Multiple sequence alignment - TraesCS3B01G580000

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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 TraesCS3B01G580000 chr3B 100.000 3062 0 0 1 3062 809232860 809235921 0.000000e+00 5655.0
1 TraesCS3B01G580000 chr3B 96.123 2012 64 5 578 2585 809363235 809361234 0.000000e+00 3271.0
2 TraesCS3B01G580000 chr3B 82.546 1862 244 42 571 2387 809452579 809450754 0.000000e+00 1563.0
3 TraesCS3B01G580000 chr3B 80.461 1387 227 31 917 2282 809540452 809539089 0.000000e+00 1020.0
4 TraesCS3B01G580000 chr3B 94.684 395 20 1 2579 2972 809351191 809350797 2.020000e-171 612.0
5 TraesCS3B01G580000 chr3B 98.276 174 3 0 204 377 809364332 809364159 3.840000e-79 305.0
6 TraesCS3B01G580000 chr3B 93.370 181 10 2 374 553 809363581 809363402 1.810000e-67 267.0
7 TraesCS3B01G580000 chr3B 87.879 198 24 0 578 775 809540747 809540550 1.840000e-57 233.0
8 TraesCS3B01G580000 chr3B 73.819 508 101 20 1452 1943 809457841 809457350 4.060000e-39 172.0
9 TraesCS3B01G580000 chr3B 91.489 94 2 1 115 208 809369385 809369298 1.150000e-24 124.0
10 TraesCS3B01G580000 chr3B 82.482 137 24 0 377 513 809452916 809452780 1.490000e-23 121.0
11 TraesCS3B01G580000 chr3B 100.000 34 0 0 85 118 809382935 809382902 2.550000e-06 63.9
12 TraesCS3B01G580000 chr3B 84.507 71 4 3 1 70 809383034 809382970 2.550000e-06 63.9
13 TraesCS3B01G580000 chr3D 94.257 2490 130 8 578 3062 602216248 602213767 0.000000e+00 3794.0
14 TraesCS3B01G580000 chr3D 81.701 1470 197 27 945 2396 602241196 602239781 0.000000e+00 1158.0
15 TraesCS3B01G580000 chr3D 80.897 1382 230 25 917 2282 602275336 602273973 0.000000e+00 1059.0
16 TraesCS3B01G580000 chr3D 85.266 319 44 3 571 888 602248781 602248465 2.940000e-85 326.0
17 TraesCS3B01G580000 chr3D 92.157 204 11 4 374 577 602217551 602217353 1.800000e-72 283.0
18 TraesCS3B01G580000 chr3D 90.526 190 12 1 115 304 602221972 602221789 2.360000e-61 246.0
19 TraesCS3B01G580000 chr3D 88.500 200 23 0 578 777 602275627 602275428 3.050000e-60 243.0
20 TraesCS3B01G580000 chr3D 72.889 675 130 30 1293 1943 602253988 602253343 1.880000e-42 183.0
21 TraesCS3B01G580000 chr3D 100.000 36 0 0 85 120 602222059 602222024 1.970000e-07 67.6
22 TraesCS3B01G580000 chr3A 92.183 2520 157 11 572 3060 730887640 730890150 0.000000e+00 3526.0
23 TraesCS3B01G580000 chr3A 79.638 1380 237 33 924 2282 732043537 732042181 0.000000e+00 952.0
24 TraesCS3B01G580000 chr3A 94.505 182 9 1 374 554 730887025 730887206 2.320000e-71 279.0
25 TraesCS3B01G580000 chr3A 89.796 147 9 1 115 261 730870910 730871050 1.880000e-42 183.0
26 TraesCS3B01G580000 chr3A 88.618 123 12 1 257 377 730877422 730877544 6.840000e-32 148.0
27 TraesCS3B01G580000 chr3A 78.641 206 25 12 1293 1486 731836222 731836024 5.360000e-23 119.0
28 TraesCS3B01G580000 chr7D 76.966 178 34 6 2786 2959 603129438 603129612 9.040000e-16 95.3
29 TraesCS3B01G580000 chr7B 100.000 29 0 0 2864 2892 393850879 393850851 2.000000e-03 54.7


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 TraesCS3B01G580000 chr3B 809232860 809235921 3061 False 5655.0 5655 100.0000 1 3062 1 chr3B.!!$F1 3061
1 TraesCS3B01G580000 chr3B 809361234 809364332 3098 True 1281.0 3271 95.9230 204 2585 3 chr3B.!!$R4 2381
2 TraesCS3B01G580000 chr3B 809450754 809452916 2162 True 842.0 1563 82.5140 377 2387 2 chr3B.!!$R6 2010
3 TraesCS3B01G580000 chr3B 809539089 809540747 1658 True 626.5 1020 84.1700 578 2282 2 chr3B.!!$R7 1704
4 TraesCS3B01G580000 chr3D 602213767 602217551 3784 True 2038.5 3794 93.2070 374 3062 2 chr3D.!!$R4 2688
5 TraesCS3B01G580000 chr3D 602239781 602241196 1415 True 1158.0 1158 81.7010 945 2396 1 chr3D.!!$R1 1451
6 TraesCS3B01G580000 chr3D 602273973 602275627 1654 True 651.0 1059 84.6985 578 2282 2 chr3D.!!$R6 1704
7 TraesCS3B01G580000 chr3A 730887025 730890150 3125 False 1902.5 3526 93.3440 374 3060 2 chr3A.!!$F3 2686
8 TraesCS3B01G580000 chr3A 732042181 732043537 1356 True 952.0 952 79.6380 924 2282 1 chr3A.!!$R2 1358

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
31 32 0.106569 TTACTATCGTGAGGGGCCGA 60.107 55.0 0.00 0.0 37.51 5.54 F
95 96 0.309922 CTATGCTTTCCGCCTGCATG 59.690 55.0 9.55 0.0 45.52 4.06 F
202 203 0.318275 CTCGACGCTGGCTAGGAATC 60.318 60.0 0.00 0.0 0.00 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1906 3770 0.666577 CCGTCGAGTTTCTCCACACC 60.667 60.000 0.0 0.0 0.00 4.16 R
2025 3889 3.902261 TTCTTGTCATGCACATCACAC 57.098 42.857 0.0 0.0 33.90 3.82 R
2183 4054 0.812549 TACACGCCACTATCGCAGAA 59.187 50.000 0.0 0.0 43.58 3.02 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 3.983741 GAGAGCATGGCTTTACTATCGT 58.016 45.455 0.00 0.00 39.88 3.73
22 23 3.722147 AGAGCATGGCTTTACTATCGTG 58.278 45.455 0.00 0.00 39.88 4.35
23 24 3.384789 AGAGCATGGCTTTACTATCGTGA 59.615 43.478 0.00 0.00 39.88 4.35
24 25 3.722147 AGCATGGCTTTACTATCGTGAG 58.278 45.455 0.00 0.00 33.89 3.51
25 26 2.802816 GCATGGCTTTACTATCGTGAGG 59.197 50.000 0.00 0.00 0.00 3.86
26 27 3.393800 CATGGCTTTACTATCGTGAGGG 58.606 50.000 0.00 0.00 0.00 4.30
27 28 1.760613 TGGCTTTACTATCGTGAGGGG 59.239 52.381 0.00 0.00 0.00 4.79
28 29 1.540580 GGCTTTACTATCGTGAGGGGC 60.541 57.143 0.00 0.00 0.00 5.80
29 30 1.540580 GCTTTACTATCGTGAGGGGCC 60.541 57.143 0.00 0.00 0.00 5.80
30 31 0.748450 TTTACTATCGTGAGGGGCCG 59.252 55.000 0.00 0.00 0.00 6.13
31 32 0.106569 TTACTATCGTGAGGGGCCGA 60.107 55.000 0.00 0.00 37.51 5.54
32 33 0.536687 TACTATCGTGAGGGGCCGAG 60.537 60.000 0.00 0.00 36.41 4.63
33 34 2.520982 TATCGTGAGGGGCCGAGG 60.521 66.667 0.00 0.00 36.41 4.63
42 43 3.090532 GGGCCGAGGGGATGTCTT 61.091 66.667 0.00 0.00 34.06 3.01
43 44 2.680370 GGGCCGAGGGGATGTCTTT 61.680 63.158 0.00 0.00 34.06 2.52
44 45 1.452108 GGCCGAGGGGATGTCTTTG 60.452 63.158 0.00 0.00 34.06 2.77
45 46 1.602237 GCCGAGGGGATGTCTTTGA 59.398 57.895 0.00 0.00 34.06 2.69
46 47 0.462759 GCCGAGGGGATGTCTTTGAG 60.463 60.000 0.00 0.00 34.06 3.02
47 48 1.195115 CCGAGGGGATGTCTTTGAGA 58.805 55.000 0.00 0.00 34.06 3.27
48 49 1.137872 CCGAGGGGATGTCTTTGAGAG 59.862 57.143 0.00 0.00 34.06 3.20
49 50 2.103373 CGAGGGGATGTCTTTGAGAGA 58.897 52.381 0.00 0.00 0.00 3.10
50 51 2.100584 CGAGGGGATGTCTTTGAGAGAG 59.899 54.545 0.00 0.00 34.31 3.20
51 52 3.370104 GAGGGGATGTCTTTGAGAGAGA 58.630 50.000 0.00 0.00 34.31 3.10
52 53 3.103742 AGGGGATGTCTTTGAGAGAGAC 58.896 50.000 0.00 0.00 42.98 3.36
53 54 2.159170 GGGGATGTCTTTGAGAGAGACG 60.159 54.545 0.00 0.00 45.05 4.18
54 55 2.159170 GGGATGTCTTTGAGAGAGACGG 60.159 54.545 0.00 0.00 45.05 4.79
55 56 2.159170 GGATGTCTTTGAGAGAGACGGG 60.159 54.545 0.00 0.00 45.05 5.28
56 57 1.257743 TGTCTTTGAGAGAGACGGGG 58.742 55.000 0.00 0.00 45.05 5.73
57 58 1.203013 TGTCTTTGAGAGAGACGGGGA 60.203 52.381 0.00 0.00 45.05 4.81
58 59 2.104170 GTCTTTGAGAGAGACGGGGAT 58.896 52.381 0.00 0.00 34.76 3.85
59 60 2.100087 GTCTTTGAGAGAGACGGGGATC 59.900 54.545 0.00 0.00 34.76 3.36
60 61 2.103373 CTTTGAGAGAGACGGGGATCA 58.897 52.381 0.00 0.00 0.00 2.92
61 62 2.461300 TTGAGAGAGACGGGGATCAT 57.539 50.000 0.00 0.00 0.00 2.45
62 63 2.461300 TGAGAGAGACGGGGATCATT 57.539 50.000 0.00 0.00 0.00 2.57
63 64 2.034878 TGAGAGAGACGGGGATCATTG 58.965 52.381 0.00 0.00 0.00 2.82
64 65 1.342819 GAGAGAGACGGGGATCATTGG 59.657 57.143 0.00 0.00 0.00 3.16
65 66 1.062886 AGAGAGACGGGGATCATTGGA 60.063 52.381 0.00 0.00 0.00 3.53
66 67 1.762957 GAGAGACGGGGATCATTGGAA 59.237 52.381 0.00 0.00 0.00 3.53
67 68 2.170607 GAGAGACGGGGATCATTGGAAA 59.829 50.000 0.00 0.00 0.00 3.13
68 69 2.780010 AGAGACGGGGATCATTGGAAAT 59.220 45.455 0.00 0.00 0.00 2.17
69 70 3.142174 GAGACGGGGATCATTGGAAATC 58.858 50.000 0.00 0.00 0.00 2.17
70 71 1.873591 GACGGGGATCATTGGAAATCG 59.126 52.381 0.00 0.00 0.00 3.34
71 72 1.211949 ACGGGGATCATTGGAAATCGT 59.788 47.619 0.00 0.00 0.00 3.73
72 73 1.873591 CGGGGATCATTGGAAATCGTC 59.126 52.381 0.00 0.00 0.00 4.20
73 74 2.485479 CGGGGATCATTGGAAATCGTCT 60.485 50.000 0.00 0.00 0.00 4.18
74 75 2.880890 GGGGATCATTGGAAATCGTCTG 59.119 50.000 0.00 0.00 0.00 3.51
75 76 3.433598 GGGGATCATTGGAAATCGTCTGA 60.434 47.826 0.00 0.00 0.00 3.27
76 77 3.561725 GGGATCATTGGAAATCGTCTGAC 59.438 47.826 0.00 0.00 0.00 3.51
77 78 4.446371 GGATCATTGGAAATCGTCTGACT 58.554 43.478 6.21 0.00 0.00 3.41
78 79 5.453339 GGGATCATTGGAAATCGTCTGACTA 60.453 44.000 6.21 0.00 0.00 2.59
79 80 6.226787 GGATCATTGGAAATCGTCTGACTAT 58.773 40.000 6.21 0.00 0.00 2.12
80 81 6.146837 GGATCATTGGAAATCGTCTGACTATG 59.853 42.308 6.21 0.00 0.00 2.23
81 82 4.811024 TCATTGGAAATCGTCTGACTATGC 59.189 41.667 6.21 0.00 0.00 3.14
82 83 4.471904 TTGGAAATCGTCTGACTATGCT 57.528 40.909 6.21 0.00 0.00 3.79
83 84 4.471904 TGGAAATCGTCTGACTATGCTT 57.528 40.909 6.21 0.00 0.00 3.91
84 85 4.832248 TGGAAATCGTCTGACTATGCTTT 58.168 39.130 6.21 0.00 0.00 3.51
85 86 4.870426 TGGAAATCGTCTGACTATGCTTTC 59.130 41.667 6.21 4.52 0.00 2.62
86 87 4.271291 GGAAATCGTCTGACTATGCTTTCC 59.729 45.833 6.21 9.34 35.20 3.13
87 88 2.561733 TCGTCTGACTATGCTTTCCG 57.438 50.000 6.21 0.00 0.00 4.30
88 89 0.924090 CGTCTGACTATGCTTTCCGC 59.076 55.000 6.21 0.00 39.77 5.54
89 90 1.291132 GTCTGACTATGCTTTCCGCC 58.709 55.000 0.00 0.00 38.05 6.13
90 91 1.134670 GTCTGACTATGCTTTCCGCCT 60.135 52.381 0.00 0.00 38.05 5.52
91 92 1.134699 TCTGACTATGCTTTCCGCCTG 60.135 52.381 0.00 0.00 38.05 4.85
92 93 0.744414 TGACTATGCTTTCCGCCTGC 60.744 55.000 0.00 0.00 38.05 4.85
93 94 0.744414 GACTATGCTTTCCGCCTGCA 60.744 55.000 0.00 0.00 41.13 4.41
95 96 0.309922 CTATGCTTTCCGCCTGCATG 59.690 55.000 9.55 0.00 45.52 4.06
96 97 1.727511 TATGCTTTCCGCCTGCATGC 61.728 55.000 11.82 11.82 45.52 4.06
97 98 3.446570 GCTTTCCGCCTGCATGCT 61.447 61.111 20.33 0.00 0.00 3.79
98 99 2.796651 CTTTCCGCCTGCATGCTC 59.203 61.111 20.33 7.15 0.00 4.26
99 100 2.751436 TTTCCGCCTGCATGCTCC 60.751 61.111 20.33 6.01 0.00 4.70
100 101 3.272364 TTTCCGCCTGCATGCTCCT 62.272 57.895 20.33 0.00 0.00 3.69
101 102 3.687321 TTCCGCCTGCATGCTCCTC 62.687 63.158 20.33 4.59 0.00 3.71
102 103 4.478371 CCGCCTGCATGCTCCTCA 62.478 66.667 20.33 0.00 0.00 3.86
103 104 2.203167 CGCCTGCATGCTCCTCAT 60.203 61.111 20.33 0.00 35.31 2.90
104 105 1.822613 CGCCTGCATGCTCCTCATT 60.823 57.895 20.33 0.00 31.79 2.57
105 106 1.783031 CGCCTGCATGCTCCTCATTC 61.783 60.000 20.33 0.00 31.79 2.67
106 107 1.783031 GCCTGCATGCTCCTCATTCG 61.783 60.000 20.33 0.00 31.79 3.34
107 108 1.647629 CTGCATGCTCCTCATTCGC 59.352 57.895 20.33 0.00 31.79 4.70
108 109 0.814410 CTGCATGCTCCTCATTCGCT 60.814 55.000 20.33 0.00 31.79 4.93
109 110 1.093496 TGCATGCTCCTCATTCGCTG 61.093 55.000 20.33 0.00 31.79 5.18
110 111 1.094073 GCATGCTCCTCATTCGCTGT 61.094 55.000 11.37 0.00 31.79 4.40
111 112 0.935898 CATGCTCCTCATTCGCTGTC 59.064 55.000 0.00 0.00 31.79 3.51
112 113 0.529337 ATGCTCCTCATTCGCTGTCG 60.529 55.000 0.00 0.00 29.16 4.35
113 114 1.139734 GCTCCTCATTCGCTGTCGA 59.860 57.895 0.00 0.00 43.89 4.20
124 125 3.239587 TCGCTGTCGAATTAATCCACA 57.760 42.857 0.00 0.00 42.44 4.17
125 126 3.186909 TCGCTGTCGAATTAATCCACAG 58.813 45.455 13.41 13.41 42.44 3.66
128 129 4.785669 CTGTCGAATTAATCCACAGCTC 57.214 45.455 7.92 0.00 0.00 4.09
129 130 3.186909 TGTCGAATTAATCCACAGCTCG 58.813 45.455 0.00 0.00 0.00 5.03
130 131 3.119280 TGTCGAATTAATCCACAGCTCGA 60.119 43.478 2.80 2.80 0.00 4.04
131 132 3.487574 GTCGAATTAATCCACAGCTCGAG 59.512 47.826 8.45 8.45 34.81 4.04
132 133 3.380320 TCGAATTAATCCACAGCTCGAGA 59.620 43.478 18.75 0.00 30.95 4.04
133 134 3.733224 CGAATTAATCCACAGCTCGAGAG 59.267 47.826 18.75 10.32 0.00 3.20
134 135 4.688021 GAATTAATCCACAGCTCGAGAGT 58.312 43.478 18.75 11.05 0.00 3.24
135 136 3.510388 TTAATCCACAGCTCGAGAGTG 57.490 47.619 23.65 23.65 0.00 3.51
140 141 2.376808 CACAGCTCGAGAGTGGATTT 57.623 50.000 23.16 1.65 0.00 2.17
141 142 2.266554 CACAGCTCGAGAGTGGATTTC 58.733 52.381 23.16 2.36 0.00 2.17
142 143 1.895798 ACAGCTCGAGAGTGGATTTCA 59.104 47.619 18.75 0.00 0.00 2.69
143 144 2.499289 ACAGCTCGAGAGTGGATTTCAT 59.501 45.455 18.75 0.00 0.00 2.57
144 145 3.055530 ACAGCTCGAGAGTGGATTTCATT 60.056 43.478 18.75 0.00 0.00 2.57
145 146 3.555139 CAGCTCGAGAGTGGATTTCATTC 59.445 47.826 18.75 0.00 32.93 2.67
146 147 3.450457 AGCTCGAGAGTGGATTTCATTCT 59.550 43.478 18.75 0.00 43.83 2.40
147 148 3.555139 GCTCGAGAGTGGATTTCATTCTG 59.445 47.826 18.75 0.00 41.66 3.02
148 149 3.525537 TCGAGAGTGGATTTCATTCTGC 58.474 45.455 0.00 0.00 41.66 4.26
149 150 2.611292 CGAGAGTGGATTTCATTCTGCC 59.389 50.000 0.00 0.00 41.66 4.85
150 151 3.681034 CGAGAGTGGATTTCATTCTGCCT 60.681 47.826 0.00 0.00 41.66 4.75
151 152 3.876320 GAGAGTGGATTTCATTCTGCCTC 59.124 47.826 0.00 0.00 41.66 4.70
152 153 3.522750 AGAGTGGATTTCATTCTGCCTCT 59.477 43.478 0.00 0.00 40.35 3.69
153 154 3.618351 AGTGGATTTCATTCTGCCTCTG 58.382 45.455 0.00 0.00 0.00 3.35
154 155 3.265221 AGTGGATTTCATTCTGCCTCTGA 59.735 43.478 0.00 0.00 0.00 3.27
155 156 4.079901 AGTGGATTTCATTCTGCCTCTGAT 60.080 41.667 0.00 0.00 0.00 2.90
156 157 4.643784 GTGGATTTCATTCTGCCTCTGATT 59.356 41.667 0.00 0.00 0.00 2.57
157 158 5.126707 GTGGATTTCATTCTGCCTCTGATTT 59.873 40.000 0.00 0.00 0.00 2.17
158 159 5.359009 TGGATTTCATTCTGCCTCTGATTTC 59.641 40.000 0.00 0.00 0.00 2.17
159 160 5.593502 GGATTTCATTCTGCCTCTGATTTCT 59.406 40.000 0.00 0.00 0.00 2.52
160 161 6.096564 GGATTTCATTCTGCCTCTGATTTCTT 59.903 38.462 0.00 0.00 0.00 2.52
161 162 5.892160 TTCATTCTGCCTCTGATTTCTTG 57.108 39.130 0.00 0.00 0.00 3.02
162 163 3.693085 TCATTCTGCCTCTGATTTCTTGC 59.307 43.478 0.00 0.00 0.00 4.01
163 164 2.865119 TCTGCCTCTGATTTCTTGCA 57.135 45.000 0.00 0.00 0.00 4.08
164 165 2.708051 TCTGCCTCTGATTTCTTGCAG 58.292 47.619 0.00 0.00 45.66 4.41
165 166 2.039480 TCTGCCTCTGATTTCTTGCAGT 59.961 45.455 8.90 0.00 44.83 4.40
166 167 2.419324 CTGCCTCTGATTTCTTGCAGTC 59.581 50.000 0.00 0.00 40.87 3.51
167 168 1.742268 GCCTCTGATTTCTTGCAGTCC 59.258 52.381 0.00 0.00 33.90 3.85
168 169 2.617532 GCCTCTGATTTCTTGCAGTCCT 60.618 50.000 0.00 0.00 33.90 3.85
169 170 3.008330 CCTCTGATTTCTTGCAGTCCTG 58.992 50.000 0.00 0.00 33.90 3.86
170 171 3.008330 CTCTGATTTCTTGCAGTCCTGG 58.992 50.000 0.00 0.00 33.90 4.45
171 172 2.373169 TCTGATTTCTTGCAGTCCTGGT 59.627 45.455 0.00 0.00 33.90 4.00
172 173 2.746362 CTGATTTCTTGCAGTCCTGGTC 59.254 50.000 0.00 0.00 0.00 4.02
173 174 2.087646 GATTTCTTGCAGTCCTGGTCC 58.912 52.381 0.00 0.00 0.00 4.46
174 175 1.140312 TTTCTTGCAGTCCTGGTCCT 58.860 50.000 0.00 0.00 0.00 3.85
175 176 0.397941 TTCTTGCAGTCCTGGTCCTG 59.602 55.000 10.47 10.47 0.00 3.86
176 177 1.002868 CTTGCAGTCCTGGTCCTGG 60.003 63.158 8.53 8.53 0.00 4.45
177 178 2.475371 CTTGCAGTCCTGGTCCTGGG 62.475 65.000 14.48 5.15 0.00 4.45
178 179 3.721706 GCAGTCCTGGTCCTGGGG 61.722 72.222 14.48 6.36 0.00 4.96
179 180 3.011517 CAGTCCTGGTCCTGGGGG 61.012 72.222 14.48 1.60 0.00 5.40
180 181 3.208592 AGTCCTGGTCCTGGGGGA 61.209 66.667 14.48 2.63 39.70 4.81
181 182 2.042930 GTCCTGGTCCTGGGGGAT 59.957 66.667 14.48 0.00 44.33 3.85
182 183 2.073101 GTCCTGGTCCTGGGGGATC 61.073 68.421 14.48 0.00 44.33 3.36
183 184 2.774351 CCTGGTCCTGGGGGATCC 60.774 72.222 1.92 1.92 41.94 3.36
184 185 2.374342 CTGGTCCTGGGGGATCCT 59.626 66.667 12.58 0.00 41.94 3.24
185 186 1.768077 CTGGTCCTGGGGGATCCTC 60.768 68.421 12.58 7.61 41.94 3.71
186 187 2.844839 GGTCCTGGGGGATCCTCG 60.845 72.222 12.58 0.00 44.33 4.63
187 188 2.282446 GTCCTGGGGGATCCTCGA 59.718 66.667 12.58 3.33 44.33 4.04
188 189 2.134933 GTCCTGGGGGATCCTCGAC 61.135 68.421 12.58 7.06 44.33 4.20
189 190 3.227276 CCTGGGGGATCCTCGACG 61.227 72.222 12.58 0.00 36.20 5.12
190 191 3.917760 CTGGGGGATCCTCGACGC 61.918 72.222 12.58 3.73 36.20 5.19
191 192 4.458829 TGGGGGATCCTCGACGCT 62.459 66.667 12.58 0.00 36.20 5.07
192 193 3.917760 GGGGGATCCTCGACGCTG 61.918 72.222 12.58 0.00 0.00 5.18
193 194 3.917760 GGGGATCCTCGACGCTGG 61.918 72.222 12.58 0.00 0.00 4.85
194 195 4.593864 GGGATCCTCGACGCTGGC 62.594 72.222 12.58 0.00 0.00 4.85
195 196 3.532155 GGATCCTCGACGCTGGCT 61.532 66.667 3.84 0.00 0.00 4.75
196 197 2.194212 GGATCCTCGACGCTGGCTA 61.194 63.158 3.84 0.00 0.00 3.93
197 198 1.284408 GATCCTCGACGCTGGCTAG 59.716 63.158 0.00 0.00 0.00 3.42
198 199 2.136196 GATCCTCGACGCTGGCTAGG 62.136 65.000 0.00 0.00 0.00 3.02
199 200 2.626255 ATCCTCGACGCTGGCTAGGA 62.626 60.000 7.03 7.03 40.50 2.94
200 201 2.415608 CCTCGACGCTGGCTAGGAA 61.416 63.158 0.00 0.00 0.00 3.36
201 202 1.736586 CTCGACGCTGGCTAGGAAT 59.263 57.895 0.00 0.00 0.00 3.01
202 203 0.318275 CTCGACGCTGGCTAGGAATC 60.318 60.000 0.00 0.00 0.00 2.52
222 223 2.160205 CCCCGCGATACTCTATCTTCA 58.840 52.381 8.23 0.00 33.01 3.02
248 249 4.804139 ACGTGATATTTGATTCTGTCGACC 59.196 41.667 14.12 0.00 0.00 4.79
388 970 2.045926 GTCGCCTGCTGGTGGAAT 60.046 61.111 21.45 0.00 43.72 3.01
550 1132 2.699768 CGTGCGGGCCACATGAAAT 61.700 57.895 8.06 0.00 44.91 2.17
620 2443 3.249837 AACCTCGGCGACCCTTTCC 62.250 63.158 4.99 0.00 0.00 3.13
680 2503 2.338620 CCGTGCTCGACTGGTTCA 59.661 61.111 10.21 0.00 39.71 3.18
931 2769 4.019174 CAGTTAACATTTGCAGGAGGGAT 58.981 43.478 8.61 0.00 0.00 3.85
932 2770 4.019174 AGTTAACATTTGCAGGAGGGATG 58.981 43.478 8.61 0.00 0.00 3.51
979 2817 4.321601 GCATCTTGTGACTCACACTACTCT 60.322 45.833 11.58 0.00 44.47 3.24
996 2834 1.137872 CTCTGTCTTCAAGGCGGCTAT 59.862 52.381 13.71 0.00 0.00 2.97
997 2835 2.362397 CTCTGTCTTCAAGGCGGCTATA 59.638 50.000 13.71 0.00 0.00 1.31
1003 2841 0.321671 TCAAGGCGGCTATAGGATGC 59.678 55.000 13.71 0.00 0.00 3.91
1083 2921 7.574217 GCGGATTTTAAGTCCAAGTTGTTGATA 60.574 37.037 7.27 0.00 35.46 2.15
1207 3049 3.880490 GGTGGTTCATGTTGACACACTTA 59.120 43.478 12.12 0.00 35.12 2.24
1335 3179 1.133598 ACATTCATTGCGATGGTGCTG 59.866 47.619 14.12 8.74 33.93 4.41
1601 3465 3.754188 GCATGTAAAAGTGCTCTCCAG 57.246 47.619 0.00 0.00 38.30 3.86
2025 3889 3.008266 ACATTGGGGAAGAAAATTGCCTG 59.992 43.478 0.00 0.00 0.00 4.85
2129 3996 2.083774 GGGCACGTTTGATTGATCTGA 58.916 47.619 0.00 0.00 0.00 3.27
2209 4080 4.812091 TGCGATAGTGGCGTGTATTTATTT 59.188 37.500 0.00 0.00 39.35 1.40
2210 4081 5.984323 TGCGATAGTGGCGTGTATTTATTTA 59.016 36.000 0.00 0.00 39.35 1.40
2211 4082 6.647481 TGCGATAGTGGCGTGTATTTATTTAT 59.353 34.615 0.00 0.00 39.35 1.40
2212 4083 7.171848 TGCGATAGTGGCGTGTATTTATTTATT 59.828 33.333 0.00 0.00 39.35 1.40
2314 4186 2.671963 GGAAGAACCACACGGGGC 60.672 66.667 0.00 0.00 42.91 5.80
2356 4234 2.821969 AGTGCAAATGTTTCCAGCTAGG 59.178 45.455 0.00 0.00 39.47 3.02
2411 4289 8.260114 GGTTACCAATCCATGAATCAAAGATTT 58.740 33.333 7.97 0.43 0.00 2.17
2435 4313 5.665812 TCTGGTTAAGTGATAAGCCCTACAT 59.334 40.000 0.00 0.00 40.52 2.29
2437 4315 4.989168 GGTTAAGTGATAAGCCCTACATCG 59.011 45.833 0.00 0.00 36.26 3.84
2470 4348 9.787435 AGTACATCCTTGAGTTTGTAACAATTA 57.213 29.630 0.00 0.00 0.00 1.40
2595 4475 2.452114 CACCTCTCCCCCTCCTGT 59.548 66.667 0.00 0.00 0.00 4.00
2644 4524 1.259840 GCCACCCTACTAACGGGACA 61.260 60.000 1.44 0.00 44.90 4.02
2647 4527 1.619827 CACCCTACTAACGGGACAACA 59.380 52.381 1.44 0.00 44.90 3.33
2648 4528 2.235402 CACCCTACTAACGGGACAACAT 59.765 50.000 1.44 0.00 44.90 2.71
2716 4620 4.394920 TCCTTTTATTGACGTCAATGGCTC 59.605 41.667 40.58 6.85 45.34 4.70
2728 4632 2.107041 AATGGCTCCAACCGACGACA 62.107 55.000 0.00 0.00 0.00 4.35
2745 4649 1.067516 GACAGTGCTGCAACCATTGTT 59.932 47.619 2.77 2.26 33.98 2.83
2750 4654 3.384467 AGTGCTGCAACCATTGTTAGTTT 59.616 39.130 2.77 0.00 32.09 2.66
2762 4666 5.278071 CCATTGTTAGTTTTTGCTACGACCA 60.278 40.000 0.00 0.00 0.00 4.02
2814 4718 2.756691 GCTGGGATGGCATGCACA 60.757 61.111 21.36 15.35 0.00 4.57
2815 4719 2.352821 GCTGGGATGGCATGCACAA 61.353 57.895 21.36 4.56 0.00 3.33
2816 4720 1.682451 GCTGGGATGGCATGCACAAT 61.682 55.000 21.36 9.79 0.00 2.71
2836 4741 2.125269 GCTACAACCGGGCGATGT 60.125 61.111 6.32 8.06 0.00 3.06
2840 4745 1.067974 CTACAACCGGGCGATGTCATA 59.932 52.381 6.32 0.00 0.00 2.15
2945 4852 4.443266 GTCTTCCTCAGCGGCGCT 62.443 66.667 31.35 31.35 40.77 5.92
3054 4961 0.538118 CCCCGGGATTTTCTCGTACA 59.462 55.000 26.32 0.00 39.06 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.565645 CCTCGGCCCCTCACGATAG 61.566 68.421 0.00 0.00 38.56 2.08
16 17 2.520982 CCTCGGCCCCTCACGATA 60.521 66.667 0.00 0.00 38.56 2.92
25 26 2.680370 AAAGACATCCCCTCGGCCC 61.680 63.158 0.00 0.00 0.00 5.80
26 27 1.452108 CAAAGACATCCCCTCGGCC 60.452 63.158 0.00 0.00 0.00 6.13
27 28 0.462759 CTCAAAGACATCCCCTCGGC 60.463 60.000 0.00 0.00 0.00 5.54
28 29 1.137872 CTCTCAAAGACATCCCCTCGG 59.862 57.143 0.00 0.00 0.00 4.63
29 30 2.100584 CTCTCTCAAAGACATCCCCTCG 59.899 54.545 0.00 0.00 0.00 4.63
30 31 3.132111 GTCTCTCTCAAAGACATCCCCTC 59.868 52.174 0.00 0.00 42.23 4.30
31 32 3.103742 GTCTCTCTCAAAGACATCCCCT 58.896 50.000 0.00 0.00 42.23 4.79
32 33 2.159170 CGTCTCTCTCAAAGACATCCCC 60.159 54.545 4.36 0.00 42.68 4.81
33 34 2.159170 CCGTCTCTCTCAAAGACATCCC 60.159 54.545 4.36 0.00 42.68 3.85
34 35 2.159170 CCCGTCTCTCTCAAAGACATCC 60.159 54.545 4.36 0.00 42.68 3.51
35 36 2.159170 CCCCGTCTCTCTCAAAGACATC 60.159 54.545 4.36 0.00 42.68 3.06
36 37 1.827969 CCCCGTCTCTCTCAAAGACAT 59.172 52.381 4.36 0.00 42.68 3.06
37 38 1.203013 TCCCCGTCTCTCTCAAAGACA 60.203 52.381 4.36 0.00 42.68 3.41
38 39 1.546961 TCCCCGTCTCTCTCAAAGAC 58.453 55.000 0.00 0.00 39.82 3.01
39 40 2.291605 TGATCCCCGTCTCTCTCAAAGA 60.292 50.000 0.00 0.00 0.00 2.52
40 41 2.103373 TGATCCCCGTCTCTCTCAAAG 58.897 52.381 0.00 0.00 0.00 2.77
41 42 2.231716 TGATCCCCGTCTCTCTCAAA 57.768 50.000 0.00 0.00 0.00 2.69
42 43 2.432146 CAATGATCCCCGTCTCTCTCAA 59.568 50.000 0.00 0.00 0.00 3.02
43 44 2.034878 CAATGATCCCCGTCTCTCTCA 58.965 52.381 0.00 0.00 0.00 3.27
44 45 1.342819 CCAATGATCCCCGTCTCTCTC 59.657 57.143 0.00 0.00 0.00 3.20
45 46 1.062886 TCCAATGATCCCCGTCTCTCT 60.063 52.381 0.00 0.00 0.00 3.10
46 47 1.414158 TCCAATGATCCCCGTCTCTC 58.586 55.000 0.00 0.00 0.00 3.20
47 48 1.879575 TTCCAATGATCCCCGTCTCT 58.120 50.000 0.00 0.00 0.00 3.10
48 49 2.710096 TTTCCAATGATCCCCGTCTC 57.290 50.000 0.00 0.00 0.00 3.36
49 50 2.485479 CGATTTCCAATGATCCCCGTCT 60.485 50.000 0.00 0.00 0.00 4.18
50 51 1.873591 CGATTTCCAATGATCCCCGTC 59.126 52.381 0.00 0.00 0.00 4.79
51 52 1.211949 ACGATTTCCAATGATCCCCGT 59.788 47.619 0.00 0.00 0.00 5.28
52 53 1.873591 GACGATTTCCAATGATCCCCG 59.126 52.381 0.00 0.00 0.00 5.73
53 54 2.880890 CAGACGATTTCCAATGATCCCC 59.119 50.000 0.00 0.00 0.00 4.81
54 55 3.561725 GTCAGACGATTTCCAATGATCCC 59.438 47.826 0.00 0.00 0.00 3.85
55 56 4.446371 AGTCAGACGATTTCCAATGATCC 58.554 43.478 0.00 0.00 0.00 3.36
56 57 6.347240 GCATAGTCAGACGATTTCCAATGATC 60.347 42.308 0.00 0.00 0.00 2.92
57 58 5.468072 GCATAGTCAGACGATTTCCAATGAT 59.532 40.000 0.00 0.00 0.00 2.45
58 59 4.811024 GCATAGTCAGACGATTTCCAATGA 59.189 41.667 0.00 0.00 0.00 2.57
59 60 4.813161 AGCATAGTCAGACGATTTCCAATG 59.187 41.667 0.00 0.00 0.00 2.82
60 61 5.028549 AGCATAGTCAGACGATTTCCAAT 57.971 39.130 0.00 0.00 0.00 3.16
61 62 4.471904 AGCATAGTCAGACGATTTCCAA 57.528 40.909 0.00 0.00 0.00 3.53
62 63 4.471904 AAGCATAGTCAGACGATTTCCA 57.528 40.909 0.00 0.00 0.00 3.53
63 64 4.271291 GGAAAGCATAGTCAGACGATTTCC 59.729 45.833 16.27 16.27 38.12 3.13
64 65 4.026475 CGGAAAGCATAGTCAGACGATTTC 60.026 45.833 8.40 8.40 0.00 2.17
65 66 3.865745 CGGAAAGCATAGTCAGACGATTT 59.134 43.478 0.00 0.00 0.00 2.17
66 67 3.448686 CGGAAAGCATAGTCAGACGATT 58.551 45.455 0.00 0.00 0.00 3.34
67 68 3.085443 CGGAAAGCATAGTCAGACGAT 57.915 47.619 0.00 0.00 0.00 3.73
68 69 2.561733 CGGAAAGCATAGTCAGACGA 57.438 50.000 0.00 0.00 0.00 4.20
81 82 2.768492 GGAGCATGCAGGCGGAAAG 61.768 63.158 21.98 0.00 39.27 2.62
82 83 2.751436 GGAGCATGCAGGCGGAAA 60.751 61.111 21.98 0.00 39.27 3.13
83 84 3.687321 GAGGAGCATGCAGGCGGAA 62.687 63.158 21.98 0.00 39.27 4.30
84 85 4.166888 GAGGAGCATGCAGGCGGA 62.167 66.667 21.98 0.00 39.27 5.54
85 86 3.769369 ATGAGGAGCATGCAGGCGG 62.769 63.158 21.98 0.00 39.27 6.13
86 87 1.783031 GAATGAGGAGCATGCAGGCG 61.783 60.000 21.98 0.00 37.28 5.52
87 88 1.783031 CGAATGAGGAGCATGCAGGC 61.783 60.000 21.98 17.09 37.28 4.85
88 89 1.783031 GCGAATGAGGAGCATGCAGG 61.783 60.000 21.98 0.00 37.28 4.85
89 90 0.814410 AGCGAATGAGGAGCATGCAG 60.814 55.000 21.98 0.50 37.28 4.41
90 91 1.093496 CAGCGAATGAGGAGCATGCA 61.093 55.000 21.98 0.00 37.28 3.96
91 92 1.094073 ACAGCGAATGAGGAGCATGC 61.094 55.000 10.51 10.51 37.28 4.06
92 93 0.935898 GACAGCGAATGAGGAGCATG 59.064 55.000 0.00 0.00 37.28 4.06
93 94 0.529337 CGACAGCGAATGAGGAGCAT 60.529 55.000 0.00 0.00 40.82 3.79
94 95 1.153765 CGACAGCGAATGAGGAGCA 60.154 57.895 0.00 0.00 40.82 4.26
95 96 1.139734 TCGACAGCGAATGAGGAGC 59.860 57.895 0.00 0.00 44.78 4.70
104 105 3.239587 TGTGGATTAATTCGACAGCGA 57.760 42.857 0.00 0.00 46.33 4.93
108 109 3.119280 TCGAGCTGTGGATTAATTCGACA 60.119 43.478 0.00 1.79 40.32 4.35
109 110 3.444916 TCGAGCTGTGGATTAATTCGAC 58.555 45.455 0.00 0.00 33.95 4.20
110 111 3.380320 TCTCGAGCTGTGGATTAATTCGA 59.620 43.478 7.81 6.13 34.82 3.71
111 112 3.706698 TCTCGAGCTGTGGATTAATTCG 58.293 45.455 7.81 0.00 0.00 3.34
112 113 4.505922 CACTCTCGAGCTGTGGATTAATTC 59.494 45.833 22.33 0.00 0.00 2.17
113 114 4.437239 CACTCTCGAGCTGTGGATTAATT 58.563 43.478 22.33 0.00 0.00 1.40
114 115 4.052159 CACTCTCGAGCTGTGGATTAAT 57.948 45.455 22.33 0.00 0.00 1.40
115 116 3.510388 CACTCTCGAGCTGTGGATTAA 57.490 47.619 22.33 0.00 0.00 1.40
121 122 2.266554 GAAATCCACTCTCGAGCTGTG 58.733 52.381 22.81 22.81 0.00 3.66
122 123 1.895798 TGAAATCCACTCTCGAGCTGT 59.104 47.619 7.81 6.31 0.00 4.40
123 124 2.662006 TGAAATCCACTCTCGAGCTG 57.338 50.000 7.81 5.25 0.00 4.24
124 125 3.450457 AGAATGAAATCCACTCTCGAGCT 59.550 43.478 7.81 0.00 0.00 4.09
125 126 3.555139 CAGAATGAAATCCACTCTCGAGC 59.445 47.826 7.81 0.00 39.69 5.03
126 127 3.555139 GCAGAATGAAATCCACTCTCGAG 59.445 47.826 5.93 5.93 39.69 4.04
127 128 3.525537 GCAGAATGAAATCCACTCTCGA 58.474 45.455 0.00 0.00 39.69 4.04
128 129 2.611292 GGCAGAATGAAATCCACTCTCG 59.389 50.000 0.00 0.00 39.69 4.04
129 130 3.876320 GAGGCAGAATGAAATCCACTCTC 59.124 47.826 0.00 0.00 39.69 3.20
130 131 3.522750 AGAGGCAGAATGAAATCCACTCT 59.477 43.478 0.00 0.00 39.69 3.24
131 132 3.626670 CAGAGGCAGAATGAAATCCACTC 59.373 47.826 0.00 0.00 39.69 3.51
132 133 3.265221 TCAGAGGCAGAATGAAATCCACT 59.735 43.478 0.00 0.00 39.69 4.00
133 134 3.614092 TCAGAGGCAGAATGAAATCCAC 58.386 45.455 0.00 0.00 39.69 4.02
134 135 4.515028 ATCAGAGGCAGAATGAAATCCA 57.485 40.909 0.00 0.00 39.69 3.41
135 136 5.593502 AGAAATCAGAGGCAGAATGAAATCC 59.406 40.000 0.00 0.00 39.69 3.01
136 137 6.696441 AGAAATCAGAGGCAGAATGAAATC 57.304 37.500 0.00 0.00 39.69 2.17
137 138 6.627508 GCAAGAAATCAGAGGCAGAATGAAAT 60.628 38.462 0.00 0.00 39.69 2.17
138 139 5.336213 GCAAGAAATCAGAGGCAGAATGAAA 60.336 40.000 0.00 0.00 39.69 2.69
139 140 4.157289 GCAAGAAATCAGAGGCAGAATGAA 59.843 41.667 0.00 0.00 39.69 2.57
140 141 3.693085 GCAAGAAATCAGAGGCAGAATGA 59.307 43.478 0.00 0.00 39.69 2.57
141 142 3.442625 TGCAAGAAATCAGAGGCAGAATG 59.557 43.478 0.00 0.00 40.87 2.67
142 143 3.693807 TGCAAGAAATCAGAGGCAGAAT 58.306 40.909 0.00 0.00 0.00 2.40
143 144 3.144657 TGCAAGAAATCAGAGGCAGAA 57.855 42.857 0.00 0.00 0.00 3.02
144 145 2.865119 TGCAAGAAATCAGAGGCAGA 57.135 45.000 0.00 0.00 0.00 4.26
146 147 2.430465 GACTGCAAGAAATCAGAGGCA 58.570 47.619 0.00 0.00 37.43 4.75
147 148 1.742268 GGACTGCAAGAAATCAGAGGC 59.258 52.381 0.00 0.00 37.43 4.70
148 149 3.008330 CAGGACTGCAAGAAATCAGAGG 58.992 50.000 0.00 0.00 37.43 3.69
149 150 3.008330 CCAGGACTGCAAGAAATCAGAG 58.992 50.000 0.00 0.00 37.43 3.35
150 151 2.373169 ACCAGGACTGCAAGAAATCAGA 59.627 45.455 0.00 0.00 37.43 3.27
151 152 2.746362 GACCAGGACTGCAAGAAATCAG 59.254 50.000 0.00 0.00 37.43 2.90
152 153 2.553028 GGACCAGGACTGCAAGAAATCA 60.553 50.000 0.00 0.00 37.43 2.57
153 154 2.087646 GGACCAGGACTGCAAGAAATC 58.912 52.381 0.00 0.00 37.43 2.17
154 155 1.707427 AGGACCAGGACTGCAAGAAAT 59.293 47.619 0.00 0.00 37.43 2.17
155 156 1.140312 AGGACCAGGACTGCAAGAAA 58.860 50.000 0.00 0.00 37.43 2.52
156 157 0.397941 CAGGACCAGGACTGCAAGAA 59.602 55.000 0.00 0.00 37.43 2.52
157 158 1.483595 CCAGGACCAGGACTGCAAGA 61.484 60.000 0.00 0.00 37.43 3.02
158 159 1.002868 CCAGGACCAGGACTGCAAG 60.003 63.158 0.00 0.00 42.29 4.01
159 160 2.528818 CCCAGGACCAGGACTGCAA 61.529 63.158 4.06 0.00 33.43 4.08
160 161 2.930019 CCCAGGACCAGGACTGCA 60.930 66.667 4.06 0.00 33.43 4.41
161 162 3.721706 CCCCAGGACCAGGACTGC 61.722 72.222 4.06 0.00 33.43 4.40
162 163 3.011517 CCCCCAGGACCAGGACTG 61.012 72.222 4.06 0.71 33.47 3.51
163 164 3.208592 TCCCCCAGGACCAGGACT 61.209 66.667 4.06 0.00 37.19 3.85
172 173 3.227276 CGTCGAGGATCCCCCAGG 61.227 72.222 8.55 0.00 37.41 4.45
173 174 3.917760 GCGTCGAGGATCCCCCAG 61.918 72.222 8.55 0.00 37.41 4.45
174 175 4.458829 AGCGTCGAGGATCCCCCA 62.459 66.667 8.55 0.00 37.41 4.96
175 176 3.917760 CAGCGTCGAGGATCCCCC 61.918 72.222 8.55 0.00 0.00 5.40
176 177 3.917760 CCAGCGTCGAGGATCCCC 61.918 72.222 8.55 0.00 0.00 4.81
177 178 4.593864 GCCAGCGTCGAGGATCCC 62.594 72.222 8.55 0.00 0.00 3.85
178 179 2.136196 CTAGCCAGCGTCGAGGATCC 62.136 65.000 9.75 2.48 0.00 3.36
179 180 1.284408 CTAGCCAGCGTCGAGGATC 59.716 63.158 9.75 0.00 0.00 3.36
180 181 2.196925 CCTAGCCAGCGTCGAGGAT 61.197 63.158 9.75 0.00 0.00 3.24
181 182 2.829003 CCTAGCCAGCGTCGAGGA 60.829 66.667 9.75 0.00 0.00 3.71
182 183 1.739338 ATTCCTAGCCAGCGTCGAGG 61.739 60.000 0.00 0.00 0.00 4.63
183 184 0.318275 GATTCCTAGCCAGCGTCGAG 60.318 60.000 0.00 0.00 0.00 4.04
184 185 1.734137 GATTCCTAGCCAGCGTCGA 59.266 57.895 0.00 0.00 0.00 4.20
185 186 1.300233 GGATTCCTAGCCAGCGTCG 60.300 63.158 0.00 0.00 0.00 5.12
186 187 1.069935 GGGATTCCTAGCCAGCGTC 59.930 63.158 2.01 0.00 0.00 5.19
187 188 2.444256 GGGGATTCCTAGCCAGCGT 61.444 63.158 2.01 0.00 0.00 5.07
188 189 2.427753 GGGGATTCCTAGCCAGCG 59.572 66.667 2.01 0.00 0.00 5.18
189 190 2.427753 CGGGGATTCCTAGCCAGC 59.572 66.667 2.01 0.00 0.00 4.85
190 191 2.427753 GCGGGGATTCCTAGCCAG 59.572 66.667 2.01 0.00 33.13 4.85
191 192 3.546543 CGCGGGGATTCCTAGCCA 61.547 66.667 14.24 0.00 34.78 4.75
192 193 1.255667 TATCGCGGGGATTCCTAGCC 61.256 60.000 13.03 2.69 36.55 3.93
193 194 0.108756 GTATCGCGGGGATTCCTAGC 60.109 60.000 13.03 7.66 36.55 3.42
194 195 1.473278 GAGTATCGCGGGGATTCCTAG 59.527 57.143 13.03 0.00 36.55 3.02
195 196 1.075050 AGAGTATCGCGGGGATTCCTA 59.925 52.381 13.03 0.00 42.67 2.94
196 197 0.178958 AGAGTATCGCGGGGATTCCT 60.179 55.000 13.03 9.33 42.67 3.36
197 198 1.542492 TAGAGTATCGCGGGGATTCC 58.458 55.000 13.03 4.81 42.67 3.01
198 199 3.018149 AGATAGAGTATCGCGGGGATTC 58.982 50.000 13.03 8.14 42.67 2.52
199 200 3.088789 AGATAGAGTATCGCGGGGATT 57.911 47.619 13.03 0.00 42.67 3.01
200 201 2.810870 AGATAGAGTATCGCGGGGAT 57.189 50.000 6.13 12.43 42.67 3.85
201 202 2.224695 TGAAGATAGAGTATCGCGGGGA 60.225 50.000 6.13 0.00 42.67 4.81
202 203 2.160205 TGAAGATAGAGTATCGCGGGG 58.840 52.381 6.13 0.00 42.67 5.73
222 223 6.199154 GTCGACAGAATCAAATATCACGTGAT 59.801 38.462 31.93 31.93 38.51 3.06
254 255 1.815421 CACCAGCGATGTAGCCACC 60.815 63.158 0.00 0.00 38.01 4.61
388 970 2.253758 GCTCCTGCACTGCGAAACA 61.254 57.895 0.00 0.00 39.41 2.83
568 1153 1.153086 CTGGAATTGGCGGAGGGAG 60.153 63.158 0.00 0.00 0.00 4.30
575 2398 1.012841 GAGAAGCTCTGGAATTGGCG 58.987 55.000 0.00 0.00 0.00 5.69
576 2399 1.340405 TGGAGAAGCTCTGGAATTGGC 60.340 52.381 0.00 0.00 0.00 4.52
620 2443 1.583967 CGCCGTAGTTGCTCTCGAG 60.584 63.158 5.93 5.93 0.00 4.04
680 2503 1.304134 GGATGTTCCAAAGGCGGGT 60.304 57.895 0.00 0.00 36.28 5.28
911 2749 3.763897 ACATCCCTCCTGCAAATGTTAAC 59.236 43.478 0.00 0.00 0.00 2.01
931 2769 7.307514 GCGTATATAATCCCATCACGAAAAACA 60.308 37.037 0.00 0.00 0.00 2.83
932 2770 7.013529 GCGTATATAATCCCATCACGAAAAAC 58.986 38.462 0.00 0.00 0.00 2.43
979 2817 1.412710 CCTATAGCCGCCTTGAAGACA 59.587 52.381 0.00 0.00 0.00 3.41
996 2834 2.554462 GCACTCGACTCTATGCATCCTA 59.446 50.000 0.19 0.00 38.00 2.94
997 2835 1.339610 GCACTCGACTCTATGCATCCT 59.660 52.381 0.19 0.00 38.00 3.24
1003 2841 2.096013 TCTTGACGCACTCGACTCTATG 59.904 50.000 0.00 0.00 39.41 2.23
1032 2870 2.386661 TCATCTCTCCGGAAACAAGC 57.613 50.000 5.23 0.00 0.00 4.01
1335 3179 2.036236 GCATCATAAGGCCAGCCAC 58.964 57.895 12.03 0.00 38.92 5.01
1555 3419 2.706890 CCTTGTTATTACCACGCCACT 58.293 47.619 0.00 0.00 0.00 4.00
1906 3770 0.666577 CCGTCGAGTTTCTCCACACC 60.667 60.000 0.00 0.00 0.00 4.16
2025 3889 3.902261 TTCTTGTCATGCACATCACAC 57.098 42.857 0.00 0.00 33.90 3.82
2129 3996 7.364673 GGCCATTTAGGTCCAAATTATGAAAGT 60.365 37.037 0.00 0.00 40.61 2.66
2183 4054 0.812549 TACACGCCACTATCGCAGAA 59.187 50.000 0.00 0.00 43.58 3.02
2314 4186 2.736531 GGGCCCAACAAGTTGCTG 59.263 61.111 19.95 0.25 39.16 4.41
2356 4234 7.172875 GGTTTCTTAACAGAGGAAAACTAGGTC 59.827 40.741 0.00 0.00 34.84 3.85
2411 4289 5.027460 TGTAGGGCTTATCACTTAACCAGA 58.973 41.667 0.00 0.00 0.00 3.86
2435 4313 4.183865 CTCAAGGATGTACTCAATTGCGA 58.816 43.478 1.68 0.00 0.00 5.10
2437 4315 5.886960 AACTCAAGGATGTACTCAATTGC 57.113 39.130 0.00 0.00 0.00 3.56
2470 4348 3.846588 AGTGAGATTGACAACCCCACTAT 59.153 43.478 13.33 0.00 32.39 2.12
2595 4475 2.942376 CCGACCTTGTTGCATGCTATTA 59.058 45.455 20.33 2.01 0.00 0.98
2624 4504 3.716381 CCCGTTAGTAGGGTGGCA 58.284 61.111 0.00 0.00 43.89 4.92
2716 4620 2.029073 AGCACTGTCGTCGGTTGG 59.971 61.111 0.00 0.00 0.00 3.77
2728 4632 2.586425 ACTAACAATGGTTGCAGCACT 58.414 42.857 2.05 0.00 37.88 4.40
2745 4649 2.063266 CGCTGGTCGTAGCAAAAACTA 58.937 47.619 9.09 0.00 43.87 2.24
2750 4654 0.249531 TTGTCGCTGGTCGTAGCAAA 60.250 50.000 9.09 0.00 43.87 3.68
2762 4666 1.860326 GTTGCAGCAAATTTTGTCGCT 59.140 42.857 10.11 6.56 33.14 4.93
2814 4718 1.449601 CGCCCGGTTGTAGCTCATT 60.450 57.895 0.00 0.00 0.00 2.57
2815 4719 1.686325 ATCGCCCGGTTGTAGCTCAT 61.686 55.000 0.00 0.00 0.00 2.90
2816 4720 2.355986 ATCGCCCGGTTGTAGCTCA 61.356 57.895 0.00 0.00 0.00 4.26
2892 4799 1.412079 AAGCATGGCCTTTGTTGTCA 58.588 45.000 3.32 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.