 58.862 45.455 0.00 0.00 38.04 3.85
301 798 4.463070 TGAGCATATGTGTGTGCCAATAT 58.537 39.130 4.29 0.00 42.79 1.28
319 818 3.806625 ACATTGCCATACCAATTGAGC 57.193 42.857 7.12 2.45 33.35 4.26
324 823 5.694995 ACTAAGCTACATTGCCATACCAAT 58.305 37.500 0.00 0.00 35.90 3.16
329 828 4.522114 TGCAACTAAGCTACATTGCCATA 58.478 39.130 20.06 5.22 45.45 2.74
331 830 2.789213 TGCAACTAAGCTACATTGCCA 58.211 42.857 20.06 9.90 45.45 4.92
334 833 4.100529 GTGCATGCAACTAAGCTACATTG 58.899 43.478 24.58 0.00 34.99 2.82
342 841 4.740268 ACATCAATGTGCATGCAACTAAG 58.260 39.130 24.58 11.76 40.03 2.18
343 842 4.787260 ACATCAATGTGCATGCAACTAA 57.213 36.364 24.58 9.07 40.03 2.24
352 851 5.278414 CCTGACAACTAAACATCAATGTGCA 60.278 40.000 0.00 0.00 41.61 4.57
353 852 5.048782 TCCTGACAACTAAACATCAATGTGC 60.049 40.000 0.00 0.00 41.61 4.57
360 859 9.431887 TGTAATTAGTCCTGACAACTAAACATC 57.568 33.333 4.30 0.00 41.26 3.06
372 871 8.870116 AGCATATGTGTATGTAATTAGTCCTGA 58.130 33.333 4.29 0.00 39.90 3.86
381 880 6.205464 GCCAACTGAGCATATGTGTATGTAAT 59.795 38.462 4.29 0.00 39.90 1.89
384 883 3.879295 GCCAACTGAGCATATGTGTATGT 59.121 43.478 4.29 0.00 39.90 2.29
385 884 3.059393 CGCCAACTGAGCATATGTGTATG 60.059 47.826 4.29 0.00 40.56 2.39
386 885 3.133691 CGCCAACTGAGCATATGTGTAT 58.866 45.455 4.29 0.00 0.00 2.29
387 886 2.093711 ACGCCAACTGAGCATATGTGTA 60.094 45.455 4.29 0.00 0.00 2.90
417 995 1.726791 CAATGTGTGTGCGACTAGACC 59.273 52.381 0.00 0.00 0.00 3.85
425 1004 4.145876 ACTAAACATCAATGTGTGTGCG 57.854 40.909 0.00 0.00 41.61 5.34
464 1045 4.541085 TGCTTCGTCAATTGAGCATATG 57.459 40.909 8.80 0.00 0.00 1.78
465 1046 5.066893 ACATTGCTTCGTCAATTGAGCATAT 59.933 36.000 17.68 12.24 34.68 1.78
466 1047 4.395854 ACATTGCTTCGTCAATTGAGCATA 59.604 37.500 17.68 10.90 34.68 3.14
467 1048 3.192001 ACATTGCTTCGTCAATTGAGCAT 59.808 39.130 17.68 8.11 34.68 3.79
468 1049 2.553602 ACATTGCTTCGTCAATTGAGCA 59.446 40.909 8.80 12.06 34.68 4.26
469 1050 3.207474 ACATTGCTTCGTCAATTGAGC 57.793 42.857 8.80 9.38 34.68 4.26
470 1051 4.093998 AGCTACATTGCTTCGTCAATTGAG 59.906 41.667 8.80 3.55 40.93 3.02
471 1052 4.002982 AGCTACATTGCTTCGTCAATTGA 58.997 39.130 3.38 3.38 40.93 2.57
472 1053 4.346734 AGCTACATTGCTTCGTCAATTG 57.653 40.909 0.00 0.00 40.93 2.32
479 1060 7.311088 TGTGCAACTAAGCTACATTGCTTCG 62.311 44.000 22.12 2.43 43.33 3.79
480 1061 4.083324 TGTGCAACTAAGCTACATTGCTTC 60.083 41.667 22.12 16.95 43.33 3.86
481 1062 3.820467 TGTGCAACTAAGCTACATTGCTT 59.180 39.130 22.12 6.95 46.06 3.91
482 1063 3.189287 GTGTGCAACTAAGCTACATTGCT 59.811 43.478 22.12 0.00 46.06 3.91
483 1064 3.058293 TGTGTGCAACTAAGCTACATTGC 60.058 43.478 17.46 17.46 46.08 3.56
484 1065 4.747540 TGTGTGCAACTAAGCTACATTG 57.252 40.909 0.00 0.00 38.04 2.82
485 1066 7.336679 TCAATATGTGTGCAACTAAGCTACATT 59.663 33.333 12.08 0.00 40.62 2.71
486 1067 6.823182 TCAATATGTGTGCAACTAAGCTACAT 59.177 34.615 0.00 11.72 41.86 2.29
487 1068 6.169800 TCAATATGTGTGCAACTAAGCTACA 58.830 36.000 0.00 0.00 38.04 2.74
488 1069 6.662414 TCAATATGTGTGCAACTAAGCTAC 57.338 37.500 0.00 0.00 38.04 3.58
489 1070 6.823182 ACATCAATATGTGTGCAACTAAGCTA 59.177 34.615 0.00 0.00 44.79 3.32
490 1071 5.649395 ACATCAATATGTGTGCAACTAAGCT 59.351 36.000 0.00 0.00 44.79 3.74
491 1072 5.883661 ACATCAATATGTGTGCAACTAAGC 58.116 37.500 0.00 0.00 44.79 3.09
492 1073 9.494479 CTAAACATCAATATGTGTGCAACTAAG 57.506 33.333 0.00 0.00 45.79 2.18
493 1074 9.008965 ACTAAACATCAATATGTGTGCAACTAA 57.991 29.630 0.00 0.00 45.79 2.24
494 1075 8.560355 ACTAAACATCAATATGTGTGCAACTA 57.440 30.769 0.00 0.00 45.79 2.24
495 1076 7.452880 ACTAAACATCAATATGTGTGCAACT 57.547 32.000 0.00 0.00 45.79 3.16
496 1077 7.062138 CCAACTAAACATCAATATGTGTGCAAC 59.938 37.037 0.00 0.00 45.79 4.17
497 1078 7.040132 TCCAACTAAACATCAATATGTGTGCAA 60.040 33.333 0.00 0.00 45.79 4.08
498 1079 6.432472 TCCAACTAAACATCAATATGTGTGCA 59.568 34.615 0.00 0.00 45.79 4.57
499 1080 6.851609 TCCAACTAAACATCAATATGTGTGC 58.148 36.000 0.00 0.00 45.79 4.57
500 1081 7.970061 CCTTCCAACTAAACATCAATATGTGTG 59.030 37.037 0.00 0.00 45.79 3.82
501 1082 7.888021 TCCTTCCAACTAAACATCAATATGTGT 59.112 33.333 0.00 0.00 45.79 3.72
502 1083 8.184192 GTCCTTCCAACTAAACATCAATATGTG 58.816 37.037 0.00 0.00 45.79 3.21
504 1085 8.511604 AGTCCTTCCAACTAAACATCAATATG 57.488 34.615 0.00 0.00 39.17 1.78
505 1086 9.838339 CTAGTCCTTCCAACTAAACATCAATAT 57.162 33.333 0.00 0.00 0.00 1.28
506 1087 8.822805 ACTAGTCCTTCCAACTAAACATCAATA 58.177 33.333 0.00 0.00 0.00 1.90
507 1088 7.690256 ACTAGTCCTTCCAACTAAACATCAAT 58.310 34.615 0.00 0.00 0.00 2.57
508 1089 7.074653 ACTAGTCCTTCCAACTAAACATCAA 57.925 36.000 0.00 0.00 0.00 2.57
509 1090 6.681729 ACTAGTCCTTCCAACTAAACATCA 57.318 37.500 0.00 0.00 0.00 3.07
512 1093 9.092338 TGTATAACTAGTCCTTCCAACTAAACA 57.908 33.333 0.00 0.00 0.00 2.83
513 1094 9.363763 GTGTATAACTAGTCCTTCCAACTAAAC 57.636 37.037 0.00 0.00 0.00 2.01
514 1095 9.092338 TGTGTATAACTAGTCCTTCCAACTAAA 57.908 33.333 0.00 0.00 0.00 1.85
515 1096 8.654485 TGTGTATAACTAGTCCTTCCAACTAA 57.346 34.615 0.00 0.00 0.00 2.24
516 1097 8.834004 ATGTGTATAACTAGTCCTTCCAACTA 57.166 34.615 0.00 0.00 0.00 2.24
517 1098 7.735326 ATGTGTATAACTAGTCCTTCCAACT 57.265 36.000 0.00 0.00 0.00 3.16
518 1099 9.477484 CATATGTGTATAACTAGTCCTTCCAAC 57.523 37.037 0.00 0.00 0.00 3.77
519 1100 8.148351 GCATATGTGTATAACTAGTCCTTCCAA 58.852 37.037 4.29 0.00 0.00 3.53
520 1101 7.509318 AGCATATGTGTATAACTAGTCCTTCCA 59.491 37.037 4.29 0.00 0.00 3.53
521 1102 7.897864 AGCATATGTGTATAACTAGTCCTTCC 58.102 38.462 4.29 0.00 0.00 3.46
522 1103 8.577296 TGAGCATATGTGTATAACTAGTCCTTC 58.423 37.037 4.29 0.00 0.00 3.46
523 1104 8.478775 TGAGCATATGTGTATAACTAGTCCTT 57.521 34.615 4.29 0.00 0.00 3.36
524 1105 7.726291 ACTGAGCATATGTGTATAACTAGTCCT 59.274 37.037 4.29 0.00 0.00 3.85
525 1106 7.887381 ACTGAGCATATGTGTATAACTAGTCC 58.113 38.462 4.29 0.00 0.00 3.85
526 1107 9.186323 CAACTGAGCATATGTGTATAACTAGTC 57.814 37.037 4.29 0.00 0.00 2.59
527 1108 8.144478 CCAACTGAGCATATGTGTATAACTAGT 58.856 37.037 4.29 0.00 0.00 2.57
528 1109 7.116948 GCCAACTGAGCATATGTGTATAACTAG 59.883 40.741 4.29 0.00 0.00 2.57
529 1110 6.929049 GCCAACTGAGCATATGTGTATAACTA 59.071 38.462 4.29 0.00 0.00 2.24
530 1111 5.760253 GCCAACTGAGCATATGTGTATAACT 59.240 40.000 4.29 0.00 0.00 2.24
531 1112 5.333339 CGCCAACTGAGCATATGTGTATAAC 60.333 44.000 4.29 0.00 0.00 1.89
532 1113 4.749598 CGCCAACTGAGCATATGTGTATAA 59.250 41.667 4.29 0.00 0.00 0.98
533 1114 4.306600 CGCCAACTGAGCATATGTGTATA 58.693 43.478 4.29 0.00 0.00 1.47
534 1115 3.133691 CGCCAACTGAGCATATGTGTAT 58.866 45.455 4.29 0.00 0.00 2.29
565 1146 1.260561 CAACGTGTGTGCAACTAGACC 59.739 52.381 0.00 0.00 38.04 3.85
582 1163 4.518970 TCTTCCTGCCAACTAAACATCAAC 59.481 41.667 0.00 0.00 0.00 3.18
631 1212 3.400255 GTGCTCTTTAAAAGTCGACCCT 58.600 45.455 13.01 0.00 0.00 4.34
637 1218 2.717893 CGCGACGTGCTCTTTAAAAGTC 60.718 50.000 0.00 0.00 43.27 3.01
659 1240 6.540914 AGATCAGTTTTCACCGTTTAAACTCA 59.459 34.615 16.01 0.00 39.40 3.41
661 1242 6.937436 AGATCAGTTTTCACCGTTTAAACT 57.063 33.333 16.01 0.00 41.42 2.66
666 1247 7.589954 CGAAATTTAGATCAGTTTTCACCGTTT 59.410 33.333 0.00 0.00 0.00 3.60
679 1260 2.601314 CCGCGTGTCGAAATTTAGATCA 59.399 45.455 4.92 2.64 41.67 2.92
768 1355 3.608796 TGCTCATGTTGCTGCACTAATA 58.391 40.909 0.00 0.00 0.00 0.98
773 1360 0.179145 GGATGCTCATGTTGCTGCAC 60.179 55.000 0.00 0.00 38.29 4.57
786 1373 5.126707 GGTCTTTTCTCATTTGATGGATGCT 59.873 40.000 0.00 0.00 0.00 3.79
797 1386 9.471702 AATCATCTTATGTGGTCTTTTCTCATT 57.528 29.630 0.00 0.00 0.00 2.57
880 1470 2.946329 AGCACGTCTAGTCCTATCACAG 59.054 50.000 0.00 0.00 0.00 3.66
944 1553 4.082523 GTGTCTAGCTGGCGGCCA 62.083 66.667 22.39 22.39 43.05 5.36
970 1579 9.383519 CCATCTTAATTATCCGTGCACTATATT 57.616 33.333 16.19 9.47 0.00 1.28
979 1588 8.839310 AATCTTCTCCATCTTAATTATCCGTG 57.161 34.615 0.00 0.00 0.00 4.94
998 1607 2.194271 CTCGTAGACGGCCAAATCTTC 58.806 52.381 2.24 0.00 40.29 2.87
1057 2640 3.002451 CGAGTAGGGTGATCGAGTAAGTG 59.998 52.174 0.00 0.00 38.72 3.16
1068 2704 2.093075 AGAAGACGATCGAGTAGGGTGA 60.093 50.000 24.34 0.00 0.00 4.02
1070 2706 2.290464 CAGAAGACGATCGAGTAGGGT 58.710 52.381 24.34 0.00 0.00 4.34
1090 2726 1.035923 TGAGGAGATCAGATCGTGGC 58.964 55.000 4.67 0.00 32.77 5.01
1278 2924 1.912110 GTTGTAGATGACAGCGTCGAC 59.088 52.381 5.18 5.18 39.88 4.20
1416 3064 1.517913 GGCCGTTGTAGTAGTCCGC 60.518 63.158 0.00 0.00 0.00 5.54
1426 3074 0.693049 AATCAAGAGGAGGCCGTTGT 59.307 50.000 0.00 0.00 0.00 3.32
1577 3239 2.103538 TCGTAATGCGGCGAGACC 59.896 61.111 12.98 0.00 41.72 3.85
1623 3285 1.518572 CCACGTCGGCTGGTACATC 60.519 63.158 0.00 0.00 38.20 3.06
1788 3450 4.495422 CAGTGAGCGGAGTAGTACAATTT 58.505 43.478 2.52 0.00 0.00 1.82
1846 3508 8.603304 AGTAGTACCTCATAACAAAATCACCTT 58.397 33.333 0.00 0.00 0.00 3.50
1936 3604 6.649155 AGCAAACCAACTTTAAAGGTCAATT 58.351 32.000 19.14 4.04 33.74 2.32
1940 3608 6.370442 ACAAAAGCAAACCAACTTTAAAGGTC 59.630 34.615 19.14 0.00 35.10 3.85
2123 3791 3.271586 TGTATCGCGCCAGCATGC 61.272 61.111 10.51 10.51 45.49 4.06
2139 3807 8.872845 GCAGATTTCATTATTTAAAACCCAGTG 58.127 33.333 0.00 0.00 0.00 3.66
2200 3868 2.437281 GAGATCCATGGTCCACTGTCAT 59.563 50.000 12.58 0.00 0.00 3.06
2233 3901 4.561735 TCCAACAACGATTCCTTTTGTC 57.438 40.909 0.00 0.00 32.24 3.18
2294 3962 7.990541 TTCAAAATCATCTTTGGATATTGCG 57.009 32.000 0.00 0.00 37.00 4.85
2522 4190 7.416664 GCAAAGGAAATAGCCACATCAGAATAA 60.417 37.037 0.00 0.00 0.00 1.40
2621 4289 8.697507 AAGAGAAGTTTCCATTAATGACAAGT 57.302 30.769 17.23 8.69 0.00 3.16
2731 4413 9.917129 TGAGTCGTCAATTTACAAAGAAGTATA 57.083 29.630 0.00 0.00 0.00 1.47
2732 4414 8.827177 TGAGTCGTCAATTTACAAAGAAGTAT 57.173 30.769 0.00 0.00 0.00 2.12
2733 4415 8.651391 TTGAGTCGTCAATTTACAAAGAAGTA 57.349 30.769 0.00 0.00 37.79 2.24
2734 4416 7.548196 TTGAGTCGTCAATTTACAAAGAAGT 57.452 32.000 0.00 0.00 37.79 3.01
2796 4720 4.216902 GCTTACAAAGAATGTTAACCCGGT 59.783 41.667 0.00 0.00 43.63 5.28
2832 4756 6.716173 TCACCACATCATTGAAAAGAATCAGA 59.284 34.615 0.00 0.00 0.00 3.27
2844 4768 2.094390 CCCTTTGCTCACCACATCATTG 60.094 50.000 0.00 0.00 0.00 2.82
2853 4777 1.001633 TCGTTACTCCCTTTGCTCACC 59.998 52.381 0.00 0.00 0.00 4.02
2855 4779 2.103432 TGTTCGTTACTCCCTTTGCTCA 59.897 45.455 0.00 0.00 0.00 4.26
2858 4782 3.549423 GGTTTGTTCGTTACTCCCTTTGC 60.549 47.826 0.00 0.00 0.00 3.68
3055 4980 0.318441 GTGAGCCGCCATATCTGCTA 59.682 55.000 0.00 0.00 33.41 3.49
3090 5016 8.964476 TCCTTCTATATGTTTTCACCTCATTC 57.036 34.615 0.00 0.00 0.00 2.67
3133 5059 2.035626 CGGGTGCCATTCCAAGGT 59.964 61.111 0.00 0.00 0.00 3.50
3231 6861 6.511416 TGATGTAAAACAAATTCACCCAGTG 58.489 36.000 0.00 0.00 34.45 3.66
3413 7080 8.197592 TCTATTCAAACAACTCCCAAGTACTA 57.802 34.615 0.00 0.00 33.48 1.82
3414 7081 7.074653 TCTATTCAAACAACTCCCAAGTACT 57.925 36.000 0.00 0.00 33.48 2.73
3415 7082 7.148239 CCATCTATTCAAACAACTCCCAAGTAC 60.148 40.741 0.00 0.00 33.48 2.73
3416 7083 6.884295 CCATCTATTCAAACAACTCCCAAGTA 59.116 38.462 0.00 0.00 33.48 2.24
3417 7084 5.711976 CCATCTATTCAAACAACTCCCAAGT 59.288 40.000 0.00 0.00 37.32 3.16
3418 7085 5.711976 ACCATCTATTCAAACAACTCCCAAG 59.288 40.000 0.00 0.00 0.00 3.61
3419 7086 5.640147 ACCATCTATTCAAACAACTCCCAA 58.360 37.500 0.00 0.00 0.00 4.12
3420 7087 5.255397 ACCATCTATTCAAACAACTCCCA 57.745 39.130 0.00 0.00 0.00 4.37
3421 7088 6.318900 CCTAACCATCTATTCAAACAACTCCC 59.681 42.308 0.00 0.00 0.00 4.30
3422 7089 6.884836 ACCTAACCATCTATTCAAACAACTCC 59.115 38.462 0.00 0.00 0.00 3.85
3423 7090 7.824779 AGACCTAACCATCTATTCAAACAACTC 59.175 37.037 0.00 0.00 0.00 3.01
3424 7091 7.690256 AGACCTAACCATCTATTCAAACAACT 58.310 34.615 0.00 0.00 0.00 3.16
3425 7092 7.824779 AGAGACCTAACCATCTATTCAAACAAC 59.175 37.037 0.00 0.00 0.00 3.32
3426 7093 7.918076 AGAGACCTAACCATCTATTCAAACAA 58.082 34.615 0.00 0.00 0.00 2.83
3427 7094 7.180229 TGAGAGACCTAACCATCTATTCAAACA 59.820 37.037 0.00 0.00 0.00 2.83
3428 7095 7.556844 TGAGAGACCTAACCATCTATTCAAAC 58.443 38.462 0.00 0.00 0.00 2.93
3429 7096 7.733773 TGAGAGACCTAACCATCTATTCAAA 57.266 36.000 0.00 0.00 0.00 2.69
3430 7097 7.733773 TTGAGAGACCTAACCATCTATTCAA 57.266 36.000 0.00 0.00 31.41 2.69
3431 7098 7.255625 CGATTGAGAGACCTAACCATCTATTCA 60.256 40.741 0.00 0.00 0.00 2.57
3432 7099 7.087639 CGATTGAGAGACCTAACCATCTATTC 58.912 42.308 0.00 0.00 0.00 1.75
3433 7100 6.551601 ACGATTGAGAGACCTAACCATCTATT 59.448 38.462 0.00 0.00 0.00 1.73
3434 7101 6.071984 ACGATTGAGAGACCTAACCATCTAT 58.928 40.000 0.00 0.00 0.00 1.98
3435 7102 5.446860 ACGATTGAGAGACCTAACCATCTA 58.553 41.667 0.00 0.00 0.00 1.98
3436 7103 4.282496 ACGATTGAGAGACCTAACCATCT 58.718 43.478 0.00 0.00 0.00 2.90
3437 7104 4.657436 ACGATTGAGAGACCTAACCATC 57.343 45.455 0.00 0.00 0.00 3.51
3438 7105 7.834881 TTATACGATTGAGAGACCTAACCAT 57.165 36.000 0.00 0.00 0.00 3.55
3439 7106 7.504574 TCATTATACGATTGAGAGACCTAACCA 59.495 37.037 0.00 0.00 0.00 3.67
3440 7107 7.883217 TCATTATACGATTGAGAGACCTAACC 58.117 38.462 0.00 0.00 0.00 2.85
3474 7141 7.490402 CCATATTCTGAAATTGCAAGAAAGACC 59.510 37.037 4.94 0.00 0.00 3.85
3589 7257 7.118496 TGTTGTTTTTGTCCAGAATAATGGT 57.882 32.000 0.00 0.00 41.43 3.55
3686 7366 7.785033 TGACATCTCATACTCTGCAAATCTAA 58.215 34.615 0.00 0.00 0.00 2.10
3687 7367 7.286316 TCTGACATCTCATACTCTGCAAATCTA 59.714 37.037 0.00 0.00 0.00 1.98
3693 7373 4.891756 TGATCTGACATCTCATACTCTGCA 59.108 41.667 0.00 0.00 0.00 4.41
3755 7435 5.248640 ACAATGTGCAATTAGCTAGAGTGT 58.751 37.500 0.00 0.00 45.94 3.55
3847 7537 4.545678 AGCACAAGAGAGAGTCCTCATAT 58.454 43.478 10.19 0.00 41.87 1.78
3895 7587 9.832445 GGTCCTATAGATCTCAAAATGTTGTTA 57.168 33.333 0.00 0.00 36.07 2.41
4073 7768 3.151554 TCATGTGCACATTCTTCTTGCT 58.848 40.909 29.48 2.68 37.16 3.91
4260 7956 4.319139 TTGTGTTGGATGGACATTTGTG 57.681 40.909 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.