Multiple sequence alignment - TraesCS7B01G335700

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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 TraesCS7B01G335700 chr7B 100.000 2585 0 0 1 2585 590843703 590841119 0.000000e+00 4774
1 TraesCS7B01G335700 chr7A 88.753 2534 154 60 133 2584 630868847 630871331 0.000000e+00 2979
2 TraesCS7B01G335700 chr7D 88.911 2498 139 62 158 2585 547682219 547679790 0.000000e+00 2952
3 TraesCS7B01G335700 chr6A 80.494 405 53 19 1054 1439 103758906 103758509 1.170000e-73 287
4 TraesCS7B01G335700 chr6D 79.699 399 57 19 1062 1439 86142870 86142475 1.520000e-67 267
5 TraesCS7B01G335700 chr6B 79.800 401 53 20 1062 1439 163230041 163229646 1.520000e-67 267


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 TraesCS7B01G335700 chr7B 590841119 590843703 2584 True 4774 4774 100.000 1 2585 1 chr7B.!!$R1 2584
1 TraesCS7B01G335700 chr7A 630868847 630871331 2484 False 2979 2979 88.753 133 2584 1 chr7A.!!$F1 2451
2 TraesCS7B01G335700 chr7D 547679790 547682219 2429 True 2952 2952 88.911 158 2585 1 chr7D.!!$R1 2427

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
711 738 0.108424 GTAGTGGTGGAGCAGAGCAG 60.108 60.0 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1665 1753 0.317938 GATCATCGGAAGACGGACCG 60.318 60.0 13.61 13.61 46.97 4.79 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
20 21 4.410400 GGTCTTCCCACGCCCCTG 62.410 72.222 0.00 0.00 0.00 4.45
21 22 3.319198 GTCTTCCCACGCCCCTGA 61.319 66.667 0.00 0.00 0.00 3.86
22 23 3.003173 TCTTCCCACGCCCCTGAG 61.003 66.667 0.00 0.00 0.00 3.35
23 24 4.785453 CTTCCCACGCCCCTGAGC 62.785 72.222 0.00 0.00 0.00 4.26
32 33 4.864334 CCCCTGAGCACCGCCATC 62.864 72.222 0.00 0.00 0.00 3.51
33 34 4.100084 CCCTGAGCACCGCCATCA 62.100 66.667 0.00 0.00 0.00 3.07
34 35 2.513204 CCTGAGCACCGCCATCAG 60.513 66.667 0.00 0.00 40.13 2.90
35 36 2.267006 CTGAGCACCGCCATCAGT 59.733 61.111 0.00 0.00 36.52 3.41
36 37 1.812922 CTGAGCACCGCCATCAGTC 60.813 63.158 0.00 0.00 36.52 3.51
37 38 2.512515 GAGCACCGCCATCAGTCC 60.513 66.667 0.00 0.00 0.00 3.85
38 39 3.315142 GAGCACCGCCATCAGTCCA 62.315 63.158 0.00 0.00 0.00 4.02
39 40 2.359850 GCACCGCCATCAGTCCAA 60.360 61.111 0.00 0.00 0.00 3.53
40 41 2.401766 GCACCGCCATCAGTCCAAG 61.402 63.158 0.00 0.00 0.00 3.61
41 42 1.746615 CACCGCCATCAGTCCAAGG 60.747 63.158 0.00 0.00 0.00 3.61
42 43 2.124570 CCGCCATCAGTCCAAGGG 60.125 66.667 0.00 0.00 0.00 3.95
43 44 2.825836 CGCCATCAGTCCAAGGGC 60.826 66.667 0.00 0.00 41.20 5.19
44 45 2.440980 GCCATCAGTCCAAGGGCC 60.441 66.667 0.00 0.00 38.70 5.80
45 46 2.276740 CCATCAGTCCAAGGGCCC 59.723 66.667 16.46 16.46 0.00 5.80
46 47 2.124570 CATCAGTCCAAGGGCCCG 60.125 66.667 18.44 2.08 0.00 6.13
47 48 4.115199 ATCAGTCCAAGGGCCCGC 62.115 66.667 18.44 5.66 0.00 6.13
52 53 4.408396 TCCAAGGGCCCGCCTCTA 62.408 66.667 18.44 0.00 36.10 2.43
53 54 4.176752 CCAAGGGCCCGCCTCTAC 62.177 72.222 18.44 0.00 36.10 2.59
54 55 3.399181 CAAGGGCCCGCCTCTACA 61.399 66.667 18.44 0.00 36.10 2.74
55 56 3.083997 AAGGGCCCGCCTCTACAG 61.084 66.667 18.44 0.00 36.10 2.74
56 57 3.618855 AAGGGCCCGCCTCTACAGA 62.619 63.158 18.44 0.00 36.10 3.41
57 58 3.541713 GGGCCCGCCTCTACAGAG 61.542 72.222 5.69 0.00 41.71 3.35
58 59 2.442272 GGCCCGCCTCTACAGAGA 60.442 66.667 7.84 0.00 44.74 3.10
59 60 1.834822 GGCCCGCCTCTACAGAGAT 60.835 63.158 7.84 0.00 44.74 2.75
60 61 1.365633 GCCCGCCTCTACAGAGATG 59.634 63.158 7.84 0.01 44.74 2.90
61 62 1.109920 GCCCGCCTCTACAGAGATGA 61.110 60.000 7.84 0.00 44.74 2.92
62 63 0.671251 CCCGCCTCTACAGAGATGAC 59.329 60.000 7.84 0.00 44.74 3.06
63 64 1.686355 CCGCCTCTACAGAGATGACT 58.314 55.000 7.84 0.00 44.74 3.41
64 65 2.028130 CCGCCTCTACAGAGATGACTT 58.972 52.381 7.84 0.00 44.74 3.01
65 66 2.428890 CCGCCTCTACAGAGATGACTTT 59.571 50.000 7.84 0.00 44.74 2.66
66 67 3.118956 CCGCCTCTACAGAGATGACTTTT 60.119 47.826 7.84 0.00 44.74 2.27
67 68 4.109050 CGCCTCTACAGAGATGACTTTTC 58.891 47.826 7.84 0.00 44.74 2.29
68 69 4.438148 GCCTCTACAGAGATGACTTTTCC 58.562 47.826 7.84 0.00 44.74 3.13
69 70 4.161377 GCCTCTACAGAGATGACTTTTCCT 59.839 45.833 7.84 0.00 44.74 3.36
70 71 5.681179 GCCTCTACAGAGATGACTTTTCCTC 60.681 48.000 7.84 0.00 44.74 3.71
71 72 5.449862 CCTCTACAGAGATGACTTTTCCTCG 60.450 48.000 7.84 0.00 44.74 4.63
72 73 5.010933 TCTACAGAGATGACTTTTCCTCGT 58.989 41.667 0.00 0.00 0.00 4.18
73 74 4.608948 ACAGAGATGACTTTTCCTCGTT 57.391 40.909 0.00 0.00 0.00 3.85
74 75 4.310769 ACAGAGATGACTTTTCCTCGTTG 58.689 43.478 0.00 0.00 0.00 4.10
75 76 4.202264 ACAGAGATGACTTTTCCTCGTTGT 60.202 41.667 0.00 0.00 0.00 3.32
76 77 4.387256 CAGAGATGACTTTTCCTCGTTGTC 59.613 45.833 0.00 0.00 0.00 3.18
77 78 4.282195 AGAGATGACTTTTCCTCGTTGTCT 59.718 41.667 0.00 0.00 0.00 3.41
78 79 4.310769 AGATGACTTTTCCTCGTTGTCTG 58.689 43.478 0.00 0.00 0.00 3.51
79 80 3.812156 TGACTTTTCCTCGTTGTCTGA 57.188 42.857 0.00 0.00 0.00 3.27
80 81 3.717707 TGACTTTTCCTCGTTGTCTGAG 58.282 45.455 0.00 0.00 0.00 3.35
81 82 3.383505 TGACTTTTCCTCGTTGTCTGAGA 59.616 43.478 0.00 0.00 35.43 3.27
82 83 4.142026 TGACTTTTCCTCGTTGTCTGAGAA 60.142 41.667 0.00 0.00 35.43 2.87
83 84 4.766375 ACTTTTCCTCGTTGTCTGAGAAA 58.234 39.130 0.00 0.00 35.43 2.52
84 85 5.183228 ACTTTTCCTCGTTGTCTGAGAAAA 58.817 37.500 0.00 0.00 35.43 2.29
85 86 5.064834 ACTTTTCCTCGTTGTCTGAGAAAAC 59.935 40.000 5.42 5.42 35.43 2.43
86 87 3.107642 TCCTCGTTGTCTGAGAAAACC 57.892 47.619 9.79 0.00 35.43 3.27
87 88 2.143925 CCTCGTTGTCTGAGAAAACCC 58.856 52.381 9.79 0.00 35.43 4.11
88 89 1.792949 CTCGTTGTCTGAGAAAACCCG 59.207 52.381 9.79 0.00 35.43 5.28
89 90 1.137479 TCGTTGTCTGAGAAAACCCGT 59.863 47.619 9.79 0.00 0.00 5.28
90 91 1.260561 CGTTGTCTGAGAAAACCCGTG 59.739 52.381 9.79 0.00 0.00 4.94
91 92 1.602377 GTTGTCTGAGAAAACCCGTGG 59.398 52.381 4.10 0.00 0.00 4.94
92 93 1.124780 TGTCTGAGAAAACCCGTGGA 58.875 50.000 0.00 0.00 0.00 4.02
93 94 1.487142 TGTCTGAGAAAACCCGTGGAA 59.513 47.619 0.00 0.00 0.00 3.53
94 95 2.105821 TGTCTGAGAAAACCCGTGGAAT 59.894 45.455 0.00 0.00 0.00 3.01
95 96 3.146847 GTCTGAGAAAACCCGTGGAATT 58.853 45.455 0.00 0.00 0.00 2.17
96 97 3.568430 GTCTGAGAAAACCCGTGGAATTT 59.432 43.478 0.00 0.00 0.00 1.82
97 98 3.568007 TCTGAGAAAACCCGTGGAATTTG 59.432 43.478 0.00 0.00 0.00 2.32
98 99 3.556999 TGAGAAAACCCGTGGAATTTGA 58.443 40.909 0.00 0.00 0.00 2.69
99 100 3.568007 TGAGAAAACCCGTGGAATTTGAG 59.432 43.478 0.00 0.00 0.00 3.02
100 101 2.296190 AGAAAACCCGTGGAATTTGAGC 59.704 45.455 0.00 0.00 0.00 4.26
101 102 1.995376 AAACCCGTGGAATTTGAGCT 58.005 45.000 0.00 0.00 0.00 4.09
102 103 1.995376 AACCCGTGGAATTTGAGCTT 58.005 45.000 0.00 0.00 0.00 3.74
103 104 1.995376 ACCCGTGGAATTTGAGCTTT 58.005 45.000 0.00 0.00 0.00 3.51
104 105 1.886542 ACCCGTGGAATTTGAGCTTTC 59.113 47.619 0.00 0.00 0.00 2.62
105 106 1.885887 CCCGTGGAATTTGAGCTTTCA 59.114 47.619 0.00 0.00 0.00 2.69
106 107 2.295909 CCCGTGGAATTTGAGCTTTCAA 59.704 45.455 0.00 0.00 0.00 2.69
107 108 3.056607 CCCGTGGAATTTGAGCTTTCAAT 60.057 43.478 0.00 0.00 0.00 2.57
108 109 4.559153 CCGTGGAATTTGAGCTTTCAATT 58.441 39.130 0.00 0.00 0.00 2.32
109 110 5.336372 CCCGTGGAATTTGAGCTTTCAATTA 60.336 40.000 0.00 0.00 0.00 1.40
110 111 6.155827 CCGTGGAATTTGAGCTTTCAATTAA 58.844 36.000 0.00 0.00 0.00 1.40
111 112 6.644592 CCGTGGAATTTGAGCTTTCAATTAAA 59.355 34.615 0.00 0.00 0.00 1.52
112 113 7.170658 CCGTGGAATTTGAGCTTTCAATTAAAA 59.829 33.333 0.00 0.00 0.00 1.52
113 114 8.711457 CGTGGAATTTGAGCTTTCAATTAAAAT 58.289 29.630 0.00 0.00 0.00 1.82
116 117 9.745323 GGAATTTGAGCTTTCAATTAAAATTCG 57.255 29.630 10.24 0.00 40.72 3.34
121 122 9.912634 TTGAGCTTTCAATTAAAATTCGATTCT 57.087 25.926 0.00 0.00 0.00 2.40
122 123 9.559958 TGAGCTTTCAATTAAAATTCGATTCTC 57.440 29.630 0.00 0.00 0.00 2.87
123 124 8.917415 AGCTTTCAATTAAAATTCGATTCTCC 57.083 30.769 0.00 0.00 0.00 3.71
124 125 8.743714 AGCTTTCAATTAAAATTCGATTCTCCT 58.256 29.630 0.00 0.00 0.00 3.69
128 129 9.456147 TTCAATTAAAATTCGATTCTCCTACCA 57.544 29.630 0.00 0.00 0.00 3.25
129 130 9.627123 TCAATTAAAATTCGATTCTCCTACCAT 57.373 29.630 0.00 0.00 0.00 3.55
130 131 9.884465 CAATTAAAATTCGATTCTCCTACCATC 57.116 33.333 0.00 0.00 0.00 3.51
131 132 8.622948 ATTAAAATTCGATTCTCCTACCATCC 57.377 34.615 0.00 0.00 0.00 3.51
135 136 3.371034 TCGATTCTCCTACCATCCAACA 58.629 45.455 0.00 0.00 0.00 3.33
138 139 4.698575 GATTCTCCTACCATCCAACAGTC 58.301 47.826 0.00 0.00 0.00 3.51
144 145 0.537188 ACCATCCAACAGTCCTAGCG 59.463 55.000 0.00 0.00 0.00 4.26
145 146 0.811616 CCATCCAACAGTCCTAGCGC 60.812 60.000 0.00 0.00 0.00 5.92
150 151 2.711922 AACAGTCCTAGCGCCCGAG 61.712 63.158 2.29 0.00 0.00 4.63
175 176 7.893124 ATTGCCAAGATACAATCTCAATTCT 57.107 32.000 0.00 0.00 39.08 2.40
191 192 9.690913 ATCTCAATTCTTGAAATTCCATACTCA 57.309 29.630 0.00 0.00 39.58 3.41
198 199 8.722480 TCTTGAAATTCCATACTCACATACTG 57.278 34.615 0.00 0.00 0.00 2.74
201 202 6.756542 TGAAATTCCATACTCACATACTGTCG 59.243 38.462 0.00 0.00 0.00 4.35
208 209 4.537135 ACTCACATACTGTCGTCCAAAT 57.463 40.909 0.00 0.00 0.00 2.32
223 224 0.247262 CAAATGACGTGACGCATCCG 60.247 55.000 4.25 1.34 41.14 4.18
247 248 2.598192 CGGCGTGCTATTGAAAATTTGG 59.402 45.455 0.00 0.00 0.00 3.28
268 269 6.194796 TGGATAGAATTACACAAAGCAAGC 57.805 37.500 0.00 0.00 0.00 4.01
272 273 3.891366 AGAATTACACAAAGCAAGCCTGT 59.109 39.130 0.00 0.00 0.00 4.00
277 278 1.135859 CACAAAGCAAGCCTGTCGATC 60.136 52.381 0.00 0.00 0.00 3.69
280 281 1.731720 AAGCAAGCCTGTCGATCTTC 58.268 50.000 0.00 0.00 0.00 2.87
286 287 4.470462 CAAGCCTGTCGATCTTCTTTTTG 58.530 43.478 0.00 0.00 0.00 2.44
288 289 3.074412 GCCTGTCGATCTTCTTTTTGGA 58.926 45.455 0.00 0.00 0.00 3.53
292 295 6.317857 CCTGTCGATCTTCTTTTTGGAAATC 58.682 40.000 0.00 0.00 0.00 2.17
300 303 7.095695 TCTTCTTTTTGGAAATCAAGTTCGT 57.904 32.000 0.00 0.00 36.62 3.85
301 304 6.972328 TCTTCTTTTTGGAAATCAAGTTCGTG 59.028 34.615 0.00 0.00 36.62 4.35
308 311 6.155475 TGGAAATCAAGTTCGTGGAAATTT 57.845 33.333 0.00 0.00 27.08 1.82
316 322 2.973419 TCGTGGAAATTTACCGTTGC 57.027 45.000 10.00 0.00 0.00 4.17
337 343 4.157656 TGCTTCTTAACCCCAAATCATTCG 59.842 41.667 0.00 0.00 0.00 3.34
345 351 1.268032 CCCAAATCATTCGTACGCAGC 60.268 52.381 11.24 0.00 0.00 5.25
349 355 2.863401 ATCATTCGTACGCAGCAGTA 57.137 45.000 11.24 0.00 0.00 2.74
350 356 1.904144 TCATTCGTACGCAGCAGTAC 58.096 50.000 11.24 14.10 42.48 2.73
351 357 1.471287 TCATTCGTACGCAGCAGTACT 59.529 47.619 11.24 0.00 43.42 2.73
352 358 2.679336 TCATTCGTACGCAGCAGTACTA 59.321 45.455 11.24 10.18 43.42 1.82
353 359 2.819422 TTCGTACGCAGCAGTACTAG 57.181 50.000 11.24 9.46 43.42 2.57
354 360 0.376152 TCGTACGCAGCAGTACTAGC 59.624 55.000 11.24 1.88 43.42 3.42
395 408 1.142097 GCTCGGGTCTCTACAAGCC 59.858 63.158 0.00 0.00 0.00 4.35
432 445 2.108362 CCTAATCGTGCCGTCCCC 59.892 66.667 0.00 0.00 0.00 4.81
515 538 4.641645 CGGCTGCCTGTGTGGGAA 62.642 66.667 17.92 0.00 35.09 3.97
516 539 2.985847 GGCTGCCTGTGTGGGAAC 60.986 66.667 12.43 0.00 35.09 3.62
530 553 4.980805 GAACCGCCTGTGTGCCGA 62.981 66.667 0.00 0.00 0.00 5.54
596 619 0.772124 AGAAACAGGGGCAGGAAGGA 60.772 55.000 0.00 0.00 0.00 3.36
598 621 0.786435 AAACAGGGGCAGGAAGGAAT 59.214 50.000 0.00 0.00 0.00 3.01
666 693 4.394712 CACCCAGACGCCAGACCC 62.395 72.222 0.00 0.00 0.00 4.46
672 699 2.112297 GACGCCAGACCCAACCAA 59.888 61.111 0.00 0.00 0.00 3.67
686 713 2.167662 CAACCAAACCAGACCATACCC 58.832 52.381 0.00 0.00 0.00 3.69
689 716 1.340991 CCAAACCAGACCATACCCCAG 60.341 57.143 0.00 0.00 0.00 4.45
708 735 0.171455 GTCGTAGTGGTGGAGCAGAG 59.829 60.000 0.00 0.00 0.00 3.35
709 736 1.153745 CGTAGTGGTGGAGCAGAGC 60.154 63.158 0.00 0.00 0.00 4.09
710 737 1.877576 CGTAGTGGTGGAGCAGAGCA 61.878 60.000 0.00 0.00 0.00 4.26
711 738 0.108424 GTAGTGGTGGAGCAGAGCAG 60.108 60.000 0.00 0.00 0.00 4.24
712 739 0.542938 TAGTGGTGGAGCAGAGCAGT 60.543 55.000 0.00 0.00 0.00 4.40
713 740 1.670406 GTGGTGGAGCAGAGCAGTG 60.670 63.158 0.00 0.00 0.00 3.66
714 741 2.745492 GGTGGAGCAGAGCAGTGC 60.745 66.667 7.13 7.13 44.35 4.40
715 742 2.031616 GTGGAGCAGAGCAGTGCA 59.968 61.111 19.20 0.00 46.60 4.57
716 743 2.033755 GTGGAGCAGAGCAGTGCAG 61.034 63.158 19.20 7.88 46.60 4.41
717 744 2.212110 TGGAGCAGAGCAGTGCAGA 61.212 57.895 19.20 0.00 46.60 4.26
740 767 1.162800 GGATCGGCCGTAGTCGTACT 61.163 60.000 27.15 0.00 35.01 2.73
741 768 0.234365 GATCGGCCGTAGTCGTACTC 59.766 60.000 27.15 5.49 35.01 2.59
742 769 1.493950 ATCGGCCGTAGTCGTACTCG 61.494 60.000 27.15 0.00 38.55 4.18
786 827 2.359602 CCACCAGACCAGCAGCAG 60.360 66.667 0.00 0.00 0.00 4.24
869 916 4.472310 CCCCATCCCCTTCCCCCT 62.472 72.222 0.00 0.00 0.00 4.79
870 917 2.778717 CCCATCCCCTTCCCCCTC 60.779 72.222 0.00 0.00 0.00 4.30
907 954 2.036256 CTTTCCCACCCAGGCAGG 59.964 66.667 0.00 0.00 35.39 4.85
908 955 4.299796 TTTCCCACCCAGGCAGGC 62.300 66.667 0.00 0.00 35.39 4.85
964 1021 1.004862 CCAGGGGAAGAAGGGAAAGAC 59.995 57.143 0.00 0.00 0.00 3.01
965 1022 1.705186 CAGGGGAAGAAGGGAAAGACA 59.295 52.381 0.00 0.00 0.00 3.41
1447 1514 3.203412 CGTCCTCCGTCCTCCTCG 61.203 72.222 0.00 0.00 0.00 4.63
1448 1515 2.271497 GTCCTCCGTCCTCCTCGA 59.729 66.667 0.00 0.00 0.00 4.04
1449 1516 1.820481 GTCCTCCGTCCTCCTCGAG 60.820 68.421 5.13 5.13 0.00 4.04
1560 1636 1.300465 CGATCAGATGACCTGCCGG 60.300 63.158 0.00 0.00 42.62 6.13
1588 1664 2.835431 TGCTCCGCCTCTAGCTCC 60.835 66.667 0.00 0.00 39.53 4.70
1628 1711 2.204090 GTGGGAGGGGAACTGGGA 60.204 66.667 0.00 0.00 0.00 4.37
1686 1774 1.001158 GGTCCGTCTTCCGATGATCTC 60.001 57.143 0.00 0.00 39.56 2.75
1704 1792 2.693591 TCTCGTGGTGTTCTCTCTTTGT 59.306 45.455 0.00 0.00 0.00 2.83
1727 1815 8.537728 TGTTAGAAATGGATAATTCTTGCCAT 57.462 30.769 0.00 0.00 42.66 4.40
1943 2033 8.902540 TGAAGAGAAAGTATTTACACACATGT 57.097 30.769 0.00 0.00 39.27 3.21
1944 2034 8.773645 TGAAGAGAAAGTATTTACACACATGTG 58.226 33.333 24.25 24.25 45.15 3.21
1967 2057 2.183409 GTGATTGCCACCGCTTCAT 58.817 52.632 0.00 0.00 39.86 2.57
2010 2100 3.114668 TGCAAGTGCTGAAATGCAAAT 57.885 38.095 4.69 0.00 45.04 2.32
2016 2106 4.491676 AGTGCTGAAATGCAAATCATCAC 58.508 39.130 21.83 21.83 45.12 3.06
2037 2127 6.056884 TCACATGTAGCAAGCATCATGAATA 58.943 36.000 24.61 13.09 39.68 1.75
2038 2128 6.017687 TCACATGTAGCAAGCATCATGAATAC 60.018 38.462 24.61 6.66 39.68 1.89
2040 2130 7.172019 CACATGTAGCAAGCATCATGAATACTA 59.828 37.037 24.61 0.00 39.68 1.82
2041 2131 7.387122 ACATGTAGCAAGCATCATGAATACTAG 59.613 37.037 24.61 0.00 39.68 2.57
2042 2132 6.226052 TGTAGCAAGCATCATGAATACTAGG 58.774 40.000 0.00 0.00 0.00 3.02
2043 2133 5.557576 AGCAAGCATCATGAATACTAGGA 57.442 39.130 0.00 0.00 0.00 2.94
2046 2136 6.430308 AGCAAGCATCATGAATACTAGGATTG 59.570 38.462 4.46 0.00 0.00 2.67
2098 2188 9.687210 GCTGAAATGCAAATTATCATTATCTGA 57.313 29.630 0.00 0.00 38.53 3.27
2144 2246 5.988287 TCAGTTCTATACATGGTGATGCAA 58.012 37.500 0.00 0.00 32.14 4.08
2155 2257 1.135575 GGTGATGCAACTGCTACTTGC 60.136 52.381 2.95 6.61 43.69 4.01
2271 2374 4.593597 GCAATTGCAAGTTTGATGGATG 57.406 40.909 25.36 0.00 41.59 3.51
2285 2388 7.289317 AGTTTGATGGATGGCATTATCTGAAAT 59.711 33.333 19.66 13.47 0.00 2.17
2437 2544 2.029623 GCCATTGCTTCACTGGATCAT 58.970 47.619 7.29 0.00 36.47 2.45
2480 2587 4.788925 ATCCTTTGAATAACCGGGATGA 57.211 40.909 6.32 0.00 33.05 2.92
2563 2678 2.209064 GAGGAGCCGCAGACGTGTTA 62.209 60.000 0.00 0.00 37.70 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.410400 CAGGGGCGTGGGAAGACC 62.410 72.222 0.00 0.00 40.81 3.85
4 5 3.316573 CTCAGGGGCGTGGGAAGAC 62.317 68.421 0.00 0.00 0.00 3.01
5 6 3.003173 CTCAGGGGCGTGGGAAGA 61.003 66.667 0.00 0.00 0.00 2.87
6 7 4.785453 GCTCAGGGGCGTGGGAAG 62.785 72.222 0.00 0.00 0.00 3.46
15 16 4.864334 GATGGCGGTGCTCAGGGG 62.864 72.222 0.00 0.00 0.00 4.79
16 17 4.100084 TGATGGCGGTGCTCAGGG 62.100 66.667 0.00 0.00 0.00 4.45
17 18 2.513204 CTGATGGCGGTGCTCAGG 60.513 66.667 1.34 0.00 34.17 3.86
18 19 1.812922 GACTGATGGCGGTGCTCAG 60.813 63.158 6.52 6.52 41.69 3.35
19 20 2.265739 GACTGATGGCGGTGCTCA 59.734 61.111 0.00 0.00 32.58 4.26
20 21 2.512515 GGACTGATGGCGGTGCTC 60.513 66.667 0.00 0.00 38.56 4.26
21 22 2.809861 CTTGGACTGATGGCGGTGCT 62.810 60.000 0.00 0.00 41.78 4.40
22 23 2.359850 TTGGACTGATGGCGGTGC 60.360 61.111 0.00 0.00 41.63 5.01
23 24 1.746615 CCTTGGACTGATGGCGGTG 60.747 63.158 0.00 0.00 32.58 4.94
24 25 2.671070 CCTTGGACTGATGGCGGT 59.329 61.111 0.00 0.00 35.98 5.68
25 26 2.124570 CCCTTGGACTGATGGCGG 60.125 66.667 0.00 0.00 0.00 6.13
26 27 2.825836 GCCCTTGGACTGATGGCG 60.826 66.667 0.00 0.00 31.55 5.69
27 28 2.440980 GGCCCTTGGACTGATGGC 60.441 66.667 0.00 0.00 41.42 4.40
28 29 2.276740 GGGCCCTTGGACTGATGG 59.723 66.667 17.04 0.00 0.00 3.51
29 30 2.124570 CGGGCCCTTGGACTGATG 60.125 66.667 22.43 0.00 40.17 3.07
30 31 4.115199 GCGGGCCCTTGGACTGAT 62.115 66.667 22.43 0.00 40.17 2.90
35 36 4.408396 TAGAGGCGGGCCCTTGGA 62.408 66.667 22.43 0.00 46.60 3.53
36 37 4.176752 GTAGAGGCGGGCCCTTGG 62.177 72.222 22.43 5.31 46.60 3.61
37 38 3.391665 CTGTAGAGGCGGGCCCTTG 62.392 68.421 22.43 6.20 46.60 3.61
38 39 3.083997 CTGTAGAGGCGGGCCCTT 61.084 66.667 22.43 4.89 46.60 3.95
40 41 3.541713 CTCTGTAGAGGCGGGCCC 61.542 72.222 13.57 13.57 38.48 5.80
41 42 1.834822 ATCTCTGTAGAGGCGGGCC 60.835 63.158 8.91 0.18 42.30 5.80
42 43 1.109920 TCATCTCTGTAGAGGCGGGC 61.110 60.000 8.91 0.00 42.30 6.13
43 44 0.671251 GTCATCTCTGTAGAGGCGGG 59.329 60.000 8.91 0.00 42.30 6.13
44 45 1.686355 AGTCATCTCTGTAGAGGCGG 58.314 55.000 8.91 0.25 42.30 6.13
45 46 3.791973 AAAGTCATCTCTGTAGAGGCG 57.208 47.619 8.91 1.44 42.30 5.52
46 47 4.161377 AGGAAAAGTCATCTCTGTAGAGGC 59.839 45.833 8.91 0.00 42.30 4.70
47 48 5.449862 CGAGGAAAAGTCATCTCTGTAGAGG 60.450 48.000 8.91 0.00 42.30 3.69
48 49 5.124776 ACGAGGAAAAGTCATCTCTGTAGAG 59.875 44.000 2.45 2.45 43.36 2.43
49 50 5.010933 ACGAGGAAAAGTCATCTCTGTAGA 58.989 41.667 0.00 0.00 32.24 2.59
50 51 5.317733 ACGAGGAAAAGTCATCTCTGTAG 57.682 43.478 0.00 0.00 32.24 2.74
51 52 5.010719 ACAACGAGGAAAAGTCATCTCTGTA 59.989 40.000 0.00 0.00 32.24 2.74
52 53 4.202264 ACAACGAGGAAAAGTCATCTCTGT 60.202 41.667 0.00 0.00 32.24 3.41
53 54 4.310769 ACAACGAGGAAAAGTCATCTCTG 58.689 43.478 0.00 0.00 32.24 3.35
54 55 4.282195 AGACAACGAGGAAAAGTCATCTCT 59.718 41.667 0.00 0.00 32.24 3.10
55 56 4.387256 CAGACAACGAGGAAAAGTCATCTC 59.613 45.833 0.00 0.00 32.24 2.75
56 57 4.039245 TCAGACAACGAGGAAAAGTCATCT 59.961 41.667 0.00 0.00 32.24 2.90
57 58 4.307432 TCAGACAACGAGGAAAAGTCATC 58.693 43.478 0.00 0.00 0.00 2.92
58 59 4.039245 TCTCAGACAACGAGGAAAAGTCAT 59.961 41.667 0.00 0.00 0.00 3.06
59 60 3.383505 TCTCAGACAACGAGGAAAAGTCA 59.616 43.478 0.00 0.00 0.00 3.41
60 61 3.978687 TCTCAGACAACGAGGAAAAGTC 58.021 45.455 0.00 0.00 0.00 3.01
61 62 4.402056 TTCTCAGACAACGAGGAAAAGT 57.598 40.909 0.00 0.00 0.00 2.66
62 63 5.502606 GTTTTCTCAGACAACGAGGAAAAG 58.497 41.667 0.00 0.00 39.20 2.27
63 64 4.334481 GGTTTTCTCAGACAACGAGGAAAA 59.666 41.667 0.00 0.00 39.20 2.29
64 65 3.875134 GGTTTTCTCAGACAACGAGGAAA 59.125 43.478 0.00 0.00 35.95 3.13
65 66 3.463944 GGTTTTCTCAGACAACGAGGAA 58.536 45.455 0.00 0.00 0.00 3.36
66 67 2.224209 GGGTTTTCTCAGACAACGAGGA 60.224 50.000 0.00 0.00 0.00 3.71
67 68 2.143925 GGGTTTTCTCAGACAACGAGG 58.856 52.381 0.00 0.00 0.00 4.63
68 69 1.792949 CGGGTTTTCTCAGACAACGAG 59.207 52.381 0.00 0.00 0.00 4.18
69 70 1.137479 ACGGGTTTTCTCAGACAACGA 59.863 47.619 0.00 0.00 0.00 3.85
70 71 1.260561 CACGGGTTTTCTCAGACAACG 59.739 52.381 0.00 0.00 0.00 4.10
71 72 1.602377 CCACGGGTTTTCTCAGACAAC 59.398 52.381 0.00 0.00 0.00 3.32
72 73 1.487142 TCCACGGGTTTTCTCAGACAA 59.513 47.619 0.00 0.00 0.00 3.18
73 74 1.124780 TCCACGGGTTTTCTCAGACA 58.875 50.000 0.00 0.00 0.00 3.41
74 75 2.249844 TTCCACGGGTTTTCTCAGAC 57.750 50.000 0.00 0.00 0.00 3.51
75 76 3.502123 AATTCCACGGGTTTTCTCAGA 57.498 42.857 0.00 0.00 0.00 3.27
76 77 3.568007 TCAAATTCCACGGGTTTTCTCAG 59.432 43.478 0.00 0.00 0.00 3.35
77 78 3.556999 TCAAATTCCACGGGTTTTCTCA 58.443 40.909 0.00 0.00 0.00 3.27
78 79 3.611766 GCTCAAATTCCACGGGTTTTCTC 60.612 47.826 0.00 0.00 0.00 2.87
79 80 2.296190 GCTCAAATTCCACGGGTTTTCT 59.704 45.455 0.00 0.00 0.00 2.52
80 81 2.296190 AGCTCAAATTCCACGGGTTTTC 59.704 45.455 0.00 0.00 0.00 2.29
81 82 2.316108 AGCTCAAATTCCACGGGTTTT 58.684 42.857 0.00 0.00 0.00 2.43
82 83 1.995376 AGCTCAAATTCCACGGGTTT 58.005 45.000 0.00 0.00 0.00 3.27
83 84 1.995376 AAGCTCAAATTCCACGGGTT 58.005 45.000 0.00 0.00 0.00 4.11
84 85 1.886542 GAAAGCTCAAATTCCACGGGT 59.113 47.619 0.00 0.00 0.00 5.28
85 86 1.885887 TGAAAGCTCAAATTCCACGGG 59.114 47.619 0.00 0.00 0.00 5.28
86 87 3.641437 TTGAAAGCTCAAATTCCACGG 57.359 42.857 0.00 0.00 38.65 4.94
87 88 7.636259 TTTAATTGAAAGCTCAAATTCCACG 57.364 32.000 4.91 0.00 44.64 4.94
90 91 9.745323 CGAATTTTAATTGAAAGCTCAAATTCC 57.255 29.630 1.69 0.00 44.64 3.01
95 96 9.912634 AGAATCGAATTTTAATTGAAAGCTCAA 57.087 25.926 1.69 0.00 45.53 3.02
96 97 9.559958 GAGAATCGAATTTTAATTGAAAGCTCA 57.440 29.630 1.69 0.00 0.00 4.26
97 98 9.014533 GGAGAATCGAATTTTAATTGAAAGCTC 57.985 33.333 1.69 0.76 34.37 4.09
98 99 8.743714 AGGAGAATCGAATTTTAATTGAAAGCT 58.256 29.630 1.69 0.00 34.37 3.74
99 100 8.917415 AGGAGAATCGAATTTTAATTGAAAGC 57.083 30.769 1.69 0.00 34.37 3.51
102 103 9.456147 TGGTAGGAGAATCGAATTTTAATTGAA 57.544 29.630 0.00 0.00 34.37 2.69
103 104 9.627123 ATGGTAGGAGAATCGAATTTTAATTGA 57.373 29.630 0.00 0.00 34.37 2.57
104 105 9.884465 GATGGTAGGAGAATCGAATTTTAATTG 57.116 33.333 0.00 0.00 34.37 2.32
105 106 9.067986 GGATGGTAGGAGAATCGAATTTTAATT 57.932 33.333 0.00 0.00 34.37 1.40
106 107 8.217799 TGGATGGTAGGAGAATCGAATTTTAAT 58.782 33.333 0.00 0.00 34.37 1.40
107 108 7.570132 TGGATGGTAGGAGAATCGAATTTTAA 58.430 34.615 0.00 0.00 34.37 1.52
108 109 7.131907 TGGATGGTAGGAGAATCGAATTTTA 57.868 36.000 0.00 0.00 34.37 1.52
109 110 6.001449 TGGATGGTAGGAGAATCGAATTTT 57.999 37.500 0.00 0.00 34.37 1.82
110 111 5.630415 TGGATGGTAGGAGAATCGAATTT 57.370 39.130 0.00 0.00 34.37 1.82
111 112 5.104527 TGTTGGATGGTAGGAGAATCGAATT 60.105 40.000 0.00 0.00 34.37 2.17
112 113 4.408921 TGTTGGATGGTAGGAGAATCGAAT 59.591 41.667 0.00 0.00 34.37 3.34
113 114 3.772572 TGTTGGATGGTAGGAGAATCGAA 59.227 43.478 0.00 0.00 34.37 3.71
114 115 3.371034 TGTTGGATGGTAGGAGAATCGA 58.629 45.455 0.00 0.00 34.37 3.59
115 116 3.133003 ACTGTTGGATGGTAGGAGAATCG 59.867 47.826 0.00 0.00 34.37 3.34
116 117 4.443598 GGACTGTTGGATGGTAGGAGAATC 60.444 50.000 0.00 0.00 0.00 2.52
117 118 3.456277 GGACTGTTGGATGGTAGGAGAAT 59.544 47.826 0.00 0.00 0.00 2.40
118 119 2.838202 GGACTGTTGGATGGTAGGAGAA 59.162 50.000 0.00 0.00 0.00 2.87
119 120 2.044492 AGGACTGTTGGATGGTAGGAGA 59.956 50.000 0.00 0.00 0.00 3.71
120 121 2.472029 AGGACTGTTGGATGGTAGGAG 58.528 52.381 0.00 0.00 0.00 3.69
121 122 2.642171 AGGACTGTTGGATGGTAGGA 57.358 50.000 0.00 0.00 0.00 2.94
122 123 2.103263 GCTAGGACTGTTGGATGGTAGG 59.897 54.545 0.00 0.00 0.00 3.18
123 124 2.223829 CGCTAGGACTGTTGGATGGTAG 60.224 54.545 0.00 0.00 0.00 3.18
124 125 1.754803 CGCTAGGACTGTTGGATGGTA 59.245 52.381 0.00 0.00 0.00 3.25
125 126 0.537188 CGCTAGGACTGTTGGATGGT 59.463 55.000 0.00 0.00 0.00 3.55
126 127 0.811616 GCGCTAGGACTGTTGGATGG 60.812 60.000 0.00 0.00 0.00 3.51
127 128 0.811616 GGCGCTAGGACTGTTGGATG 60.812 60.000 7.64 0.00 0.00 3.51
128 129 1.522569 GGCGCTAGGACTGTTGGAT 59.477 57.895 7.64 0.00 0.00 3.41
129 130 2.656069 GGGCGCTAGGACTGTTGGA 61.656 63.158 7.64 0.00 0.00 3.53
130 131 2.125106 GGGCGCTAGGACTGTTGG 60.125 66.667 7.64 0.00 0.00 3.77
131 132 2.509336 CGGGCGCTAGGACTGTTG 60.509 66.667 7.64 0.00 0.00 3.33
135 136 1.455959 AATCTCGGGCGCTAGGACT 60.456 57.895 7.64 0.00 0.00 3.85
138 139 2.663188 GCAATCTCGGGCGCTAGG 60.663 66.667 7.64 0.00 0.00 3.02
144 145 1.230324 GTATCTTGGCAATCTCGGGC 58.770 55.000 0.00 0.00 0.00 6.13
145 146 2.620251 TGTATCTTGGCAATCTCGGG 57.380 50.000 0.00 0.00 0.00 5.14
150 151 7.938715 AGAATTGAGATTGTATCTTGGCAATC 58.061 34.615 0.00 8.66 46.65 2.67
189 190 4.242475 GTCATTTGGACGACAGTATGTGA 58.758 43.478 0.00 0.00 43.72 3.58
201 202 0.796312 ATGCGTCACGTCATTTGGAC 59.204 50.000 0.00 0.00 43.36 4.02
208 209 1.731613 GTTCGGATGCGTCACGTCA 60.732 57.895 6.49 0.00 35.86 4.35
223 224 2.604969 TTTTCAATAGCACGCCGTTC 57.395 45.000 0.00 0.00 0.00 3.95
247 248 6.127897 ACAGGCTTGCTTTGTGTAATTCTATC 60.128 38.462 0.00 0.00 0.00 2.08
268 269 5.689383 TTTCCAAAAAGAAGATCGACAGG 57.311 39.130 0.00 0.00 0.00 4.00
272 273 7.510549 ACTTGATTTCCAAAAAGAAGATCGA 57.489 32.000 0.00 0.00 33.76 3.59
277 278 6.198966 CCACGAACTTGATTTCCAAAAAGAAG 59.801 38.462 0.00 0.00 33.76 2.85
280 281 5.587289 TCCACGAACTTGATTTCCAAAAAG 58.413 37.500 0.00 0.00 33.76 2.27
286 287 6.584942 GGTAAATTTCCACGAACTTGATTTCC 59.415 38.462 0.00 0.00 0.00 3.13
288 289 6.146898 CGGTAAATTTCCACGAACTTGATTT 58.853 36.000 0.00 0.00 0.00 2.17
292 295 4.477302 ACGGTAAATTTCCACGAACTTG 57.523 40.909 13.68 0.00 0.00 3.16
300 303 6.440436 GTTAAGAAGCAACGGTAAATTTCCA 58.560 36.000 0.00 0.00 0.00 3.53
301 304 5.860182 GGTTAAGAAGCAACGGTAAATTTCC 59.140 40.000 0.00 0.00 0.00 3.13
308 311 1.698532 TGGGGTTAAGAAGCAACGGTA 59.301 47.619 0.00 0.00 0.00 4.02
316 322 5.897377 ACGAATGATTTGGGGTTAAGAAG 57.103 39.130 0.00 0.00 0.00 2.85
345 351 3.489059 GCTCTGAGAAGCAGCTAGTACTG 60.489 52.174 9.28 0.00 44.52 2.74
349 355 1.554836 TGCTCTGAGAAGCAGCTAGT 58.445 50.000 9.28 0.00 47.00 2.57
360 366 2.099431 GCGTGCCTTCTGCTCTGAG 61.099 63.158 0.00 0.00 42.00 3.35
372 378 3.138798 TAGAGACCCGAGCGTGCC 61.139 66.667 0.00 0.00 0.00 5.01
373 379 2.102553 GTAGAGACCCGAGCGTGC 59.897 66.667 0.00 0.00 0.00 5.34
395 408 1.224069 CGGCGATATTCTGGTGGCTG 61.224 60.000 0.00 0.00 0.00 4.85
428 441 4.226620 GGTTAGTGGAGAGTAATTTGGGGA 59.773 45.833 0.00 0.00 0.00 4.81
432 445 4.081309 TCGGGGTTAGTGGAGAGTAATTTG 60.081 45.833 0.00 0.00 0.00 2.32
518 541 0.598065 AATTTCTTCGGCACACAGGC 59.402 50.000 0.00 0.00 39.93 4.85
519 542 3.334691 TCTAATTTCTTCGGCACACAGG 58.665 45.455 0.00 0.00 0.00 4.00
520 543 3.181516 GCTCTAATTTCTTCGGCACACAG 60.182 47.826 0.00 0.00 0.00 3.66
521 544 2.742053 GCTCTAATTTCTTCGGCACACA 59.258 45.455 0.00 0.00 0.00 3.72
522 545 2.742053 TGCTCTAATTTCTTCGGCACAC 59.258 45.455 0.00 0.00 0.00 3.82
523 546 3.052455 TGCTCTAATTTCTTCGGCACA 57.948 42.857 0.00 0.00 0.00 4.57
524 547 3.725010 CGTTGCTCTAATTTCTTCGGCAC 60.725 47.826 0.00 0.00 0.00 5.01
525 548 2.415168 CGTTGCTCTAATTTCTTCGGCA 59.585 45.455 0.00 0.00 0.00 5.69
526 549 2.788065 GCGTTGCTCTAATTTCTTCGGC 60.788 50.000 0.00 0.00 0.00 5.54
530 553 3.368236 GTCTCGCGTTGCTCTAATTTCTT 59.632 43.478 5.77 0.00 0.00 2.52
596 619 0.684153 CTGGATTTGGGGTCGGCATT 60.684 55.000 0.00 0.00 0.00 3.56
598 621 2.354729 CTGGATTTGGGGTCGGCA 59.645 61.111 0.00 0.00 0.00 5.69
658 685 1.456705 TGGTTTGGTTGGGTCTGGC 60.457 57.895 0.00 0.00 0.00 4.85
660 687 1.318576 GTCTGGTTTGGTTGGGTCTG 58.681 55.000 0.00 0.00 0.00 3.51
661 688 0.185175 GGTCTGGTTTGGTTGGGTCT 59.815 55.000 0.00 0.00 0.00 3.85
662 689 0.106419 TGGTCTGGTTTGGTTGGGTC 60.106 55.000 0.00 0.00 0.00 4.46
666 693 2.167662 GGGTATGGTCTGGTTTGGTTG 58.832 52.381 0.00 0.00 0.00 3.77
672 699 1.286248 GACTGGGGTATGGTCTGGTT 58.714 55.000 0.00 0.00 0.00 3.67
686 713 1.215647 GCTCCACCACTACGACTGG 59.784 63.158 0.00 0.00 34.62 4.00
689 716 0.171455 CTCTGCTCCACCACTACGAC 59.829 60.000 0.00 0.00 0.00 4.34
708 735 2.894387 GATCCGGCTCTGCACTGC 60.894 66.667 0.00 0.00 0.00 4.40
709 736 2.584418 CGATCCGGCTCTGCACTG 60.584 66.667 3.43 0.00 0.00 3.66
710 737 3.842923 CCGATCCGGCTCTGCACT 61.843 66.667 3.43 0.00 41.17 4.40
728 755 1.142185 TCGCTCGAGTACGACTACGG 61.142 60.000 15.13 0.00 43.81 4.02
729 756 0.226734 CTCGCTCGAGTACGACTACG 59.773 60.000 15.13 6.39 43.81 3.51
740 767 2.532256 GCCTACGCTACTCGCTCGA 61.532 63.158 0.00 0.00 43.23 4.04
741 768 2.052060 GCCTACGCTACTCGCTCG 60.052 66.667 0.00 0.00 43.23 5.03
742 769 1.493950 TACGCCTACGCTACTCGCTC 61.494 60.000 0.00 0.00 45.53 5.03
817 864 2.239681 TGGTTTCTCCTCCTCCTCTC 57.760 55.000 0.00 0.00 37.07 3.20
818 865 2.723530 TTGGTTTCTCCTCCTCCTCT 57.276 50.000 0.00 0.00 37.07 3.69
879 926 3.798511 GGGAAAGCGGGAGGGGAG 61.799 72.222 0.00 0.00 0.00 4.30
880 927 4.667935 TGGGAAAGCGGGAGGGGA 62.668 66.667 0.00 0.00 0.00 4.81
886 933 4.740822 CCTGGGTGGGAAAGCGGG 62.741 72.222 0.00 0.00 0.00 6.13
910 957 4.767892 CTCCCTCCCTTGGCCCCT 62.768 72.222 0.00 0.00 0.00 4.79
915 962 2.547595 TTTGGGCTCCCTCCCTTGG 61.548 63.158 6.50 0.00 46.67 3.61
918 965 1.368268 TTTGTTTGGGCTCCCTCCCT 61.368 55.000 6.50 0.00 46.67 4.20
920 967 1.419381 TTTTTGTTTGGGCTCCCTCC 58.581 50.000 6.50 0.00 36.94 4.30
940 997 1.852626 CCCTTCTTCCCCTGGTGGT 60.853 63.158 0.00 0.00 0.00 4.16
942 999 0.777446 TTTCCCTTCTTCCCCTGGTG 59.223 55.000 0.00 0.00 0.00 4.17
943 1000 1.076438 CTTTCCCTTCTTCCCCTGGT 58.924 55.000 0.00 0.00 0.00 4.00
945 1002 1.705186 TGTCTTTCCCTTCTTCCCCTG 59.295 52.381 0.00 0.00 0.00 4.45
965 1022 1.078072 TTTGGTCACAGTGGCGTGT 60.078 52.632 0.00 0.00 38.12 4.49
1390 1457 1.869452 AGTCCTCCTCCCCCTCCTT 60.869 63.158 0.00 0.00 0.00 3.36
1560 1636 2.874780 CGGAGCAGCGTGTCGTAC 60.875 66.667 0.00 0.00 0.00 3.67
1588 1664 1.797933 CCTTGCTCTCGTCGTCGTG 60.798 63.158 1.33 0.00 38.33 4.35
1628 1711 1.947456 AGCGCTTTTCTCGTTCCTTTT 59.053 42.857 2.64 0.00 0.00 2.27
1665 1753 0.317938 GATCATCGGAAGACGGACCG 60.318 60.000 13.61 13.61 46.97 4.79
1686 1774 4.617959 TCTAACAAAGAGAGAACACCACG 58.382 43.478 0.00 0.00 0.00 4.94
1763 1852 7.979444 ATCGAATCAAAGTGGTAAGAAGAAA 57.021 32.000 0.00 0.00 0.00 2.52
1769 1858 7.770801 TCACATATCGAATCAAAGTGGTAAG 57.229 36.000 0.00 0.00 0.00 2.34
1770 1859 8.731275 ATTCACATATCGAATCAAAGTGGTAA 57.269 30.769 0.00 0.00 0.00 2.85
1771 1860 9.825109 TTATTCACATATCGAATCAAAGTGGTA 57.175 29.630 0.00 0.00 34.89 3.25
1800 1889 0.926846 GCTCGCAGCTTACATGACTC 59.073 55.000 0.00 0.00 38.45 3.36
1967 2057 7.068470 TGCAATAGCCATACAGATTTGAAATGA 59.932 33.333 0.00 0.00 41.13 2.57
2010 2100 3.876341 TGATGCTTGCTACATGTGATGA 58.124 40.909 9.11 0.00 0.00 2.92
2016 2106 6.555812 AGTATTCATGATGCTTGCTACATG 57.444 37.500 18.24 18.24 40.65 3.21
2040 2130 7.231317 TGCATCTTAAAACTTTGAGACAATCCT 59.769 33.333 0.00 0.00 35.92 3.24
2041 2131 7.327032 GTGCATCTTAAAACTTTGAGACAATCC 59.673 37.037 0.00 0.00 35.92 3.01
2042 2132 7.862372 TGTGCATCTTAAAACTTTGAGACAATC 59.138 33.333 0.00 0.00 35.92 2.67
2043 2133 7.715657 TGTGCATCTTAAAACTTTGAGACAAT 58.284 30.769 0.00 0.00 35.92 2.71
2046 2136 7.985634 TTTGTGCATCTTAAAACTTTGAGAC 57.014 32.000 0.00 0.00 35.92 3.36
2155 2257 6.309980 CACAAACTTAGATGAGACAGCAGTAG 59.690 42.308 0.00 0.00 0.00 2.57
2194 2296 4.081917 TGTGACCATGCTACGTATTCTTCA 60.082 41.667 0.00 0.00 0.00 3.02
2204 2306 0.804989 GGCACTTGTGACCATGCTAC 59.195 55.000 4.79 0.00 38.18 3.58
2271 2374 7.259290 TCGGTTAGAAATTTCAGATAATGCC 57.741 36.000 19.99 7.75 0.00 4.40
2357 2464 5.402270 GCAAAACCATTGATATAACATCGGC 59.598 40.000 0.00 0.00 0.00 5.54
2437 2544 7.779798 AGGATATTGCTTCAAGCCTACAAAATA 59.220 33.333 7.01 3.57 41.51 1.40
2480 2587 5.765182 CACTTGACAAAAGGGTCTACATTCT 59.235 40.000 0.00 0.00 38.61 2.40
2552 2667 1.594862 GGATGAGCATAACACGTCTGC 59.405 52.381 0.00 0.00 36.15 4.26
2563 2678 2.089980 GTCAAGCACAAGGATGAGCAT 58.910 47.619 1.38 0.00 44.47 3.79


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

AutoCloner maintained by Alex Coulton.