Multiple sequence alignment - TraesCS4A01G012600

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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 TraesCS4A01G012600 chr4A 100.000 4974 0 0 1 4974 7163881 7168854 0.000000e+00 9186.0
1 TraesCS4A01G012600 chr4A 81.000 100 18 1 633 732 570274568 570274666 1.480000e-10 78.7
2 TraesCS4A01G012600 chr4A 86.154 65 5 3 501 563 467529163 467529101 3.210000e-07 67.6
3 TraesCS4A01G012600 chr4D 91.706 2966 201 26 2029 4974 461491708 461488768 0.000000e+00 4072.0
4 TraesCS4A01G012600 chr4D 93.391 1498 55 13 134 1602 461493817 461492335 0.000000e+00 2178.0
5 TraesCS4A01G012600 chr4D 93.511 262 14 2 1680 1939 461492051 461491791 2.170000e-103 387.0
6 TraesCS4A01G012600 chr4D 87.500 80 9 1 1605 1684 461492362 461492284 1.910000e-14 91.6
7 TraesCS4A01G012600 chr4D 87.879 66 4 3 500 563 108861215 108861278 1.920000e-09 75.0
8 TraesCS4A01G012600 chr4D 97.059 34 1 0 500 533 220346907 220346874 1.930000e-04 58.4
9 TraesCS4A01G012600 chr4B 90.990 2819 208 30 2177 4974 577002131 576999338 0.000000e+00 3757.0
10 TraesCS4A01G012600 chr4B 94.654 823 27 5 787 1602 577003418 577002606 0.000000e+00 1260.0
11 TraesCS4A01G012600 chr4B 93.661 631 39 1 137 766 577005549 577004919 0.000000e+00 942.0
12 TraesCS4A01G012600 chr4B 90.447 492 30 8 1605 2084 577002633 577002147 2.530000e-177 632.0
13 TraesCS4A01G012600 chr4B 87.879 66 6 2 499 563 167934292 167934228 5.340000e-10 76.8
14 TraesCS4A01G012600 chr7B 98.347 121 1 1 1 120 702460656 702460536 1.400000e-50 211.0
15 TraesCS4A01G012600 chr7B 94.872 117 5 1 1 117 672158411 672158526 1.100000e-41 182.0
16 TraesCS4A01G012600 chr3B 97.368 114 3 0 1 114 475383746 475383859 1.410000e-45 195.0
17 TraesCS4A01G012600 chr1B 95.652 115 5 0 1 115 448532948 448532834 8.500000e-43 185.0
18 TraesCS4A01G012600 chr5D 93.548 124 6 2 1 123 346847417 346847295 3.060000e-42 183.0
19 TraesCS4A01G012600 chr5D 92.800 125 7 2 1 125 565900901 565900779 3.960000e-41 180.0
20 TraesCS4A01G012600 chr5D 90.909 132 9 3 1 132 441164014 441163886 1.840000e-39 174.0
21 TraesCS4A01G012600 chr5B 95.575 113 5 0 1 113 451432983 451432871 1.100000e-41 182.0
22 TraesCS4A01G012600 chr5B 78.571 126 21 5 614 734 527176061 527175937 1.480000e-10 78.7
23 TraesCS4A01G012600 chr1D 95.575 113 5 0 1 113 28313525 28313637 1.100000e-41 182.0
24 TraesCS4A01G012600 chr7A 81.197 117 20 2 601 715 286820784 286820668 5.300000e-15 93.5
25 TraesCS4A01G012600 chr7A 85.227 88 9 3 502 587 695818209 695818124 2.470000e-13 87.9
26 TraesCS4A01G012600 chr2A 80.000 125 22 3 630 753 281112499 281112377 6.860000e-14 89.8
27 TraesCS4A01G012600 chr3D 83.871 93 14 1 623 715 31956068 31955977 2.470000e-13 87.9
28 TraesCS4A01G012600 chr3D 73.729 236 42 14 502 720 315758516 315758748 1.920000e-09 75.0
29 TraesCS4A01G012600 chr2B 80.702 114 18 4 641 753 320741125 320741015 8.870000e-13 86.1
30 TraesCS4A01G012600 chr2D 79.200 125 23 3 630 753 241688687 241688809 3.190000e-12 84.2
31 TraesCS4A01G012600 chr6A 85.965 57 5 2 500 555 207632635 207632689 1.930000e-04 58.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G012600 chr4A 7163881 7168854 4973 False 9186.00 9186 100.000 1 4974 1 chr4A.!!$F1 4973
1 TraesCS4A01G012600 chr4D 461488768 461493817 5049 True 1682.15 4072 91.527 134 4974 4 chr4D.!!$R2 4840
2 TraesCS4A01G012600 chr4B 576999338 577005549 6211 True 1647.75 3757 92.438 137 4974 4 chr4B.!!$R2 4837

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
114 115 0.038744 TTTCGGACGGAGGGAGTACT 59.961 55.0 0.00 0.00 0.00 2.73 F
1549 3048 0.109597 GCAAACGCTTACTGCATGCT 60.110 50.0 20.33 1.26 43.06 3.79 F
1552 3051 0.389817 AACGCTTACTGCATGCTCGA 60.390 50.0 20.33 0.07 43.06 4.04 F
2695 4448 0.647410 CTGCAAGTGCGAAGATACGG 59.353 55.0 0.00 0.00 45.83 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1637 3136 0.036671 GTACCACTTCCGTTGAGGGG 60.037 60.0 0.00 0.0 43.59 4.79 R
3132 4885 0.523072 CTCCATTGCCACTTTCCACG 59.477 55.0 0.00 0.0 0.00 4.94 R
3402 5156 1.654023 GGGCGGATTTCTCAAACCGG 61.654 60.0 0.00 0.0 44.61 5.28 R
4130 5895 0.704076 TCTTTGCCAGGCCCAACTAT 59.296 50.0 9.64 0.0 0.00 2.12 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
19 20 2.685850 CCCTCCGTCCGAAAATACTT 57.314 50.000 0.00 0.00 0.00 2.24
20 21 2.277084 CCCTCCGTCCGAAAATACTTG 58.723 52.381 0.00 0.00 0.00 3.16
21 22 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
22 23 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
23 24 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
24 25 3.581755 TCCGTCCGAAAATACTTGTCAG 58.418 45.455 0.00 0.00 0.00 3.51
25 26 3.256383 TCCGTCCGAAAATACTTGTCAGA 59.744 43.478 0.00 0.00 0.00 3.27
26 27 3.612860 CCGTCCGAAAATACTTGTCAGAG 59.387 47.826 0.00 0.00 0.00 3.35
27 28 3.612860 CGTCCGAAAATACTTGTCAGAGG 59.387 47.826 0.00 0.00 0.00 3.69
28 29 4.617530 CGTCCGAAAATACTTGTCAGAGGA 60.618 45.833 0.00 0.00 0.00 3.71
29 30 5.235516 GTCCGAAAATACTTGTCAGAGGAA 58.764 41.667 0.00 0.00 0.00 3.36
30 31 5.875359 GTCCGAAAATACTTGTCAGAGGAAT 59.125 40.000 0.00 0.00 0.00 3.01
31 32 5.874810 TCCGAAAATACTTGTCAGAGGAATG 59.125 40.000 0.00 0.00 0.00 2.67
32 33 5.874810 CCGAAAATACTTGTCAGAGGAATGA 59.125 40.000 0.00 0.00 0.00 2.57
33 34 6.371548 CCGAAAATACTTGTCAGAGGAATGAA 59.628 38.462 0.00 0.00 0.00 2.57
34 35 7.066284 CCGAAAATACTTGTCAGAGGAATGAAT 59.934 37.037 0.00 0.00 0.00 2.57
35 36 7.907045 CGAAAATACTTGTCAGAGGAATGAATG 59.093 37.037 0.00 0.00 0.00 2.67
36 37 8.641498 AAAATACTTGTCAGAGGAATGAATGT 57.359 30.769 0.00 0.00 0.00 2.71
37 38 9.739276 AAAATACTTGTCAGAGGAATGAATGTA 57.261 29.630 0.00 0.00 0.00 2.29
38 39 9.911788 AAATACTTGTCAGAGGAATGAATGTAT 57.088 29.630 0.00 0.00 0.00 2.29
39 40 9.553064 AATACTTGTCAGAGGAATGAATGTATC 57.447 33.333 0.00 0.00 0.00 2.24
40 41 7.192852 ACTTGTCAGAGGAATGAATGTATCT 57.807 36.000 0.00 0.00 0.00 1.98
41 42 8.311395 ACTTGTCAGAGGAATGAATGTATCTA 57.689 34.615 0.00 0.00 0.00 1.98
42 43 8.420222 ACTTGTCAGAGGAATGAATGTATCTAG 58.580 37.037 0.00 0.00 0.00 2.43
43 44 8.539117 TTGTCAGAGGAATGAATGTATCTAGA 57.461 34.615 0.00 0.00 0.00 2.43
44 45 7.946207 TGTCAGAGGAATGAATGTATCTAGAC 58.054 38.462 0.00 0.00 0.00 2.59
45 46 7.081349 GTCAGAGGAATGAATGTATCTAGACG 58.919 42.308 0.00 0.00 0.00 4.18
46 47 6.773200 TCAGAGGAATGAATGTATCTAGACGT 59.227 38.462 0.00 0.00 0.00 4.34
47 48 7.937394 TCAGAGGAATGAATGTATCTAGACGTA 59.063 37.037 0.00 0.00 0.00 3.57
48 49 8.735315 CAGAGGAATGAATGTATCTAGACGTAT 58.265 37.037 0.00 0.00 0.00 3.06
49 50 9.303116 AGAGGAATGAATGTATCTAGACGTATT 57.697 33.333 0.00 0.00 0.00 1.89
50 51 9.915629 GAGGAATGAATGTATCTAGACGTATTT 57.084 33.333 0.00 0.00 0.00 1.40
67 68 9.962783 AGACGTATTTTAGTTGTAGATACATCC 57.037 33.333 0.00 0.00 35.89 3.51
68 69 9.740239 GACGTATTTTAGTTGTAGATACATCCA 57.260 33.333 0.00 0.00 35.89 3.41
78 79 9.407380 AGTTGTAGATACATCCATTTTTATGCA 57.593 29.630 0.00 0.00 35.89 3.96
85 86 9.415544 GATACATCCATTTTTATGCAATTCTCC 57.584 33.333 0.00 0.00 0.00 3.71
86 87 6.275335 ACATCCATTTTTATGCAATTCTCCG 58.725 36.000 0.00 0.00 0.00 4.63
87 88 6.096705 ACATCCATTTTTATGCAATTCTCCGA 59.903 34.615 0.00 0.00 0.00 4.55
88 89 5.890334 TCCATTTTTATGCAATTCTCCGAC 58.110 37.500 0.00 0.00 0.00 4.79
89 90 5.417266 TCCATTTTTATGCAATTCTCCGACA 59.583 36.000 0.00 0.00 0.00 4.35
90 91 6.071672 TCCATTTTTATGCAATTCTCCGACAA 60.072 34.615 0.00 0.00 0.00 3.18
91 92 6.254157 CCATTTTTATGCAATTCTCCGACAAG 59.746 38.462 0.00 0.00 0.00 3.16
92 93 5.957842 TTTTATGCAATTCTCCGACAAGT 57.042 34.783 0.00 0.00 0.00 3.16
93 94 7.441890 TTTTTATGCAATTCTCCGACAAGTA 57.558 32.000 0.00 0.00 0.00 2.24
94 95 7.624360 TTTTATGCAATTCTCCGACAAGTAT 57.376 32.000 0.00 0.00 0.00 2.12
95 96 7.624360 TTTATGCAATTCTCCGACAAGTATT 57.376 32.000 0.00 0.00 0.00 1.89
96 97 7.624360 TTATGCAATTCTCCGACAAGTATTT 57.376 32.000 0.00 0.00 0.00 1.40
97 98 5.957842 TGCAATTCTCCGACAAGTATTTT 57.042 34.783 0.00 0.00 0.00 1.82
98 99 5.938322 TGCAATTCTCCGACAAGTATTTTC 58.062 37.500 0.00 0.00 0.00 2.29
99 100 5.022021 GCAATTCTCCGACAAGTATTTTCG 58.978 41.667 0.00 0.00 0.00 3.46
105 106 2.598589 CGACAAGTATTTTCGGACGGA 58.401 47.619 0.00 0.00 0.00 4.69
106 107 2.597305 CGACAAGTATTTTCGGACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
107 108 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
108 109 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
109 110 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
110 111 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
111 112 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
112 113 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
113 114 0.890683 TTTTCGGACGGAGGGAGTAC 59.109 55.000 0.00 0.00 0.00 2.73
114 115 0.038744 TTTCGGACGGAGGGAGTACT 59.961 55.000 0.00 0.00 0.00 2.73
115 116 0.911769 TTCGGACGGAGGGAGTACTA 59.088 55.000 0.00 0.00 0.00 1.82
116 117 0.911769 TCGGACGGAGGGAGTACTAA 59.088 55.000 0.00 0.00 0.00 2.24
117 118 1.492176 TCGGACGGAGGGAGTACTAAT 59.508 52.381 0.00 0.00 0.00 1.73
118 119 1.878734 CGGACGGAGGGAGTACTAATC 59.121 57.143 0.00 0.00 0.00 1.75
119 120 2.747467 CGGACGGAGGGAGTACTAATCA 60.747 54.545 0.00 0.00 0.00 2.57
120 121 3.294214 GGACGGAGGGAGTACTAATCAA 58.706 50.000 0.00 0.00 0.00 2.57
121 122 3.318557 GGACGGAGGGAGTACTAATCAAG 59.681 52.174 0.00 0.00 0.00 3.02
122 123 4.205587 GACGGAGGGAGTACTAATCAAGA 58.794 47.826 0.00 0.00 0.00 3.02
123 124 4.805744 ACGGAGGGAGTACTAATCAAGAT 58.194 43.478 0.00 0.00 0.00 2.40
124 125 5.209659 ACGGAGGGAGTACTAATCAAGATT 58.790 41.667 0.00 0.52 34.93 2.40
125 126 6.371278 ACGGAGGGAGTACTAATCAAGATTA 58.629 40.000 0.00 2.81 32.50 1.75
126 127 6.264970 ACGGAGGGAGTACTAATCAAGATTAC 59.735 42.308 0.00 0.00 32.50 1.89
127 128 6.490721 CGGAGGGAGTACTAATCAAGATTACT 59.509 42.308 0.00 0.00 32.50 2.24
128 129 7.308710 CGGAGGGAGTACTAATCAAGATTACTC 60.309 44.444 12.54 12.54 35.07 2.59
129 130 7.726738 GGAGGGAGTACTAATCAAGATTACTCT 59.273 40.741 17.24 6.75 35.66 3.24
130 131 9.796180 GAGGGAGTACTAATCAAGATTACTCTA 57.204 37.037 17.24 1.23 35.66 2.43
159 160 1.604278 GTTTTGCGGGAGATAGCATCC 59.396 52.381 0.00 0.00 43.42 3.51
350 355 1.781529 AGGAGAAGCTCGACCCCTATA 59.218 52.381 0.00 0.00 0.00 1.31
392 398 4.508047 CCCCCTCATATCCAAATCCTCAAG 60.508 50.000 0.00 0.00 0.00 3.02
395 401 6.131961 CCCTCATATCCAAATCCTCAAGTTT 58.868 40.000 0.00 0.00 0.00 2.66
406 412 7.147846 CCAAATCCTCAAGTTTATACAAGCCAT 60.148 37.037 0.00 0.00 0.00 4.40
421 427 4.463539 ACAAGCCATTGCAATGTAGATCAA 59.536 37.500 31.87 0.00 40.27 2.57
447 453 8.132362 ACACAACGTTGACAAATAAACACATAT 58.868 29.630 33.66 2.72 0.00 1.78
483 489 3.326747 ACTGGACATAGCAAGTTCGAAC 58.673 45.455 20.71 20.71 0.00 3.95
612 618 7.258441 TCACAAGTATCTCACAACTATACAGC 58.742 38.462 0.00 0.00 0.00 4.40
771 2251 9.329913 CCTAGTTCTTTCAAAAATATCGTTGTG 57.670 33.333 0.00 0.00 0.00 3.33
876 2369 4.425180 TGTGCCAAACAGTTACTAAGGA 57.575 40.909 0.00 0.00 33.78 3.36
877 2370 4.783055 TGTGCCAAACAGTTACTAAGGAA 58.217 39.130 0.00 0.00 33.78 3.36
878 2371 5.381757 TGTGCCAAACAGTTACTAAGGAAT 58.618 37.500 0.00 0.00 33.78 3.01
879 2372 5.830991 TGTGCCAAACAGTTACTAAGGAATT 59.169 36.000 0.00 0.00 33.78 2.17
880 2373 6.016610 TGTGCCAAACAGTTACTAAGGAATTC 60.017 38.462 0.00 0.00 33.78 2.17
881 2374 6.206829 GTGCCAAACAGTTACTAAGGAATTCT 59.793 38.462 5.23 0.00 0.00 2.40
1047 2546 0.830648 CATTCTCCTCGGGGCAGTAA 59.169 55.000 0.00 0.00 0.00 2.24
1071 2570 1.398960 CGTTGCTTGTAGCTGCAGTTC 60.399 52.381 16.64 6.77 42.97 3.01
1080 2579 1.055040 AGCTGCAGTTCTCCAACTCT 58.945 50.000 16.64 0.00 41.24 3.24
1083 2582 2.225255 GCTGCAGTTCTCCAACTCTTTC 59.775 50.000 16.64 0.00 41.24 2.62
1143 2642 1.686325 GCCTCCTGGTAATCTCGGCA 61.686 60.000 0.00 0.00 36.16 5.69
1262 2761 2.742053 CTCTACCATGTCGTTGTTTGGG 59.258 50.000 0.00 0.00 33.39 4.12
1493 2992 0.904865 AGGTCAGGAGCCACATCGAA 60.905 55.000 0.00 0.00 0.00 3.71
1518 3017 0.675837 CTGGGTCGGTCGTGACTCTA 60.676 60.000 0.00 0.00 40.15 2.43
1545 3044 0.893270 ATGGGCAAACGCTTACTGCA 60.893 50.000 0.00 0.00 43.06 4.41
1546 3045 0.893270 TGGGCAAACGCTTACTGCAT 60.893 50.000 0.00 0.00 43.06 3.96
1548 3047 1.072666 GGCAAACGCTTACTGCATGC 61.073 55.000 11.82 11.82 43.06 4.06
1549 3048 0.109597 GCAAACGCTTACTGCATGCT 60.110 50.000 20.33 1.26 43.06 3.79
1550 3049 1.887320 CAAACGCTTACTGCATGCTC 58.113 50.000 20.33 0.31 43.06 4.26
1551 3050 0.443869 AAACGCTTACTGCATGCTCG 59.556 50.000 20.33 12.41 43.06 5.03
1552 3051 0.389817 AACGCTTACTGCATGCTCGA 60.390 50.000 20.33 0.07 43.06 4.04
1553 3052 1.078759 ACGCTTACTGCATGCTCGAC 61.079 55.000 20.33 2.71 43.06 4.20
1559 3058 4.325741 GCTTACTGCATGCTCGACTATATG 59.674 45.833 20.33 4.58 42.31 1.78
1626 3125 9.750125 AAAAAGAATTTGTAGGTTCATTGTCTC 57.250 29.630 0.00 0.00 39.02 3.36
1627 3126 8.463930 AAAGAATTTGTAGGTTCATTGTCTCA 57.536 30.769 0.00 0.00 36.60 3.27
1628 3127 8.463930 AAGAATTTGTAGGTTCATTGTCTCAA 57.536 30.769 0.00 0.00 0.00 3.02
1629 3128 8.641498 AGAATTTGTAGGTTCATTGTCTCAAT 57.359 30.769 0.00 0.00 0.00 2.57
1630 3129 9.082313 AGAATTTGTAGGTTCATTGTCTCAATT 57.918 29.630 0.00 0.00 0.00 2.32
1634 3133 9.513906 TTTGTAGGTTCATTGTCTCAATTATCA 57.486 29.630 0.00 0.00 0.00 2.15
1635 3134 9.685276 TTGTAGGTTCATTGTCTCAATTATCAT 57.315 29.630 0.00 0.00 0.00 2.45
1636 3135 9.112725 TGTAGGTTCATTGTCTCAATTATCATG 57.887 33.333 0.00 0.00 0.00 3.07
1637 3136 7.035840 AGGTTCATTGTCTCAATTATCATGC 57.964 36.000 0.00 0.00 0.00 4.06
1638 3137 6.040166 AGGTTCATTGTCTCAATTATCATGCC 59.960 38.462 0.00 0.00 0.00 4.40
1709 3445 9.113838 CAGTACATATTCTGCTCACCTTATTTT 57.886 33.333 0.00 0.00 0.00 1.82
1798 3534 9.444534 CGAGACAATGTCATATACTCATATAGC 57.555 37.037 16.38 0.00 34.60 2.97
1916 3654 3.282885 GGCATTACAAAGAGGAAGGGAG 58.717 50.000 0.00 0.00 0.00 4.30
1936 3674 6.069556 AGGGAGGTATTTTTCTCCTTAGGTTC 60.070 42.308 8.95 0.00 46.51 3.62
1940 3678 6.659668 AGGTATTTTTCTCCTTAGGTTCTTGC 59.340 38.462 0.00 0.00 0.00 4.01
1974 3712 9.740239 GTTACGTTTATATGTCTACTCCATTCA 57.260 33.333 0.00 0.00 0.00 2.57
1987 3725 4.192317 ACTCCATTCATAAAGAAGACGGC 58.808 43.478 0.00 0.00 40.15 5.68
2099 3847 3.681897 AGAGTAAAAGCAAGCACTCGATG 59.318 43.478 0.00 0.00 41.80 3.84
2111 3859 0.959553 ACTCGATGACTGGTCGTGTT 59.040 50.000 0.00 0.00 41.32 3.32
2145 3893 7.090173 ACAACGAAAATGATGAAAATACCCAG 58.910 34.615 0.00 0.00 0.00 4.45
2512 4265 8.375493 AGTAGTTGATGATTTTACAGGTCCTA 57.625 34.615 0.00 0.00 0.00 2.94
2517 4270 6.969043 TGATGATTTTACAGGTCCTACCAAT 58.031 36.000 0.00 0.00 41.95 3.16
2626 4379 5.514500 TTGTTACTCTTGGGAAGGCTATT 57.486 39.130 0.00 0.00 0.00 1.73
2641 4394 6.713450 GGAAGGCTATTTTATCATTTCCGGTA 59.287 38.462 0.00 0.00 0.00 4.02
2695 4448 0.647410 CTGCAAGTGCGAAGATACGG 59.353 55.000 0.00 0.00 45.83 4.02
2737 4490 3.165875 CCACAAGAGGGAAGAGTCACTA 58.834 50.000 0.00 0.00 37.77 2.74
2836 4589 3.515502 CCCTCACTCTGGAAGACATTGTA 59.484 47.826 0.00 0.00 38.67 2.41
2913 4666 3.117246 ACCTTCATGATCCGGTACCTCTA 60.117 47.826 10.90 0.00 0.00 2.43
2954 4707 5.135508 TGACAAAGTTACTAGAGGTCTGC 57.864 43.478 0.00 0.00 0.00 4.26
2955 4708 4.167268 GACAAAGTTACTAGAGGTCTGCG 58.833 47.826 0.00 0.00 0.00 5.18
2973 4726 6.074005 GTCTGCGTATTATTATGCTGCTTTC 58.926 40.000 0.00 0.46 40.40 2.62
2978 4731 6.299604 CGTATTATTATGCTGCTTTCCTTCG 58.700 40.000 0.00 0.00 0.00 3.79
2979 4732 4.552166 TTATTATGCTGCTTTCCTTCGC 57.448 40.909 0.00 0.00 0.00 4.70
2982 4735 2.113860 ATGCTGCTTTCCTTCGCTAA 57.886 45.000 0.00 0.00 0.00 3.09
2993 4746 6.753744 GCTTTCCTTCGCTAATTGATTCAAAT 59.246 34.615 2.68 0.00 0.00 2.32
3033 4786 5.532406 ACCACCATGGAAATTAATCTGATCG 59.468 40.000 21.47 0.00 40.96 3.69
3132 4885 9.403110 GGATGATGTTGCAAAGATGAAATATAC 57.597 33.333 0.00 0.00 26.82 1.47
3257 5010 7.865706 AAAGGCTGGAAAGTAAGTACATATG 57.134 36.000 0.00 0.00 0.00 1.78
3258 5011 6.808321 AGGCTGGAAAGTAAGTACATATGA 57.192 37.500 10.38 0.00 0.00 2.15
3260 5013 5.467063 GGCTGGAAAGTAAGTACATATGAGC 59.533 44.000 10.38 2.74 0.00 4.26
3269 5023 9.935241 AAGTAAGTACATATGAGCTCCATAATG 57.065 33.333 12.15 11.50 40.79 1.90
3324 5078 6.899393 ATCACACACAAGTAACATGGAAAT 57.101 33.333 0.00 0.00 0.00 2.17
3325 5079 6.070897 TCACACACAAGTAACATGGAAATG 57.929 37.500 0.00 0.00 0.00 2.32
3351 5105 1.723542 CTTCGCAGCGCAAAGTGTG 60.724 57.895 10.87 5.79 0.00 3.82
3363 5117 3.424829 CGCAAAGTGTGACACATATGGAC 60.425 47.826 18.95 0.00 36.74 4.02
3366 5120 3.510388 AGTGTGACACATATGGACTCG 57.490 47.619 18.95 0.00 36.74 4.18
3402 5156 5.418840 TGAGCCTAACAAATTCAATCCTTCC 59.581 40.000 0.00 0.00 0.00 3.46
3535 5289 0.693049 AGTAAGGCAGTTCAGGTGGG 59.307 55.000 0.00 0.00 0.00 4.61
3543 5297 2.161609 GCAGTTCAGGTGGGAAATAACG 59.838 50.000 0.00 0.00 0.00 3.18
3586 5340 3.969250 GATCCAAAGCCGACGCCCA 62.969 63.158 0.00 0.00 34.57 5.36
3634 5388 0.679505 GAGACCCCTTGCCAAAAACC 59.320 55.000 0.00 0.00 0.00 3.27
3641 5395 1.762370 CCTTGCCAAAAACCTCCAAGT 59.238 47.619 0.00 0.00 32.99 3.16
3644 5398 1.754226 TGCCAAAAACCTCCAAGTCAC 59.246 47.619 0.00 0.00 0.00 3.67
3662 5416 4.654262 AGTCACCACTATGGATACCGAAAT 59.346 41.667 0.84 0.00 40.96 2.17
3711 5465 9.916360 AATTATGATGATACATGCATGGTCTAT 57.084 29.630 29.41 18.06 0.00 1.98
3729 5483 8.226819 TGGTCTATGTTATGAAGACTAGAGTG 57.773 38.462 0.00 0.00 39.65 3.51
3738 5492 9.515020 GTTATGAAGACTAGAGTGAGAATTCAG 57.485 37.037 8.44 0.00 32.98 3.02
3784 5538 5.410355 AAAAGCATGCTATTCCATGTTGT 57.590 34.783 23.00 0.00 43.46 3.32
3812 5567 9.781834 CTTGTGAGATACTCTTCTAGTTACAAG 57.218 37.037 0.00 0.00 39.80 3.16
3867 5622 8.943085 CCTATGAGCTATATATTTCATTCCCCT 58.057 37.037 11.97 0.00 32.83 4.79
3890 5646 9.398170 CCCTAACATAAAAATTGCAATCGATAG 57.602 33.333 13.38 4.46 0.00 2.08
3909 5665 7.445121 TCGATAGAATAGAATTCCTTGCACAT 58.555 34.615 0.65 0.00 46.15 3.21
3975 5731 6.603201 GTGGGATAAAGTCCTCATTGATTTGA 59.397 38.462 0.00 0.00 46.91 2.69
3982 5738 7.913674 AAGTCCTCATTGATTTGACTTCTAC 57.086 36.000 15.25 0.00 41.14 2.59
4063 5828 0.824109 CTAGCTTGATGGACGGGTCA 59.176 55.000 0.00 0.00 0.00 4.02
4122 5887 3.307242 CCATTGAACTACGCTAAGCACTC 59.693 47.826 0.00 0.00 0.00 3.51
4125 5890 2.496070 TGAACTACGCTAAGCACTCCAT 59.504 45.455 0.00 0.00 0.00 3.41
4130 5895 5.484715 ACTACGCTAAGCACTCCATAAAAA 58.515 37.500 0.00 0.00 0.00 1.94
4159 5924 1.945394 CCTGGCAAAGAAGATCATCCG 59.055 52.381 0.00 0.00 0.00 4.18
4167 5932 0.744874 GAAGATCATCCGTCGACCCA 59.255 55.000 10.58 0.00 0.00 4.51
4175 5940 2.125326 CCGTCGACCCATAGAGGCA 61.125 63.158 10.58 0.00 35.39 4.75
4192 5957 1.213275 CATGTGCTTGAATGCGCCA 59.787 52.632 4.18 0.00 42.20 5.69
4197 5962 2.753043 CTTGAATGCGCCAGCCCT 60.753 61.111 4.18 0.00 44.33 5.19
4221 5986 1.300481 GCCTCGATACCAAGAAAGCC 58.700 55.000 0.00 0.00 0.00 4.35
4225 5990 2.874701 CTCGATACCAAGAAAGCCATGG 59.125 50.000 7.63 7.63 40.16 3.66
4397 6166 6.894682 ACTTCAGAACTCTTCCTCTTTTCTT 58.105 36.000 0.00 0.00 0.00 2.52
4421 6190 3.009723 CCTACGCACTCCATGTCAAATT 58.990 45.455 0.00 0.00 0.00 1.82
4423 6192 4.082787 CCTACGCACTCCATGTCAAATTTT 60.083 41.667 0.00 0.00 0.00 1.82
4551 6326 9.465199 GGGGACTAACCAACTAATAAATGTAAA 57.535 33.333 0.00 0.00 41.20 2.01
4677 6452 1.022451 TTGAGGTTACCAATCCGCGC 61.022 55.000 3.51 0.00 0.00 6.86
4681 6456 1.517694 GTTACCAATCCGCGCGAGA 60.518 57.895 34.63 26.31 0.00 4.04
4682 6457 0.874607 GTTACCAATCCGCGCGAGAT 60.875 55.000 34.63 27.33 0.00 2.75
4692 6467 1.526887 CCGCGCGAGATAATCACAATT 59.473 47.619 34.63 0.00 0.00 2.32
4699 6474 6.734171 GCGCGAGATAATCACAATTAATCTTC 59.266 38.462 12.10 0.00 31.28 2.87
4704 6479 9.784531 GAGATAATCACAATTAATCTTCTCCCA 57.215 33.333 0.00 0.00 30.41 4.37
4709 6484 8.827832 ATCACAATTAATCTTCTCCCATGAAA 57.172 30.769 0.00 0.00 0.00 2.69
4720 6495 8.340618 TCTTCTCCCATGAAAATCACTTAAAG 57.659 34.615 0.00 0.00 0.00 1.85
4750 6525 7.730364 AGATATTTTATTACGCCACCTTCTG 57.270 36.000 0.00 0.00 0.00 3.02
4751 6526 7.280356 AGATATTTTATTACGCCACCTTCTGT 58.720 34.615 0.00 0.00 0.00 3.41
4753 6528 2.572191 TATTACGCCACCTTCTGTCG 57.428 50.000 0.00 0.00 0.00 4.35
4773 6548 4.449743 GTCGCAACTATTTAGTGTGGTTGA 59.550 41.667 8.08 0.00 39.39 3.18
4811 6586 9.846248 GGCTGCATAGTTATAAATAAGGAATTG 57.154 33.333 0.50 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
1 2 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2 3 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3 4 3.256383 TCTGACAAGTATTTTCGGACGGA 59.744 43.478 0.00 0.00 0.00 4.69
4 5 3.581755 TCTGACAAGTATTTTCGGACGG 58.418 45.455 0.00 0.00 0.00 4.79
5 6 3.612860 CCTCTGACAAGTATTTTCGGACG 59.387 47.826 0.00 0.00 0.00 4.79
6 7 4.817517 TCCTCTGACAAGTATTTTCGGAC 58.182 43.478 0.00 0.00 0.00 4.79
7 8 5.477607 TTCCTCTGACAAGTATTTTCGGA 57.522 39.130 0.00 0.00 0.00 4.55
8 9 5.874810 TCATTCCTCTGACAAGTATTTTCGG 59.125 40.000 0.00 0.00 0.00 4.30
9 10 6.968131 TCATTCCTCTGACAAGTATTTTCG 57.032 37.500 0.00 0.00 0.00 3.46
10 11 8.734386 ACATTCATTCCTCTGACAAGTATTTTC 58.266 33.333 0.00 0.00 0.00 2.29
11 12 8.641498 ACATTCATTCCTCTGACAAGTATTTT 57.359 30.769 0.00 0.00 0.00 1.82
12 13 9.911788 ATACATTCATTCCTCTGACAAGTATTT 57.088 29.630 0.00 0.00 0.00 1.40
13 14 9.553064 GATACATTCATTCCTCTGACAAGTATT 57.447 33.333 0.00 0.00 0.00 1.89
14 15 8.932610 AGATACATTCATTCCTCTGACAAGTAT 58.067 33.333 0.00 0.00 0.00 2.12
15 16 8.311395 AGATACATTCATTCCTCTGACAAGTA 57.689 34.615 0.00 0.00 0.00 2.24
16 17 7.192852 AGATACATTCATTCCTCTGACAAGT 57.807 36.000 0.00 0.00 0.00 3.16
17 18 8.637099 TCTAGATACATTCATTCCTCTGACAAG 58.363 37.037 0.00 0.00 0.00 3.16
18 19 8.417106 GTCTAGATACATTCATTCCTCTGACAA 58.583 37.037 0.00 0.00 0.00 3.18
19 20 7.255277 CGTCTAGATACATTCATTCCTCTGACA 60.255 40.741 0.00 0.00 0.00 3.58
20 21 7.081349 CGTCTAGATACATTCATTCCTCTGAC 58.919 42.308 0.00 0.00 0.00 3.51
21 22 6.773200 ACGTCTAGATACATTCATTCCTCTGA 59.227 38.462 0.00 0.00 0.00 3.27
22 23 6.976088 ACGTCTAGATACATTCATTCCTCTG 58.024 40.000 0.00 0.00 0.00 3.35
23 24 8.871629 ATACGTCTAGATACATTCATTCCTCT 57.128 34.615 0.00 0.00 0.00 3.69
24 25 9.915629 AAATACGTCTAGATACATTCATTCCTC 57.084 33.333 0.00 0.00 0.00 3.71
41 42 9.962783 GGATGTATCTACAACTAAAATACGTCT 57.037 33.333 0.00 0.00 39.99 4.18
42 43 9.740239 TGGATGTATCTACAACTAAAATACGTC 57.260 33.333 0.00 0.00 39.99 4.34
52 53 9.407380 TGCATAAAAATGGATGTATCTACAACT 57.593 29.630 0.00 0.00 39.99 3.16
59 60 9.415544 GGAGAATTGCATAAAAATGGATGTATC 57.584 33.333 0.00 0.00 0.00 2.24
60 61 8.084073 CGGAGAATTGCATAAAAATGGATGTAT 58.916 33.333 0.00 0.00 0.00 2.29
61 62 7.284261 TCGGAGAATTGCATAAAAATGGATGTA 59.716 33.333 0.00 0.00 0.00 2.29
62 63 6.096705 TCGGAGAATTGCATAAAAATGGATGT 59.903 34.615 0.00 0.00 0.00 3.06
63 64 6.418819 GTCGGAGAATTGCATAAAAATGGATG 59.581 38.462 0.00 0.00 39.69 3.51
64 65 6.096705 TGTCGGAGAATTGCATAAAAATGGAT 59.903 34.615 0.00 0.00 39.69 3.41
65 66 5.417266 TGTCGGAGAATTGCATAAAAATGGA 59.583 36.000 0.00 0.00 39.69 3.41
66 67 5.649557 TGTCGGAGAATTGCATAAAAATGG 58.350 37.500 0.00 0.00 39.69 3.16
67 68 6.808212 ACTTGTCGGAGAATTGCATAAAAATG 59.192 34.615 0.00 0.00 39.69 2.32
68 69 6.924111 ACTTGTCGGAGAATTGCATAAAAAT 58.076 32.000 0.00 0.00 39.69 1.82
69 70 6.325919 ACTTGTCGGAGAATTGCATAAAAA 57.674 33.333 0.00 0.00 39.69 1.94
70 71 5.957842 ACTTGTCGGAGAATTGCATAAAA 57.042 34.783 0.00 0.00 39.69 1.52
71 72 7.624360 AATACTTGTCGGAGAATTGCATAAA 57.376 32.000 0.00 0.00 39.69 1.40
72 73 7.624360 AAATACTTGTCGGAGAATTGCATAA 57.376 32.000 0.00 0.00 39.69 1.90
73 74 7.465379 CGAAAATACTTGTCGGAGAATTGCATA 60.465 37.037 0.00 0.00 39.69 3.14
74 75 6.515272 AAAATACTTGTCGGAGAATTGCAT 57.485 33.333 0.00 0.00 39.69 3.96
75 76 5.390461 CGAAAATACTTGTCGGAGAATTGCA 60.390 40.000 0.00 0.00 39.69 4.08
76 77 5.022021 CGAAAATACTTGTCGGAGAATTGC 58.978 41.667 0.00 0.00 39.69 3.56
85 86 2.597305 CTCCGTCCGAAAATACTTGTCG 59.403 50.000 0.00 0.00 34.58 4.35
86 87 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
87 88 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
88 89 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
89 90 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
90 91 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
91 92 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
92 93 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
93 94 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
94 95 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
95 96 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
96 97 0.911769 TAGTACTCCCTCCGTCCGAA 59.088 55.000 0.00 0.00 0.00 4.30
97 98 0.911769 TTAGTACTCCCTCCGTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
98 99 1.878734 GATTAGTACTCCCTCCGTCCG 59.121 57.143 0.00 0.00 0.00 4.79
99 100 2.941480 TGATTAGTACTCCCTCCGTCC 58.059 52.381 0.00 0.00 0.00 4.79
100 101 4.205587 TCTTGATTAGTACTCCCTCCGTC 58.794 47.826 0.00 0.00 0.00 4.79
101 102 4.246712 TCTTGATTAGTACTCCCTCCGT 57.753 45.455 0.00 0.00 0.00 4.69
102 103 5.793030 AATCTTGATTAGTACTCCCTCCG 57.207 43.478 0.00 0.00 0.00 4.63
103 104 7.726738 AGAGTAATCTTGATTAGTACTCCCTCC 59.273 40.741 15.51 3.04 40.94 4.30
104 105 8.700439 AGAGTAATCTTGATTAGTACTCCCTC 57.300 38.462 15.51 11.11 40.94 4.30
132 133 2.163818 TCTCCCGCAAAACACTAGTG 57.836 50.000 21.44 21.44 0.00 2.74
159 160 3.989705 TGCTGATATGACGACAAAACG 57.010 42.857 0.00 0.00 39.31 3.60
392 398 7.479980 TCTACATTGCAATGGCTTGTATAAAC 58.520 34.615 35.85 0.00 40.70 2.01
395 401 6.997476 TGATCTACATTGCAATGGCTTGTATA 59.003 34.615 35.85 19.79 40.70 1.47
406 412 4.274705 ACGTTGTGTTGATCTACATTGCAA 59.725 37.500 13.09 0.00 0.00 4.08
421 427 5.700846 TGTGTTTATTTGTCAACGTTGTGT 58.299 33.333 26.47 12.16 0.00 3.72
447 453 7.710907 GCTATGTCCAGTTGTATGATGAACTAA 59.289 37.037 0.00 0.00 31.09 2.24
471 477 2.656560 AGCTATCGTTCGAACTTGCT 57.343 45.000 24.80 20.28 0.00 3.91
483 489 6.093495 TGGACCTTTTTGTGAAATAGCTATCG 59.907 38.462 6.72 0.00 0.00 2.92
590 596 7.922811 TGATGCTGTATAGTTGTGAGATACTTG 59.077 37.037 0.00 0.00 0.00 3.16
736 742 6.374417 TTTGAAAGAACTAGGTGATAGCCT 57.626 37.500 0.00 0.00 42.43 4.58
778 2258 1.989706 TTTTGAAAGGAAGGTCCCGG 58.010 50.000 0.00 0.00 37.19 5.73
1047 2546 0.109597 GCAGCTACAAGCAACGCAAT 60.110 50.000 1.22 0.00 45.56 3.56
1071 2570 6.856895 AGAAGTTTTTGTGAAAGAGTTGGAG 58.143 36.000 0.00 0.00 0.00 3.86
1080 2579 5.885912 AGAGCCTGTAGAAGTTTTTGTGAAA 59.114 36.000 0.00 0.00 0.00 2.69
1083 2582 5.992217 AGTAGAGCCTGTAGAAGTTTTTGTG 59.008 40.000 0.00 0.00 0.00 3.33
1262 2761 4.112341 AGTAGCACCGTCGGCGAC 62.112 66.667 29.06 29.06 41.33 5.19
1493 2992 0.316204 CACGACCGACCCAGTTTAGT 59.684 55.000 0.00 0.00 0.00 2.24
1518 3017 1.373590 GCGTTTGCCCATACCGTGAT 61.374 55.000 0.00 0.00 33.98 3.06
1545 3044 6.986231 TGTGAATGAAACATATAGTCGAGCAT 59.014 34.615 0.00 0.00 0.00 3.79
1546 3045 6.337356 TGTGAATGAAACATATAGTCGAGCA 58.663 36.000 0.00 0.00 0.00 4.26
1548 3047 9.463443 TGTATGTGAATGAAACATATAGTCGAG 57.537 33.333 0.08 0.00 41.31 4.04
1549 3048 9.463443 CTGTATGTGAATGAAACATATAGTCGA 57.537 33.333 10.45 0.00 41.31 4.20
1550 3049 9.463443 TCTGTATGTGAATGAAACATATAGTCG 57.537 33.333 15.46 0.00 44.10 4.18
1602 3101 8.463930 TGAGACAATGAACCTACAAATTCTTT 57.536 30.769 0.00 0.00 0.00 2.52
1604 3103 8.641498 ATTGAGACAATGAACCTACAAATTCT 57.359 30.769 0.00 0.00 0.00 2.40
1608 3107 9.513906 TGATAATTGAGACAATGAACCTACAAA 57.486 29.630 0.00 0.00 0.00 2.83
1609 3108 9.685276 ATGATAATTGAGACAATGAACCTACAA 57.315 29.630 0.00 0.00 0.00 2.41
1610 3109 9.112725 CATGATAATTGAGACAATGAACCTACA 57.887 33.333 0.00 0.00 0.00 2.74
1611 3110 8.072567 GCATGATAATTGAGACAATGAACCTAC 58.927 37.037 0.00 0.00 0.00 3.18
1612 3111 7.229306 GGCATGATAATTGAGACAATGAACCTA 59.771 37.037 0.00 0.00 0.00 3.08
1613 3112 6.040166 GGCATGATAATTGAGACAATGAACCT 59.960 38.462 0.00 0.00 0.00 3.50
1614 3113 6.211515 GGCATGATAATTGAGACAATGAACC 58.788 40.000 0.00 0.00 0.00 3.62
1615 3114 6.211515 GGGCATGATAATTGAGACAATGAAC 58.788 40.000 0.00 0.00 0.00 3.18
1616 3115 5.302568 GGGGCATGATAATTGAGACAATGAA 59.697 40.000 0.00 0.00 0.00 2.57
1617 3116 4.828939 GGGGCATGATAATTGAGACAATGA 59.171 41.667 0.00 0.00 0.00 2.57
1618 3117 4.831155 AGGGGCATGATAATTGAGACAATG 59.169 41.667 0.00 0.00 0.00 2.82
1619 3118 5.070823 AGGGGCATGATAATTGAGACAAT 57.929 39.130 0.00 0.00 0.00 2.71
1620 3119 4.079844 TGAGGGGCATGATAATTGAGACAA 60.080 41.667 0.00 0.00 0.00 3.18
1621 3120 3.459227 TGAGGGGCATGATAATTGAGACA 59.541 43.478 0.00 0.00 0.00 3.41
1622 3121 4.090761 TGAGGGGCATGATAATTGAGAC 57.909 45.455 0.00 0.00 0.00 3.36
1623 3122 4.464008 GTTGAGGGGCATGATAATTGAGA 58.536 43.478 0.00 0.00 0.00 3.27
1624 3123 3.251729 CGTTGAGGGGCATGATAATTGAG 59.748 47.826 0.00 0.00 0.00 3.02
1625 3124 3.213506 CGTTGAGGGGCATGATAATTGA 58.786 45.455 0.00 0.00 0.00 2.57
1626 3125 2.294233 CCGTTGAGGGGCATGATAATTG 59.706 50.000 0.00 0.00 35.97 2.32
1627 3126 2.174639 TCCGTTGAGGGGCATGATAATT 59.825 45.455 0.00 0.00 41.52 1.40
1628 3127 1.774254 TCCGTTGAGGGGCATGATAAT 59.226 47.619 0.00 0.00 41.52 1.28
1629 3128 1.208706 TCCGTTGAGGGGCATGATAA 58.791 50.000 0.00 0.00 41.52 1.75
1630 3129 1.140852 CTTCCGTTGAGGGGCATGATA 59.859 52.381 0.00 0.00 41.52 2.15
1631 3130 0.107017 CTTCCGTTGAGGGGCATGAT 60.107 55.000 0.00 0.00 41.52 2.45
1632 3131 1.299648 CTTCCGTTGAGGGGCATGA 59.700 57.895 0.00 0.00 41.52 3.07
1633 3132 1.002134 ACTTCCGTTGAGGGGCATG 60.002 57.895 0.00 0.00 41.52 4.06
1634 3133 1.002134 CACTTCCGTTGAGGGGCAT 60.002 57.895 0.00 0.00 41.52 4.40
1635 3134 2.429930 CACTTCCGTTGAGGGGCA 59.570 61.111 0.00 0.00 41.52 5.36
1636 3135 1.833787 TACCACTTCCGTTGAGGGGC 61.834 60.000 0.00 0.00 41.61 5.80
1637 3136 0.036671 GTACCACTTCCGTTGAGGGG 60.037 60.000 0.00 0.00 43.59 4.79
1638 3137 0.974383 AGTACCACTTCCGTTGAGGG 59.026 55.000 0.00 0.00 41.52 4.30
1694 3430 3.420893 TGGACCAAAATAAGGTGAGCAG 58.579 45.455 0.00 0.00 40.09 4.24
1709 3445 0.322456 CAGCTCGGGAAAATGGACCA 60.322 55.000 0.00 0.00 0.00 4.02
1772 3508 9.444534 GCTATATGAGTATATGACATTGTCTCG 57.555 37.037 17.26 0.00 33.15 4.04
1817 3553 8.251750 GTGCAACAAATACAGTCTATTCTACA 57.748 34.615 0.00 0.00 36.32 2.74
1916 3654 6.403309 CGCAAGAACCTAAGGAGAAAAATACC 60.403 42.308 0.00 0.00 43.02 2.73
1936 3674 1.722011 AACGTAACCATCCTCGCAAG 58.278 50.000 0.00 0.00 0.00 4.01
1940 3678 6.444633 AGACATATAAACGTAACCATCCTCG 58.555 40.000 0.00 0.00 0.00 4.63
1974 3712 6.817765 TCATTTTTCTGCCGTCTTCTTTAT 57.182 33.333 0.00 0.00 0.00 1.40
2026 3774 0.547553 GGCCGGGGTTTAGATTACCA 59.452 55.000 2.18 0.00 37.40 3.25
2111 3859 4.377839 TCATTTTCGTTGTTGCTGGAAA 57.622 36.364 0.00 0.00 0.00 3.13
2332 4084 6.482641 AGTGTATTGCATCATCTTGTGAGATC 59.517 38.462 0.00 0.00 40.67 2.75
2512 4265 2.289694 CGAAAGTCTCCTCACCATTGGT 60.290 50.000 1.37 1.37 35.62 3.67
2517 4270 1.048601 AAGCGAAAGTCTCCTCACCA 58.951 50.000 0.00 0.00 0.00 4.17
2641 4394 5.118729 TGAACCGGGTGAATGGTATATTT 57.881 39.130 6.32 0.00 37.54 1.40
2695 4448 4.584325 TGGGCAATATTTGTGATAGCCTTC 59.416 41.667 9.74 0.00 40.40 3.46
2836 4589 1.296715 GAGGCCCATCGTGTTGTCT 59.703 57.895 0.00 0.00 0.00 3.41
2860 4613 3.681835 GTCGTCTCGTGTGCCCCT 61.682 66.667 0.00 0.00 0.00 4.79
2913 4666 4.164796 TGTCAAGGATATCTGGCTCATTGT 59.835 41.667 2.05 0.00 35.35 2.71
2954 4707 6.299604 CGAAGGAAAGCAGCATAATAATACG 58.700 40.000 0.00 0.00 0.00 3.06
2955 4708 6.073003 AGCGAAGGAAAGCAGCATAATAATAC 60.073 38.462 0.00 0.00 35.48 1.89
2973 4726 8.137437 ACCATTATTTGAATCAATTAGCGAAGG 58.863 33.333 0.00 0.60 0.00 3.46
2993 4746 6.379703 CCATGGTGGTGAAGAAATTACCATTA 59.620 38.462 2.57 0.00 44.16 1.90
3009 4762 5.532406 CGATCAGATTAATTTCCATGGTGGT 59.468 40.000 12.58 0.00 39.03 4.16
3010 4763 5.532406 ACGATCAGATTAATTTCCATGGTGG 59.468 40.000 12.58 0.00 39.43 4.61
3033 4786 5.124457 TCTGCAGAAGATCAAAAGGCATAAC 59.876 40.000 15.67 0.00 0.00 1.89
3132 4885 0.523072 CTCCATTGCCACTTTCCACG 59.477 55.000 0.00 0.00 0.00 4.94
3280 5034 7.724506 TGTGATAGAGTTCTCGGGAAGTATTAT 59.275 37.037 5.07 7.16 35.47 1.28
3324 5078 2.666190 GCTGCGAAGACCTGCACA 60.666 61.111 0.00 0.00 35.90 4.57
3325 5079 3.782244 CGCTGCGAAGACCTGCAC 61.782 66.667 18.66 0.00 35.90 4.57
3351 5105 4.122776 AGAATTGCGAGTCCATATGTGTC 58.877 43.478 1.24 0.00 0.00 3.67
3363 5117 2.681848 AGGCTCATGAAAGAATTGCGAG 59.318 45.455 0.00 0.00 0.00 5.03
3366 5120 5.314923 TGTTAGGCTCATGAAAGAATTGC 57.685 39.130 0.00 0.00 0.00 3.56
3402 5156 1.654023 GGGCGGATTTCTCAAACCGG 61.654 60.000 0.00 0.00 44.61 5.28
3535 5289 6.500910 AGGTTTCCTTTTCACACGTTATTTC 58.499 36.000 0.00 0.00 0.00 2.17
3543 5297 5.008712 CCTCTTGTAGGTTTCCTTTTCACAC 59.991 44.000 0.00 0.00 40.94 3.82
3634 5388 4.202264 GGTATCCATAGTGGTGACTTGGAG 60.202 50.000 0.00 0.00 40.08 3.86
3641 5395 5.245301 CCTATTTCGGTATCCATAGTGGTGA 59.755 44.000 0.00 0.00 39.03 4.02
3644 5398 5.740290 ACCTATTTCGGTATCCATAGTGG 57.260 43.478 0.00 0.00 35.42 4.00
3662 5416 4.374689 TGCTTGTCATGGGTTTAACCTA 57.625 40.909 14.27 8.54 38.64 3.08
3711 5465 9.025041 TGAATTCTCACTCTAGTCTTCATAACA 57.975 33.333 7.05 0.00 0.00 2.41
3765 5519 2.100252 GCACAACATGGAATAGCATGCT 59.900 45.455 25.99 25.99 32.40 3.79
3769 5523 3.057386 CACAAGCACAACATGGAATAGCA 60.057 43.478 0.00 0.00 0.00 3.49
3909 5665 9.542462 GTAACTAGTAGAATTACCATTGCATCA 57.458 33.333 3.59 0.00 0.00 3.07
3957 5713 7.118390 CGTAGAAGTCAAATCAATGAGGACTTT 59.882 37.037 20.72 15.28 45.79 2.66
3960 5716 6.100004 TCGTAGAAGTCAAATCAATGAGGAC 58.900 40.000 4.87 4.87 0.00 3.85
3997 5757 5.576563 TCCCACATGGAAGAGAGTAAAAA 57.423 39.130 0.00 0.00 41.40 1.94
4057 5822 4.081862 TCCACTAGTTGTTAATCTGACCCG 60.082 45.833 0.00 0.00 0.00 5.28
4063 5828 8.486210 TCTATGCAATCCACTAGTTGTTAATCT 58.514 33.333 0.00 0.00 0.00 2.40
4122 5887 3.181466 GCCAGGCCCAACTATTTTTATGG 60.181 47.826 0.00 0.00 0.00 2.74
4125 5890 3.176924 TGCCAGGCCCAACTATTTTTA 57.823 42.857 9.64 0.00 0.00 1.52
4130 5895 0.704076 TCTTTGCCAGGCCCAACTAT 59.296 50.000 9.64 0.00 0.00 2.12
4159 5924 0.753262 ACATGCCTCTATGGGTCGAC 59.247 55.000 7.13 7.13 36.00 4.20
4167 5932 2.621998 GCATTCAAGCACATGCCTCTAT 59.378 45.455 0.00 0.00 43.38 1.98
4175 5940 1.509463 CTGGCGCATTCAAGCACAT 59.491 52.632 10.83 0.00 34.54 3.21
4197 5962 3.904800 TTCTTGGTATCGAGGCATTCA 57.095 42.857 0.00 0.00 0.00 2.57
4303 6072 5.364778 TCTTTGGATCACGAAAGTTTCTCA 58.635 37.500 13.56 0.00 46.40 3.27
4309 6078 7.386851 TCTTCTTATCTTTGGATCACGAAAGT 58.613 34.615 0.00 0.00 40.78 2.66
4310 6079 7.834068 TCTTCTTATCTTTGGATCACGAAAG 57.166 36.000 0.00 0.04 41.12 2.62
4314 6083 6.201806 GTCCATCTTCTTATCTTTGGATCACG 59.798 42.308 0.00 0.00 35.82 4.35
4397 6166 2.661718 TGACATGGAGTGCGTAGGATA 58.338 47.619 0.00 0.00 0.00 2.59
4586 6361 5.540337 TGGACAATTGGCTACCAACAATAAA 59.460 36.000 11.97 0.00 46.95 1.40
4587 6362 5.080337 TGGACAATTGGCTACCAACAATAA 58.920 37.500 11.97 0.00 46.95 1.40
4655 6430 1.065709 GCGGATTGGTAACCTCAAGGA 60.066 52.381 2.30 0.00 38.94 3.36
4677 6452 8.930760 GGGAGAAGATTAATTGTGATTATCTCG 58.069 37.037 0.00 0.00 34.21 4.04
4682 6457 9.919416 TTCATGGGAGAAGATTAATTGTGATTA 57.081 29.630 0.00 0.00 0.00 1.75
4692 6467 9.973661 TTAAGTGATTTTCATGGGAGAAGATTA 57.026 29.630 0.00 0.00 0.00 1.75
4699 6474 9.762933 TTTTTCTTTAAGTGATTTTCATGGGAG 57.237 29.630 0.00 0.00 0.00 4.30
4728 6503 7.492352 GACAGAAGGTGGCGTAATAAAATAT 57.508 36.000 0.00 0.00 0.00 1.28
4730 6505 5.813080 GACAGAAGGTGGCGTAATAAAAT 57.187 39.130 0.00 0.00 0.00 1.82
4750 6525 4.449743 TCAACCACACTAAATAGTTGCGAC 59.550 41.667 0.00 0.00 38.13 5.19
4751 6526 4.449743 GTCAACCACACTAAATAGTTGCGA 59.550 41.667 0.00 0.00 38.13 5.10
4753 6528 5.682943 TGTCAACCACACTAAATAGTTGC 57.317 39.130 0.00 0.00 38.13 4.17
4773 6548 3.708631 ACTATGCAGCCTACTCTCAATGT 59.291 43.478 0.00 0.00 0.00 2.71
4910 6685 6.248569 TCTATGAACCCCAGTCTAATTTCC 57.751 41.667 0.00 0.00 0.00 3.13
4911 6686 7.993183 TGAATCTATGAACCCCAGTCTAATTTC 59.007 37.037 0.00 0.00 0.00 2.17
4921 6696 5.304614 GCTACTAGTGAATCTATGAACCCCA 59.695 44.000 5.39 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.