Multiple sequence alignment - TraesCS4B01G221000

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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 TraesCS4B01G221000 chr4B 100.000 3476 0 0 1 3476 464956149 464952674 0.000000e+00 6420.0
1 TraesCS4B01G221000 chr4B 90.000 120 10 2 9 127 413819234 413819116 1.670000e-33 154.0
2 TraesCS4B01G221000 chr4A 92.641 2514 91 39 998 3455 86990130 86992605 0.000000e+00 3531.0
3 TraesCS4B01G221000 chr4A 86.390 698 53 16 225 895 86989403 86990085 0.000000e+00 725.0
4 TraesCS4B01G221000 chr4D 96.994 2096 48 6 998 3083 378450708 378448618 0.000000e+00 3507.0
5 TraesCS4B01G221000 chr4D 88.769 837 55 14 132 957 378451515 378450707 0.000000e+00 989.0
6 TraesCS4B01G221000 chr4D 95.238 378 15 2 3080 3455 378448569 378448193 2.310000e-166 595.0
7 TraesCS4B01G221000 chr3B 98.374 123 2 0 1 123 115406974 115407096 2.100000e-52 217.0
8 TraesCS4B01G221000 chr3B 97.638 127 2 1 1 126 506622961 506623087 2.100000e-52 217.0
9 TraesCS4B01G221000 chr3B 75.083 301 55 18 1656 1948 813200789 813200501 4.710000e-24 122.0
10 TraesCS4B01G221000 chr7D 92.623 122 9 0 2 123 472095593 472095472 3.570000e-40 176.0
11 TraesCS4B01G221000 chr3D 89.600 125 13 0 2 126 494235541 494235417 3.590000e-35 159.0
12 TraesCS4B01G221000 chr2D 90.164 122 12 0 2 123 353064171 353064050 3.590000e-35 159.0
13 TraesCS4B01G221000 chr1B 87.218 133 15 2 2 133 109484453 109484322 2.160000e-32 150.0
14 TraesCS4B01G221000 chr6B 88.000 125 13 2 1 124 622747930 622747807 2.800000e-31 147.0
15 TraesCS4B01G221000 chrUn 87.302 126 14 2 2 126 8595026 8594902 3.620000e-30 143.0
16 TraesCS4B01G221000 chr7B 75.357 280 50 16 1656 1927 17357064 17356796 2.190000e-22 117.0
17 TraesCS4B01G221000 chr5D 85.345 116 13 4 1814 1927 321998766 321998879 2.190000e-22 117.0
18 TraesCS4B01G221000 chr5D 80.328 122 22 2 2293 2413 487598564 487598444 1.330000e-14 91.6
19 TraesCS4B01G221000 chr2B 75.265 283 50 17 1653 1927 723045879 723046149 2.190000e-22 117.0
20 TraesCS4B01G221000 chr7A 84.956 113 13 4 1814 1924 17262676 17262786 1.020000e-20 111.0
21 TraesCS4B01G221000 chr5B 82.301 113 18 2 2293 2404 600133840 600133729 2.860000e-16 97.1
22 TraesCS4B01G221000 chr5B 92.424 66 3 2 1070 1134 600338384 600338320 3.690000e-15 93.5
23 TraesCS4B01G221000 chr5A 80.328 122 22 2 2293 2413 608360437 608360317 1.330000e-14 91.6


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 TraesCS4B01G221000 chr4B 464952674 464956149 3475 True 6420 6420 100.0000 1 3476 1 chr4B.!!$R2 3475
1 TraesCS4B01G221000 chr4A 86989403 86992605 3202 False 2128 3531 89.5155 225 3455 2 chr4A.!!$F1 3230
2 TraesCS4B01G221000 chr4D 378448193 378451515 3322 True 1697 3507 93.6670 132 3455 3 chr4D.!!$R1 3323

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
57 58 0.037590 TCAGGGTTGAAATGACCGGG 59.962 55.0 6.32 0.00 38.08 5.73 F
977 1009 0.105913 AGGGGTCTGCTAGCCTAGAC 60.106 60.0 21.38 21.38 45.70 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1629 1667 4.036518 ACTTGAGGTCATAGCAGGAGATT 58.963 43.478 0.0 0.0 0.00 2.40 R
2568 2622 0.996727 GCCACGTAAAAAGTGCAGCG 60.997 55.000 0.0 0.0 38.22 5.18 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
23 24 6.337853 CATTCGTCAAGGTTTGATCTAGAC 57.662 41.667 0.00 0.00 42.47 2.59
24 25 4.451629 TCGTCAAGGTTTGATCTAGACC 57.548 45.455 0.00 0.00 42.47 3.85
25 26 3.119602 TCGTCAAGGTTTGATCTAGACCG 60.120 47.826 0.00 0.00 42.47 4.79
26 27 3.522553 GTCAAGGTTTGATCTAGACCGG 58.477 50.000 0.00 0.00 42.47 5.28
27 28 2.500098 TCAAGGTTTGATCTAGACCGGG 59.500 50.000 6.32 0.00 38.48 5.73
28 29 2.500098 CAAGGTTTGATCTAGACCGGGA 59.500 50.000 6.32 0.00 38.48 5.14
29 30 3.047695 AGGTTTGATCTAGACCGGGAT 57.952 47.619 6.32 0.00 38.48 3.85
30 31 3.385115 AGGTTTGATCTAGACCGGGATT 58.615 45.455 6.32 0.00 38.48 3.01
31 32 4.553678 AGGTTTGATCTAGACCGGGATTA 58.446 43.478 6.32 0.00 38.48 1.75
32 33 5.155905 AGGTTTGATCTAGACCGGGATTAT 58.844 41.667 6.32 0.00 38.48 1.28
33 34 6.320518 AGGTTTGATCTAGACCGGGATTATA 58.679 40.000 6.32 0.00 38.48 0.98
34 35 6.210984 AGGTTTGATCTAGACCGGGATTATAC 59.789 42.308 6.32 1.12 38.48 1.47
35 36 6.014840 GGTTTGATCTAGACCGGGATTATACA 60.015 42.308 6.32 0.00 0.00 2.29
36 37 6.835819 TTGATCTAGACCGGGATTATACAG 57.164 41.667 6.32 0.00 0.00 2.74
37 38 5.888901 TGATCTAGACCGGGATTATACAGT 58.111 41.667 6.32 0.00 0.00 3.55
38 39 6.312529 TGATCTAGACCGGGATTATACAGTT 58.687 40.000 6.32 0.00 0.00 3.16
39 40 6.433404 TGATCTAGACCGGGATTATACAGTTC 59.567 42.308 6.32 0.00 0.00 3.01
40 41 5.698104 TCTAGACCGGGATTATACAGTTCA 58.302 41.667 6.32 0.00 0.00 3.18
41 42 4.939052 AGACCGGGATTATACAGTTCAG 57.061 45.455 6.32 0.00 0.00 3.02
42 43 3.641906 AGACCGGGATTATACAGTTCAGG 59.358 47.826 6.32 0.00 0.00 3.86
43 44 2.704065 ACCGGGATTATACAGTTCAGGG 59.296 50.000 6.32 0.00 0.00 4.45
44 45 2.704065 CCGGGATTATACAGTTCAGGGT 59.296 50.000 0.00 0.00 0.00 4.34
45 46 3.135895 CCGGGATTATACAGTTCAGGGTT 59.864 47.826 0.00 0.00 0.00 4.11
46 47 4.127171 CGGGATTATACAGTTCAGGGTTG 58.873 47.826 0.00 0.00 0.00 3.77
47 48 4.141801 CGGGATTATACAGTTCAGGGTTGA 60.142 45.833 0.00 0.00 0.00 3.18
48 49 5.628200 CGGGATTATACAGTTCAGGGTTGAA 60.628 44.000 0.00 0.00 40.92 2.69
49 50 6.184789 GGGATTATACAGTTCAGGGTTGAAA 58.815 40.000 0.00 0.00 44.49 2.69
50 51 6.833933 GGGATTATACAGTTCAGGGTTGAAAT 59.166 38.462 0.00 0.00 44.49 2.17
55 56 2.504367 AGTTCAGGGTTGAAATGACCG 58.496 47.619 0.00 0.00 44.49 4.79
56 57 1.539827 GTTCAGGGTTGAAATGACCGG 59.460 52.381 0.00 0.00 44.49 5.28
57 58 0.037590 TCAGGGTTGAAATGACCGGG 59.962 55.000 6.32 0.00 38.08 5.73
58 59 0.037590 CAGGGTTGAAATGACCGGGA 59.962 55.000 6.32 0.00 38.08 5.14
59 60 0.999712 AGGGTTGAAATGACCGGGAT 59.000 50.000 6.32 0.00 38.08 3.85
60 61 1.357761 AGGGTTGAAATGACCGGGATT 59.642 47.619 6.32 0.00 38.08 3.01
61 62 2.176045 GGGTTGAAATGACCGGGATTT 58.824 47.619 6.32 10.04 38.08 2.17
62 63 2.094234 GGGTTGAAATGACCGGGATTTG 60.094 50.000 16.13 0.00 38.08 2.32
63 64 2.094234 GGTTGAAATGACCGGGATTTGG 60.094 50.000 16.13 0.00 0.00 3.28
64 65 2.823154 GTTGAAATGACCGGGATTTGGA 59.177 45.455 16.13 4.43 0.00 3.53
65 66 2.442413 TGAAATGACCGGGATTTGGAC 58.558 47.619 16.13 5.34 0.00 4.02
66 67 2.041081 TGAAATGACCGGGATTTGGACT 59.959 45.455 16.13 0.00 0.00 3.85
67 68 2.899303 AATGACCGGGATTTGGACTT 57.101 45.000 6.32 0.00 0.00 3.01
68 69 2.128771 ATGACCGGGATTTGGACTTG 57.871 50.000 6.32 0.00 0.00 3.16
69 70 1.060729 TGACCGGGATTTGGACTTGA 58.939 50.000 6.32 0.00 0.00 3.02
70 71 1.003118 TGACCGGGATTTGGACTTGAG 59.997 52.381 6.32 0.00 0.00 3.02
71 72 1.278127 GACCGGGATTTGGACTTGAGA 59.722 52.381 6.32 0.00 0.00 3.27
72 73 1.279271 ACCGGGATTTGGACTTGAGAG 59.721 52.381 6.32 0.00 0.00 3.20
73 74 1.279271 CCGGGATTTGGACTTGAGAGT 59.721 52.381 0.00 0.00 39.32 3.24
74 75 2.290323 CCGGGATTTGGACTTGAGAGTT 60.290 50.000 0.00 0.00 35.88 3.01
75 76 3.003480 CGGGATTTGGACTTGAGAGTTC 58.997 50.000 0.00 0.00 35.88 3.01
76 77 3.003480 GGGATTTGGACTTGAGAGTTCG 58.997 50.000 0.00 0.00 35.88 3.95
77 78 3.557264 GGGATTTGGACTTGAGAGTTCGT 60.557 47.826 0.00 0.00 35.88 3.85
78 79 4.065789 GGATTTGGACTTGAGAGTTCGTT 58.934 43.478 0.00 0.00 35.88 3.85
79 80 4.515567 GGATTTGGACTTGAGAGTTCGTTT 59.484 41.667 0.00 0.00 35.88 3.60
80 81 5.334182 GGATTTGGACTTGAGAGTTCGTTTC 60.334 44.000 0.00 0.00 35.88 2.78
81 82 2.739292 TGGACTTGAGAGTTCGTTTCG 58.261 47.619 0.00 0.00 35.88 3.46
82 83 1.456165 GGACTTGAGAGTTCGTTTCGC 59.544 52.381 0.00 0.00 35.88 4.70
83 84 1.456165 GACTTGAGAGTTCGTTTCGCC 59.544 52.381 0.00 0.00 35.88 5.54
84 85 1.068741 ACTTGAGAGTTCGTTTCGCCT 59.931 47.619 0.00 0.00 29.87 5.52
85 86 2.295349 ACTTGAGAGTTCGTTTCGCCTA 59.705 45.455 0.00 0.00 29.87 3.93
86 87 3.243636 ACTTGAGAGTTCGTTTCGCCTAA 60.244 43.478 0.00 0.00 29.87 2.69
87 88 2.669364 TGAGAGTTCGTTTCGCCTAAC 58.331 47.619 0.00 0.00 0.00 2.34
88 89 1.991264 GAGAGTTCGTTTCGCCTAACC 59.009 52.381 0.00 0.00 0.00 2.85
89 90 1.617357 AGAGTTCGTTTCGCCTAACCT 59.383 47.619 0.00 0.00 0.00 3.50
90 91 1.991264 GAGTTCGTTTCGCCTAACCTC 59.009 52.381 0.00 0.00 0.00 3.85
91 92 1.617357 AGTTCGTTTCGCCTAACCTCT 59.383 47.619 0.00 0.00 0.00 3.69
92 93 2.821969 AGTTCGTTTCGCCTAACCTCTA 59.178 45.455 0.00 0.00 0.00 2.43
93 94 2.919859 GTTCGTTTCGCCTAACCTCTAC 59.080 50.000 0.00 0.00 0.00 2.59
94 95 2.161855 TCGTTTCGCCTAACCTCTACA 58.838 47.619 0.00 0.00 0.00 2.74
95 96 2.557924 TCGTTTCGCCTAACCTCTACAA 59.442 45.455 0.00 0.00 0.00 2.41
96 97 2.921754 CGTTTCGCCTAACCTCTACAAG 59.078 50.000 0.00 0.00 0.00 3.16
97 98 3.613432 CGTTTCGCCTAACCTCTACAAGT 60.613 47.826 0.00 0.00 0.00 3.16
98 99 4.313282 GTTTCGCCTAACCTCTACAAGTT 58.687 43.478 0.00 0.00 0.00 2.66
99 100 3.863142 TCGCCTAACCTCTACAAGTTC 57.137 47.619 0.00 0.00 0.00 3.01
100 101 3.159472 TCGCCTAACCTCTACAAGTTCA 58.841 45.455 0.00 0.00 0.00 3.18
101 102 3.192844 TCGCCTAACCTCTACAAGTTCAG 59.807 47.826 0.00 0.00 0.00 3.02
102 103 3.676324 CGCCTAACCTCTACAAGTTCAGG 60.676 52.174 0.00 0.00 0.00 3.86
103 104 3.369576 GCCTAACCTCTACAAGTTCAGGG 60.370 52.174 0.00 0.00 0.00 4.45
104 105 3.838903 CCTAACCTCTACAAGTTCAGGGT 59.161 47.826 0.00 0.00 0.00 4.34
105 106 4.286291 CCTAACCTCTACAAGTTCAGGGTT 59.714 45.833 0.00 0.00 38.77 4.11
106 107 4.790718 AACCTCTACAAGTTCAGGGTTT 57.209 40.909 0.00 0.00 32.55 3.27
107 108 5.899631 AACCTCTACAAGTTCAGGGTTTA 57.100 39.130 0.00 0.00 32.55 2.01
108 109 5.899631 ACCTCTACAAGTTCAGGGTTTAA 57.100 39.130 0.00 0.00 0.00 1.52
109 110 6.256643 ACCTCTACAAGTTCAGGGTTTAAA 57.743 37.500 0.00 0.00 0.00 1.52
110 111 6.665695 ACCTCTACAAGTTCAGGGTTTAAAA 58.334 36.000 0.00 0.00 0.00 1.52
111 112 7.295340 ACCTCTACAAGTTCAGGGTTTAAAAT 58.705 34.615 0.00 0.00 0.00 1.82
112 113 7.230712 ACCTCTACAAGTTCAGGGTTTAAAATG 59.769 37.037 0.00 0.00 0.00 2.32
113 114 7.309194 CCTCTACAAGTTCAGGGTTTAAAATGG 60.309 40.741 0.00 0.00 0.00 3.16
114 115 7.291566 TCTACAAGTTCAGGGTTTAAAATGGA 58.708 34.615 0.00 0.00 0.00 3.41
115 116 6.156748 ACAAGTTCAGGGTTTAAAATGGAC 57.843 37.500 0.00 0.00 0.00 4.02
116 117 5.897250 ACAAGTTCAGGGTTTAAAATGGACT 59.103 36.000 5.00 5.00 32.78 3.85
117 118 6.382859 ACAAGTTCAGGGTTTAAAATGGACTT 59.617 34.615 13.47 13.47 41.19 3.01
118 119 7.093068 ACAAGTTCAGGGTTTAAAATGGACTTT 60.093 33.333 15.42 8.50 39.03 2.66
119 120 7.432148 AGTTCAGGGTTTAAAATGGACTTTT 57.568 32.000 5.00 0.00 40.21 2.27
120 121 7.857456 AGTTCAGGGTTTAAAATGGACTTTTT 58.143 30.769 5.00 2.24 38.09 1.94
121 122 7.985184 AGTTCAGGGTTTAAAATGGACTTTTTC 59.015 33.333 5.00 0.00 38.09 2.29
122 123 6.822442 TCAGGGTTTAAAATGGACTTTTTCC 58.178 36.000 0.00 0.00 46.13 3.13
173 174 3.321648 TCACGCAGCCATGGACCT 61.322 61.111 18.40 0.00 0.00 3.85
177 178 2.753043 GCAGCCATGGACCTGGTG 60.753 66.667 18.40 4.73 38.63 4.17
178 179 2.753043 CAGCCATGGACCTGGTGC 60.753 66.667 18.40 11.87 38.63 5.01
238 239 0.817013 AACGGCCGCAATCATGATTT 59.183 45.000 28.58 4.49 0.00 2.17
324 330 4.972514 ATCATTTCCTCCTTCGCTTTTC 57.027 40.909 0.00 0.00 0.00 2.29
350 356 3.264104 CCCTCGTTCGCTGGTTAATTAA 58.736 45.455 0.00 0.00 0.00 1.40
351 357 3.875134 CCCTCGTTCGCTGGTTAATTAAT 59.125 43.478 0.31 0.00 0.00 1.40
352 358 4.334481 CCCTCGTTCGCTGGTTAATTAATT 59.666 41.667 5.89 5.89 0.00 1.40
353 359 5.524646 CCCTCGTTCGCTGGTTAATTAATTA 59.475 40.000 3.71 3.71 0.00 1.40
385 394 1.244816 AGCAGTAGCACGTCTGTACA 58.755 50.000 0.00 0.00 45.49 2.90
447 456 4.595538 AGTTTGACGACCGCGCCA 62.596 61.111 0.00 0.00 42.48 5.69
502 511 0.600255 CACCCCGTATCGCCAATCTC 60.600 60.000 0.00 0.00 0.00 2.75
506 515 1.004277 CCGTATCGCCAATCTCGAGC 61.004 60.000 7.81 0.00 39.47 5.03
507 516 0.317854 CGTATCGCCAATCTCGAGCA 60.318 55.000 7.81 0.00 39.47 4.26
519 528 1.949847 CTCGAGCAGGAATGGACGGT 61.950 60.000 0.00 0.00 0.00 4.83
528 537 1.003355 AATGGACGGTGCAGACAGG 60.003 57.895 8.63 0.00 0.00 4.00
598 607 3.251571 GAGTGTTCTGTCCATCGGTTAC 58.748 50.000 0.00 0.00 0.00 2.50
667 676 0.172803 TTCTCGCCTCCGTTAGCTTC 59.827 55.000 0.00 0.00 35.54 3.86
668 677 1.227002 CTCGCCTCCGTTAGCTTCC 60.227 63.158 0.00 0.00 35.54 3.46
671 680 1.084370 CGCCTCCGTTAGCTTCCTTG 61.084 60.000 0.00 0.00 0.00 3.61
673 682 0.744771 CCTCCGTTAGCTTCCTTGGC 60.745 60.000 0.00 0.00 0.00 4.52
675 684 2.106683 CCGTTAGCTTCCTTGGCCG 61.107 63.158 0.00 0.00 0.00 6.13
676 685 1.375523 CGTTAGCTTCCTTGGCCGT 60.376 57.895 0.00 0.00 0.00 5.68
827 858 2.747446 AGAGAGAGCGAGAGACAAGAAC 59.253 50.000 0.00 0.00 0.00 3.01
901 933 3.390175 TCCTGTTTTTGTTTCCCCTCA 57.610 42.857 0.00 0.00 0.00 3.86
905 937 2.826725 TGTTTTTGTTTCCCCTCACGTT 59.173 40.909 0.00 0.00 0.00 3.99
908 940 0.106918 TTGTTTCCCCTCACGTTGCT 60.107 50.000 0.00 0.00 0.00 3.91
910 942 1.029681 GTTTCCCCTCACGTTGCTTT 58.970 50.000 0.00 0.00 0.00 3.51
911 943 1.407618 GTTTCCCCTCACGTTGCTTTT 59.592 47.619 0.00 0.00 0.00 2.27
912 944 1.314730 TTCCCCTCACGTTGCTTTTC 58.685 50.000 0.00 0.00 0.00 2.29
913 945 0.536460 TCCCCTCACGTTGCTTTTCC 60.536 55.000 0.00 0.00 0.00 3.13
914 946 1.574428 CCCTCACGTTGCTTTTCCG 59.426 57.895 0.00 0.00 0.00 4.30
918 950 1.597663 CTCACGTTGCTTTTCCGTTCT 59.402 47.619 0.00 0.00 31.46 3.01
955 987 0.179225 CGCCGAGAATTTGTTGACCG 60.179 55.000 0.00 0.00 0.00 4.79
956 988 0.168128 GCCGAGAATTTGTTGACCGG 59.832 55.000 0.00 0.00 38.58 5.28
957 989 0.802494 CCGAGAATTTGTTGACCGGG 59.198 55.000 6.32 0.00 32.64 5.73
958 990 1.609580 CCGAGAATTTGTTGACCGGGA 60.610 52.381 6.32 0.00 32.64 5.14
959 991 1.732259 CGAGAATTTGTTGACCGGGAG 59.268 52.381 6.32 0.00 0.00 4.30
971 1003 3.541713 CGGGAGGGGTCTGCTAGC 61.542 72.222 8.10 8.10 0.00 3.42
972 1004 3.164977 GGGAGGGGTCTGCTAGCC 61.165 72.222 13.29 0.00 45.69 3.93
973 1005 2.041405 GGAGGGGTCTGCTAGCCT 60.041 66.667 13.29 0.00 45.70 4.58
974 1006 1.233369 GGAGGGGTCTGCTAGCCTA 59.767 63.158 13.29 0.00 45.70 3.93
975 1007 0.830023 GGAGGGGTCTGCTAGCCTAG 60.830 65.000 13.29 3.73 45.70 3.02
976 1008 0.186386 GAGGGGTCTGCTAGCCTAGA 59.814 60.000 13.29 6.46 45.70 2.43
977 1009 0.105913 AGGGGTCTGCTAGCCTAGAC 60.106 60.000 21.38 21.38 45.70 2.59
978 1010 0.105913 GGGGTCTGCTAGCCTAGACT 60.106 60.000 25.84 0.00 45.70 3.24
979 1011 1.145325 GGGGTCTGCTAGCCTAGACTA 59.855 57.143 25.84 2.36 45.70 2.59
980 1012 2.510613 GGGTCTGCTAGCCTAGACTAG 58.489 57.143 25.84 8.64 42.89 2.57
992 1024 3.149005 CTAGACTAGCTGGGAGGGTAG 57.851 57.143 0.85 0.00 41.42 3.18
993 1025 0.558712 AGACTAGCTGGGAGGGTAGG 59.441 60.000 0.85 0.00 40.39 3.18
994 1026 0.470268 GACTAGCTGGGAGGGTAGGG 60.470 65.000 0.85 0.00 40.39 3.53
995 1027 1.839296 CTAGCTGGGAGGGTAGGGC 60.839 68.421 0.00 0.00 34.71 5.19
996 1028 2.605535 CTAGCTGGGAGGGTAGGGCA 62.606 65.000 0.00 0.00 34.71 5.36
1030 1062 1.039785 CGAGGAGATGCAGGTGGAGA 61.040 60.000 0.00 0.00 0.00 3.71
1248 1286 2.029288 CGTGCTCTGCGTTGATGGT 61.029 57.895 0.00 0.00 0.00 3.55
1365 1403 4.666728 GACTACTTCGACCTCGCG 57.333 61.111 0.00 0.00 39.60 5.87
1785 1823 3.771160 GAGGTGGCGTCGGTGGAT 61.771 66.667 0.00 0.00 0.00 3.41
1794 1832 3.307108 TCGGTGGATGGCGTGACA 61.307 61.111 0.00 0.00 0.00 3.58
2186 2229 1.948611 GCACGGCTGTTTCCTTGGATA 60.949 52.381 0.00 0.00 0.00 2.59
2334 2378 2.029073 AACGTGGAGTCGGTGCTG 59.971 61.111 0.00 0.00 34.94 4.41
2551 2599 0.033011 TAGGCCTCTCCTCGCTTCTT 60.033 55.000 9.68 0.00 43.20 2.52
2557 2609 1.999024 CTCTCCTCGCTTCTTGCTTTC 59.001 52.381 0.00 0.00 40.11 2.62
2568 2622 2.073816 TCTTGCTTTCGACGGAATTCC 58.926 47.619 15.01 15.01 30.88 3.01
2697 2757 9.418045 GATATACTCCAGATTCTTAGCTTTCAC 57.582 37.037 0.00 0.00 0.00 3.18
2729 2792 6.036926 AGGATATATATGTAGCTGCCTCCT 57.963 41.667 0.00 0.00 0.00 3.69
2767 2830 2.568090 GCTGATGTGGGCGTTTGG 59.432 61.111 0.00 0.00 0.00 3.28
2974 3037 0.682292 TATGACTTGCACGGGACACA 59.318 50.000 0.00 0.00 0.00 3.72
2975 3038 0.179032 ATGACTTGCACGGGACACAA 60.179 50.000 0.00 0.00 0.00 3.33
3071 3134 1.202582 GAGTCCACGTCTACACTGCAT 59.797 52.381 0.00 0.00 0.00 3.96
3128 3243 4.323104 CGGAGATCCCTTTCTTGAAGAAGT 60.323 45.833 7.76 0.00 35.37 3.01
3240 3357 6.318648 TCCAAGCGAACTAAATCAAGCATATT 59.681 34.615 0.00 0.00 0.00 1.28
3263 3380 8.602472 ATTGGCATGGGTTCTTAATTAAGTTA 57.398 30.769 21.69 10.76 34.93 2.24
3266 3383 6.378848 GGCATGGGTTCTTAATTAAGTTACCA 59.621 38.462 30.83 28.10 39.04 3.25
3328 3448 0.618981 CTAGCCTTTTCCTCCCGGTT 59.381 55.000 0.00 0.00 0.00 4.44
3365 3485 3.037431 ACGCATGATGCTAAGAGGATC 57.963 47.619 16.17 1.35 42.55 3.36
3386 3506 2.125912 CTGAGTTCGTGCTCCCCG 60.126 66.667 6.55 0.00 34.74 5.73
3393 3513 3.291383 CGTGCTCCCCGGCAAAAA 61.291 61.111 0.00 0.00 44.18 1.94
3450 3570 2.620585 GTGCTTGACTGAAGAAAGGCTT 59.379 45.455 0.00 0.00 40.25 4.35
3470 3590 2.181954 TTTTTATGTACGGGCGTGGT 57.818 45.000 0.00 0.00 0.00 4.16
3471 3591 1.724429 TTTTATGTACGGGCGTGGTC 58.276 50.000 0.00 0.00 0.00 4.02
3472 3592 0.108233 TTTATGTACGGGCGTGGTCC 60.108 55.000 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.292101 GGTCTAGATCAAACCTTGACGAATG 59.708 44.000 0.00 0.00 43.48 2.67
1 2 5.420409 GGTCTAGATCAAACCTTGACGAAT 58.580 41.667 0.00 0.00 43.48 3.34
2 3 4.617530 CGGTCTAGATCAAACCTTGACGAA 60.618 45.833 3.42 0.00 43.48 3.85
3 4 3.119602 CGGTCTAGATCAAACCTTGACGA 60.120 47.826 3.42 0.00 43.48 4.20
4 5 3.179830 CGGTCTAGATCAAACCTTGACG 58.820 50.000 3.42 0.00 43.48 4.35
5 6 3.522553 CCGGTCTAGATCAAACCTTGAC 58.477 50.000 3.42 0.00 43.48 3.18
6 7 2.500098 CCCGGTCTAGATCAAACCTTGA 59.500 50.000 3.42 0.00 45.01 3.02
7 8 2.500098 TCCCGGTCTAGATCAAACCTTG 59.500 50.000 3.42 0.00 0.00 3.61
8 9 2.829023 TCCCGGTCTAGATCAAACCTT 58.171 47.619 3.42 0.00 0.00 3.50
9 10 2.544844 TCCCGGTCTAGATCAAACCT 57.455 50.000 3.42 0.00 0.00 3.50
10 11 3.840124 AATCCCGGTCTAGATCAAACC 57.160 47.619 3.42 0.00 0.00 3.27
11 12 6.989659 TGTATAATCCCGGTCTAGATCAAAC 58.010 40.000 3.42 0.00 0.00 2.93
12 13 6.781014 ACTGTATAATCCCGGTCTAGATCAAA 59.219 38.462 3.42 0.00 0.00 2.69
13 14 6.312529 ACTGTATAATCCCGGTCTAGATCAA 58.687 40.000 3.42 0.00 0.00 2.57
14 15 5.888901 ACTGTATAATCCCGGTCTAGATCA 58.111 41.667 3.42 0.00 0.00 2.92
15 16 6.433404 TGAACTGTATAATCCCGGTCTAGATC 59.567 42.308 0.00 0.00 0.00 2.75
16 17 6.312529 TGAACTGTATAATCCCGGTCTAGAT 58.687 40.000 0.00 0.00 0.00 1.98
17 18 5.698104 TGAACTGTATAATCCCGGTCTAGA 58.302 41.667 0.00 0.00 0.00 2.43
18 19 5.047943 CCTGAACTGTATAATCCCGGTCTAG 60.048 48.000 0.00 0.00 0.00 2.43
19 20 4.831155 CCTGAACTGTATAATCCCGGTCTA 59.169 45.833 0.00 0.00 0.00 2.59
20 21 3.641906 CCTGAACTGTATAATCCCGGTCT 59.358 47.826 0.00 0.00 0.00 3.85
21 22 3.244112 CCCTGAACTGTATAATCCCGGTC 60.244 52.174 0.00 0.00 0.00 4.79
22 23 2.704065 CCCTGAACTGTATAATCCCGGT 59.296 50.000 0.00 0.00 0.00 5.28
23 24 2.704065 ACCCTGAACTGTATAATCCCGG 59.296 50.000 0.00 0.00 0.00 5.73
24 25 4.127171 CAACCCTGAACTGTATAATCCCG 58.873 47.826 0.00 0.00 0.00 5.14
25 26 5.367945 TCAACCCTGAACTGTATAATCCC 57.632 43.478 0.00 0.00 0.00 3.85
26 27 7.556275 TCATTTCAACCCTGAACTGTATAATCC 59.444 37.037 5.47 0.00 41.34 3.01
27 28 8.398665 GTCATTTCAACCCTGAACTGTATAATC 58.601 37.037 5.47 0.00 41.34 1.75
28 29 7.339466 GGTCATTTCAACCCTGAACTGTATAAT 59.661 37.037 5.47 0.00 41.34 1.28
29 30 6.657541 GGTCATTTCAACCCTGAACTGTATAA 59.342 38.462 5.47 0.00 41.34 0.98
30 31 6.177610 GGTCATTTCAACCCTGAACTGTATA 58.822 40.000 5.47 0.00 41.34 1.47
31 32 5.010282 GGTCATTTCAACCCTGAACTGTAT 58.990 41.667 5.47 0.00 41.34 2.29
32 33 4.394729 GGTCATTTCAACCCTGAACTGTA 58.605 43.478 5.47 0.00 41.34 2.74
33 34 3.222603 GGTCATTTCAACCCTGAACTGT 58.777 45.455 5.47 0.00 41.34 3.55
34 35 2.226437 CGGTCATTTCAACCCTGAACTG 59.774 50.000 0.22 0.22 41.34 3.16
35 36 2.504367 CGGTCATTTCAACCCTGAACT 58.496 47.619 0.00 0.00 41.34 3.01
36 37 1.539827 CCGGTCATTTCAACCCTGAAC 59.460 52.381 0.00 0.00 41.34 3.18
37 38 1.546773 CCCGGTCATTTCAACCCTGAA 60.547 52.381 0.00 0.00 39.87 3.02
38 39 0.037590 CCCGGTCATTTCAACCCTGA 59.962 55.000 0.00 0.00 32.89 3.86
39 40 0.037590 TCCCGGTCATTTCAACCCTG 59.962 55.000 0.00 0.00 32.89 4.45
40 41 0.999712 ATCCCGGTCATTTCAACCCT 59.000 50.000 0.00 0.00 32.89 4.34
41 42 1.847328 AATCCCGGTCATTTCAACCC 58.153 50.000 0.00 0.00 32.89 4.11
42 43 2.094234 CCAAATCCCGGTCATTTCAACC 60.094 50.000 0.00 0.00 0.00 3.77
43 44 2.823154 TCCAAATCCCGGTCATTTCAAC 59.177 45.455 0.00 0.00 0.00 3.18
44 45 2.823154 GTCCAAATCCCGGTCATTTCAA 59.177 45.455 0.00 0.00 0.00 2.69
45 46 2.041081 AGTCCAAATCCCGGTCATTTCA 59.959 45.455 0.00 0.00 0.00 2.69
46 47 2.723273 AGTCCAAATCCCGGTCATTTC 58.277 47.619 0.00 0.00 0.00 2.17
47 48 2.825532 CAAGTCCAAATCCCGGTCATTT 59.174 45.455 0.00 1.33 0.00 2.32
48 49 2.041081 TCAAGTCCAAATCCCGGTCATT 59.959 45.455 0.00 0.00 0.00 2.57
49 50 1.633432 TCAAGTCCAAATCCCGGTCAT 59.367 47.619 0.00 0.00 0.00 3.06
50 51 1.003118 CTCAAGTCCAAATCCCGGTCA 59.997 52.381 0.00 0.00 0.00 4.02
51 52 1.278127 TCTCAAGTCCAAATCCCGGTC 59.722 52.381 0.00 0.00 0.00 4.79
52 53 1.279271 CTCTCAAGTCCAAATCCCGGT 59.721 52.381 0.00 0.00 0.00 5.28
53 54 1.279271 ACTCTCAAGTCCAAATCCCGG 59.721 52.381 0.00 0.00 0.00 5.73
54 55 2.770164 ACTCTCAAGTCCAAATCCCG 57.230 50.000 0.00 0.00 0.00 5.14
55 56 3.003480 CGAACTCTCAAGTCCAAATCCC 58.997 50.000 0.00 0.00 33.48 3.85
56 57 3.665190 ACGAACTCTCAAGTCCAAATCC 58.335 45.455 0.00 0.00 33.48 3.01
57 58 5.612709 CGAAACGAACTCTCAAGTCCAAATC 60.613 44.000 0.00 0.00 33.48 2.17
58 59 4.211374 CGAAACGAACTCTCAAGTCCAAAT 59.789 41.667 0.00 0.00 33.48 2.32
59 60 3.554324 CGAAACGAACTCTCAAGTCCAAA 59.446 43.478 0.00 0.00 33.48 3.28
60 61 3.120792 CGAAACGAACTCTCAAGTCCAA 58.879 45.455 0.00 0.00 33.48 3.53
61 62 2.739292 CGAAACGAACTCTCAAGTCCA 58.261 47.619 0.00 0.00 33.48 4.02
62 63 1.456165 GCGAAACGAACTCTCAAGTCC 59.544 52.381 0.00 0.00 33.48 3.85
63 64 1.456165 GGCGAAACGAACTCTCAAGTC 59.544 52.381 0.00 0.00 33.48 3.01
64 65 1.068741 AGGCGAAACGAACTCTCAAGT 59.931 47.619 0.00 0.00 37.32 3.16
65 66 1.784525 AGGCGAAACGAACTCTCAAG 58.215 50.000 0.00 0.00 0.00 3.02
66 67 3.054878 GTTAGGCGAAACGAACTCTCAA 58.945 45.455 0.00 0.00 0.00 3.02
67 68 2.608752 GGTTAGGCGAAACGAACTCTCA 60.609 50.000 0.00 0.00 0.00 3.27
68 69 1.991264 GGTTAGGCGAAACGAACTCTC 59.009 52.381 0.00 0.00 0.00 3.20
69 70 1.617357 AGGTTAGGCGAAACGAACTCT 59.383 47.619 0.00 0.00 0.00 3.24
70 71 1.991264 GAGGTTAGGCGAAACGAACTC 59.009 52.381 0.00 0.00 0.00 3.01
71 72 1.617357 AGAGGTTAGGCGAAACGAACT 59.383 47.619 0.00 0.00 0.00 3.01
72 73 2.075979 AGAGGTTAGGCGAAACGAAC 57.924 50.000 0.00 0.00 0.00 3.95
73 74 2.557924 TGTAGAGGTTAGGCGAAACGAA 59.442 45.455 0.00 0.00 0.00 3.85
74 75 2.161855 TGTAGAGGTTAGGCGAAACGA 58.838 47.619 0.00 0.00 0.00 3.85
75 76 2.642139 TGTAGAGGTTAGGCGAAACG 57.358 50.000 0.00 0.00 0.00 3.60
76 77 3.922910 ACTTGTAGAGGTTAGGCGAAAC 58.077 45.455 0.00 0.00 0.00 2.78
77 78 4.039488 TGAACTTGTAGAGGTTAGGCGAAA 59.961 41.667 0.00 0.00 0.00 3.46
78 79 3.575256 TGAACTTGTAGAGGTTAGGCGAA 59.425 43.478 0.00 0.00 0.00 4.70
79 80 3.159472 TGAACTTGTAGAGGTTAGGCGA 58.841 45.455 0.00 0.00 0.00 5.54
80 81 3.512680 CTGAACTTGTAGAGGTTAGGCG 58.487 50.000 0.00 0.00 0.00 5.52
81 82 3.369576 CCCTGAACTTGTAGAGGTTAGGC 60.370 52.174 0.00 0.00 45.31 3.93
82 83 3.838903 ACCCTGAACTTGTAGAGGTTAGG 59.161 47.826 0.00 0.00 46.03 2.69
83 84 5.485209 AACCCTGAACTTGTAGAGGTTAG 57.515 43.478 0.00 0.00 34.46 2.34
84 85 5.899631 AAACCCTGAACTTGTAGAGGTTA 57.100 39.130 0.00 0.00 35.13 2.85
85 86 4.790718 AAACCCTGAACTTGTAGAGGTT 57.209 40.909 0.00 0.00 37.73 3.50
86 87 5.899631 TTAAACCCTGAACTTGTAGAGGT 57.100 39.130 0.00 0.00 0.00 3.85
87 88 7.309194 CCATTTTAAACCCTGAACTTGTAGAGG 60.309 40.741 0.00 0.00 0.00 3.69
88 89 7.447238 TCCATTTTAAACCCTGAACTTGTAGAG 59.553 37.037 0.00 0.00 0.00 2.43
89 90 7.229907 GTCCATTTTAAACCCTGAACTTGTAGA 59.770 37.037 0.00 0.00 0.00 2.59
90 91 7.230712 AGTCCATTTTAAACCCTGAACTTGTAG 59.769 37.037 0.00 0.00 0.00 2.74
91 92 7.064229 AGTCCATTTTAAACCCTGAACTTGTA 58.936 34.615 0.00 0.00 0.00 2.41
92 93 5.897250 AGTCCATTTTAAACCCTGAACTTGT 59.103 36.000 0.00 0.00 0.00 3.16
93 94 6.405278 AGTCCATTTTAAACCCTGAACTTG 57.595 37.500 0.00 0.00 0.00 3.16
94 95 7.432148 AAAGTCCATTTTAAACCCTGAACTT 57.568 32.000 0.00 0.00 0.00 2.66
95 96 7.432148 AAAAGTCCATTTTAAACCCTGAACT 57.568 32.000 0.00 0.00 39.36 3.01
96 97 7.225931 GGAAAAAGTCCATTTTAAACCCTGAAC 59.774 37.037 0.00 0.00 46.97 3.18
97 98 7.276658 GGAAAAAGTCCATTTTAAACCCTGAA 58.723 34.615 0.00 0.00 46.97 3.02
98 99 6.822442 GGAAAAAGTCCATTTTAAACCCTGA 58.178 36.000 0.00 0.00 46.97 3.86
122 123 2.434884 AGCGCGACCCAGACAATG 60.435 61.111 12.10 0.00 0.00 2.82
123 124 2.125512 GAGCGCGACCCAGACAAT 60.126 61.111 12.10 0.00 0.00 2.71
124 125 4.373116 GGAGCGCGACCCAGACAA 62.373 66.667 12.10 0.00 0.00 3.18
128 129 4.803426 GAGTGGAGCGCGACCCAG 62.803 72.222 18.22 0.00 32.28 4.45
195 196 1.001269 GGCTGGGACTGGGTTAACC 60.001 63.158 16.85 16.85 40.81 2.85
238 239 1.377987 GGCAGCGTAATGGGGAACA 60.378 57.895 0.00 0.00 0.00 3.18
294 300 6.641723 GCGAAGGAGGAAATGATTAGTAGTAC 59.358 42.308 0.00 0.00 0.00 2.73
300 306 6.442513 AAAAGCGAAGGAGGAAATGATTAG 57.557 37.500 0.00 0.00 0.00 1.73
306 312 2.447443 GGGAAAAGCGAAGGAGGAAAT 58.553 47.619 0.00 0.00 0.00 2.17
307 313 1.880646 CGGGAAAAGCGAAGGAGGAAA 60.881 52.381 0.00 0.00 0.00 3.13
350 356 6.778069 TGCTACTGCTAGTCCTACTCATTAAT 59.222 38.462 0.00 0.00 40.48 1.40
351 357 6.039493 GTGCTACTGCTAGTCCTACTCATTAA 59.961 42.308 0.00 0.00 40.48 1.40
352 358 5.531659 GTGCTACTGCTAGTCCTACTCATTA 59.468 44.000 0.00 0.00 40.48 1.90
353 359 4.339814 GTGCTACTGCTAGTCCTACTCATT 59.660 45.833 0.00 0.00 40.48 2.57
385 394 7.815549 GGGTTGAATAAACAAACGGACAAATAT 59.184 33.333 0.00 0.00 40.86 1.28
485 494 1.372997 CGAGATTGGCGATACGGGG 60.373 63.158 6.06 0.00 0.00 5.73
502 511 1.811266 CACCGTCCATTCCTGCTCG 60.811 63.158 0.00 0.00 0.00 5.03
506 515 1.021390 GTCTGCACCGTCCATTCCTG 61.021 60.000 0.00 0.00 0.00 3.86
507 516 1.296715 GTCTGCACCGTCCATTCCT 59.703 57.895 0.00 0.00 0.00 3.36
571 580 0.764369 TGGACAGAACACTCCTGCCT 60.764 55.000 0.00 0.00 35.14 4.75
580 589 2.754946 GGTAACCGATGGACAGAACA 57.245 50.000 0.00 0.00 0.00 3.18
667 676 3.672295 GAGAGAGCCACGGCCAAGG 62.672 68.421 2.24 4.50 43.17 3.61
668 677 1.323271 TAGAGAGAGCCACGGCCAAG 61.323 60.000 2.24 0.00 43.17 3.61
671 680 1.000052 GTTATAGAGAGAGCCACGGCC 60.000 57.143 3.95 0.00 43.17 6.13
673 682 2.224549 CGAGTTATAGAGAGAGCCACGG 59.775 54.545 0.00 0.00 0.00 4.94
675 684 2.350007 CGCGAGTTATAGAGAGAGCCAC 60.350 54.545 0.00 0.00 0.00 5.01
676 685 1.874231 CGCGAGTTATAGAGAGAGCCA 59.126 52.381 0.00 0.00 0.00 4.75
827 858 2.892425 CCCGGCTGCTCGCTTTAG 60.892 66.667 0.00 0.00 39.13 1.85
901 933 0.028902 GCAGAACGGAAAAGCAACGT 59.971 50.000 0.00 0.00 43.43 3.99
914 946 1.049289 ATCCCTCCCCTACGCAGAAC 61.049 60.000 0.00 0.00 0.00 3.01
918 950 1.764854 GGAATCCCTCCCCTACGCA 60.765 63.158 0.00 0.00 38.44 5.24
955 987 2.313749 TAGGCTAGCAGACCCCTCCC 62.314 65.000 18.24 0.00 0.00 4.30
956 988 0.830023 CTAGGCTAGCAGACCCCTCC 60.830 65.000 18.24 0.00 0.00 4.30
957 989 0.186386 TCTAGGCTAGCAGACCCCTC 59.814 60.000 18.24 0.00 0.00 4.30
958 990 0.105913 GTCTAGGCTAGCAGACCCCT 60.106 60.000 19.66 8.65 36.06 4.79
959 991 0.105913 AGTCTAGGCTAGCAGACCCC 60.106 60.000 24.29 5.14 41.77 4.95
960 992 2.510613 CTAGTCTAGGCTAGCAGACCC 58.489 57.143 24.29 5.81 41.77 4.46
967 999 2.554344 CCTCCCAGCTAGTCTAGGCTAG 60.554 59.091 24.39 24.39 40.91 3.42
968 1000 1.425831 CCTCCCAGCTAGTCTAGGCTA 59.574 57.143 3.59 3.59 37.00 3.93
969 1001 0.187361 CCTCCCAGCTAGTCTAGGCT 59.813 60.000 0.74 0.74 39.60 4.58
970 1002 0.830023 CCCTCCCAGCTAGTCTAGGC 60.830 65.000 8.97 1.67 0.00 3.93
971 1003 0.558712 ACCCTCCCAGCTAGTCTAGG 59.441 60.000 8.97 0.00 0.00 3.02
972 1004 2.224917 CCTACCCTCCCAGCTAGTCTAG 60.225 59.091 2.18 2.18 0.00 2.43
973 1005 1.781529 CCTACCCTCCCAGCTAGTCTA 59.218 57.143 0.00 0.00 0.00 2.59
974 1006 0.558712 CCTACCCTCCCAGCTAGTCT 59.441 60.000 0.00 0.00 0.00 3.24
975 1007 0.470268 CCCTACCCTCCCAGCTAGTC 60.470 65.000 0.00 0.00 0.00 2.59
976 1008 1.627019 CCCTACCCTCCCAGCTAGT 59.373 63.158 0.00 0.00 0.00 2.57
977 1009 1.839296 GCCCTACCCTCCCAGCTAG 60.839 68.421 0.00 0.00 0.00 3.42
978 1010 2.285868 GCCCTACCCTCCCAGCTA 59.714 66.667 0.00 0.00 0.00 3.32
979 1011 4.024984 TGCCCTACCCTCCCAGCT 62.025 66.667 0.00 0.00 0.00 4.24
980 1012 3.483869 CTGCCCTACCCTCCCAGC 61.484 72.222 0.00 0.00 0.00 4.85
981 1013 2.770048 CCTGCCCTACCCTCCCAG 60.770 72.222 0.00 0.00 0.00 4.45
984 1016 2.774351 ATGCCTGCCCTACCCTCC 60.774 66.667 0.00 0.00 0.00 4.30
985 1017 2.512896 CATGCCTGCCCTACCCTC 59.487 66.667 0.00 0.00 0.00 4.30
986 1018 3.099170 CCATGCCTGCCCTACCCT 61.099 66.667 0.00 0.00 0.00 4.34
987 1019 3.096495 TCCATGCCTGCCCTACCC 61.096 66.667 0.00 0.00 0.00 3.69
988 1020 2.512896 CTCCATGCCTGCCCTACC 59.487 66.667 0.00 0.00 0.00 3.18
989 1021 2.049627 CTCCTCCATGCCTGCCCTAC 62.050 65.000 0.00 0.00 0.00 3.18
990 1022 1.767672 CTCCTCCATGCCTGCCCTA 60.768 63.158 0.00 0.00 0.00 3.53
991 1023 3.095163 CTCCTCCATGCCTGCCCT 61.095 66.667 0.00 0.00 0.00 5.19
992 1024 4.201122 CCTCCTCCATGCCTGCCC 62.201 72.222 0.00 0.00 0.00 5.36
993 1025 4.891037 GCCTCCTCCATGCCTGCC 62.891 72.222 0.00 0.00 0.00 4.85
994 1026 4.891037 GGCCTCCTCCATGCCTGC 62.891 72.222 0.00 0.00 42.01 4.85
995 1027 4.559063 CGGCCTCCTCCATGCCTG 62.559 72.222 0.00 0.00 43.12 4.85
996 1028 4.804420 TCGGCCTCCTCCATGCCT 62.804 66.667 0.00 0.00 43.12 4.75
1189 1227 4.760047 CTTCACCGGGACCGCCAG 62.760 72.222 6.32 0.00 38.24 4.85
1212 1250 4.680237 CACACCTTCCCGCGCTGA 62.680 66.667 5.56 0.00 0.00 4.26
1478 1516 4.087892 GCCTGCGGAAGAGCCTGA 62.088 66.667 0.00 0.00 36.02 3.86
1629 1667 4.036518 ACTTGAGGTCATAGCAGGAGATT 58.963 43.478 0.00 0.00 0.00 2.40
2186 2229 5.300752 CCTGATCACGCCAGAGTTAATAAT 58.699 41.667 0.00 0.00 33.65 1.28
2291 2335 2.266376 CTTCATCGTCTCGTCCGCCA 62.266 60.000 0.00 0.00 0.00 5.69
2334 2378 3.153270 GATCCGCCTCCCCTCGAAC 62.153 68.421 0.00 0.00 0.00 3.95
2568 2622 0.996727 GCCACGTAAAAAGTGCAGCG 60.997 55.000 0.00 0.00 38.22 5.18
2613 2672 1.276989 CCAATGGCAAATGCTTCAGGT 59.723 47.619 5.25 0.00 41.70 4.00
2638 2697 6.723339 TCCTTCCAATATTTTACCCTTCGAA 58.277 36.000 0.00 0.00 0.00 3.71
2729 2792 1.955778 CGGGGCATAATTCTGCATTCA 59.044 47.619 16.60 0.00 44.12 2.57
3071 3134 2.035449 CGATCAGTTATGCGTCCCCTAA 59.965 50.000 0.00 0.00 0.00 2.69
3128 3243 8.642432 CATATACATCTACAGGGTTCTCTTTCA 58.358 37.037 0.00 0.00 0.00 2.69
3240 3357 6.378848 GGTAACTTAATTAAGAACCCATGCCA 59.621 38.462 27.92 1.97 37.14 4.92
3455 3575 2.773745 CGGACCACGCCCGTACATA 61.774 63.158 0.00 0.00 41.91 2.29
3456 3576 4.137872 CGGACCACGCCCGTACAT 62.138 66.667 0.00 0.00 41.91 2.29


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

AutoCloner maintained by Alex Coulton.