Multiple sequence alignment - TraesCS3D01G184800

Loading Multiple Alignment...

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 TraesCS3D01G184800 chr3D 100.000 3862 0 0 1 3862 170555613 170551752 0.000000e+00 7132
1 TraesCS3D01G184800 chr3D 94.558 147 4 2 8 150 576210707 576210561 1.400000e-54 224
2 TraesCS3D01G184800 chr3D 95.714 140 2 2 9 144 571857035 571857174 5.020000e-54 222
3 TraesCS3D01G184800 chr3D 90.625 160 10 5 3354 3512 73853240 73853085 1.410000e-49 207
4 TraesCS3D01G184800 chr3D 91.096 146 5 4 9 146 77324105 77324250 1.420000e-44 191
5 TraesCS3D01G184800 chr3B 93.791 2126 104 14 1756 3860 245948373 245946255 0.000000e+00 3169
6 TraesCS3D01G184800 chr3B 89.669 1026 70 11 764 1756 245949501 245948479 0.000000e+00 1275
7 TraesCS3D01G184800 chr3B 85.714 364 18 13 306 639 245949990 245949631 1.710000e-93 353
8 TraesCS3D01G184800 chr3B 89.349 169 16 1 3355 3523 245935461 245935627 1.090000e-50 211
9 TraesCS3D01G184800 chr3B 95.192 104 3 1 646 747 245949588 245949485 3.090000e-36 163
10 TraesCS3D01G184800 chr3A 95.414 1679 54 13 1756 3427 208082054 208080392 0.000000e+00 2652
11 TraesCS3D01G184800 chr3A 92.344 1071 50 17 764 1810 208083236 208082174 0.000000e+00 1495
12 TraesCS3D01G184800 chr3A 97.076 342 9 1 3521 3862 208077994 208077654 3.350000e-160 575
13 TraesCS3D01G184800 chr3A 93.772 289 12 3 465 747 208083508 208083220 2.760000e-116 429
14 TraesCS3D01G184800 chr3A 89.614 337 13 6 147 483 208083835 208083521 3.590000e-110 409
15 TraesCS3D01G184800 chr2D 95.714 140 2 2 9 144 563801131 563800992 5.020000e-54 222
16 TraesCS3D01G184800 chr2D 95.652 138 2 2 13 146 136830729 136830592 6.500000e-53 219
17 TraesCS3D01G184800 chr2D 90.517 116 5 4 9 120 89199297 89199410 8.640000e-32 148
18 TraesCS3D01G184800 chr2D 93.590 78 1 3 9 82 50951555 50951478 3.150000e-21 113
19 TraesCS3D01G184800 chr1A 90.798 163 13 2 3347 3509 395177609 395177449 2.340000e-52 217
20 TraesCS3D01G184800 chr4D 90.683 161 12 2 3351 3510 74079347 74079505 1.090000e-50 211
21 TraesCS3D01G184800 chr5D 90.683 161 10 5 3354 3512 175299903 175300060 3.910000e-50 209
22 TraesCS3D01G184800 chr5D 89.697 165 13 2 3355 3519 528717278 528717438 1.410000e-49 207
23 TraesCS3D01G184800 chr5D 92.857 140 6 2 9 144 223229351 223229212 2.350000e-47 200
24 TraesCS3D01G184800 chr5B 89.697 165 13 2 3355 3519 665744469 665744629 1.410000e-49 207
25 TraesCS3D01G184800 chr5A 89.697 165 13 2 3355 3519 656872285 656872445 1.410000e-49 207
26 TraesCS3D01G184800 chr7A 93.007 143 6 2 7 145 732909401 732909259 5.060000e-49 206
27 TraesCS3D01G184800 chr6D 90.780 141 9 2 9 145 32365114 32365254 6.590000e-43 185


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 TraesCS3D01G184800 chr3D 170551752 170555613 3861 True 7132 7132 100.0000 1 3862 1 chr3D.!!$R2 3861
1 TraesCS3D01G184800 chr3B 245946255 245949990 3735 True 1240 3169 91.0915 306 3860 4 chr3B.!!$R1 3554
2 TraesCS3D01G184800 chr3A 208077654 208083835 6181 True 1112 2652 93.6440 147 3862 5 chr3A.!!$R1 3715

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
70 71 0.028242 ACGACATGATCTCGCTCGTC 59.972 55.000 0.00 0.0 32.22 4.20 F
90 91 0.101399 CTACTGATCGAACGGCTGCT 59.899 55.000 0.73 0.0 0.00 4.24 F
1210 1317 0.173481 CGTCCTGAAGAAGGCGATCA 59.827 55.000 0.00 0.0 46.92 2.92 F
1960 2395 1.271871 CCTCCACCCAATGCAACACTA 60.272 52.381 0.00 0.0 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1588 1720 0.111061 TGTGTGGGCATGCTTCTTCT 59.889 50.000 18.92 0.0 0.0 2.85 R
1885 2320 2.059756 TTGAATCCCTCCTTCCCAGT 57.940 50.000 0.00 0.0 0.0 4.00 R
2308 2751 0.037046 GGTTTCAAGGCCTGCAATGG 60.037 55.000 5.69 0.0 0.0 3.16 R
2873 3317 1.962807 TCACAAGCAAAGGAACCCATG 59.037 47.619 0.00 0.0 0.0 3.66 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
21 22 2.617250 TGTGATCGAAATTGCTGTGC 57.383 45.000 0.00 0.00 0.00 4.57
22 23 1.878734 TGTGATCGAAATTGCTGTGCA 59.121 42.857 0.00 0.00 36.47 4.57
23 24 2.488937 TGTGATCGAAATTGCTGTGCAT 59.511 40.909 0.00 0.00 38.76 3.96
24 25 3.688673 TGTGATCGAAATTGCTGTGCATA 59.311 39.130 0.00 0.00 38.76 3.14
25 26 4.336153 TGTGATCGAAATTGCTGTGCATAT 59.664 37.500 0.00 0.00 38.76 1.78
26 27 4.673761 GTGATCGAAATTGCTGTGCATATG 59.326 41.667 0.00 0.00 38.76 1.78
27 28 4.575645 TGATCGAAATTGCTGTGCATATGA 59.424 37.500 6.97 0.00 38.76 2.15
28 29 5.239963 TGATCGAAATTGCTGTGCATATGAT 59.760 36.000 6.97 0.00 38.76 2.45
29 30 4.851010 TCGAAATTGCTGTGCATATGATG 58.149 39.130 6.97 0.00 38.76 3.07
30 31 4.575645 TCGAAATTGCTGTGCATATGATGA 59.424 37.500 6.97 0.00 38.76 2.92
31 32 5.066246 TCGAAATTGCTGTGCATATGATGAA 59.934 36.000 6.97 0.00 38.76 2.57
32 33 5.172591 CGAAATTGCTGTGCATATGATGAAC 59.827 40.000 6.97 0.00 38.76 3.18
33 34 5.585820 AATTGCTGTGCATATGATGAACA 57.414 34.783 6.97 4.07 46.41 3.18
38 39 2.352342 TGTGCATATGATGAACAGTGCG 59.648 45.455 6.97 0.00 43.79 5.34
39 40 2.352651 GTGCATATGATGAACAGTGCGT 59.647 45.455 6.97 0.00 42.76 5.24
40 41 3.555547 GTGCATATGATGAACAGTGCGTA 59.444 43.478 6.97 0.00 42.76 4.42
41 42 3.555547 TGCATATGATGAACAGTGCGTAC 59.444 43.478 6.97 0.00 42.76 3.67
42 43 3.362014 GCATATGATGAACAGTGCGTACG 60.362 47.826 11.84 11.84 35.52 3.67
43 44 2.647529 ATGATGAACAGTGCGTACGA 57.352 45.000 21.65 0.80 0.00 3.43
44 45 2.647529 TGATGAACAGTGCGTACGAT 57.352 45.000 21.65 0.00 0.00 3.73
45 46 2.954316 TGATGAACAGTGCGTACGATT 58.046 42.857 21.65 4.14 0.00 3.34
46 47 3.322369 TGATGAACAGTGCGTACGATTT 58.678 40.909 21.65 3.15 0.00 2.17
47 48 3.743911 TGATGAACAGTGCGTACGATTTT 59.256 39.130 21.65 3.00 0.00 1.82
48 49 3.781341 TGAACAGTGCGTACGATTTTC 57.219 42.857 21.65 12.53 0.00 2.29
49 50 2.154198 TGAACAGTGCGTACGATTTTCG 59.846 45.455 21.65 3.87 46.93 3.46
63 64 5.225619 CGATTTTCGTACGACATGATCTC 57.774 43.478 19.36 7.19 34.72 2.75
64 65 4.144007 CGATTTTCGTACGACATGATCTCG 60.144 45.833 19.36 14.64 34.72 4.04
65 66 2.101053 TTCGTACGACATGATCTCGC 57.899 50.000 19.36 0.00 34.34 5.03
66 67 1.296727 TCGTACGACATGATCTCGCT 58.703 50.000 15.28 0.00 34.34 4.93
67 68 1.260825 TCGTACGACATGATCTCGCTC 59.739 52.381 15.28 0.00 34.34 5.03
68 69 1.664629 GTACGACATGATCTCGCTCG 58.335 55.000 0.00 0.00 34.34 5.03
69 70 1.003759 GTACGACATGATCTCGCTCGT 60.004 52.381 0.00 5.02 40.51 4.18
70 71 0.028242 ACGACATGATCTCGCTCGTC 59.972 55.000 0.00 0.00 32.22 4.20
71 72 0.658829 CGACATGATCTCGCTCGTCC 60.659 60.000 0.00 0.00 0.00 4.79
72 73 0.665835 GACATGATCTCGCTCGTCCT 59.334 55.000 0.00 0.00 0.00 3.85
73 74 1.874231 GACATGATCTCGCTCGTCCTA 59.126 52.381 0.00 0.00 0.00 2.94
74 75 1.604755 ACATGATCTCGCTCGTCCTAC 59.395 52.381 0.00 0.00 0.00 3.18
75 76 1.876799 CATGATCTCGCTCGTCCTACT 59.123 52.381 0.00 0.00 0.00 2.57
76 77 1.300481 TGATCTCGCTCGTCCTACTG 58.700 55.000 0.00 0.00 0.00 2.74
77 78 1.134491 TGATCTCGCTCGTCCTACTGA 60.134 52.381 0.00 0.00 0.00 3.41
78 79 2.147958 GATCTCGCTCGTCCTACTGAT 58.852 52.381 0.00 0.00 0.00 2.90
79 80 1.584175 TCTCGCTCGTCCTACTGATC 58.416 55.000 0.00 0.00 0.00 2.92
80 81 0.233590 CTCGCTCGTCCTACTGATCG 59.766 60.000 0.00 0.00 0.00 3.69
81 82 0.179092 TCGCTCGTCCTACTGATCGA 60.179 55.000 0.00 0.00 0.00 3.59
82 83 0.656259 CGCTCGTCCTACTGATCGAA 59.344 55.000 0.00 0.00 32.12 3.71
83 84 1.595003 CGCTCGTCCTACTGATCGAAC 60.595 57.143 0.00 0.00 32.12 3.95
84 85 1.595003 GCTCGTCCTACTGATCGAACG 60.595 57.143 0.00 0.00 32.12 3.95
85 86 1.003759 CTCGTCCTACTGATCGAACGG 60.004 57.143 0.00 0.00 32.12 4.44
86 87 0.591741 CGTCCTACTGATCGAACGGC 60.592 60.000 0.73 0.00 0.00 5.68
87 88 0.739561 GTCCTACTGATCGAACGGCT 59.260 55.000 0.73 0.00 0.00 5.52
88 89 0.738975 TCCTACTGATCGAACGGCTG 59.261 55.000 0.73 0.00 0.00 4.85
89 90 0.872021 CCTACTGATCGAACGGCTGC 60.872 60.000 0.73 0.00 0.00 5.25
90 91 0.101399 CTACTGATCGAACGGCTGCT 59.899 55.000 0.73 0.00 0.00 4.24
91 92 0.179137 TACTGATCGAACGGCTGCTG 60.179 55.000 6.98 6.98 0.00 4.41
92 93 1.153765 CTGATCGAACGGCTGCTGA 60.154 57.895 16.72 0.00 0.00 4.26
93 94 1.416813 CTGATCGAACGGCTGCTGAC 61.417 60.000 16.72 7.82 0.00 3.51
94 95 2.125512 ATCGAACGGCTGCTGACC 60.126 61.111 16.72 5.20 0.00 4.02
95 96 2.835701 GATCGAACGGCTGCTGACCA 62.836 60.000 16.72 0.00 0.00 4.02
96 97 3.414700 CGAACGGCTGCTGACCAC 61.415 66.667 16.72 2.58 0.00 4.16
97 98 2.031163 GAACGGCTGCTGACCACT 59.969 61.111 16.72 0.00 0.00 4.00
98 99 2.281070 AACGGCTGCTGACCACTG 60.281 61.111 16.72 0.00 0.00 3.66
99 100 2.996168 GAACGGCTGCTGACCACTGT 62.996 60.000 16.72 0.00 0.00 3.55
100 101 2.740055 CGGCTGCTGACCACTGTC 60.740 66.667 1.17 0.00 42.12 3.51
101 102 2.740055 GGCTGCTGACCACTGTCG 60.740 66.667 0.00 0.00 44.86 4.35
102 103 2.029666 GCTGCTGACCACTGTCGT 59.970 61.111 0.00 0.00 44.86 4.34
103 104 1.289066 GCTGCTGACCACTGTCGTA 59.711 57.895 0.00 0.00 44.86 3.43
104 105 1.009389 GCTGCTGACCACTGTCGTAC 61.009 60.000 0.00 0.00 44.86 3.67
105 106 0.729478 CTGCTGACCACTGTCGTACG 60.729 60.000 9.53 9.53 44.86 3.67
106 107 1.285023 GCTGACCACTGTCGTACGT 59.715 57.895 16.05 0.00 44.86 3.57
107 108 0.518636 GCTGACCACTGTCGTACGTA 59.481 55.000 16.05 5.01 44.86 3.57
108 109 1.727213 GCTGACCACTGTCGTACGTAC 60.727 57.143 15.90 15.90 44.86 3.67
109 110 1.532437 CTGACCACTGTCGTACGTACA 59.468 52.381 24.50 16.08 44.86 2.90
110 111 2.153645 TGACCACTGTCGTACGTACAT 58.846 47.619 24.50 3.62 44.86 2.29
111 112 2.160219 TGACCACTGTCGTACGTACATC 59.840 50.000 24.50 16.25 44.86 3.06
112 113 1.129251 ACCACTGTCGTACGTACATCG 59.871 52.381 24.50 11.75 46.00 3.84
126 127 5.443101 CGTACATCGTACGAAATTAGTCG 57.557 43.478 23.56 15.56 42.94 4.18
136 137 4.650346 CGAAATTAGTCGTACGTGTAGC 57.350 45.455 16.05 2.17 36.26 3.58
137 138 4.090729 CGAAATTAGTCGTACGTGTAGCA 58.909 43.478 16.05 0.00 36.26 3.49
138 139 4.201758 CGAAATTAGTCGTACGTGTAGCAG 59.798 45.833 16.05 0.00 36.26 4.24
139 140 4.691860 AATTAGTCGTACGTGTAGCAGT 57.308 40.909 16.05 0.00 0.00 4.40
140 141 4.691860 ATTAGTCGTACGTGTAGCAGTT 57.308 40.909 16.05 0.00 0.00 3.16
141 142 2.608467 AGTCGTACGTGTAGCAGTTC 57.392 50.000 16.05 0.00 0.00 3.01
142 143 2.149578 AGTCGTACGTGTAGCAGTTCT 58.850 47.619 16.05 0.00 0.00 3.01
143 144 2.159234 AGTCGTACGTGTAGCAGTTCTC 59.841 50.000 16.05 0.00 0.00 2.87
144 145 1.127397 TCGTACGTGTAGCAGTTCTCG 59.873 52.381 16.05 0.00 0.00 4.04
145 146 1.136141 CGTACGTGTAGCAGTTCTCGT 60.136 52.381 7.22 0.00 37.50 4.18
146 147 2.663879 CGTACGTGTAGCAGTTCTCGTT 60.664 50.000 7.22 0.00 35.83 3.85
147 148 2.503920 ACGTGTAGCAGTTCTCGTTT 57.496 45.000 0.00 0.00 31.48 3.60
148 149 2.124903 ACGTGTAGCAGTTCTCGTTTG 58.875 47.619 0.00 0.00 31.48 2.93
149 150 2.124903 CGTGTAGCAGTTCTCGTTTGT 58.875 47.619 0.00 0.00 0.00 2.83
150 151 2.097396 CGTGTAGCAGTTCTCGTTTGTG 60.097 50.000 0.00 0.00 0.00 3.33
151 152 3.120792 GTGTAGCAGTTCTCGTTTGTGA 58.879 45.455 0.00 0.00 0.00 3.58
152 153 3.741344 GTGTAGCAGTTCTCGTTTGTGAT 59.259 43.478 0.00 0.00 0.00 3.06
153 154 4.211374 GTGTAGCAGTTCTCGTTTGTGATT 59.789 41.667 0.00 0.00 0.00 2.57
154 155 4.814234 TGTAGCAGTTCTCGTTTGTGATTT 59.186 37.500 0.00 0.00 0.00 2.17
155 156 4.474226 AGCAGTTCTCGTTTGTGATTTC 57.526 40.909 0.00 0.00 0.00 2.17
156 157 4.130118 AGCAGTTCTCGTTTGTGATTTCT 58.870 39.130 0.00 0.00 0.00 2.52
157 158 4.576463 AGCAGTTCTCGTTTGTGATTTCTT 59.424 37.500 0.00 0.00 0.00 2.52
158 159 4.672413 GCAGTTCTCGTTTGTGATTTCTTG 59.328 41.667 0.00 0.00 0.00 3.02
159 160 4.672413 CAGTTCTCGTTTGTGATTTCTTGC 59.328 41.667 0.00 0.00 0.00 4.01
160 161 4.335315 AGTTCTCGTTTGTGATTTCTTGCA 59.665 37.500 0.00 0.00 0.00 4.08
180 181 3.558109 GCACTTAACTCTCCCAAGAAGCT 60.558 47.826 0.00 0.00 0.00 3.74
186 187 3.907260 CTCCCAAGAAGCTGCGCCA 62.907 63.158 4.18 0.00 0.00 5.69
201 202 2.515523 CCATCGGAAGCAGGCAGG 60.516 66.667 0.00 0.00 0.00 4.85
280 281 1.139058 AGTCAGACACGGCTTGTTTCT 59.861 47.619 2.66 0.00 39.17 2.52
281 282 1.940613 GTCAGACACGGCTTGTTTCTT 59.059 47.619 0.00 0.00 39.17 2.52
282 283 2.032808 GTCAGACACGGCTTGTTTCTTC 60.033 50.000 0.00 0.00 39.17 2.87
283 284 2.158957 TCAGACACGGCTTGTTTCTTCT 60.159 45.455 0.00 0.00 39.17 2.85
284 285 3.069016 TCAGACACGGCTTGTTTCTTCTA 59.931 43.478 0.00 0.00 39.17 2.10
285 286 3.184581 CAGACACGGCTTGTTTCTTCTAC 59.815 47.826 0.00 0.00 39.17 2.59
286 287 3.128349 GACACGGCTTGTTTCTTCTACA 58.872 45.455 0.00 0.00 39.17 2.74
287 288 3.131396 ACACGGCTTGTTTCTTCTACAG 58.869 45.455 0.00 0.00 33.09 2.74
308 309 9.541143 CTACAGTTCTACTAGTAGTACTAACCC 57.459 40.741 30.45 11.44 40.35 4.11
309 310 7.342581 ACAGTTCTACTAGTAGTACTAACCCC 58.657 42.308 30.45 10.87 40.35 4.95
320 321 0.323629 ACTAACCCCCACATGTCGTG 59.676 55.000 0.00 0.00 45.92 4.35
488 523 5.163612 GGTCTCCTCAAAATTACTTGATGCC 60.164 44.000 0.00 0.00 34.86 4.40
500 535 1.474077 CTTGATGCCCTTTTCCTTCCG 59.526 52.381 0.00 0.00 0.00 4.30
616 673 2.527442 GCAGATGCGTTACACTTTCC 57.473 50.000 0.00 0.00 0.00 3.13
676 769 6.127647 CCCATGCACAAACCATATCCATATAC 60.128 42.308 0.00 0.00 0.00 1.47
739 834 4.721776 ACCAATCATAGGAGAAAGTAGGCA 59.278 41.667 0.00 0.00 0.00 4.75
740 835 5.191722 ACCAATCATAGGAGAAAGTAGGCAA 59.808 40.000 0.00 0.00 0.00 4.52
741 836 6.126361 ACCAATCATAGGAGAAAGTAGGCAAT 60.126 38.462 0.00 0.00 0.00 3.56
742 837 6.206243 CCAATCATAGGAGAAAGTAGGCAATG 59.794 42.308 0.00 0.00 0.00 2.82
743 838 5.296151 TCATAGGAGAAAGTAGGCAATGG 57.704 43.478 0.00 0.00 0.00 3.16
744 839 4.721776 TCATAGGAGAAAGTAGGCAATGGT 59.278 41.667 0.00 0.00 0.00 3.55
745 840 5.191722 TCATAGGAGAAAGTAGGCAATGGTT 59.808 40.000 0.00 0.00 0.00 3.67
746 841 4.388577 AGGAGAAAGTAGGCAATGGTTT 57.611 40.909 0.00 0.00 0.00 3.27
747 842 4.740902 AGGAGAAAGTAGGCAATGGTTTT 58.259 39.130 0.00 0.00 0.00 2.43
748 843 4.767409 AGGAGAAAGTAGGCAATGGTTTTC 59.233 41.667 0.00 0.00 0.00 2.29
749 844 4.082190 GGAGAAAGTAGGCAATGGTTTTCC 60.082 45.833 0.00 0.00 41.14 3.13
750 845 4.740902 AGAAAGTAGGCAATGGTTTTCCT 58.259 39.130 0.00 0.00 41.38 3.36
751 846 4.767409 AGAAAGTAGGCAATGGTTTTCCTC 59.233 41.667 0.00 0.00 41.38 3.71
752 847 2.711542 AGTAGGCAATGGTTTTCCTCG 58.288 47.619 0.00 0.00 41.38 4.63
753 848 1.132453 GTAGGCAATGGTTTTCCTCGC 59.868 52.381 0.00 0.00 41.38 5.03
754 849 0.539438 AGGCAATGGTTTTCCTCGCA 60.539 50.000 0.00 0.00 41.38 5.10
755 850 0.316841 GGCAATGGTTTTCCTCGCAA 59.683 50.000 0.00 0.00 41.38 4.85
756 851 1.270041 GGCAATGGTTTTCCTCGCAAA 60.270 47.619 0.00 0.00 41.38 3.68
757 852 2.478831 GCAATGGTTTTCCTCGCAAAA 58.521 42.857 0.00 0.00 41.38 2.44
758 853 2.869192 GCAATGGTTTTCCTCGCAAAAA 59.131 40.909 0.00 0.00 41.38 1.94
786 881 5.959618 AAGTAGGCAATGGTTTAGAACAC 57.040 39.130 0.00 0.00 0.00 3.32
807 902 6.045318 ACACGAGATAGTGGAAAATGATCAG 58.955 40.000 0.09 0.00 45.80 2.90
826 921 5.767816 TCAGGGAACTAAAACAAAAGCTC 57.232 39.130 0.00 0.00 40.21 4.09
999 1101 2.572191 GCAGCATTGCATCAAAGCTA 57.428 45.000 11.91 0.00 44.72 3.32
1032 1139 2.042259 CAAGAGATGCCTTGGCGCA 61.042 57.895 10.83 0.00 44.35 6.09
1039 1146 2.751436 GCCTTGGCGCAATCCTCA 60.751 61.111 10.83 0.00 0.00 3.86
1112 1219 1.678970 GTGAGGGTGCCCATCCAAC 60.679 63.158 10.26 0.00 38.92 3.77
1209 1316 0.528684 CCGTCCTGAAGAAGGCGATC 60.529 60.000 8.96 0.00 46.92 3.69
1210 1317 0.173481 CGTCCTGAAGAAGGCGATCA 59.827 55.000 0.00 0.00 46.92 2.92
1257 1364 2.431454 CTTCTCAGGCTCCTTTTCCAC 58.569 52.381 0.00 0.00 0.00 4.02
1339 1470 5.514274 AAACAACATTCCTACAACCACAG 57.486 39.130 0.00 0.00 0.00 3.66
1380 1511 4.433186 TTGTGCATTTCCTTGATAACCG 57.567 40.909 0.00 0.00 0.00 4.44
1414 1545 2.743636 TCAGCTGCTACTACAACCAC 57.256 50.000 9.47 0.00 0.00 4.16
1582 1714 7.936950 TGAAGTCATAGATGAGATTAAAGCG 57.063 36.000 0.00 0.00 37.51 4.68
1588 1720 4.672587 AGATGAGATTAAAGCGGCACTA 57.327 40.909 1.45 0.00 0.00 2.74
1672 1804 7.280205 GGTTCAACAGTATTGGTAAGTATCTGG 59.720 40.741 0.00 0.00 0.00 3.86
1749 1881 2.493675 TGCTAGACTGCTTCTGTAGTGG 59.506 50.000 0.00 0.00 39.21 4.00
1960 2395 1.271871 CCTCCACCCAATGCAACACTA 60.272 52.381 0.00 0.00 0.00 2.74
2047 2484 7.981142 GGTATATCACCTTTTCAATGTTCGAA 58.019 34.615 0.00 0.00 44.79 3.71
2048 2485 8.122952 GGTATATCACCTTTTCAATGTTCGAAG 58.877 37.037 0.00 0.00 44.79 3.79
2049 2486 7.687941 ATATCACCTTTTCAATGTTCGAAGT 57.312 32.000 0.00 0.00 0.00 3.01
2083 2522 8.898983 TTTGAGGTAAAGTCGTAAAACAAAAG 57.101 30.769 0.00 0.00 0.00 2.27
2198 2641 6.403866 AACATGCAGTGGATAAACAAAAGA 57.596 33.333 0.00 0.00 0.00 2.52
2243 2686 1.280133 TGCTGGAAAGAGATGACTGGG 59.720 52.381 0.00 0.00 0.00 4.45
2266 2709 8.308207 TGGGACAACATAAAAGTAATAAAAGGC 58.692 33.333 0.00 0.00 31.92 4.35
2308 2751 8.421784 TCATATTAGGTGTTCCAGTTAGATCAC 58.578 37.037 0.00 0.00 36.27 3.06
2386 2829 1.070134 GATACCGCTGGCCAAGTATCA 59.930 52.381 28.70 9.33 40.41 2.15
2396 2839 1.945394 GCCAAGTATCAGGTCAGCATG 59.055 52.381 0.00 0.00 37.54 4.06
2693 3137 4.437682 TTCAGATCAGGTTTTGTGGACT 57.562 40.909 0.00 0.00 0.00 3.85
2766 3210 5.741011 AGTCCTTGTTCTTTGAACACTACA 58.259 37.500 11.99 0.00 0.00 2.74
2873 3317 3.128349 TGTTCGCTAGTCAACAAGTTCC 58.872 45.455 6.25 0.00 29.43 3.62
2934 3378 9.590451 CATTTAAATGTCATCCTGCTAATGTTT 57.410 29.630 18.32 0.00 0.00 2.83
3066 3515 4.685169 TTTCGATGGAAGATGCAAAGAC 57.315 40.909 0.00 0.00 32.80 3.01
3199 3649 6.694411 CACAAAACTAAGCATGGCTCATATTC 59.306 38.462 0.00 0.00 38.25 1.75
3427 3877 7.080099 TCGGATGTATATAGACACGTTTTAGC 58.920 38.462 1.52 0.00 30.52 3.09
3429 3879 6.183359 GGATGTATATAGACACGTTTTAGCGC 60.183 42.308 1.52 0.00 34.88 5.92
3433 3883 0.932399 AGACACGTTTTAGCGCGTTT 59.068 45.000 8.43 0.00 39.48 3.60
3451 3902 4.527564 CGTTTGTTCACTCATTTCAGTCC 58.472 43.478 0.00 0.00 0.00 3.85
3452 3903 4.035091 CGTTTGTTCACTCATTTCAGTCCA 59.965 41.667 0.00 0.00 0.00 4.02
3504 4397 6.650120 ACATCTTATATTTGTGAACGGAGGT 58.350 36.000 0.00 0.00 0.00 3.85
3513 4406 3.614092 TGTGAACGGAGGTAGTAGTAGG 58.386 50.000 0.00 0.00 0.00 3.18
3686 6439 4.900635 TGTTTTCAAGAGAGCTTCCAAC 57.099 40.909 0.00 0.00 30.14 3.77
3752 6505 6.610075 AAAATAAAACCTGATGCTCCACAT 57.390 33.333 0.00 0.00 43.54 3.21
3844 6599 6.581370 CACATAAGTCAGAACTGTAAACACG 58.419 40.000 1.73 0.00 35.36 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.878734 TGCACAGCAATTTCGATCACA 59.121 42.857 0.00 0.00 34.76 3.58
3 4 2.617250 TGCACAGCAATTTCGATCAC 57.383 45.000 0.00 0.00 34.76 3.06
4 5 4.575645 TCATATGCACAGCAATTTCGATCA 59.424 37.500 0.00 0.00 43.62 2.92
5 6 5.099484 TCATATGCACAGCAATTTCGATC 57.901 39.130 0.00 0.00 43.62 3.69
8 9 4.851010 TCATCATATGCACAGCAATTTCG 58.149 39.130 0.00 0.00 43.62 3.46
9 10 6.037726 TGTTCATCATATGCACAGCAATTTC 58.962 36.000 0.00 0.00 43.62 2.17
10 11 5.968254 TGTTCATCATATGCACAGCAATTT 58.032 33.333 0.00 0.00 43.62 1.82
11 12 5.585820 TGTTCATCATATGCACAGCAATT 57.414 34.783 0.00 0.00 43.62 2.32
12 13 5.183014 CTGTTCATCATATGCACAGCAAT 57.817 39.130 6.73 0.00 44.88 3.56
13 14 4.625972 CTGTTCATCATATGCACAGCAA 57.374 40.909 6.73 0.00 44.88 3.91
17 18 2.352342 CGCACTGTTCATCATATGCACA 59.648 45.455 0.00 0.00 37.69 4.57
18 19 2.352651 ACGCACTGTTCATCATATGCAC 59.647 45.455 0.00 0.00 37.69 4.57
19 20 2.631267 ACGCACTGTTCATCATATGCA 58.369 42.857 0.00 0.00 37.69 3.96
20 21 3.362014 CGTACGCACTGTTCATCATATGC 60.362 47.826 0.52 0.00 35.80 3.14
21 22 4.041723 TCGTACGCACTGTTCATCATATG 58.958 43.478 11.24 0.00 0.00 1.78
22 23 4.301637 TCGTACGCACTGTTCATCATAT 57.698 40.909 11.24 0.00 0.00 1.78
23 24 3.768468 TCGTACGCACTGTTCATCATA 57.232 42.857 11.24 0.00 0.00 2.15
24 25 2.647529 TCGTACGCACTGTTCATCAT 57.352 45.000 11.24 0.00 0.00 2.45
25 26 2.647529 ATCGTACGCACTGTTCATCA 57.352 45.000 11.24 0.00 0.00 3.07
26 27 3.991605 AAATCGTACGCACTGTTCATC 57.008 42.857 11.24 0.00 0.00 2.92
27 28 3.181534 CGAAAATCGTACGCACTGTTCAT 60.182 43.478 11.24 0.00 34.72 2.57
28 29 2.154198 CGAAAATCGTACGCACTGTTCA 59.846 45.455 11.24 0.00 34.72 3.18
29 30 2.743172 CGAAAATCGTACGCACTGTTC 58.257 47.619 11.24 7.64 34.72 3.18
30 31 2.848562 CGAAAATCGTACGCACTGTT 57.151 45.000 11.24 0.00 34.72 3.16
41 42 4.144007 CGAGATCATGTCGTACGAAAATCG 60.144 45.833 21.39 17.26 38.03 3.34
42 43 4.374112 GCGAGATCATGTCGTACGAAAATC 60.374 45.833 21.39 15.11 39.69 2.17
43 44 3.486108 GCGAGATCATGTCGTACGAAAAT 59.514 43.478 21.39 13.93 39.69 1.82
44 45 2.850060 GCGAGATCATGTCGTACGAAAA 59.150 45.455 21.39 12.05 39.69 2.29
45 46 2.096980 AGCGAGATCATGTCGTACGAAA 59.903 45.455 21.39 16.34 39.69 3.46
46 47 1.669265 AGCGAGATCATGTCGTACGAA 59.331 47.619 21.39 10.90 39.69 3.85
47 48 1.260825 GAGCGAGATCATGTCGTACGA 59.739 52.381 15.28 15.28 39.69 3.43
48 49 1.664629 GAGCGAGATCATGTCGTACG 58.335 55.000 9.53 9.53 39.69 3.67
49 50 1.003759 ACGAGCGAGATCATGTCGTAC 60.004 52.381 6.02 0.00 41.82 3.67
50 51 1.260825 GACGAGCGAGATCATGTCGTA 59.739 52.381 6.02 0.00 43.55 3.43
51 52 0.028242 GACGAGCGAGATCATGTCGT 59.972 55.000 6.02 10.89 46.02 4.34
52 53 0.658829 GGACGAGCGAGATCATGTCG 60.659 60.000 0.00 0.00 40.50 4.35
53 54 0.665835 AGGACGAGCGAGATCATGTC 59.334 55.000 0.00 0.00 0.00 3.06
54 55 1.604755 GTAGGACGAGCGAGATCATGT 59.395 52.381 0.00 0.00 0.00 3.21
55 56 1.876799 AGTAGGACGAGCGAGATCATG 59.123 52.381 0.00 0.00 0.00 3.07
56 57 1.876799 CAGTAGGACGAGCGAGATCAT 59.123 52.381 0.00 0.00 0.00 2.45
57 58 1.134491 TCAGTAGGACGAGCGAGATCA 60.134 52.381 0.00 0.00 0.00 2.92
58 59 1.584175 TCAGTAGGACGAGCGAGATC 58.416 55.000 0.00 0.00 0.00 2.75
59 60 2.147958 GATCAGTAGGACGAGCGAGAT 58.852 52.381 0.00 0.00 0.00 2.75
60 61 1.584175 GATCAGTAGGACGAGCGAGA 58.416 55.000 0.00 0.00 0.00 4.04
61 62 0.233590 CGATCAGTAGGACGAGCGAG 59.766 60.000 0.00 0.00 43.35 5.03
62 63 0.179092 TCGATCAGTAGGACGAGCGA 60.179 55.000 0.00 0.00 46.60 4.93
63 64 0.656259 TTCGATCAGTAGGACGAGCG 59.344 55.000 0.00 0.00 42.11 5.03
64 65 1.595003 CGTTCGATCAGTAGGACGAGC 60.595 57.143 0.00 0.00 36.22 5.03
65 66 1.003759 CCGTTCGATCAGTAGGACGAG 60.004 57.143 3.74 0.00 36.22 4.18
66 67 1.012086 CCGTTCGATCAGTAGGACGA 58.988 55.000 3.74 0.00 0.00 4.20
67 68 0.591741 GCCGTTCGATCAGTAGGACG 60.592 60.000 0.00 0.00 0.00 4.79
68 69 0.739561 AGCCGTTCGATCAGTAGGAC 59.260 55.000 0.00 0.00 0.00 3.85
69 70 0.738975 CAGCCGTTCGATCAGTAGGA 59.261 55.000 0.00 0.00 0.00 2.94
70 71 0.872021 GCAGCCGTTCGATCAGTAGG 60.872 60.000 0.00 0.00 0.00 3.18
71 72 0.101399 AGCAGCCGTTCGATCAGTAG 59.899 55.000 0.00 0.00 0.00 2.57
72 73 0.179137 CAGCAGCCGTTCGATCAGTA 60.179 55.000 0.00 0.00 0.00 2.74
73 74 1.446792 CAGCAGCCGTTCGATCAGT 60.447 57.895 0.00 0.00 0.00 3.41
74 75 1.153765 TCAGCAGCCGTTCGATCAG 60.154 57.895 0.00 0.00 0.00 2.90
75 76 1.446099 GTCAGCAGCCGTTCGATCA 60.446 57.895 0.00 0.00 0.00 2.92
76 77 2.167861 GGTCAGCAGCCGTTCGATC 61.168 63.158 0.00 0.00 0.00 3.69
77 78 2.125512 GGTCAGCAGCCGTTCGAT 60.126 61.111 0.00 0.00 0.00 3.59
78 79 3.611674 TGGTCAGCAGCCGTTCGA 61.612 61.111 0.00 0.00 0.00 3.71
79 80 3.414700 GTGGTCAGCAGCCGTTCG 61.415 66.667 0.00 0.00 0.00 3.95
80 81 2.031163 AGTGGTCAGCAGCCGTTC 59.969 61.111 0.00 0.00 0.00 3.95
81 82 2.281070 CAGTGGTCAGCAGCCGTT 60.281 61.111 0.00 0.00 0.00 4.44
82 83 3.521529 GACAGTGGTCAGCAGCCGT 62.522 63.158 0.00 0.00 43.73 5.68
83 84 2.740055 GACAGTGGTCAGCAGCCG 60.740 66.667 0.00 0.00 43.73 5.52
84 85 2.154798 TACGACAGTGGTCAGCAGCC 62.155 60.000 0.00 0.00 44.54 4.85
85 86 1.009389 GTACGACAGTGGTCAGCAGC 61.009 60.000 0.00 0.00 44.54 5.25
86 87 0.729478 CGTACGACAGTGGTCAGCAG 60.729 60.000 10.44 0.00 44.54 4.24
87 88 1.284715 CGTACGACAGTGGTCAGCA 59.715 57.895 10.44 0.00 44.54 4.41
88 89 0.518636 TACGTACGACAGTGGTCAGC 59.481 55.000 24.41 0.00 44.54 4.26
89 90 1.532437 TGTACGTACGACAGTGGTCAG 59.468 52.381 24.41 0.00 44.54 3.51
90 91 1.592064 TGTACGTACGACAGTGGTCA 58.408 50.000 24.41 5.91 44.54 4.02
91 92 2.778659 GATGTACGTACGACAGTGGTC 58.221 52.381 24.41 11.71 40.77 4.02
92 93 1.129251 CGATGTACGTACGACAGTGGT 59.871 52.381 24.41 6.81 37.22 4.16
93 94 1.806511 CGATGTACGTACGACAGTGG 58.193 55.000 24.41 10.65 37.22 4.00
104 105 5.443101 CGACTAATTTCGTACGATGTACG 57.557 43.478 20.27 20.16 41.79 3.67
115 116 4.090729 TGCTACACGTACGACTAATTTCG 58.909 43.478 24.41 0.00 44.87 3.46
116 117 5.091431 ACTGCTACACGTACGACTAATTTC 58.909 41.667 24.41 3.67 0.00 2.17
117 118 5.051891 ACTGCTACACGTACGACTAATTT 57.948 39.130 24.41 0.00 0.00 1.82
118 119 4.691860 ACTGCTACACGTACGACTAATT 57.308 40.909 24.41 0.00 0.00 1.40
119 120 4.394300 AGAACTGCTACACGTACGACTAAT 59.606 41.667 24.41 4.57 0.00 1.73
120 121 3.748048 AGAACTGCTACACGTACGACTAA 59.252 43.478 24.41 3.26 0.00 2.24
121 122 3.329386 AGAACTGCTACACGTACGACTA 58.671 45.455 24.41 9.23 0.00 2.59
122 123 2.149578 AGAACTGCTACACGTACGACT 58.850 47.619 24.41 8.48 0.00 4.18
123 124 2.503871 GAGAACTGCTACACGTACGAC 58.496 52.381 24.41 6.19 0.00 4.34
124 125 1.127397 CGAGAACTGCTACACGTACGA 59.873 52.381 24.41 0.00 0.00 3.43
125 126 1.136141 ACGAGAACTGCTACACGTACG 60.136 52.381 15.01 15.01 32.51 3.67
126 127 2.608467 ACGAGAACTGCTACACGTAC 57.392 50.000 0.00 0.00 32.51 3.67
127 128 3.243168 ACAAACGAGAACTGCTACACGTA 60.243 43.478 0.00 0.00 33.69 3.57
128 129 2.124903 CAAACGAGAACTGCTACACGT 58.875 47.619 0.00 0.00 35.24 4.49
129 130 2.097396 CACAAACGAGAACTGCTACACG 60.097 50.000 0.00 0.00 0.00 4.49
130 131 3.120792 TCACAAACGAGAACTGCTACAC 58.879 45.455 0.00 0.00 0.00 2.90
131 132 3.446310 TCACAAACGAGAACTGCTACA 57.554 42.857 0.00 0.00 0.00 2.74
132 133 4.992381 AATCACAAACGAGAACTGCTAC 57.008 40.909 0.00 0.00 0.00 3.58
133 134 5.297547 AGAAATCACAAACGAGAACTGCTA 58.702 37.500 0.00 0.00 0.00 3.49
134 135 4.130118 AGAAATCACAAACGAGAACTGCT 58.870 39.130 0.00 0.00 0.00 4.24
135 136 4.474226 AGAAATCACAAACGAGAACTGC 57.526 40.909 0.00 0.00 0.00 4.40
136 137 4.672413 GCAAGAAATCACAAACGAGAACTG 59.328 41.667 0.00 0.00 0.00 3.16
137 138 4.335315 TGCAAGAAATCACAAACGAGAACT 59.665 37.500 0.00 0.00 0.00 3.01
138 139 4.437820 GTGCAAGAAATCACAAACGAGAAC 59.562 41.667 0.00 0.00 33.63 3.01
139 140 4.335315 AGTGCAAGAAATCACAAACGAGAA 59.665 37.500 0.00 0.00 35.76 2.87
140 141 3.876914 AGTGCAAGAAATCACAAACGAGA 59.123 39.130 0.00 0.00 35.76 4.04
141 142 4.214980 AGTGCAAGAAATCACAAACGAG 57.785 40.909 0.00 0.00 35.76 4.18
142 143 4.630894 AAGTGCAAGAAATCACAAACGA 57.369 36.364 0.00 0.00 35.76 3.85
143 144 5.971202 AGTTAAGTGCAAGAAATCACAAACG 59.029 36.000 0.00 0.00 36.90 3.60
144 145 7.196331 AGAGTTAAGTGCAAGAAATCACAAAC 58.804 34.615 0.00 0.00 35.76 2.93
145 146 7.333528 AGAGTTAAGTGCAAGAAATCACAAA 57.666 32.000 0.00 0.00 35.76 2.83
146 147 6.017109 GGAGAGTTAAGTGCAAGAAATCACAA 60.017 38.462 0.00 0.00 35.76 3.33
147 148 5.470098 GGAGAGTTAAGTGCAAGAAATCACA 59.530 40.000 0.00 0.00 35.76 3.58
148 149 5.106515 GGGAGAGTTAAGTGCAAGAAATCAC 60.107 44.000 0.00 0.00 0.00 3.06
149 150 5.003804 GGGAGAGTTAAGTGCAAGAAATCA 58.996 41.667 0.00 0.00 0.00 2.57
150 151 5.003804 TGGGAGAGTTAAGTGCAAGAAATC 58.996 41.667 0.00 0.00 0.00 2.17
151 152 4.985538 TGGGAGAGTTAAGTGCAAGAAAT 58.014 39.130 0.00 0.00 0.00 2.17
152 153 4.431416 TGGGAGAGTTAAGTGCAAGAAA 57.569 40.909 0.00 0.00 0.00 2.52
153 154 4.102524 TCTTGGGAGAGTTAAGTGCAAGAA 59.897 41.667 0.00 0.00 0.00 2.52
154 155 3.646162 TCTTGGGAGAGTTAAGTGCAAGA 59.354 43.478 0.00 0.00 0.00 3.02
155 156 4.008074 TCTTGGGAGAGTTAAGTGCAAG 57.992 45.455 0.00 0.00 0.00 4.01
156 157 4.389374 CTTCTTGGGAGAGTTAAGTGCAA 58.611 43.478 0.00 0.00 32.44 4.08
157 158 3.807209 GCTTCTTGGGAGAGTTAAGTGCA 60.807 47.826 0.00 0.00 32.44 4.57
158 159 2.744741 GCTTCTTGGGAGAGTTAAGTGC 59.255 50.000 0.00 0.00 32.44 4.40
159 160 3.999663 CAGCTTCTTGGGAGAGTTAAGTG 59.000 47.826 0.00 0.00 32.44 3.16
160 161 3.558109 GCAGCTTCTTGGGAGAGTTAAGT 60.558 47.826 0.00 0.00 32.44 2.24
186 187 4.496336 GCCCTGCCTGCTTCCGAT 62.496 66.667 0.00 0.00 0.00 4.18
209 210 3.617735 TTACACTGGCCGGCGTGA 61.618 61.111 32.66 15.60 35.23 4.35
223 224 0.098200 GCGCCGGAAATTCTGGTTAC 59.902 55.000 20.86 8.16 44.85 2.50
282 283 9.541143 GGGTTAGTACTACTAGTAGAACTGTAG 57.459 40.741 31.93 9.92 36.65 2.74
283 284 8.487028 GGGGTTAGTACTACTAGTAGAACTGTA 58.513 40.741 31.93 14.36 36.97 2.74
284 285 7.342581 GGGGTTAGTACTACTAGTAGAACTGT 58.657 42.308 31.93 15.31 36.97 3.55
285 286 6.770303 GGGGGTTAGTACTACTAGTAGAACTG 59.230 46.154 31.93 10.33 36.97 3.16
286 287 6.448387 TGGGGGTTAGTACTACTAGTAGAACT 59.552 42.308 31.93 15.27 36.97 3.01
287 288 6.544197 GTGGGGGTTAGTACTACTAGTAGAAC 59.456 46.154 31.93 23.94 36.97 3.01
320 321 1.368641 TGCATTGACGTGCTGATACC 58.631 50.000 0.00 0.00 45.27 2.73
463 471 5.649831 GCATCAAGTAATTTTGAGGAGACCT 59.350 40.000 8.35 0.00 40.31 3.85
488 523 0.881796 GGACAAGCGGAAGGAAAAGG 59.118 55.000 0.00 0.00 0.00 3.11
616 673 1.930503 GGTTTTGCTTTGTTGGGAACG 59.069 47.619 0.00 0.00 0.00 3.95
676 769 3.360758 GCGACGGCAATTGTTTCTTTTAG 59.639 43.478 7.40 0.00 39.62 1.85
761 856 7.207383 GTGTTCTAAACCATTGCCTACTTTTT 58.793 34.615 0.00 0.00 0.00 1.94
762 857 6.514376 CGTGTTCTAAACCATTGCCTACTTTT 60.514 38.462 0.00 0.00 0.00 2.27
763 858 5.048991 CGTGTTCTAAACCATTGCCTACTTT 60.049 40.000 0.00 0.00 0.00 2.66
764 859 4.454504 CGTGTTCTAAACCATTGCCTACTT 59.545 41.667 0.00 0.00 0.00 2.24
765 860 4.000988 CGTGTTCTAAACCATTGCCTACT 58.999 43.478 0.00 0.00 0.00 2.57
766 861 3.998341 TCGTGTTCTAAACCATTGCCTAC 59.002 43.478 0.00 0.00 0.00 3.18
767 862 4.020928 TCTCGTGTTCTAAACCATTGCCTA 60.021 41.667 0.00 0.00 0.00 3.93
768 863 3.074412 CTCGTGTTCTAAACCATTGCCT 58.926 45.455 0.00 0.00 0.00 4.75
769 864 3.071479 TCTCGTGTTCTAAACCATTGCC 58.929 45.455 0.00 0.00 0.00 4.52
770 865 4.946784 ATCTCGTGTTCTAAACCATTGC 57.053 40.909 0.00 0.00 0.00 3.56
771 866 6.036083 CCACTATCTCGTGTTCTAAACCATTG 59.964 42.308 0.00 0.00 33.07 2.82
783 878 5.977635 TGATCATTTTCCACTATCTCGTGT 58.022 37.500 0.00 0.00 33.07 4.49
786 881 4.993584 CCCTGATCATTTTCCACTATCTCG 59.006 45.833 0.00 0.00 0.00 4.04
807 902 5.765677 AGAGAGAGCTTTTGTTTTAGTTCCC 59.234 40.000 0.00 0.00 0.00 3.97
999 1101 4.868172 TCTCTTGGATGATGAACCCATT 57.132 40.909 0.00 0.00 32.09 3.16
1032 1139 7.344913 AGAAGTAGAAAGATGCAATGAGGATT 58.655 34.615 0.00 0.00 0.00 3.01
1039 1146 4.880696 GGCTGAGAAGTAGAAAGATGCAAT 59.119 41.667 0.00 0.00 0.00 3.56
1132 1239 4.566488 CCTGTAGAAATGTGGAGAAAGGCT 60.566 45.833 0.00 0.00 0.00 4.58
1209 1316 3.039202 GATGCGCGGTTCCTTGGTG 62.039 63.158 8.83 0.00 0.00 4.17
1210 1317 2.746277 GATGCGCGGTTCCTTGGT 60.746 61.111 8.83 0.00 0.00 3.67
1257 1364 4.749245 AATTACCTGAACAAAGCAGTCG 57.251 40.909 0.00 0.00 0.00 4.18
1339 1470 7.436673 TGCACAATTTAAACTTATGGTGAACAC 59.563 33.333 0.00 0.00 0.00 3.32
1380 1511 2.165030 CAGCTGAAATCATGGTGTTCCC 59.835 50.000 8.42 0.00 0.00 3.97
1443 1574 8.720562 CCTGAAATTTGCCGAAAATATTTTTCT 58.279 29.630 14.45 0.00 37.51 2.52
1450 1582 5.233988 CAACCCTGAAATTTGCCGAAAATA 58.766 37.500 0.00 0.00 37.51 1.40
1458 1590 1.994779 CATCGCAACCCTGAAATTTGC 59.005 47.619 0.00 0.00 41.85 3.68
1582 1714 1.020437 GGCATGCTTCTTCTAGTGCC 58.980 55.000 18.92 1.46 44.37 5.01
1588 1720 0.111061 TGTGTGGGCATGCTTCTTCT 59.889 50.000 18.92 0.00 0.00 2.85
1749 1881 6.277918 CGATAACGTAATGTAGTTTTCCCC 57.722 41.667 0.00 0.00 34.56 4.81
1839 2274 7.930325 CACCACTCTGTCATATCAAATATGTCT 59.070 37.037 6.79 0.00 42.49 3.41
1840 2275 7.172190 CCACCACTCTGTCATATCAAATATGTC 59.828 40.741 6.79 3.02 42.49 3.06
1885 2320 2.059756 TTGAATCCCTCCTTCCCAGT 57.940 50.000 0.00 0.00 0.00 4.00
1960 2395 5.929992 TCCGAAGAATTTTACAAGACGATGT 59.070 36.000 0.00 0.00 37.32 3.06
2047 2484 7.088905 CGACTTTACCTCAAATGTGTACTACT 58.911 38.462 0.00 0.00 0.00 2.57
2048 2485 6.865205 ACGACTTTACCTCAAATGTGTACTAC 59.135 38.462 0.00 0.00 0.00 2.73
2049 2486 6.985117 ACGACTTTACCTCAAATGTGTACTA 58.015 36.000 0.00 0.00 0.00 1.82
2083 2522 2.963599 TTGACTCCCCTAACAAACCC 57.036 50.000 0.00 0.00 0.00 4.11
2308 2751 0.037046 GGTTTCAAGGCCTGCAATGG 60.037 55.000 5.69 0.00 0.00 3.16
2310 2753 0.971386 CTGGTTTCAAGGCCTGCAAT 59.029 50.000 5.69 0.00 0.00 3.56
2386 2829 3.378512 TGATAGGAGAACATGCTGACCT 58.621 45.455 0.00 0.00 0.00 3.85
2396 2839 5.119694 GGAAGGTGTCATTGATAGGAGAAC 58.880 45.833 0.00 0.00 0.00 3.01
2693 3137 4.079253 GTGCTATTTCTGGGTCTTTTCCA 58.921 43.478 0.00 0.00 0.00 3.53
2766 3210 5.307976 TCCCCATCTTGATTATCGAGTTCAT 59.692 40.000 9.10 0.00 0.00 2.57
2873 3317 1.962807 TCACAAGCAAAGGAACCCATG 59.037 47.619 0.00 0.00 0.00 3.66
2934 3378 4.022416 GCCACATTTCAAACTATGTCACCA 60.022 41.667 0.00 0.00 32.88 4.17
3015 3464 6.199719 CCAAATGTTTCAGAGCAAAAGAAGAC 59.800 38.462 0.00 0.00 0.00 3.01
3044 3493 4.201851 CGTCTTTGCATCTTCCATCGAAAT 60.202 41.667 0.00 0.00 0.00 2.17
3066 3515 2.285827 ATCAGCTCTCCGAGTTTTCG 57.714 50.000 0.00 0.00 46.29 3.46
3199 3649 5.709164 GGACAAATGATGGAAGATATGGGAG 59.291 44.000 0.00 0.00 0.00 4.30
3303 3753 2.043939 TGGAAGACCAAGAGGCTACCTA 59.956 50.000 0.00 0.00 43.91 3.08
3427 3877 2.966708 CTGAAATGAGTGAACAAACGCG 59.033 45.455 3.53 3.53 0.00 6.01
3429 3879 4.035091 TGGACTGAAATGAGTGAACAAACG 59.965 41.667 0.00 0.00 0.00 3.60
3433 3883 6.475504 ACATATGGACTGAAATGAGTGAACA 58.524 36.000 7.80 0.00 0.00 3.18
3513 4406 7.751047 TTGACGATCATGCTAGTTTACTTAC 57.249 36.000 0.00 0.00 0.00 2.34
3752 6505 4.028993 GGGGGTTCATCTACAAAAGTCA 57.971 45.455 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.