Multiple sequence alignment - TraesCS2A01G029600

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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 TraesCS2A01G029600 chr2A 100.000 3938 0 0 1 3938 13137883 13133946 0.000000e+00 7273.0
1 TraesCS2A01G029600 chr2A 83.232 2797 440 14 84 2867 14299922 14302702 0.000000e+00 2540.0
2 TraesCS2A01G029600 chr2A 83.252 2675 421 16 224 2880 13850174 13847509 0.000000e+00 2433.0
3 TraesCS2A01G029600 chr2A 80.996 2810 495 25 127 2915 14471195 14468404 0.000000e+00 2194.0
4 TraesCS2A01G029600 chr2A 93.333 45 3 0 13 57 13850394 13850350 2.540000e-07 67.6
5 TraesCS2A01G029600 chr2B 92.207 3747 240 21 3 3722 19441312 19445033 0.000000e+00 5254.0
6 TraesCS2A01G029600 chr2B 85.882 2904 396 9 86 2980 19396761 19393863 0.000000e+00 3079.0
7 TraesCS2A01G029600 chr2B 82.971 2901 421 45 84 2955 22782271 22785127 0.000000e+00 2553.0
8 TraesCS2A01G029600 chr2B 83.650 2734 412 26 213 2925 21909892 21912611 0.000000e+00 2540.0
9 TraesCS2A01G029600 chr2B 81.150 2817 484 31 124 2915 20364975 20367769 0.000000e+00 2217.0
10 TraesCS2A01G029600 chr2B 80.365 2847 505 29 124 2947 20076713 20073898 0.000000e+00 2111.0
11 TraesCS2A01G029600 chr2B 84.615 195 29 1 2763 2956 19393475 19393281 4.020000e-45 193.0
12 TraesCS2A01G029600 chr2B 94.872 39 2 0 13 51 21909683 21909721 1.180000e-05 62.1
13 TraesCS2A01G029600 chrUn 92.523 107 8 0 3832 3938 79356012 79356118 1.890000e-33 154.0
14 TraesCS2A01G029600 chrUn 92.523 107 8 0 3832 3938 79391728 79391834 1.890000e-33 154.0
15 TraesCS2A01G029600 chrUn 93.269 104 7 0 3835 3938 326412132 326412029 1.890000e-33 154.0
16 TraesCS2A01G029600 chrUn 93.269 104 7 0 3835 3938 459677606 459677503 1.890000e-33 154.0
17 TraesCS2A01G029600 chrUn 91.589 107 9 0 3832 3938 79365988 79366094 8.820000e-32 148.0
18 TraesCS2A01G029600 chrUn 93.421 76 5 0 3751 3826 79365640 79365715 3.220000e-21 113.0
19 TraesCS2A01G029600 chrUn 93.421 76 5 0 3751 3826 79391380 79391455 3.220000e-21 113.0
20 TraesCS2A01G029600 chrUn 93.421 76 5 0 3751 3826 326412483 326412408 3.220000e-21 113.0
21 TraesCS2A01G029600 chr6B 92.523 107 8 0 3832 3938 679512756 679512862 1.890000e-33 154.0
22 TraesCS2A01G029600 chr6B 92.523 107 8 0 3832 3938 679523931 679524037 1.890000e-33 154.0
23 TraesCS2A01G029600 chr6B 90.654 107 10 0 3832 3938 679453839 679453945 4.100000e-30 143.0
24 TraesCS2A01G029600 chr6B 90.654 107 10 0 3832 3938 679466352 679466458 4.100000e-30 143.0
25 TraesCS2A01G029600 chr6B 93.421 76 5 0 3751 3826 679512408 679512483 3.220000e-21 113.0
26 TraesCS2A01G029600 chr6B 93.421 76 5 0 3751 3826 679523583 679523658 3.220000e-21 113.0


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 TraesCS2A01G029600 chr2A 13133946 13137883 3937 True 7273.00 7273 100.0000 1 3938 1 chr2A.!!$R1 3937
1 TraesCS2A01G029600 chr2A 14299922 14302702 2780 False 2540.00 2540 83.2320 84 2867 1 chr2A.!!$F1 2783
2 TraesCS2A01G029600 chr2A 14468404 14471195 2791 True 2194.00 2194 80.9960 127 2915 1 chr2A.!!$R2 2788
3 TraesCS2A01G029600 chr2A 13847509 13850394 2885 True 1250.30 2433 88.2925 13 2880 2 chr2A.!!$R3 2867
4 TraesCS2A01G029600 chr2B 19441312 19445033 3721 False 5254.00 5254 92.2070 3 3722 1 chr2B.!!$F1 3719
5 TraesCS2A01G029600 chr2B 22782271 22785127 2856 False 2553.00 2553 82.9710 84 2955 1 chr2B.!!$F3 2871
6 TraesCS2A01G029600 chr2B 20364975 20367769 2794 False 2217.00 2217 81.1500 124 2915 1 chr2B.!!$F2 2791
7 TraesCS2A01G029600 chr2B 20073898 20076713 2815 True 2111.00 2111 80.3650 124 2947 1 chr2B.!!$R1 2823
8 TraesCS2A01G029600 chr2B 19393281 19396761 3480 True 1636.00 3079 85.2485 86 2980 2 chr2B.!!$R2 2894
9 TraesCS2A01G029600 chr2B 21909683 21912611 2928 False 1301.05 2540 89.2610 13 2925 2 chr2B.!!$F4 2912

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
675 724 0.234884 CTTTTCCAAGTGGTCGCGAC 59.765 55.0 30.67 30.67 36.34 5.19 F
1657 1722 0.035317 TGAGCTCCACATTGCGAAGT 59.965 50.0 12.15 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 2029 0.384669 GCTCCTGCAATTGATGAGGC 59.615 55.0 10.34 3.62 39.41 4.70 R
3128 3347 0.252103 GAGTCTCCCACCTACACCCA 60.252 60.0 0.00 0.00 0.00 4.51 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
57 58 1.986575 GCAAGATTGGCGACCTGCTC 61.987 60.000 0.00 0.00 45.43 4.26
59 60 0.392193 AAGATTGGCGACCTGCTCTG 60.392 55.000 0.00 0.00 45.43 3.35
62 63 4.687215 TGGCGACCTGCTCTGCAC 62.687 66.667 0.00 0.00 45.43 4.57
63 64 4.385405 GGCGACCTGCTCTGCACT 62.385 66.667 0.00 0.00 45.43 4.40
64 65 2.358003 GCGACCTGCTCTGCACTT 60.358 61.111 0.00 0.00 41.73 3.16
65 66 1.963338 GCGACCTGCTCTGCACTTT 60.963 57.895 0.00 0.00 41.73 2.66
67 68 1.578423 GACCTGCTCTGCACTTTGC 59.422 57.895 0.00 0.00 45.29 3.68
68 69 1.860484 GACCTGCTCTGCACTTTGCC 61.860 60.000 0.00 0.00 44.23 4.52
71 72 2.138656 CTGCTCTGCACTTTGCCACC 62.139 60.000 0.00 0.00 44.23 4.61
74 93 3.594775 CTGCACTTTGCCACCGCA 61.595 61.111 0.00 0.00 44.23 5.69
105 130 1.093159 CTGATTCAGGCAGGCAAGTC 58.907 55.000 5.73 0.00 0.00 3.01
122 150 4.410400 CCTTCAGGCGGGGGTGTC 62.410 72.222 0.00 0.00 0.00 3.67
219 247 3.264104 CATGATGGTTTCCATTGTTGGC 58.736 45.455 2.71 0.00 45.26 4.52
306 334 5.404946 CATTTTGATGTCAGATGTTGGGTC 58.595 41.667 2.24 0.00 0.00 4.46
329 357 4.703897 TCAGTTTCCACTAGTTCCAACAG 58.296 43.478 0.00 0.00 0.00 3.16
380 411 3.145551 CCAGCCAGCTTGGGATGC 61.146 66.667 2.85 0.00 42.95 3.91
398 441 1.155042 GCATCCGATGAGAAGATGGC 58.845 55.000 12.79 0.00 38.25 4.40
405 448 2.478134 CGATGAGAAGATGGCGGATTTC 59.522 50.000 0.00 0.00 0.00 2.17
441 484 0.243095 AGCTCCGTCGACTTGTTACC 59.757 55.000 14.70 0.00 0.00 2.85
492 538 3.777106 ATCTGTAATGGCATGGACGAT 57.223 42.857 0.00 7.37 0.00 3.73
525 571 1.393603 TGATGGCTCCTCTACAGTCG 58.606 55.000 0.00 0.00 0.00 4.18
530 576 2.010582 GCTCCTCTACAGTCGGCAGG 62.011 65.000 0.00 0.00 0.00 4.85
597 646 1.522355 CTTCCTCGGTGCATCGCAT 60.522 57.895 16.22 0.00 41.91 4.73
642 691 2.537560 CGACGATTGCTGGGCCATC 61.538 63.158 6.72 2.53 0.00 3.51
675 724 0.234884 CTTTTCCAAGTGGTCGCGAC 59.765 55.000 30.67 30.67 36.34 5.19
683 732 2.741985 TGGTCGCGACAATGCCTG 60.742 61.111 37.26 0.00 0.00 4.85
702 751 2.959030 CTGTCCAGATCTTCACCCGATA 59.041 50.000 0.00 0.00 0.00 2.92
832 884 5.886960 AACAGGATTACAAGACAATGCTC 57.113 39.130 0.00 0.00 32.43 4.26
904 956 1.268234 GGTGCTTCGCATATTGCAGTC 60.268 52.381 0.00 0.00 45.36 3.51
934 986 7.685481 TCCACAGAACTATAAGTTTGATCCAA 58.315 34.615 0.00 0.00 38.80 3.53
937 989 8.950210 CACAGAACTATAAGTTTGATCCAACAT 58.050 33.333 11.85 2.80 38.80 2.71
992 1044 3.815407 AACCACAAGGCAGGGCTGG 62.815 63.158 0.00 0.00 39.06 4.85
993 1045 4.290622 CCACAAGGCAGGGCTGGT 62.291 66.667 0.00 0.00 0.00 4.00
999 1051 0.900182 AAGGCAGGGCTGGTAAAAGC 60.900 55.000 0.00 0.00 42.75 3.51
1014 1066 4.036852 GGTAAAAGCATGGAAGACATAGCC 59.963 45.833 0.00 0.00 37.84 3.93
1077 1130 4.313020 AGAAATCAAGCTTGGATCCAGT 57.687 40.909 25.73 2.78 0.00 4.00
1197 1250 1.672356 AACAGTGCGCCATCTGTCC 60.672 57.895 23.01 0.00 42.95 4.02
1243 1296 1.160137 CACAAGCTTCAGTGGGCTAC 58.840 55.000 8.67 0.00 37.87 3.58
1244 1297 0.036875 ACAAGCTTCAGTGGGCTACC 59.963 55.000 10.90 0.00 37.87 3.18
1263 1316 1.155042 CAGAGCTGCTCACCTTGTTC 58.845 55.000 29.49 2.01 32.06 3.18
1336 1401 8.846943 TGCTGTGAATTTAGAAAGTATCTTGA 57.153 30.769 0.00 0.00 39.71 3.02
1581 1646 3.181488 TGCGGCATCTTATGGTTGAAATG 60.181 43.478 0.00 0.00 0.00 2.32
1597 1662 6.183360 GGTTGAAATGAAGTATACTGCAGGAC 60.183 42.308 18.53 12.79 34.42 3.85
1652 1717 1.527034 TCACTTGAGCTCCACATTGC 58.473 50.000 12.15 0.00 0.00 3.56
1657 1722 0.035317 TGAGCTCCACATTGCGAAGT 59.965 50.000 12.15 0.00 0.00 3.01
1658 1723 1.160137 GAGCTCCACATTGCGAAGTT 58.840 50.000 0.87 0.00 0.00 2.66
1680 1745 0.467290 AAGGGCGCAAACCAGAAGAA 60.467 50.000 10.83 0.00 0.00 2.52
1692 1757 6.739565 GCAAACCAGAAGAATTGAGGAACATT 60.740 38.462 0.00 0.00 0.00 2.71
1693 1758 5.972107 ACCAGAAGAATTGAGGAACATTG 57.028 39.130 0.00 0.00 0.00 2.82
1711 1776 5.195940 ACATTGATGGTCTTCATGGGTTAG 58.804 41.667 0.00 0.00 35.97 2.34
1877 1945 4.783621 TCTGCGGCCTCACCATGC 62.784 66.667 0.00 0.00 39.03 4.06
1923 1991 3.675126 TATTGTGGCGCCAAAGCTCCT 62.675 52.381 34.66 14.00 44.67 3.69
1980 2048 0.384669 GCCTCATCAATTGCAGGAGC 59.615 55.000 17.57 7.66 42.57 4.70
2119 2187 6.433847 TTCCATCTCTAAGTGTCCTTGAAA 57.566 37.500 0.00 0.00 31.89 2.69
2237 2305 9.485206 AGAATTGATCAAAATTCCTTTGTTCTG 57.515 29.630 13.09 0.00 44.29 3.02
2268 2336 2.226200 TCGTGAAGTTACCATCGAACGA 59.774 45.455 0.00 0.00 31.85 3.85
2334 2402 1.093159 CAGAAATGCTCCAGCTGGAC 58.907 55.000 32.00 25.76 39.78 4.02
2505 2573 4.082408 CGGTGTAATCTTACTGACCAGACA 60.082 45.833 3.76 0.00 32.26 3.41
2554 2622 6.808704 GCCTTGTTTGTCTTATTTGGAGATTC 59.191 38.462 0.00 0.00 0.00 2.52
2571 2639 6.551601 TGGAGATTCTAGACCTTCCTAACATC 59.448 42.308 13.76 2.57 0.00 3.06
2583 2651 4.123497 TCCTAACATCACATCACTTCCG 57.877 45.455 0.00 0.00 0.00 4.30
2584 2652 3.513912 TCCTAACATCACATCACTTCCGT 59.486 43.478 0.00 0.00 0.00 4.69
2611 2679 4.552767 CGGAAACAGTTAAGTTCTGCACAG 60.553 45.833 0.00 0.00 36.50 3.66
2700 2781 8.579850 TTGCTTCACTAAAATATCTGGTGATT 57.420 30.769 5.23 0.00 36.90 2.57
2809 2890 3.997021 CACAGAGCTTCAATCTTTACCGT 59.003 43.478 0.00 0.00 0.00 4.83
2820 2907 3.364889 TCTTTACCGTATCTGCCATCG 57.635 47.619 0.00 0.00 0.00 3.84
2836 2923 2.878406 CCATCGTCACTGGAAACACTTT 59.122 45.455 0.00 0.00 35.70 2.66
2931 3018 6.213677 TGCAATTGTACCTAGTGTATCGATC 58.786 40.000 0.00 0.00 0.00 3.69
2987 3075 9.521503 AAATTTTAAGTCTCTGTTTTTGCTCTC 57.478 29.630 0.00 0.00 0.00 3.20
2988 3076 7.865706 TTTTAAGTCTCTGTTTTTGCTCTCT 57.134 32.000 0.00 0.00 0.00 3.10
2990 3078 4.414337 AGTCTCTGTTTTTGCTCTCTGT 57.586 40.909 0.00 0.00 0.00 3.41
2992 3080 5.189180 AGTCTCTGTTTTTGCTCTCTGTTT 58.811 37.500 0.00 0.00 0.00 2.83
2993 3081 5.649831 AGTCTCTGTTTTTGCTCTCTGTTTT 59.350 36.000 0.00 0.00 0.00 2.43
2994 3082 6.151817 AGTCTCTGTTTTTGCTCTCTGTTTTT 59.848 34.615 0.00 0.00 0.00 1.94
2996 3084 4.864247 TCTGTTTTTGCTCTCTGTTTTTGC 59.136 37.500 0.00 0.00 0.00 3.68
2997 3085 4.819769 TGTTTTTGCTCTCTGTTTTTGCT 58.180 34.783 0.00 0.00 0.00 3.91
2998 3086 5.237048 TGTTTTTGCTCTCTGTTTTTGCTT 58.763 33.333 0.00 0.00 0.00 3.91
2999 3087 5.120519 TGTTTTTGCTCTCTGTTTTTGCTTG 59.879 36.000 0.00 0.00 0.00 4.01
3043 3131 6.151691 GCATGTTCATGAGAAGCTTACAAAA 58.848 36.000 15.74 0.20 33.63 2.44
3044 3132 6.810182 GCATGTTCATGAGAAGCTTACAAAAT 59.190 34.615 15.74 0.00 33.63 1.82
3045 3133 7.008992 GCATGTTCATGAGAAGCTTACAAAATC 59.991 37.037 15.74 0.00 33.63 2.17
3047 3135 7.587629 TGTTCATGAGAAGCTTACAAAATCTG 58.412 34.615 0.00 0.00 33.63 2.90
3051 3140 9.017509 TCATGAGAAGCTTACAAAATCTGAATT 57.982 29.630 0.00 0.00 0.00 2.17
3093 3312 3.321111 GGGAGGAAAAACCCTGTCTTTTC 59.679 47.826 0.00 0.00 42.56 2.29
3098 3317 6.640518 AGGAAAAACCCTGTCTTTTCTTTTC 58.359 36.000 7.10 0.00 40.08 2.29
3119 3338 5.767816 TCAAGAAAAACTGTAAGGGAAGC 57.232 39.130 0.00 0.00 39.30 3.86
3128 3347 2.887152 CTGTAAGGGAAGCTTTGCACTT 59.113 45.455 0.00 3.97 0.00 3.16
3130 3349 1.043022 AAGGGAAGCTTTGCACTTGG 58.957 50.000 0.00 0.00 0.00 3.61
3237 3456 9.990360 TGGGAATTTCTTAAATTTTTAGTGACC 57.010 29.630 0.00 0.00 40.97 4.02
3240 3459 9.902196 GAATTTCTTAAATTTTTAGTGACCGGA 57.098 29.630 9.46 0.00 40.97 5.14
3253 3472 4.759782 AGTGACCGGAAGAGATTAACATG 58.240 43.478 9.46 0.00 0.00 3.21
3319 3538 5.291178 CAATGATTTTGAGTTGTTCAGCCA 58.709 37.500 0.00 0.00 37.07 4.75
3339 3558 3.257873 CCATGTTTTGCTGGTCCATTGTA 59.742 43.478 0.00 0.00 0.00 2.41
3361 3580 3.203040 ACTTGACCTTATGGAATCCTGGG 59.797 47.826 0.00 0.09 37.04 4.45
3363 3582 1.777272 GACCTTATGGAATCCTGGGCT 59.223 52.381 0.00 0.00 37.04 5.19
3409 3628 6.409524 ACAGGTCATGTGAAATGTTCATTT 57.590 33.333 10.04 10.04 41.91 2.32
3437 3656 1.388547 TGTTGTCACTTGACCTTGCC 58.611 50.000 6.91 0.00 44.15 4.52
3462 3681 2.507484 TGGCATTTCAGGAGAAGTGTG 58.493 47.619 0.00 0.00 41.84 3.82
3469 3688 3.194005 TCAGGAGAAGTGTGTGGTTTC 57.806 47.619 0.00 0.00 0.00 2.78
3475 3694 2.159014 AGAAGTGTGTGGTTTCGTAGCA 60.159 45.455 0.00 0.00 0.00 3.49
3494 3713 8.394877 TCGTAGCACATAATTTAGAAAACCATG 58.605 33.333 0.00 0.00 0.00 3.66
3519 3738 4.551702 TGATGGAAATGTTTCGAGGAGA 57.448 40.909 0.00 0.00 38.06 3.71
3531 3750 9.838339 AATGTTTCGAGGAGATAAACTCATAAT 57.162 29.630 0.00 0.00 46.54 1.28
3532 3751 8.873215 TGTTTCGAGGAGATAAACTCATAATC 57.127 34.615 0.00 0.00 46.54 1.75
3561 3780 6.974622 CAGTGGCATATACCAAAAGCTTTTAG 59.025 38.462 23.44 18.88 42.70 1.85
3562 3781 6.096846 AGTGGCATATACCAAAAGCTTTTAGG 59.903 38.462 23.44 24.94 42.70 2.69
3573 3792 7.882791 ACCAAAAGCTTTTAGGGAAAATTATGG 59.117 33.333 26.72 20.22 34.08 2.74
3577 3796 9.725019 AAAGCTTTTAGGGAAAATTATGGAAAG 57.275 29.630 5.69 0.00 34.08 2.62
3599 3818 1.966354 TGAGTGCAGAAAGAGAGCTGA 59.034 47.619 0.00 0.00 34.06 4.26
3600 3819 2.566279 TGAGTGCAGAAAGAGAGCTGAT 59.434 45.455 0.00 0.00 34.06 2.90
3608 3827 5.681954 GCAGAAAGAGAGCTGATATCACAGT 60.682 44.000 0.00 0.00 39.73 3.55
3615 3834 8.715191 AGAGAGCTGATATCACAGTTAAAAAG 57.285 34.615 0.00 0.00 39.73 2.27
3621 3840 7.391148 TGATATCACAGTTAAAAAGGGAAGC 57.609 36.000 0.00 0.00 0.00 3.86
3673 3892 8.779354 ACAACTTCACTATTGATCTTTACTCC 57.221 34.615 0.00 0.00 0.00 3.85
3674 3893 7.545965 ACAACTTCACTATTGATCTTTACTCCG 59.454 37.037 0.00 0.00 0.00 4.63
3683 3902 6.954487 TTGATCTTTACTCCGTGCTATAGA 57.046 37.500 3.21 0.00 0.00 1.98
3706 3925 4.093291 CCTTCAGCGCCCTCTGCT 62.093 66.667 2.29 0.00 45.31 4.24
3722 3941 2.703536 TCTGCTGTTAGTTCCCTGTGAA 59.296 45.455 0.00 0.00 0.00 3.18
3723 3942 3.070018 CTGCTGTTAGTTCCCTGTGAAG 58.930 50.000 0.00 0.00 32.37 3.02
3724 3943 2.224523 TGCTGTTAGTTCCCTGTGAAGG 60.225 50.000 0.00 0.00 32.37 3.46
3725 3944 2.038557 GCTGTTAGTTCCCTGTGAAGGA 59.961 50.000 0.00 0.00 32.37 3.36
3726 3945 3.307762 GCTGTTAGTTCCCTGTGAAGGAT 60.308 47.826 0.00 0.00 32.37 3.24
3727 3946 4.081087 GCTGTTAGTTCCCTGTGAAGGATA 60.081 45.833 0.00 0.00 32.37 2.59
3728 3947 5.665459 CTGTTAGTTCCCTGTGAAGGATAG 58.335 45.833 0.00 0.00 32.37 2.08
3729 3948 4.469945 TGTTAGTTCCCTGTGAAGGATAGG 59.530 45.833 0.00 0.00 32.37 2.57
3730 3949 3.491766 AGTTCCCTGTGAAGGATAGGA 57.508 47.619 0.00 0.00 34.82 2.94
3731 3950 4.014273 AGTTCCCTGTGAAGGATAGGAT 57.986 45.455 0.00 0.00 34.82 3.24
3732 3951 5.157770 AGTTCCCTGTGAAGGATAGGATA 57.842 43.478 0.00 0.00 34.82 2.59
3733 3952 5.151454 AGTTCCCTGTGAAGGATAGGATAG 58.849 45.833 0.00 0.00 34.82 2.08
3734 3953 4.133526 TCCCTGTGAAGGATAGGATAGG 57.866 50.000 0.00 0.00 34.82 2.57
3735 3954 3.732742 TCCCTGTGAAGGATAGGATAGGA 59.267 47.826 0.00 0.00 34.82 2.94
3736 3955 4.361367 TCCCTGTGAAGGATAGGATAGGAT 59.639 45.833 0.00 0.00 34.82 3.24
3737 3956 5.559947 TCCCTGTGAAGGATAGGATAGGATA 59.440 44.000 0.00 0.00 34.82 2.59
3738 3957 5.896678 CCCTGTGAAGGATAGGATAGGATAG 59.103 48.000 0.00 0.00 34.82 2.08
3739 3958 5.896678 CCTGTGAAGGATAGGATAGGATAGG 59.103 48.000 0.00 0.00 34.82 2.57
3740 3959 6.297889 CCTGTGAAGGATAGGATAGGATAGGA 60.298 46.154 0.00 0.00 34.82 2.94
3741 3960 7.304054 TGTGAAGGATAGGATAGGATAGGAT 57.696 40.000 0.00 0.00 0.00 3.24
3742 3961 8.420806 TGTGAAGGATAGGATAGGATAGGATA 57.579 38.462 0.00 0.00 0.00 2.59
3743 3962 8.506921 TGTGAAGGATAGGATAGGATAGGATAG 58.493 40.741 0.00 0.00 0.00 2.08
3744 3963 8.507761 GTGAAGGATAGGATAGGATAGGATAGT 58.492 40.741 0.00 0.00 0.00 2.12
3745 3964 9.760327 TGAAGGATAGGATAGGATAGGATAGTA 57.240 37.037 0.00 0.00 0.00 1.82
3751 3970 7.023171 AGGATAGGATAGGATAGTATAGGCG 57.977 44.000 0.00 0.00 0.00 5.52
3752 3971 6.012333 AGGATAGGATAGGATAGTATAGGCGG 60.012 46.154 0.00 0.00 0.00 6.13
3753 3972 4.456662 AGGATAGGATAGTATAGGCGGG 57.543 50.000 0.00 0.00 0.00 6.13
3754 3973 2.892215 GGATAGGATAGTATAGGCGGGC 59.108 54.545 0.00 0.00 0.00 6.13
3755 3974 2.048444 TAGGATAGTATAGGCGGGCG 57.952 55.000 0.00 0.00 0.00 6.13
3756 3975 0.330604 AGGATAGTATAGGCGGGCGA 59.669 55.000 0.00 0.00 0.00 5.54
3757 3976 0.455005 GGATAGTATAGGCGGGCGAC 59.545 60.000 0.00 0.00 0.00 5.19
3758 3977 1.171308 GATAGTATAGGCGGGCGACA 58.829 55.000 0.00 0.00 0.00 4.35
3759 3978 0.886563 ATAGTATAGGCGGGCGACAC 59.113 55.000 0.00 0.00 0.00 3.67
3760 3979 1.509644 TAGTATAGGCGGGCGACACG 61.510 60.000 0.00 0.00 0.00 4.49
3761 3980 3.598715 TATAGGCGGGCGACACGG 61.599 66.667 0.00 0.00 0.00 4.94
3772 3991 4.754667 GACACGGGCGGAACCTCC 62.755 72.222 0.00 0.00 39.10 4.30
3774 3993 4.760047 CACGGGCGGAACCTCCAG 62.760 72.222 0.00 0.56 35.91 3.86
3800 4019 4.840005 GCCAGTACTGCCGGCCTC 62.840 72.222 26.77 11.52 40.07 4.70
3801 4020 4.162690 CCAGTACTGCCGGCCTCC 62.163 72.222 26.77 9.31 0.00 4.30
3804 4023 4.078516 GTACTGCCGGCCTCCGTT 62.079 66.667 26.77 3.74 46.80 4.44
3805 4024 3.766691 TACTGCCGGCCTCCGTTC 61.767 66.667 26.77 0.00 46.80 3.95
3810 4029 4.547367 CCGGCCTCCGTTCCATCC 62.547 72.222 0.00 0.00 46.80 3.51
3811 4030 4.547367 CGGCCTCCGTTCCATCCC 62.547 72.222 0.00 0.00 42.73 3.85
3812 4031 4.191015 GGCCTCCGTTCCATCCCC 62.191 72.222 0.00 0.00 0.00 4.81
3813 4032 3.090532 GCCTCCGTTCCATCCCCT 61.091 66.667 0.00 0.00 0.00 4.79
3814 4033 3.108288 GCCTCCGTTCCATCCCCTC 62.108 68.421 0.00 0.00 0.00 4.30
3815 4034 2.444256 CCTCCGTTCCATCCCCTCC 61.444 68.421 0.00 0.00 0.00 4.30
3816 4035 2.762459 TCCGTTCCATCCCCTCCG 60.762 66.667 0.00 0.00 0.00 4.63
3817 4036 3.081409 CCGTTCCATCCCCTCCGT 61.081 66.667 0.00 0.00 0.00 4.69
3818 4037 2.499685 CGTTCCATCCCCTCCGTC 59.500 66.667 0.00 0.00 0.00 4.79
3819 4038 2.499685 GTTCCATCCCCTCCGTCG 59.500 66.667 0.00 0.00 0.00 5.12
3820 4039 3.467226 TTCCATCCCCTCCGTCGC 61.467 66.667 0.00 0.00 0.00 5.19
3854 4073 3.124921 GGAATCGCGTGGGTGGTG 61.125 66.667 5.77 0.00 0.00 4.17
3861 4080 4.947147 CGTGGGTGGTGGTGGTGG 62.947 72.222 0.00 0.00 0.00 4.61
3862 4081 3.494254 GTGGGTGGTGGTGGTGGA 61.494 66.667 0.00 0.00 0.00 4.02
3863 4082 2.451493 TGGGTGGTGGTGGTGGAT 60.451 61.111 0.00 0.00 0.00 3.41
3864 4083 2.035626 GGGTGGTGGTGGTGGATG 59.964 66.667 0.00 0.00 0.00 3.51
3865 4084 2.534396 GGGTGGTGGTGGTGGATGA 61.534 63.158 0.00 0.00 0.00 2.92
3866 4085 1.303317 GGTGGTGGTGGTGGATGAC 60.303 63.158 0.00 0.00 0.00 3.06
3867 4086 1.671054 GTGGTGGTGGTGGATGACG 60.671 63.158 0.00 0.00 0.00 4.35
3895 4114 1.299773 GAGCTCGCTCAAGGATCCG 60.300 63.158 13.69 0.00 42.31 4.18
3896 4115 1.729470 GAGCTCGCTCAAGGATCCGA 61.729 60.000 13.69 0.00 42.31 4.55
3897 4116 1.590259 GCTCGCTCAAGGATCCGAC 60.590 63.158 5.98 0.00 0.00 4.79
3898 4117 2.010582 GCTCGCTCAAGGATCCGACT 62.011 60.000 5.98 0.00 0.00 4.18
3899 4118 0.457851 CTCGCTCAAGGATCCGACTT 59.542 55.000 5.98 0.00 0.00 3.01
3900 4119 0.173481 TCGCTCAAGGATCCGACTTG 59.827 55.000 5.98 5.98 45.08 3.16
3901 4120 0.807667 CGCTCAAGGATCCGACTTGG 60.808 60.000 5.98 1.85 44.13 3.61
3902 4121 0.250513 GCTCAAGGATCCGACTTGGT 59.749 55.000 5.98 0.00 44.13 3.67
3903 4122 1.740718 GCTCAAGGATCCGACTTGGTC 60.741 57.143 5.98 0.00 44.13 4.02
3935 4154 3.422303 TTCGTGTGGCGCTGCATC 61.422 61.111 7.64 1.42 41.07 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 1.798223 TGCGAGTTTCTTGATTCACCG 59.202 47.619 0.00 0.00 0.00 4.94
105 130 4.410400 GACACCCCCGCCTGAAGG 62.410 72.222 0.00 0.00 38.53 3.46
122 150 3.726517 CCTTGTCGCGCCCAACAG 61.727 66.667 0.00 0.00 0.00 3.16
173 201 2.594303 CAGGAACCTTGGCGCACA 60.594 61.111 10.83 1.22 0.00 4.57
219 247 0.322456 TCTTCCCAATTCCTGCGGTG 60.322 55.000 0.00 0.00 0.00 4.94
306 334 4.703897 TGTTGGAACTAGTGGAAACTGAG 58.296 43.478 0.00 0.00 0.00 3.35
329 357 2.825836 CCGCTGCCAGGTCCATTC 60.826 66.667 0.00 0.00 0.00 2.67
336 364 0.465705 TTAAGATCTCCGCTGCCAGG 59.534 55.000 0.00 0.00 0.00 4.45
339 367 0.466124 ACCTTAAGATCTCCGCTGCC 59.534 55.000 3.36 0.00 0.00 4.85
380 411 1.426423 CGCCATCTTCTCATCGGATG 58.574 55.000 11.79 11.79 37.26 3.51
386 417 2.173356 TGGAAATCCGCCATCTTCTCAT 59.827 45.455 0.00 0.00 39.43 2.90
398 441 3.428045 GGACTGAAGCATTTGGAAATCCG 60.428 47.826 0.00 0.00 39.43 4.18
405 448 0.449388 GCTCGGACTGAAGCATTTGG 59.551 55.000 0.00 0.00 0.00 3.28
441 484 8.206867 TCAATAACAATGAGATACCTCTTGGAG 58.793 37.037 0.00 0.00 40.10 3.86
472 515 3.777106 ATCGTCCATGCCATTACAGAT 57.223 42.857 0.00 0.00 0.00 2.90
474 517 3.067106 GGTATCGTCCATGCCATTACAG 58.933 50.000 0.00 0.00 37.22 2.74
492 538 0.839277 CCATCATGTCCAGCCAGGTA 59.161 55.000 0.00 0.00 39.02 3.08
525 571 2.710096 TTCTGCTACCAATACCTGCC 57.290 50.000 0.00 0.00 0.00 4.85
530 576 4.199310 TGCCAGAATTCTGCTACCAATAC 58.801 43.478 27.01 9.42 42.47 1.89
597 646 4.476297 TCAGCGGATTTACAGGGTATAGA 58.524 43.478 0.00 0.00 0.00 1.98
675 724 2.681848 GTGAAGATCTGGACAGGCATTG 59.318 50.000 0.00 0.00 0.00 2.82
683 732 2.297597 CCTATCGGGTGAAGATCTGGAC 59.702 54.545 0.00 0.00 0.00 4.02
904 956 8.378172 TCAAACTTATAGTTCTGTGGAAACAG 57.622 34.615 0.00 0.00 38.25 3.16
934 986 1.613255 CCAAAGGCGGGACAACTATGT 60.613 52.381 0.00 0.00 44.25 2.29
937 989 0.988832 ATCCAAAGGCGGGACAACTA 59.011 50.000 0.00 0.00 37.23 2.24
939 991 0.243636 CAATCCAAAGGCGGGACAAC 59.756 55.000 0.00 0.00 37.23 3.32
966 1018 2.481795 CCTGCCTTGTGGTTGAACAAAG 60.482 50.000 0.00 0.00 39.47 2.77
992 1044 4.640201 TGGCTATGTCTTCCATGCTTTTAC 59.360 41.667 0.00 0.00 34.86 2.01
993 1045 4.854173 TGGCTATGTCTTCCATGCTTTTA 58.146 39.130 0.00 0.00 34.86 1.52
999 1051 4.412796 TTCTCTGGCTATGTCTTCCATG 57.587 45.455 0.00 0.00 34.86 3.66
1014 1066 5.435291 AGGAGCAGACCAAAATATTCTCTG 58.565 41.667 0.00 0.00 32.97 3.35
1197 1250 4.222886 CAAGTAGACTCTTCACAGTGACG 58.777 47.826 1.52 0.90 0.00 4.35
1243 1296 0.250640 AACAAGGTGAGCAGCTCTGG 60.251 55.000 23.15 10.21 38.35 3.86
1244 1297 1.155042 GAACAAGGTGAGCAGCTCTG 58.845 55.000 23.15 14.94 38.35 3.35
1253 1306 3.181435 TGATGGTTGGATGAACAAGGTGA 60.181 43.478 0.00 0.00 36.12 4.02
1263 1316 2.113860 ACGGAAGTGATGGTTGGATG 57.886 50.000 0.00 0.00 46.97 3.51
1336 1401 3.130340 ACACGCAAATGTTTGGACTTCTT 59.870 39.130 7.51 0.00 38.57 2.52
1392 1457 6.183360 GCAGTAAGTCATAAATGCAATGAGGT 60.183 38.462 0.00 0.00 34.12 3.85
1581 1646 4.038162 CCTACCAGTCCTGCAGTATACTTC 59.962 50.000 13.81 0.00 0.00 3.01
1652 1717 1.791103 TTTGCGCCCTTCCAACTTCG 61.791 55.000 4.18 0.00 0.00 3.79
1657 1722 2.123683 TGGTTTGCGCCCTTCCAA 60.124 55.556 4.18 0.00 0.00 3.53
1658 1723 2.597217 CTGGTTTGCGCCCTTCCA 60.597 61.111 4.18 7.73 0.00 3.53
1680 1745 5.573219 TGAAGACCATCAATGTTCCTCAAT 58.427 37.500 0.00 0.00 0.00 2.57
1692 1757 6.575244 ATTACTAACCCATGAAGACCATCA 57.425 37.500 0.00 0.00 31.94 3.07
1693 1758 8.974060 TTTATTACTAACCCATGAAGACCATC 57.026 34.615 0.00 0.00 31.94 3.51
1790 1858 4.665451 TGAGCTCCATTCCAAATTCAGAA 58.335 39.130 12.15 0.00 0.00 3.02
1923 1991 3.612517 CAGTGACTGCAGCCAACTA 57.387 52.632 15.27 0.00 0.00 2.24
1950 2018 0.602638 TGATGAGGCGCAAAGAACGT 60.603 50.000 10.83 0.00 0.00 3.99
1961 2029 0.384669 GCTCCTGCAATTGATGAGGC 59.615 55.000 10.34 3.62 39.41 4.70
1980 2048 2.426024 CAATGGAGGAAGGATGCACAAG 59.574 50.000 0.00 0.00 0.00 3.16
2119 2187 4.766891 ACACAACTTCGGGAAATCATCAAT 59.233 37.500 0.00 0.00 0.00 2.57
2237 2305 1.797025 AACTTCACGAGTAGCTTGGC 58.203 50.000 0.00 0.00 37.72 4.52
2334 2402 2.823196 TGACAGAACTTGTGCAAACG 57.177 45.000 0.00 0.00 41.05 3.60
2520 2588 2.373169 AGACAAACAAGGCAGATCCTGA 59.627 45.455 0.00 0.00 46.94 3.86
2543 2611 7.403231 TGTTAGGAAGGTCTAGAATCTCCAAAT 59.597 37.037 14.55 1.43 0.00 2.32
2554 2622 6.097554 AGTGATGTGATGTTAGGAAGGTCTAG 59.902 42.308 0.00 0.00 0.00 2.43
2583 2651 5.676953 CAGAACTTAACTGTTTCCGCTAAC 58.323 41.667 0.00 0.00 0.00 2.34
2584 2652 4.212636 GCAGAACTTAACTGTTTCCGCTAA 59.787 41.667 0.00 0.00 37.64 3.09
2611 2679 1.233019 ATGCACAACTCAGTGAGCAC 58.767 50.000 20.31 5.86 45.77 4.40
2768 2849 1.281899 GCAGTACGACATTCTCAGCC 58.718 55.000 0.00 0.00 0.00 4.85
2809 2890 1.775385 TCCAGTGACGATGGCAGATA 58.225 50.000 0.00 0.00 37.76 1.98
2820 2907 8.169268 CGAAAGATATAAAGTGTTTCCAGTGAC 58.831 37.037 0.00 0.00 0.00 3.67
2836 2923 2.104111 CAGGGTGGCACCGAAAGATATA 59.896 50.000 29.18 0.00 39.83 0.86
2869 2956 3.960102 TGCCCTTTCATGTTTCTTGACTT 59.040 39.130 0.00 0.00 0.00 3.01
2931 3018 8.873215 ATACCTTCACAATATTCTGTTACTCG 57.127 34.615 0.00 0.00 0.00 4.18
2967 3055 5.918608 ACAGAGAGCAAAAACAGAGACTTA 58.081 37.500 0.00 0.00 0.00 2.24
2987 3075 9.635632 CACATACAAAATTACAAGCAAAAACAG 57.364 29.630 0.00 0.00 0.00 3.16
2988 3076 9.155975 ACACATACAAAATTACAAGCAAAAACA 57.844 25.926 0.00 0.00 0.00 2.83
2992 3080 9.593134 AGAAACACATACAAAATTACAAGCAAA 57.407 25.926 0.00 0.00 0.00 3.68
2993 3081 9.029243 CAGAAACACATACAAAATTACAAGCAA 57.971 29.630 0.00 0.00 0.00 3.91
2994 3082 7.168972 GCAGAAACACATACAAAATTACAAGCA 59.831 33.333 0.00 0.00 0.00 3.91
2996 3084 8.572828 TGCAGAAACACATACAAAATTACAAG 57.427 30.769 0.00 0.00 0.00 3.16
2997 3085 8.976471 CATGCAGAAACACATACAAAATTACAA 58.024 29.630 0.00 0.00 0.00 2.41
2998 3086 8.140628 ACATGCAGAAACACATACAAAATTACA 58.859 29.630 0.00 0.00 0.00 2.41
2999 3087 8.519492 ACATGCAGAAACACATACAAAATTAC 57.481 30.769 0.00 0.00 0.00 1.89
3017 3105 4.393990 TGTAAGCTTCTCATGAACATGCAG 59.606 41.667 0.00 8.33 38.65 4.41
3043 3131 7.209475 TCGCCTTTTCTTTTTGAAATTCAGAT 58.791 30.769 0.00 0.00 43.34 2.90
3044 3132 6.568869 TCGCCTTTTCTTTTTGAAATTCAGA 58.431 32.000 0.00 0.00 43.34 3.27
3045 3133 6.826893 TCGCCTTTTCTTTTTGAAATTCAG 57.173 33.333 0.00 0.00 43.34 3.02
3047 3135 7.125755 CCTTTCGCCTTTTCTTTTTGAAATTC 58.874 34.615 0.00 0.00 43.34 2.17
3051 3140 4.160626 TCCCTTTCGCCTTTTCTTTTTGAA 59.839 37.500 0.00 0.00 0.00 2.69
3098 3317 5.774498 AGCTTCCCTTACAGTTTTTCTTG 57.226 39.130 0.00 0.00 0.00 3.02
3107 3326 2.508526 AGTGCAAAGCTTCCCTTACAG 58.491 47.619 0.00 0.00 32.20 2.74
3128 3347 0.252103 GAGTCTCCCACCTACACCCA 60.252 60.000 0.00 0.00 0.00 4.51
3130 3349 0.323178 TCGAGTCTCCCACCTACACC 60.323 60.000 0.00 0.00 0.00 4.16
3224 3443 8.727910 GTTAATCTCTTCCGGTCACTAAAAATT 58.272 33.333 0.00 0.00 0.00 1.82
3253 3472 9.817809 TGAGATGTGTTCCTACAATAATTAGTC 57.182 33.333 0.00 0.00 35.69 2.59
3298 3517 5.011329 ACATGGCTGAACAACTCAAAATCAT 59.989 36.000 0.00 0.00 32.17 2.45
3301 3520 4.942761 ACATGGCTGAACAACTCAAAAT 57.057 36.364 0.00 0.00 32.17 1.82
3302 3521 4.734398 AACATGGCTGAACAACTCAAAA 57.266 36.364 0.00 0.00 32.17 2.44
3319 3538 4.151883 AGTACAATGGACCAGCAAAACAT 58.848 39.130 0.00 0.00 0.00 2.71
3339 3558 3.203040 CCCAGGATTCCATAAGGTCAAGT 59.797 47.826 5.29 0.00 35.89 3.16
3400 3619 6.095300 TGACAACAACTGACTGAAATGAACAT 59.905 34.615 0.00 0.00 0.00 2.71
3409 3628 3.932710 GTCAAGTGACAACAACTGACTGA 59.067 43.478 6.57 0.00 44.18 3.41
3437 3656 4.927425 CACTTCTCCTGAAATGCCAATTTG 59.073 41.667 0.00 0.00 36.10 2.32
3452 3671 1.949465 ACGAAACCACACACTTCTCC 58.051 50.000 0.00 0.00 0.00 3.71
3462 3681 7.298507 TCTAAATTATGTGCTACGAAACCAC 57.701 36.000 0.00 0.00 0.00 4.16
3469 3688 8.394877 TCATGGTTTTCTAAATTATGTGCTACG 58.605 33.333 0.00 0.00 0.00 3.51
3483 3702 8.814931 ACATTTCCATCATTTCATGGTTTTCTA 58.185 29.630 0.00 0.00 43.62 2.10
3494 3713 6.094048 TCTCCTCGAAACATTTCCATCATTTC 59.906 38.462 0.00 0.00 33.68 2.17
3512 3731 6.870439 TGCATGATTATGAGTTTATCTCCTCG 59.130 38.462 0.85 0.00 42.12 4.63
3519 3738 5.829391 TGCCACTGCATGATTATGAGTTTAT 59.171 36.000 0.85 0.00 44.23 1.40
3547 3766 7.882791 CCATAATTTTCCCTAAAAGCTTTTGGT 59.117 33.333 30.21 14.26 37.97 3.67
3548 3767 8.100164 TCCATAATTTTCCCTAAAAGCTTTTGG 58.900 33.333 30.21 27.07 37.97 3.28
3561 3780 5.654497 CACTCAGCTTTCCATAATTTTCCC 58.346 41.667 0.00 0.00 0.00 3.97
3562 3781 5.105063 GCACTCAGCTTTCCATAATTTTCC 58.895 41.667 0.00 0.00 41.15 3.13
3573 3792 3.397482 TCTCTTTCTGCACTCAGCTTTC 58.603 45.455 0.00 0.00 45.94 2.62
3577 3796 1.077915 GCTCTCTTTCTGCACTCAGC 58.922 55.000 0.00 0.00 45.96 4.26
3599 3818 7.961326 ATGCTTCCCTTTTTAACTGTGATAT 57.039 32.000 0.00 0.00 0.00 1.63
3600 3819 7.775053 AATGCTTCCCTTTTTAACTGTGATA 57.225 32.000 0.00 0.00 0.00 2.15
3608 3827 7.929245 GGAAACTGTTAATGCTTCCCTTTTTAA 59.071 33.333 0.00 0.00 31.19 1.52
3615 3834 6.715347 ATATGGAAACTGTTAATGCTTCCC 57.285 37.500 0.00 0.00 35.65 3.97
3648 3867 7.545965 CGGAGTAAAGATCAATAGTGAAGTTGT 59.454 37.037 0.00 0.00 37.30 3.32
3673 3892 3.215151 TGAAGGTCTCCTCTATAGCACG 58.785 50.000 0.00 0.00 30.89 5.34
3674 3893 3.005367 GCTGAAGGTCTCCTCTATAGCAC 59.995 52.174 0.00 0.00 30.89 4.40
3683 3902 3.394836 GGGCGCTGAAGGTCTCCT 61.395 66.667 7.64 0.00 33.87 3.69
3688 3907 4.400961 GCAGAGGGCGCTGAAGGT 62.401 66.667 8.56 0.00 38.14 3.50
3706 3925 4.469945 CCTATCCTTCACAGGGAACTAACA 59.530 45.833 0.00 0.00 41.25 2.41
3725 3944 8.774183 CGCCTATACTATCCTATCCTATCCTAT 58.226 40.741 0.00 0.00 0.00 2.57
3726 3945 7.182387 CCGCCTATACTATCCTATCCTATCCTA 59.818 44.444 0.00 0.00 0.00 2.94
3727 3946 6.012333 CCGCCTATACTATCCTATCCTATCCT 60.012 46.154 0.00 0.00 0.00 3.24
3728 3947 6.181908 CCGCCTATACTATCCTATCCTATCC 58.818 48.000 0.00 0.00 0.00 2.59
3729 3948 6.181908 CCCGCCTATACTATCCTATCCTATC 58.818 48.000 0.00 0.00 0.00 2.08
3730 3949 5.516945 GCCCGCCTATACTATCCTATCCTAT 60.517 48.000 0.00 0.00 0.00 2.57
3731 3950 4.202545 GCCCGCCTATACTATCCTATCCTA 60.203 50.000 0.00 0.00 0.00 2.94
3732 3951 3.436761 GCCCGCCTATACTATCCTATCCT 60.437 52.174 0.00 0.00 0.00 3.24
3733 3952 2.892215 GCCCGCCTATACTATCCTATCC 59.108 54.545 0.00 0.00 0.00 2.59
3734 3953 2.553172 CGCCCGCCTATACTATCCTATC 59.447 54.545 0.00 0.00 0.00 2.08
3735 3954 2.174210 TCGCCCGCCTATACTATCCTAT 59.826 50.000 0.00 0.00 0.00 2.57
3736 3955 1.561076 TCGCCCGCCTATACTATCCTA 59.439 52.381 0.00 0.00 0.00 2.94
3737 3956 0.330604 TCGCCCGCCTATACTATCCT 59.669 55.000 0.00 0.00 0.00 3.24
3738 3957 0.455005 GTCGCCCGCCTATACTATCC 59.545 60.000 0.00 0.00 0.00 2.59
3739 3958 1.135460 GTGTCGCCCGCCTATACTATC 60.135 57.143 0.00 0.00 0.00 2.08
3740 3959 0.886563 GTGTCGCCCGCCTATACTAT 59.113 55.000 0.00 0.00 0.00 2.12
3741 3960 1.509644 CGTGTCGCCCGCCTATACTA 61.510 60.000 0.00 0.00 0.00 1.82
3742 3961 2.842256 CGTGTCGCCCGCCTATACT 61.842 63.158 0.00 0.00 0.00 2.12
3743 3962 2.354305 CGTGTCGCCCGCCTATAC 60.354 66.667 0.00 0.00 0.00 1.47
3744 3963 3.598715 CCGTGTCGCCCGCCTATA 61.599 66.667 0.00 0.00 0.00 1.31
3755 3974 4.754667 GGAGGTTCCGCCCGTGTC 62.755 72.222 0.00 0.00 38.26 3.67
3757 3976 4.760047 CTGGAGGTTCCGCCCGTG 62.760 72.222 9.01 0.00 40.17 4.94
3785 4004 4.514577 CGGAGGCCGGCAGTACTG 62.515 72.222 30.85 18.93 44.15 2.74
3795 4014 4.191015 GGGGATGGAACGGAGGCC 62.191 72.222 0.00 0.00 0.00 5.19
3796 4015 3.090532 AGGGGATGGAACGGAGGC 61.091 66.667 0.00 0.00 0.00 4.70
3797 4016 2.444256 GGAGGGGATGGAACGGAGG 61.444 68.421 0.00 0.00 0.00 4.30
3798 4017 2.797278 CGGAGGGGATGGAACGGAG 61.797 68.421 0.00 0.00 0.00 4.63
3799 4018 2.762459 CGGAGGGGATGGAACGGA 60.762 66.667 0.00 0.00 0.00 4.69
3800 4019 3.081409 ACGGAGGGGATGGAACGG 61.081 66.667 0.00 0.00 0.00 4.44
3801 4020 2.499685 GACGGAGGGGATGGAACG 59.500 66.667 0.00 0.00 0.00 3.95
3802 4021 2.499685 CGACGGAGGGGATGGAAC 59.500 66.667 0.00 0.00 0.00 3.62
3803 4022 3.467226 GCGACGGAGGGGATGGAA 61.467 66.667 0.00 0.00 0.00 3.53
3819 4038 4.875713 ATGGTTCCCATCGGCGGC 62.876 66.667 7.21 0.00 40.74 6.53
3820 4039 2.901840 CATGGTTCCCATCGGCGG 60.902 66.667 7.21 0.00 43.15 6.13
3821 4040 2.884997 TTCCATGGTTCCCATCGGCG 62.885 60.000 12.58 0.00 43.15 6.46
3822 4041 0.468029 ATTCCATGGTTCCCATCGGC 60.468 55.000 12.58 0.00 43.15 5.54
3823 4042 1.609208 GATTCCATGGTTCCCATCGG 58.391 55.000 12.58 0.00 43.15 4.18
3824 4043 1.229428 CGATTCCATGGTTCCCATCG 58.771 55.000 12.58 13.60 43.15 3.84
3825 4044 0.954452 GCGATTCCATGGTTCCCATC 59.046 55.000 12.58 6.16 43.15 3.51
3826 4045 0.819259 CGCGATTCCATGGTTCCCAT 60.819 55.000 12.58 0.00 46.37 4.00
3827 4046 1.451207 CGCGATTCCATGGTTCCCA 60.451 57.895 12.58 0.00 38.19 4.37
3828 4047 1.451387 ACGCGATTCCATGGTTCCC 60.451 57.895 15.93 2.07 0.00 3.97
3829 4048 1.714899 CCACGCGATTCCATGGTTCC 61.715 60.000 15.93 0.80 0.00 3.62
3830 4049 1.714899 CCCACGCGATTCCATGGTTC 61.715 60.000 15.93 9.36 0.00 3.62
3831 4050 1.748879 CCCACGCGATTCCATGGTT 60.749 57.895 15.93 0.00 0.00 3.67
3832 4051 2.124736 CCCACGCGATTCCATGGT 60.125 61.111 15.93 0.00 0.00 3.55
3833 4052 2.124736 ACCCACGCGATTCCATGG 60.125 61.111 15.93 4.97 0.00 3.66
3834 4053 2.472059 CCACCCACGCGATTCCATG 61.472 63.158 15.93 0.00 0.00 3.66
3835 4054 2.124736 CCACCCACGCGATTCCAT 60.125 61.111 15.93 0.00 0.00 3.41
3836 4055 3.632080 ACCACCCACGCGATTCCA 61.632 61.111 15.93 0.00 0.00 3.53
3837 4056 3.124921 CACCACCCACGCGATTCC 61.125 66.667 15.93 0.00 0.00 3.01
3838 4057 3.124921 CCACCACCCACGCGATTC 61.125 66.667 15.93 0.00 0.00 2.52
3839 4058 3.948719 ACCACCACCCACGCGATT 61.949 61.111 15.93 0.00 0.00 3.34
3840 4059 4.697756 CACCACCACCCACGCGAT 62.698 66.667 15.93 0.00 0.00 4.58
3844 4063 4.947147 CCACCACCACCACCCACG 62.947 72.222 0.00 0.00 0.00 4.94
3845 4064 2.840753 ATCCACCACCACCACCCAC 61.841 63.158 0.00 0.00 0.00 4.61
3876 4095 1.299773 GGATCCTTGAGCGAGCTCG 60.300 63.158 31.37 31.37 45.48 5.03
3879 4098 1.590259 GTCGGATCCTTGAGCGAGC 60.590 63.158 10.75 0.00 0.00 5.03
3882 4101 0.807667 CCAAGTCGGATCCTTGAGCG 60.808 60.000 10.75 0.00 41.44 5.03
3883 4102 0.250513 ACCAAGTCGGATCCTTGAGC 59.749 55.000 10.75 0.00 41.44 4.26
3884 4103 2.301577 GACCAAGTCGGATCCTTGAG 57.698 55.000 10.75 4.96 41.44 3.02


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

AutoCloner maintained by Alex Coulton.