Multiple sequence alignment - TraesCS2B01G224300

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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 TraesCS2B01G224300 chr2B 100.000 4121 0 0 1 4121 214311943 214316063 0.000000e+00 7611.0
1 TraesCS2B01G224300 chr2B 91.337 2551 179 16 639 3158 214280766 214283305 0.000000e+00 3448.0
2 TraesCS2B01G224300 chr2B 90.217 184 9 6 378 560 214280565 214280740 8.910000e-57 231.0
3 TraesCS2B01G224300 chr2B 92.727 55 1 3 292 345 214280405 214280457 4.420000e-10 76.8
4 TraesCS2B01G224300 chr2D 94.449 3783 115 41 392 4121 156706877 156710617 0.000000e+00 5734.0
5 TraesCS2B01G224300 chr2D 91.288 2640 176 30 601 3215 182576307 182573697 0.000000e+00 3552.0
6 TraesCS2B01G224300 chr2D 94.099 2152 124 1 1010 3158 156592469 156594620 0.000000e+00 3267.0
7 TraesCS2B01G224300 chr2D 82.480 371 37 13 536 900 156591706 156592054 2.410000e-77 300.0
8 TraesCS2B01G224300 chr2D 94.505 182 9 1 170 351 156706686 156706866 3.140000e-71 279.0
9 TraesCS2B01G224300 chr2D 94.681 94 5 0 81 174 61023704 61023797 3.320000e-31 147.0
10 TraesCS2B01G224300 chr2D 91.463 82 6 1 479 560 182576392 182576312 1.210000e-20 111.0
11 TraesCS2B01G224300 chr2A 94.164 3547 133 19 629 4121 166627709 166631235 0.000000e+00 5336.0
12 TraesCS2B01G224300 chr2A 90.923 2666 176 40 598 3215 197566604 197563957 0.000000e+00 3522.0
13 TraesCS2B01G224300 chr2A 90.883 2435 168 24 561 2980 166254154 166256549 0.000000e+00 3217.0
14 TraesCS2B01G224300 chr2A 85.308 211 20 7 482 691 197345478 197345278 1.500000e-49 207.0
15 TraesCS2B01G224300 chr2A 89.744 117 5 5 366 479 166627469 166627581 4.290000e-30 143.0
16 TraesCS2B01G224300 chr2A 89.873 79 7 1 482 560 197566683 197566606 2.620000e-17 100.0
17 TraesCS2B01G224300 chr1B 89.336 2757 210 42 534 3273 148416723 148414034 0.000000e+00 3386.0
18 TraesCS2B01G224300 chr1B 94.231 104 5 1 75 178 133188846 133188948 1.530000e-34 158.0
19 TraesCS2B01G224300 chr1D 89.777 2651 221 30 534 3163 93105619 93102998 0.000000e+00 3349.0
20 TraesCS2B01G224300 chr1A 90.294 2555 194 26 621 3163 90163845 90161333 0.000000e+00 3295.0
21 TraesCS2B01G224300 chr5A 96.739 92 3 0 86 177 309680262 309680171 1.980000e-33 154.0
22 TraesCS2B01G224300 chr4D 96.739 92 3 0 81 172 379169422 379169331 1.980000e-33 154.0
23 TraesCS2B01G224300 chr6D 96.703 91 3 0 86 176 229398184 229398094 7.140000e-33 152.0
24 TraesCS2B01G224300 chr6D 92.000 100 8 0 86 185 316428582 316428483 1.540000e-29 141.0
25 TraesCS2B01G224300 chr6D 90.000 110 6 4 77 182 77674389 77674497 2.000000e-28 137.0
26 TraesCS2B01G224300 chr5D 94.737 95 3 2 77 171 276292426 276292518 3.320000e-31 147.0
27 TraesCS2B01G224300 chr4B 94.681 94 4 1 85 178 637575213 637575121 1.190000e-30 145.0


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 TraesCS2B01G224300 chr2B 214311943 214316063 4120 False 7611.000000 7611 100.0000 1 4121 1 chr2B.!!$F1 4120
1 TraesCS2B01G224300 chr2B 214280405 214283305 2900 False 1251.933333 3448 91.4270 292 3158 3 chr2B.!!$F2 2866
2 TraesCS2B01G224300 chr2D 156706686 156710617 3931 False 3006.500000 5734 94.4770 170 4121 2 chr2D.!!$F3 3951
3 TraesCS2B01G224300 chr2D 182573697 182576392 2695 True 1831.500000 3552 91.3755 479 3215 2 chr2D.!!$R1 2736
4 TraesCS2B01G224300 chr2D 156591706 156594620 2914 False 1783.500000 3267 88.2895 536 3158 2 chr2D.!!$F2 2622
5 TraesCS2B01G224300 chr2A 166254154 166256549 2395 False 3217.000000 3217 90.8830 561 2980 1 chr2A.!!$F1 2419
6 TraesCS2B01G224300 chr2A 166627469 166631235 3766 False 2739.500000 5336 91.9540 366 4121 2 chr2A.!!$F2 3755
7 TraesCS2B01G224300 chr2A 197563957 197566683 2726 True 1811.000000 3522 90.3980 482 3215 2 chr2A.!!$R2 2733
8 TraesCS2B01G224300 chr1B 148414034 148416723 2689 True 3386.000000 3386 89.3360 534 3273 1 chr1B.!!$R1 2739
9 TraesCS2B01G224300 chr1D 93102998 93105619 2621 True 3349.000000 3349 89.7770 534 3163 1 chr1D.!!$R1 2629
10 TraesCS2B01G224300 chr1A 90161333 90163845 2512 True 3295.000000 3295 90.2940 621 3163 1 chr1A.!!$R1 2542

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
764 937 0.034059 CCTGGTCACAGTCCACACTC 59.966 60.0 0.0 0.0 43.36 3.51 F
767 940 0.249911 GGTCACAGTCCACACTCCAC 60.250 60.0 0.0 0.0 0.00 4.02 F
768 941 0.464036 GTCACAGTCCACACTCCACA 59.536 55.0 0.0 0.0 0.00 4.17 F
2442 2972 0.870393 AGCAGCACAATCAAGACGTG 59.130 50.0 0.0 0.0 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2433 2963 0.596577 CGAGGGAGTTCACGTCTTGA 59.403 55.000 0.00 0.00 0.00 3.02 R
2545 3075 4.069232 CTCCTCGAGGTGGCGCAA 62.069 66.667 30.17 8.98 36.34 4.85 R
2909 3442 1.012486 AACGATGCGGTTCGGTTCTC 61.012 55.000 8.15 0.00 43.33 2.87 R
3942 4502 1.003839 GGGCCGTGTTCAGATGTGA 60.004 57.895 0.00 0.00 0.00 3.58 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
29 30 9.668497 ACATGGTTTTCTAGTTATAGAAGGTTC 57.332 33.333 0.00 0.00 46.21 3.62
30 31 9.892130 CATGGTTTTCTAGTTATAGAAGGTTCT 57.108 33.333 0.00 0.00 46.21 3.01
32 33 9.096823 TGGTTTTCTAGTTATAGAAGGTTCTCA 57.903 33.333 0.00 0.00 46.21 3.27
37 38 8.824756 TCTAGTTATAGAAGGTTCTCATGTGT 57.175 34.615 0.00 0.00 38.70 3.72
38 39 9.916360 TCTAGTTATAGAAGGTTCTCATGTGTA 57.084 33.333 0.00 0.00 38.70 2.90
41 42 8.258708 AGTTATAGAAGGTTCTCATGTGTAACC 58.741 37.037 14.71 14.71 42.48 2.85
46 47 3.532542 GGTTCTCATGTGTAACCTAGCC 58.467 50.000 15.05 0.00 39.66 3.93
47 48 3.055385 GGTTCTCATGTGTAACCTAGCCA 60.055 47.826 15.05 0.00 39.66 4.75
48 49 3.887621 TCTCATGTGTAACCTAGCCAC 57.112 47.619 0.00 0.00 34.36 5.01
49 50 2.500098 TCTCATGTGTAACCTAGCCACC 59.500 50.000 0.00 0.00 34.36 4.61
50 51 2.236146 CTCATGTGTAACCTAGCCACCA 59.764 50.000 0.00 0.00 34.36 4.17
51 52 2.843730 TCATGTGTAACCTAGCCACCAT 59.156 45.455 0.00 0.00 34.36 3.55
52 53 4.034410 TCATGTGTAACCTAGCCACCATA 58.966 43.478 0.00 0.00 34.36 2.74
53 54 3.899052 TGTGTAACCTAGCCACCATAC 57.101 47.619 0.00 0.00 34.36 2.39
54 55 3.174779 TGTGTAACCTAGCCACCATACA 58.825 45.455 0.00 0.00 34.36 2.29
55 56 3.583526 TGTGTAACCTAGCCACCATACAA 59.416 43.478 0.00 0.00 34.36 2.41
56 57 4.041815 TGTGTAACCTAGCCACCATACAAA 59.958 41.667 0.00 0.00 34.36 2.83
57 58 4.634443 GTGTAACCTAGCCACCATACAAAG 59.366 45.833 0.00 0.00 0.00 2.77
58 59 4.287585 TGTAACCTAGCCACCATACAAAGT 59.712 41.667 0.00 0.00 0.00 2.66
59 60 5.484644 TGTAACCTAGCCACCATACAAAGTA 59.515 40.000 0.00 0.00 0.00 2.24
60 61 4.482952 ACCTAGCCACCATACAAAGTAC 57.517 45.455 0.00 0.00 0.00 2.73
61 62 4.101856 ACCTAGCCACCATACAAAGTACT 58.898 43.478 0.00 0.00 0.00 2.73
62 63 4.534897 ACCTAGCCACCATACAAAGTACTT 59.465 41.667 1.12 1.12 0.00 2.24
63 64 5.116882 CCTAGCCACCATACAAAGTACTTC 58.883 45.833 8.95 0.00 0.00 3.01
64 65 4.910458 AGCCACCATACAAAGTACTTCT 57.090 40.909 8.95 0.00 0.00 2.85
65 66 6.097839 CCTAGCCACCATACAAAGTACTTCTA 59.902 42.308 8.95 2.11 0.00 2.10
66 67 6.368779 AGCCACCATACAAAGTACTTCTAA 57.631 37.500 8.95 0.00 0.00 2.10
67 68 6.171213 AGCCACCATACAAAGTACTTCTAAC 58.829 40.000 8.95 0.00 0.00 2.34
68 69 5.935789 GCCACCATACAAAGTACTTCTAACA 59.064 40.000 8.95 0.00 0.00 2.41
69 70 6.092259 GCCACCATACAAAGTACTTCTAACAG 59.908 42.308 8.95 0.11 0.00 3.16
70 71 6.092259 CCACCATACAAAGTACTTCTAACAGC 59.908 42.308 8.95 0.00 0.00 4.40
71 72 5.867716 ACCATACAAAGTACTTCTAACAGCG 59.132 40.000 8.95 0.00 0.00 5.18
72 73 5.220416 CCATACAAAGTACTTCTAACAGCGC 60.220 44.000 8.95 0.00 0.00 5.92
73 74 3.724374 ACAAAGTACTTCTAACAGCGCA 58.276 40.909 11.47 0.00 0.00 6.09
74 75 4.124238 ACAAAGTACTTCTAACAGCGCAA 58.876 39.130 11.47 0.00 0.00 4.85
75 76 4.025145 ACAAAGTACTTCTAACAGCGCAAC 60.025 41.667 11.47 0.00 0.00 4.17
76 77 3.380479 AGTACTTCTAACAGCGCAACA 57.620 42.857 11.47 0.00 0.00 3.33
77 78 3.057734 AGTACTTCTAACAGCGCAACAC 58.942 45.455 11.47 0.00 0.00 3.32
78 79 1.948104 ACTTCTAACAGCGCAACACA 58.052 45.000 11.47 0.00 0.00 3.72
79 80 1.597663 ACTTCTAACAGCGCAACACAC 59.402 47.619 11.47 0.00 0.00 3.82
80 81 1.597195 CTTCTAACAGCGCAACACACA 59.403 47.619 11.47 0.00 0.00 3.72
81 82 1.657822 TCTAACAGCGCAACACACAA 58.342 45.000 11.47 0.00 0.00 3.33
82 83 2.010497 TCTAACAGCGCAACACACAAA 58.990 42.857 11.47 0.00 0.00 2.83
83 84 2.108700 CTAACAGCGCAACACACAAAC 58.891 47.619 11.47 0.00 0.00 2.93
84 85 0.242286 AACAGCGCAACACACAAACA 59.758 45.000 11.47 0.00 0.00 2.83
85 86 0.455410 ACAGCGCAACACACAAACAT 59.545 45.000 11.47 0.00 0.00 2.71
86 87 1.673400 ACAGCGCAACACACAAACATA 59.327 42.857 11.47 0.00 0.00 2.29
87 88 2.043411 CAGCGCAACACACAAACATAC 58.957 47.619 11.47 0.00 0.00 2.39
88 89 1.946768 AGCGCAACACACAAACATACT 59.053 42.857 11.47 0.00 0.00 2.12
89 90 2.357637 AGCGCAACACACAAACATACTT 59.642 40.909 11.47 0.00 0.00 2.24
90 91 2.719046 GCGCAACACACAAACATACTTC 59.281 45.455 0.30 0.00 0.00 3.01
91 92 3.296628 CGCAACACACAAACATACTTCC 58.703 45.455 0.00 0.00 0.00 3.46
92 93 3.003275 CGCAACACACAAACATACTTCCT 59.997 43.478 0.00 0.00 0.00 3.36
93 94 4.537015 GCAACACACAAACATACTTCCTC 58.463 43.478 0.00 0.00 0.00 3.71
94 95 4.556699 GCAACACACAAACATACTTCCTCC 60.557 45.833 0.00 0.00 0.00 4.30
95 96 3.399330 ACACACAAACATACTTCCTCCG 58.601 45.455 0.00 0.00 0.00 4.63
96 97 3.181458 ACACACAAACATACTTCCTCCGT 60.181 43.478 0.00 0.00 0.00 4.69
97 98 3.813166 CACACAAACATACTTCCTCCGTT 59.187 43.478 0.00 0.00 0.00 4.44
98 99 4.274950 CACACAAACATACTTCCTCCGTTT 59.725 41.667 0.00 0.00 0.00 3.60
99 100 4.514066 ACACAAACATACTTCCTCCGTTTC 59.486 41.667 0.00 0.00 0.00 2.78
100 101 4.513692 CACAAACATACTTCCTCCGTTTCA 59.486 41.667 0.00 0.00 0.00 2.69
101 102 5.181245 CACAAACATACTTCCTCCGTTTCAT 59.819 40.000 0.00 0.00 0.00 2.57
102 103 6.370442 CACAAACATACTTCCTCCGTTTCATA 59.630 38.462 0.00 0.00 0.00 2.15
103 104 7.065803 CACAAACATACTTCCTCCGTTTCATAT 59.934 37.037 0.00 0.00 0.00 1.78
104 105 7.610305 ACAAACATACTTCCTCCGTTTCATATT 59.390 33.333 0.00 0.00 0.00 1.28
105 106 9.104965 CAAACATACTTCCTCCGTTTCATATTA 57.895 33.333 0.00 0.00 0.00 0.98
106 107 8.658499 AACATACTTCCTCCGTTTCATATTAC 57.342 34.615 0.00 0.00 0.00 1.89
107 108 8.019656 ACATACTTCCTCCGTTTCATATTACT 57.980 34.615 0.00 0.00 0.00 2.24
108 109 8.483758 ACATACTTCCTCCGTTTCATATTACTT 58.516 33.333 0.00 0.00 0.00 2.24
109 110 8.765219 CATACTTCCTCCGTTTCATATTACTTG 58.235 37.037 0.00 0.00 0.00 3.16
110 111 6.708285 ACTTCCTCCGTTTCATATTACTTGT 58.292 36.000 0.00 0.00 0.00 3.16
111 112 6.817140 ACTTCCTCCGTTTCATATTACTTGTC 59.183 38.462 0.00 0.00 0.00 3.18
112 113 5.345702 TCCTCCGTTTCATATTACTTGTCG 58.654 41.667 0.00 0.00 0.00 4.35
113 114 4.025979 CCTCCGTTTCATATTACTTGTCGC 60.026 45.833 0.00 0.00 0.00 5.19
114 115 4.751060 TCCGTTTCATATTACTTGTCGCT 58.249 39.130 0.00 0.00 0.00 4.93
115 116 4.565166 TCCGTTTCATATTACTTGTCGCTG 59.435 41.667 0.00 0.00 0.00 5.18
116 117 4.565166 CCGTTTCATATTACTTGTCGCTGA 59.435 41.667 0.00 0.00 0.00 4.26
117 118 5.234329 CCGTTTCATATTACTTGTCGCTGAT 59.766 40.000 0.00 0.00 0.00 2.90
118 119 6.238103 CCGTTTCATATTACTTGTCGCTGATT 60.238 38.462 0.00 0.00 0.00 2.57
119 120 7.180079 CGTTTCATATTACTTGTCGCTGATTT 58.820 34.615 0.00 0.00 0.00 2.17
120 121 8.325282 CGTTTCATATTACTTGTCGCTGATTTA 58.675 33.333 0.00 0.00 0.00 1.40
121 122 9.638300 GTTTCATATTACTTGTCGCTGATTTAG 57.362 33.333 0.00 0.00 0.00 1.85
122 123 8.942338 TTCATATTACTTGTCGCTGATTTAGT 57.058 30.769 0.00 0.00 0.00 2.24
124 125 9.459640 TCATATTACTTGTCGCTGATTTAGTAC 57.540 33.333 0.00 0.00 0.00 2.73
125 126 9.244799 CATATTACTTGTCGCTGATTTAGTACA 57.755 33.333 0.00 0.00 0.00 2.90
126 127 9.811995 ATATTACTTGTCGCTGATTTAGTACAA 57.188 29.630 0.00 0.00 34.99 2.41
127 128 7.949903 TTACTTGTCGCTGATTTAGTACAAA 57.050 32.000 0.00 0.00 35.46 2.83
128 129 6.467723 ACTTGTCGCTGATTTAGTACAAAG 57.532 37.500 0.00 0.00 35.46 2.77
129 130 5.989777 ACTTGTCGCTGATTTAGTACAAAGT 59.010 36.000 0.00 0.00 35.46 2.66
130 131 6.482308 ACTTGTCGCTGATTTAGTACAAAGTT 59.518 34.615 0.00 0.00 35.46 2.66
131 132 6.223138 TGTCGCTGATTTAGTACAAAGTTG 57.777 37.500 0.00 0.00 0.00 3.16
132 133 5.756347 TGTCGCTGATTTAGTACAAAGTTGT 59.244 36.000 1.75 1.75 44.86 3.32
133 134 6.924612 TGTCGCTGATTTAGTACAAAGTTGTA 59.075 34.615 0.00 0.00 42.35 2.41
146 147 6.224420 ACAAAGTTGTACTAAATCAGCGAC 57.776 37.500 0.00 0.00 40.16 5.19
147 148 5.107607 ACAAAGTTGTACTAAATCAGCGACG 60.108 40.000 0.00 0.00 40.16 5.12
148 149 4.430137 AGTTGTACTAAATCAGCGACGA 57.570 40.909 0.00 0.00 0.00 4.20
149 150 4.413087 AGTTGTACTAAATCAGCGACGAG 58.587 43.478 0.00 0.00 0.00 4.18
150 151 4.082895 AGTTGTACTAAATCAGCGACGAGT 60.083 41.667 0.00 0.00 0.00 4.18
151 152 5.122869 AGTTGTACTAAATCAGCGACGAGTA 59.877 40.000 0.00 0.00 0.00 2.59
152 153 5.550232 TGTACTAAATCAGCGACGAGTAA 57.450 39.130 0.00 0.00 0.00 2.24
153 154 6.127810 TGTACTAAATCAGCGACGAGTAAT 57.872 37.500 0.00 0.00 0.00 1.89
154 155 7.250445 TGTACTAAATCAGCGACGAGTAATA 57.750 36.000 0.00 0.00 0.00 0.98
155 156 7.868775 TGTACTAAATCAGCGACGAGTAATAT 58.131 34.615 0.00 0.00 0.00 1.28
156 157 7.801783 TGTACTAAATCAGCGACGAGTAATATG 59.198 37.037 0.00 0.00 0.00 1.78
157 158 6.150318 ACTAAATCAGCGACGAGTAATATGG 58.850 40.000 0.00 0.00 0.00 2.74
158 159 4.848562 AATCAGCGACGAGTAATATGGA 57.151 40.909 0.00 0.00 0.00 3.41
159 160 4.848562 ATCAGCGACGAGTAATATGGAA 57.151 40.909 0.00 0.00 0.00 3.53
160 161 3.961182 TCAGCGACGAGTAATATGGAAC 58.039 45.455 0.00 0.00 0.00 3.62
161 162 2.719556 CAGCGACGAGTAATATGGAACG 59.280 50.000 0.00 0.00 0.00 3.95
162 163 2.049228 GCGACGAGTAATATGGAACGG 58.951 52.381 0.00 0.00 0.00 4.44
163 164 2.287188 GCGACGAGTAATATGGAACGGA 60.287 50.000 0.00 0.00 0.00 4.69
164 165 3.552541 CGACGAGTAATATGGAACGGAG 58.447 50.000 0.00 0.00 0.00 4.63
165 166 3.608707 CGACGAGTAATATGGAACGGAGG 60.609 52.174 0.00 0.00 0.00 4.30
166 167 2.626743 ACGAGTAATATGGAACGGAGGG 59.373 50.000 0.00 0.00 0.00 4.30
167 168 2.889045 CGAGTAATATGGAACGGAGGGA 59.111 50.000 0.00 0.00 0.00 4.20
168 169 3.057456 CGAGTAATATGGAACGGAGGGAG 60.057 52.174 0.00 0.00 0.00 4.30
179 180 2.843701 ACGGAGGGAGTAGTACATACG 58.156 52.381 0.00 0.00 39.55 3.06
240 241 3.001736 GCACGCATTAGTGAGAATCCTTC 59.998 47.826 0.88 0.00 44.43 3.46
245 246 4.680708 GCATTAGTGAGAATCCTTCGGACA 60.681 45.833 0.00 0.00 32.98 4.02
256 257 1.470979 CCTTCGGACATAACCTGGACG 60.471 57.143 0.00 0.00 0.00 4.79
259 260 0.533491 CGGACATAACCTGGACGGAA 59.467 55.000 0.00 0.00 36.31 4.30
274 275 8.323567 ACCTGGACGGAATATTAAGAAAACTTA 58.676 33.333 0.00 0.00 36.31 2.24
332 333 1.673920 GTGAACCTTGCCGTCTTCAAA 59.326 47.619 0.00 0.00 0.00 2.69
351 352 5.890334 TCAAAGTCATGGTCAAAACTCAAC 58.110 37.500 0.00 0.00 0.00 3.18
352 353 5.417266 TCAAAGTCATGGTCAAAACTCAACA 59.583 36.000 0.00 0.00 0.00 3.33
353 354 5.913137 AAGTCATGGTCAAAACTCAACAA 57.087 34.783 0.00 0.00 0.00 2.83
354 355 5.913137 AGTCATGGTCAAAACTCAACAAA 57.087 34.783 0.00 0.00 0.00 2.83
355 356 6.279513 AGTCATGGTCAAAACTCAACAAAA 57.720 33.333 0.00 0.00 0.00 2.44
357 358 6.589907 AGTCATGGTCAAAACTCAACAAAAAC 59.410 34.615 0.00 0.00 0.00 2.43
358 359 5.872070 TCATGGTCAAAACTCAACAAAAACC 59.128 36.000 0.00 0.00 0.00 3.27
359 360 5.215252 TGGTCAAAACTCAACAAAAACCA 57.785 34.783 0.00 0.00 32.13 3.67
363 364 6.148645 GGTCAAAACTCAACAAAAACCATGTT 59.851 34.615 0.00 0.00 41.50 2.71
373 374 6.767524 ACAAAAACCATGTTGTAACTCAGA 57.232 33.333 0.00 0.00 36.22 3.27
374 375 6.560711 ACAAAAACCATGTTGTAACTCAGAC 58.439 36.000 0.00 0.00 36.22 3.51
375 376 5.767816 AAAACCATGTTGTAACTCAGACC 57.232 39.130 0.00 0.00 0.00 3.85
427 517 7.041372 GCATTTGTAAAGAAACAGTCTCACCTA 60.041 37.037 0.00 0.00 34.56 3.08
428 518 8.836413 CATTTGTAAAGAAACAGTCTCACCTAA 58.164 33.333 0.00 0.00 34.56 2.69
429 519 8.974060 TTTGTAAAGAAACAGTCTCACCTAAT 57.026 30.769 0.00 0.00 34.56 1.73
463 553 2.922740 TGGACTTGGACACACCTAAC 57.077 50.000 0.00 0.00 39.86 2.34
464 554 1.069513 TGGACTTGGACACACCTAACG 59.930 52.381 0.00 0.00 39.86 3.18
465 555 1.342174 GGACTTGGACACACCTAACGA 59.658 52.381 0.00 0.00 39.86 3.85
493 645 5.013547 TGAAATAAATCAAAAGAGGGCCGA 58.986 37.500 0.00 0.00 0.00 5.54
516 668 5.172934 ACGAATGGTTAATTAGCGACTTGA 58.827 37.500 0.00 0.00 0.00 3.02
555 707 1.945394 CATCACCATCAGCTAGCAACC 59.055 52.381 18.83 0.00 0.00 3.77
557 709 1.450312 ACCATCAGCTAGCAACCGC 60.450 57.895 18.83 0.00 38.99 5.68
558 710 2.528743 CCATCAGCTAGCAACCGCG 61.529 63.158 18.83 0.00 45.49 6.46
559 711 1.811266 CATCAGCTAGCAACCGCGT 60.811 57.895 18.83 0.00 45.49 6.01
605 760 2.360350 CCCCTCGCACAGCACATT 60.360 61.111 0.00 0.00 0.00 2.71
606 761 1.973281 CCCCTCGCACAGCACATTT 60.973 57.895 0.00 0.00 0.00 2.32
607 762 1.210931 CCCTCGCACAGCACATTTG 59.789 57.895 0.00 0.00 0.00 2.32
747 916 0.249398 GCGGTCAACACTACCATCCT 59.751 55.000 0.00 0.00 36.78 3.24
763 936 0.398522 TCCTGGTCACAGTCCACACT 60.399 55.000 0.00 0.00 43.36 3.55
764 937 0.034059 CCTGGTCACAGTCCACACTC 59.966 60.000 0.00 0.00 43.36 3.51
765 938 0.034059 CTGGTCACAGTCCACACTCC 59.966 60.000 0.00 0.00 39.92 3.85
766 939 0.689412 TGGTCACAGTCCACACTCCA 60.689 55.000 0.00 0.00 0.00 3.86
767 940 0.249911 GGTCACAGTCCACACTCCAC 60.250 60.000 0.00 0.00 0.00 4.02
768 941 0.464036 GTCACAGTCCACACTCCACA 59.536 55.000 0.00 0.00 0.00 4.17
769 942 0.464036 TCACAGTCCACACTCCACAC 59.536 55.000 0.00 0.00 0.00 3.82
824 1005 5.280573 GCTACCTATTTAAATCCTCCCCTCC 60.281 48.000 3.39 0.00 0.00 4.30
923 1148 5.489792 AGAATCGCCACATAGATAACCAT 57.510 39.130 0.00 0.00 0.00 3.55
1470 2000 2.530497 GCTTGTCCGCGTCAACACA 61.530 57.895 4.92 0.00 0.00 3.72
1959 2489 2.041762 ATCCTGGAGGGCAGCTCA 59.958 61.111 1.52 0.00 35.41 4.26
2415 2945 1.478471 CCTGTGACCAACCATGTCCAA 60.478 52.381 0.00 0.00 31.60 3.53
2442 2972 0.870393 AGCAGCACAATCAAGACGTG 59.130 50.000 0.00 0.00 0.00 4.49
2545 3075 1.376424 CTGTGCCAAGCCATCGACT 60.376 57.895 0.00 0.00 0.00 4.18
3068 3601 0.108804 CAGGGTAAGCACATCGACGT 60.109 55.000 0.00 0.00 0.00 4.34
3222 3757 9.627395 TTGTTTGATTTCGTTCTTTCTTTGTTA 57.373 25.926 0.00 0.00 0.00 2.41
3260 3795 3.469899 GTTGATGCATGCAACGTTCTA 57.530 42.857 26.68 11.69 36.63 2.10
3296 3831 3.508762 CATTGCCAAAGATTGCACTCTC 58.491 45.455 7.08 0.00 37.18 3.20
3297 3832 2.574006 TGCCAAAGATTGCACTCTCT 57.426 45.000 7.08 0.00 31.31 3.10
3342 3900 4.379652 AGGGCACAAATTTTCATGTCAAC 58.620 39.130 0.00 0.00 0.00 3.18
3389 3947 3.612860 GCACGTTCAGACTTACTGTATGG 59.387 47.826 5.80 0.00 45.86 2.74
3413 3971 2.146342 ACAAGCACATTCTCCTCGTTG 58.854 47.619 0.00 0.00 0.00 4.10
3462 4020 0.041400 TTTCACGTCGCACTGCAATG 60.041 50.000 1.11 0.00 0.00 2.82
3513 4071 4.082245 TGTCATACAAGCACATTCTCGAGA 60.082 41.667 12.08 12.08 0.00 4.04
3590 4148 9.726438 AAAACAATAGGCATGAGAGGTATATAC 57.274 33.333 4.14 4.14 0.00 1.47
3592 4150 8.072321 ACAATAGGCATGAGAGGTATATACAG 57.928 38.462 14.70 0.00 0.00 2.74
3688 4248 8.328864 GGAAGAAAGAATGTACAAGTATAAGCG 58.671 37.037 0.00 0.00 0.00 4.68
3728 4288 6.569127 TGCCAAATTATCTACCACCTAGAA 57.431 37.500 0.00 0.00 34.99 2.10
3763 4323 2.292267 CATTCATAGGCAGTCACCCAC 58.708 52.381 0.00 0.00 0.00 4.61
3774 4334 2.549754 CAGTCACCCACACTCAACATTC 59.450 50.000 0.00 0.00 0.00 2.67
4099 4659 7.129457 TGATGTAAAGGTAGAGATGCTGATT 57.871 36.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.668497 GAACCTTCTATAACTAGAAAACCATGT 57.332 33.333 0.00 0.00 42.11 3.21
6 7 9.096823 TGAGAACCTTCTATAACTAGAAAACCA 57.903 33.333 0.00 0.00 42.11 3.67
11 12 9.256228 ACACATGAGAACCTTCTATAACTAGAA 57.744 33.333 0.00 0.00 40.81 2.10
12 13 8.824756 ACACATGAGAACCTTCTATAACTAGA 57.175 34.615 0.00 0.00 37.73 2.43
15 16 8.258708 GGTTACACATGAGAACCTTCTATAACT 58.741 37.037 16.10 0.00 39.67 2.24
16 17 8.421673 GGTTACACATGAGAACCTTCTATAAC 57.578 38.462 16.10 4.36 39.67 1.89
25 26 3.055385 TGGCTAGGTTACACATGAGAACC 60.055 47.826 15.78 15.78 42.54 3.62
26 27 3.933332 GTGGCTAGGTTACACATGAGAAC 59.067 47.826 0.00 0.00 35.30 3.01
27 28 3.055385 GGTGGCTAGGTTACACATGAGAA 60.055 47.826 0.00 0.00 36.87 2.87
28 29 2.500098 GGTGGCTAGGTTACACATGAGA 59.500 50.000 0.00 0.00 36.87 3.27
29 30 2.236146 TGGTGGCTAGGTTACACATGAG 59.764 50.000 0.00 0.00 36.87 2.90
30 31 2.261729 TGGTGGCTAGGTTACACATGA 58.738 47.619 0.00 0.00 36.87 3.07
31 32 2.779755 TGGTGGCTAGGTTACACATG 57.220 50.000 0.00 0.00 36.87 3.21
32 33 3.778075 TGTATGGTGGCTAGGTTACACAT 59.222 43.478 0.00 0.00 36.87 3.21
33 34 3.174779 TGTATGGTGGCTAGGTTACACA 58.825 45.455 0.00 0.00 36.87 3.72
34 35 3.899052 TGTATGGTGGCTAGGTTACAC 57.101 47.619 0.00 0.00 0.00 2.90
35 36 4.287585 ACTTTGTATGGTGGCTAGGTTACA 59.712 41.667 0.00 0.00 0.00 2.41
36 37 4.840271 ACTTTGTATGGTGGCTAGGTTAC 58.160 43.478 0.00 0.00 0.00 2.50
37 38 5.722923 AGTACTTTGTATGGTGGCTAGGTTA 59.277 40.000 0.00 0.00 0.00 2.85
38 39 4.534897 AGTACTTTGTATGGTGGCTAGGTT 59.465 41.667 0.00 0.00 0.00 3.50
39 40 4.101856 AGTACTTTGTATGGTGGCTAGGT 58.898 43.478 0.00 0.00 0.00 3.08
40 41 4.755266 AGTACTTTGTATGGTGGCTAGG 57.245 45.455 0.00 0.00 0.00 3.02
41 42 5.978814 AGAAGTACTTTGTATGGTGGCTAG 58.021 41.667 10.02 0.00 0.00 3.42
42 43 7.038870 TGTTAGAAGTACTTTGTATGGTGGCTA 60.039 37.037 10.02 0.00 0.00 3.93
43 44 4.910458 AGAAGTACTTTGTATGGTGGCT 57.090 40.909 10.02 0.00 0.00 4.75
44 45 5.935789 TGTTAGAAGTACTTTGTATGGTGGC 59.064 40.000 10.02 0.00 0.00 5.01
45 46 6.092259 GCTGTTAGAAGTACTTTGTATGGTGG 59.908 42.308 10.02 0.00 0.00 4.61
46 47 6.183360 CGCTGTTAGAAGTACTTTGTATGGTG 60.183 42.308 10.02 3.17 0.00 4.17
47 48 5.867716 CGCTGTTAGAAGTACTTTGTATGGT 59.132 40.000 10.02 0.00 0.00 3.55
48 49 5.220416 GCGCTGTTAGAAGTACTTTGTATGG 60.220 44.000 10.02 1.44 0.00 2.74
49 50 5.347635 TGCGCTGTTAGAAGTACTTTGTATG 59.652 40.000 10.02 0.92 0.00 2.39
50 51 5.475719 TGCGCTGTTAGAAGTACTTTGTAT 58.524 37.500 10.02 0.00 0.00 2.29
51 52 4.873817 TGCGCTGTTAGAAGTACTTTGTA 58.126 39.130 10.02 2.15 0.00 2.41
52 53 3.724374 TGCGCTGTTAGAAGTACTTTGT 58.276 40.909 10.02 3.16 0.00 2.83
53 54 4.025229 TGTTGCGCTGTTAGAAGTACTTTG 60.025 41.667 10.02 0.00 0.00 2.77
54 55 4.025145 GTGTTGCGCTGTTAGAAGTACTTT 60.025 41.667 10.02 2.79 0.00 2.66
55 56 3.493503 GTGTTGCGCTGTTAGAAGTACTT 59.506 43.478 8.13 8.13 0.00 2.24
56 57 3.057734 GTGTTGCGCTGTTAGAAGTACT 58.942 45.455 9.73 0.00 0.00 2.73
57 58 2.798283 TGTGTTGCGCTGTTAGAAGTAC 59.202 45.455 9.73 0.00 0.00 2.73
58 59 2.798283 GTGTGTTGCGCTGTTAGAAGTA 59.202 45.455 9.73 0.00 0.00 2.24
59 60 1.597663 GTGTGTTGCGCTGTTAGAAGT 59.402 47.619 9.73 0.00 0.00 3.01
60 61 1.597195 TGTGTGTTGCGCTGTTAGAAG 59.403 47.619 9.73 0.00 0.00 2.85
61 62 1.657822 TGTGTGTTGCGCTGTTAGAA 58.342 45.000 9.73 0.00 0.00 2.10
62 63 1.657822 TTGTGTGTTGCGCTGTTAGA 58.342 45.000 9.73 0.00 0.00 2.10
63 64 2.108700 GTTTGTGTGTTGCGCTGTTAG 58.891 47.619 9.73 0.00 0.00 2.34
64 65 1.468914 TGTTTGTGTGTTGCGCTGTTA 59.531 42.857 9.73 0.00 0.00 2.41
65 66 0.242286 TGTTTGTGTGTTGCGCTGTT 59.758 45.000 9.73 0.00 0.00 3.16
66 67 0.455410 ATGTTTGTGTGTTGCGCTGT 59.545 45.000 9.73 0.00 0.00 4.40
67 68 2.043411 GTATGTTTGTGTGTTGCGCTG 58.957 47.619 9.73 0.00 0.00 5.18
68 69 1.946768 AGTATGTTTGTGTGTTGCGCT 59.053 42.857 9.73 0.00 0.00 5.92
69 70 2.399396 AGTATGTTTGTGTGTTGCGC 57.601 45.000 0.00 0.00 0.00 6.09
70 71 3.003275 AGGAAGTATGTTTGTGTGTTGCG 59.997 43.478 0.00 0.00 0.00 4.85
71 72 4.537015 GAGGAAGTATGTTTGTGTGTTGC 58.463 43.478 0.00 0.00 0.00 4.17
72 73 4.319477 CGGAGGAAGTATGTTTGTGTGTTG 60.319 45.833 0.00 0.00 0.00 3.33
73 74 3.813166 CGGAGGAAGTATGTTTGTGTGTT 59.187 43.478 0.00 0.00 0.00 3.32
74 75 3.181458 ACGGAGGAAGTATGTTTGTGTGT 60.181 43.478 0.00 0.00 0.00 3.72
75 76 3.399330 ACGGAGGAAGTATGTTTGTGTG 58.601 45.455 0.00 0.00 0.00 3.82
76 77 3.764237 ACGGAGGAAGTATGTTTGTGT 57.236 42.857 0.00 0.00 0.00 3.72
77 78 4.513692 TGAAACGGAGGAAGTATGTTTGTG 59.486 41.667 0.00 0.00 33.27 3.33
78 79 4.710324 TGAAACGGAGGAAGTATGTTTGT 58.290 39.130 0.00 0.00 33.27 2.83
79 80 5.880054 ATGAAACGGAGGAAGTATGTTTG 57.120 39.130 0.00 0.00 33.27 2.93
80 81 9.106070 GTAATATGAAACGGAGGAAGTATGTTT 57.894 33.333 0.00 0.00 35.61 2.83
81 82 8.483758 AGTAATATGAAACGGAGGAAGTATGTT 58.516 33.333 0.00 0.00 0.00 2.71
82 83 8.019656 AGTAATATGAAACGGAGGAAGTATGT 57.980 34.615 0.00 0.00 0.00 2.29
83 84 8.765219 CAAGTAATATGAAACGGAGGAAGTATG 58.235 37.037 0.00 0.00 0.00 2.39
84 85 8.483758 ACAAGTAATATGAAACGGAGGAAGTAT 58.516 33.333 0.00 0.00 0.00 2.12
85 86 7.844009 ACAAGTAATATGAAACGGAGGAAGTA 58.156 34.615 0.00 0.00 0.00 2.24
86 87 6.708285 ACAAGTAATATGAAACGGAGGAAGT 58.292 36.000 0.00 0.00 0.00 3.01
87 88 6.019801 CGACAAGTAATATGAAACGGAGGAAG 60.020 42.308 0.00 0.00 0.00 3.46
88 89 5.808540 CGACAAGTAATATGAAACGGAGGAA 59.191 40.000 0.00 0.00 0.00 3.36
89 90 5.345702 CGACAAGTAATATGAAACGGAGGA 58.654 41.667 0.00 0.00 0.00 3.71
90 91 4.025979 GCGACAAGTAATATGAAACGGAGG 60.026 45.833 0.00 0.00 0.00 4.30
91 92 4.804139 AGCGACAAGTAATATGAAACGGAG 59.196 41.667 0.00 0.00 0.00 4.63
92 93 4.565166 CAGCGACAAGTAATATGAAACGGA 59.435 41.667 0.00 0.00 0.00 4.69
93 94 4.565166 TCAGCGACAAGTAATATGAAACGG 59.435 41.667 0.00 0.00 0.00 4.44
94 95 5.696260 TCAGCGACAAGTAATATGAAACG 57.304 39.130 0.00 0.00 0.00 3.60
95 96 9.638300 CTAAATCAGCGACAAGTAATATGAAAC 57.362 33.333 0.00 0.00 0.00 2.78
96 97 9.378551 ACTAAATCAGCGACAAGTAATATGAAA 57.621 29.630 0.00 0.00 0.00 2.69
97 98 8.942338 ACTAAATCAGCGACAAGTAATATGAA 57.058 30.769 0.00 0.00 0.00 2.57
98 99 9.459640 GTACTAAATCAGCGACAAGTAATATGA 57.540 33.333 0.00 0.00 0.00 2.15
99 100 9.244799 TGTACTAAATCAGCGACAAGTAATATG 57.755 33.333 0.00 0.00 0.00 1.78
100 101 9.811995 TTGTACTAAATCAGCGACAAGTAATAT 57.188 29.630 0.00 0.00 31.65 1.28
101 102 9.642327 TTTGTACTAAATCAGCGACAAGTAATA 57.358 29.630 0.00 0.00 35.77 0.98
102 103 8.542497 TTTGTACTAAATCAGCGACAAGTAAT 57.458 30.769 0.00 0.00 35.77 1.89
103 104 7.654520 ACTTTGTACTAAATCAGCGACAAGTAA 59.345 33.333 0.00 0.00 35.77 2.24
104 105 7.149973 ACTTTGTACTAAATCAGCGACAAGTA 58.850 34.615 0.00 0.00 35.77 2.24
105 106 5.989777 ACTTTGTACTAAATCAGCGACAAGT 59.010 36.000 0.00 0.00 35.77 3.16
106 107 6.467723 ACTTTGTACTAAATCAGCGACAAG 57.532 37.500 0.00 0.00 35.77 3.16
107 108 6.259167 ACAACTTTGTACTAAATCAGCGACAA 59.741 34.615 0.00 0.00 40.16 3.18
108 109 5.756347 ACAACTTTGTACTAAATCAGCGACA 59.244 36.000 0.00 0.00 40.16 4.35
109 110 6.224420 ACAACTTTGTACTAAATCAGCGAC 57.776 37.500 0.00 0.00 40.16 5.19
122 123 6.088483 CGTCGCTGATTTAGTACAACTTTGTA 59.912 38.462 0.00 0.00 42.35 2.41
123 124 5.107607 CGTCGCTGATTTAGTACAACTTTGT 60.108 40.000 0.00 0.00 44.86 2.83
124 125 5.118050 TCGTCGCTGATTTAGTACAACTTTG 59.882 40.000 0.00 0.00 0.00 2.77
125 126 5.224888 TCGTCGCTGATTTAGTACAACTTT 58.775 37.500 0.00 0.00 0.00 2.66
126 127 4.801891 TCGTCGCTGATTTAGTACAACTT 58.198 39.130 0.00 0.00 0.00 2.66
127 128 4.082895 ACTCGTCGCTGATTTAGTACAACT 60.083 41.667 0.00 0.00 0.00 3.16
128 129 4.164294 ACTCGTCGCTGATTTAGTACAAC 58.836 43.478 0.00 0.00 0.00 3.32
129 130 4.430137 ACTCGTCGCTGATTTAGTACAA 57.570 40.909 0.00 0.00 0.00 2.41
130 131 5.550232 TTACTCGTCGCTGATTTAGTACA 57.450 39.130 0.00 0.00 0.00 2.90
131 132 7.270793 CCATATTACTCGTCGCTGATTTAGTAC 59.729 40.741 0.00 0.00 0.00 2.73
132 133 7.173735 TCCATATTACTCGTCGCTGATTTAGTA 59.826 37.037 0.00 0.00 0.00 1.82
133 134 6.016527 TCCATATTACTCGTCGCTGATTTAGT 60.017 38.462 0.00 0.00 0.00 2.24
134 135 6.379386 TCCATATTACTCGTCGCTGATTTAG 58.621 40.000 0.00 0.00 0.00 1.85
135 136 6.321848 TCCATATTACTCGTCGCTGATTTA 57.678 37.500 0.00 0.00 0.00 1.40
136 137 5.196341 TCCATATTACTCGTCGCTGATTT 57.804 39.130 0.00 0.00 0.00 2.17
137 138 4.848562 TCCATATTACTCGTCGCTGATT 57.151 40.909 0.00 0.00 0.00 2.57
138 139 4.547532 GTTCCATATTACTCGTCGCTGAT 58.452 43.478 0.00 0.00 0.00 2.90
139 140 3.547413 CGTTCCATATTACTCGTCGCTGA 60.547 47.826 0.00 0.00 0.00 4.26
140 141 2.719556 CGTTCCATATTACTCGTCGCTG 59.280 50.000 0.00 0.00 0.00 5.18
141 142 2.287427 CCGTTCCATATTACTCGTCGCT 60.287 50.000 0.00 0.00 0.00 4.93
142 143 2.049228 CCGTTCCATATTACTCGTCGC 58.951 52.381 0.00 0.00 0.00 5.19
143 144 3.552541 CTCCGTTCCATATTACTCGTCG 58.447 50.000 0.00 0.00 0.00 5.12
144 145 3.305199 CCCTCCGTTCCATATTACTCGTC 60.305 52.174 0.00 0.00 0.00 4.20
145 146 2.626743 CCCTCCGTTCCATATTACTCGT 59.373 50.000 0.00 0.00 0.00 4.18
146 147 2.889045 TCCCTCCGTTCCATATTACTCG 59.111 50.000 0.00 0.00 0.00 4.18
147 148 3.896272 ACTCCCTCCGTTCCATATTACTC 59.104 47.826 0.00 0.00 0.00 2.59
148 149 3.924922 ACTCCCTCCGTTCCATATTACT 58.075 45.455 0.00 0.00 0.00 2.24
149 150 4.831710 ACTACTCCCTCCGTTCCATATTAC 59.168 45.833 0.00 0.00 0.00 1.89
150 151 5.070823 ACTACTCCCTCCGTTCCATATTA 57.929 43.478 0.00 0.00 0.00 0.98
151 152 3.924922 ACTACTCCCTCCGTTCCATATT 58.075 45.455 0.00 0.00 0.00 1.28
152 153 3.614568 ACTACTCCCTCCGTTCCATAT 57.385 47.619 0.00 0.00 0.00 1.78
153 154 3.202818 TGTACTACTCCCTCCGTTCCATA 59.797 47.826 0.00 0.00 0.00 2.74
154 155 2.024655 TGTACTACTCCCTCCGTTCCAT 60.025 50.000 0.00 0.00 0.00 3.41
155 156 1.355381 TGTACTACTCCCTCCGTTCCA 59.645 52.381 0.00 0.00 0.00 3.53
156 157 2.134789 TGTACTACTCCCTCCGTTCC 57.865 55.000 0.00 0.00 0.00 3.62
157 158 3.249559 CGTATGTACTACTCCCTCCGTTC 59.750 52.174 0.00 0.00 0.00 3.95
158 159 3.209410 CGTATGTACTACTCCCTCCGTT 58.791 50.000 0.00 0.00 0.00 4.44
159 160 2.171448 ACGTATGTACTACTCCCTCCGT 59.829 50.000 0.00 0.00 0.00 4.69
160 161 2.843701 ACGTATGTACTACTCCCTCCG 58.156 52.381 0.00 0.00 0.00 4.63
161 162 6.370166 GTGTATACGTATGTACTACTCCCTCC 59.630 46.154 18.37 0.00 32.26 4.30
162 163 6.090088 CGTGTATACGTATGTACTACTCCCTC 59.910 46.154 18.37 0.00 44.99 4.30
163 164 5.928839 CGTGTATACGTATGTACTACTCCCT 59.071 44.000 18.37 0.00 44.99 4.20
164 165 6.158175 CGTGTATACGTATGTACTACTCCC 57.842 45.833 18.37 0.65 44.99 4.30
179 180 5.444586 TCAAAATGAAGCGTCGTGTATAC 57.555 39.130 0.00 0.00 0.00 1.47
194 195 3.311106 ACATGCTTCAGCGTTCAAAATG 58.689 40.909 0.00 0.00 45.83 2.32
240 241 0.533491 TTCCGTCCAGGTTATGTCCG 59.467 55.000 0.00 0.00 41.99 4.79
245 246 9.117183 GTTTTCTTAATATTCCGTCCAGGTTAT 57.883 33.333 0.00 0.00 41.99 1.89
274 275 4.211374 CGAGTTTCACTTCTTCCACGAAAT 59.789 41.667 0.00 0.00 0.00 2.17
285 286 4.152580 GGAGATTTGGACGAGTTTCACTTC 59.847 45.833 0.00 0.00 0.00 3.01
332 333 5.913137 TTTGTTGAGTTTTGACCATGACT 57.087 34.783 0.00 0.00 0.00 3.41
351 352 5.977129 GGTCTGAGTTACAACATGGTTTTTG 59.023 40.000 0.00 0.00 0.00 2.44
352 353 5.891551 AGGTCTGAGTTACAACATGGTTTTT 59.108 36.000 0.00 0.00 0.00 1.94
353 354 5.445964 AGGTCTGAGTTACAACATGGTTTT 58.554 37.500 0.00 0.00 0.00 2.43
354 355 5.048846 AGGTCTGAGTTACAACATGGTTT 57.951 39.130 0.00 0.00 0.00 3.27
355 356 4.706842 AGGTCTGAGTTACAACATGGTT 57.293 40.909 0.00 0.00 0.00 3.67
357 358 4.003648 GGAAGGTCTGAGTTACAACATGG 58.996 47.826 0.00 0.00 0.00 3.66
358 359 3.679980 CGGAAGGTCTGAGTTACAACATG 59.320 47.826 0.00 0.00 0.00 3.21
359 360 3.864921 GCGGAAGGTCTGAGTTACAACAT 60.865 47.826 0.00 0.00 0.00 2.71
363 364 1.629043 AGCGGAAGGTCTGAGTTACA 58.371 50.000 0.00 0.00 37.07 2.41
364 365 2.490903 TGTAGCGGAAGGTCTGAGTTAC 59.509 50.000 0.00 0.00 44.26 2.50
366 367 1.272769 GTGTAGCGGAAGGTCTGAGTT 59.727 52.381 0.00 0.00 44.26 3.01
367 368 0.889306 GTGTAGCGGAAGGTCTGAGT 59.111 55.000 0.00 0.00 44.26 3.41
371 372 1.104630 GCTAGTGTAGCGGAAGGTCT 58.895 55.000 0.00 0.00 42.62 3.85
427 517 9.699410 TCCAAGTCCAATTCTTGTATGATTATT 57.301 29.630 5.06 0.00 40.15 1.40
428 518 9.125026 GTCCAAGTCCAATTCTTGTATGATTAT 57.875 33.333 5.06 0.00 40.15 1.28
429 519 8.106462 TGTCCAAGTCCAATTCTTGTATGATTA 58.894 33.333 5.06 0.00 40.15 1.75
463 553 9.722056 CCCTCTTTTGATTTATTTCAGTTATCG 57.278 33.333 0.00 0.00 0.00 2.92
464 554 9.521503 GCCCTCTTTTGATTTATTTCAGTTATC 57.478 33.333 0.00 0.00 0.00 1.75
465 555 8.478066 GGCCCTCTTTTGATTTATTTCAGTTAT 58.522 33.333 0.00 0.00 0.00 1.89
493 645 5.172934 TCAAGTCGCTAATTAACCATTCGT 58.827 37.500 0.00 0.00 0.00 3.85
516 668 3.810310 TGGTTTTCGTCTGCCATTTTT 57.190 38.095 0.00 0.00 0.00 1.94
606 761 9.559732 GGATACCATTATAATATATGCAGTGCA 57.440 33.333 22.22 22.22 44.86 4.57
747 916 0.689412 TGGAGTGTGGACTGTGACCA 60.689 55.000 0.00 0.00 30.16 4.02
763 936 1.272985 GGGATTGGGATTTGGTGTGGA 60.273 52.381 0.00 0.00 0.00 4.02
764 937 1.194218 GGGATTGGGATTTGGTGTGG 58.806 55.000 0.00 0.00 0.00 4.17
765 938 1.194218 GGGGATTGGGATTTGGTGTG 58.806 55.000 0.00 0.00 0.00 3.82
766 939 0.789687 TGGGGATTGGGATTTGGTGT 59.210 50.000 0.00 0.00 0.00 4.16
767 940 1.194218 GTGGGGATTGGGATTTGGTG 58.806 55.000 0.00 0.00 0.00 4.17
768 941 0.042581 GGTGGGGATTGGGATTTGGT 59.957 55.000 0.00 0.00 0.00 3.67
769 942 0.690744 GGGTGGGGATTGGGATTTGG 60.691 60.000 0.00 0.00 0.00 3.28
824 1005 3.053395 TCTTCTTGGATGGAAATGGAGGG 60.053 47.826 0.00 0.00 0.00 4.30
923 1148 2.014574 GCTCGAGCACAGACTAGAGGA 61.015 57.143 31.91 0.00 39.15 3.71
1047 1570 1.298014 CCAGTTGAGAGGGTCAGCC 59.702 63.158 0.00 0.00 37.09 4.85
1078 1601 2.583520 GCTCCCTGACAGCTCCTG 59.416 66.667 0.00 0.00 37.52 3.86
1089 1612 3.474570 GCGTCCAGATGGCTCCCT 61.475 66.667 0.00 0.00 34.44 4.20
1368 1898 1.405121 GCGTTTAGGAACCGGATGAGT 60.405 52.381 9.46 0.00 31.93 3.41
1470 2000 1.608717 CGGAGTAGCCTTGGAGCAGT 61.609 60.000 0.00 0.00 34.23 4.40
1536 2066 2.177580 CAGGCACGGTGTCACGTTT 61.178 57.895 15.98 0.00 46.25 3.60
1959 2489 2.800881 TCTTCGCGAGCATCATGTAT 57.199 45.000 9.59 0.00 33.17 2.29
2433 2963 0.596577 CGAGGGAGTTCACGTCTTGA 59.403 55.000 0.00 0.00 0.00 3.02
2442 2972 4.797933 GCTGAGATTAATCCGAGGGAGTTC 60.798 50.000 11.92 0.78 34.05 3.01
2545 3075 4.069232 CTCCTCGAGGTGGCGCAA 62.069 66.667 30.17 8.98 36.34 4.85
2909 3442 1.012486 AACGATGCGGTTCGGTTCTC 61.012 55.000 8.15 0.00 43.33 2.87
3068 3601 0.963856 CTTGAGGCATTCCAGCAGCA 60.964 55.000 0.00 0.00 35.83 4.41
3222 3757 5.237236 TCAACGTTTTAGAAGAGGGGAAT 57.763 39.130 0.00 0.00 0.00 3.01
3260 3795 1.383248 AATGGCCTCTAGCTCCGGT 60.383 57.895 3.32 0.00 43.05 5.28
3296 3831 8.116753 CCTTTCGCTTACATTGACAAGTATTAG 58.883 37.037 0.00 0.00 0.00 1.73
3297 3832 7.065324 CCCTTTCGCTTACATTGACAAGTATTA 59.935 37.037 0.00 0.00 0.00 0.98
3342 3900 7.009999 GCTGATTCAGTAGTAGAACATCAACAG 59.990 40.741 14.90 0.00 33.43 3.16
3389 3947 2.286294 CGAGGAGAATGTGCTTGTATGC 59.714 50.000 0.00 0.00 0.00 3.14
3413 3971 5.869753 ACATTTGACATGAGTAAGTCTGC 57.130 39.130 0.00 0.00 35.81 4.26
3462 4020 5.112686 CAACCTGGTGCTATTTCTCTCTAC 58.887 45.833 0.00 0.00 0.00 2.59
3513 4071 8.771920 TCAAACATGTATGATAGTCGAAGTTT 57.228 30.769 0.00 0.00 0.00 2.66
3590 4148 4.008330 AGTTCTGATGTGCTGAAATCCTG 58.992 43.478 0.00 0.00 36.40 3.86
3592 4150 5.181748 ACTAGTTCTGATGTGCTGAAATCC 58.818 41.667 0.00 0.00 36.40 3.01
3662 4222 8.328864 CGCTTATACTTGTACATTCTTTCTTCC 58.671 37.037 0.00 0.00 0.00 3.46
3688 4248 1.982073 GCATACACTGAAGCGGGTGC 61.982 60.000 0.00 0.00 43.24 5.01
3763 4323 4.142534 CCATTGCTAGGTGAATGTTGAGTG 60.143 45.833 0.00 0.00 0.00 3.51
3774 4334 4.696479 ATAAGTCTCCCATTGCTAGGTG 57.304 45.455 0.00 0.00 0.00 4.00
3942 4502 1.003839 GGGCCGTGTTCAGATGTGA 60.004 57.895 0.00 0.00 0.00 3.58
3972 4532 1.237533 TACAGCACGTTACTCCACGA 58.762 50.000 0.00 0.00 43.15 4.35
4099 4659 2.221169 GACAGTGTGGCAAATGTGAGA 58.779 47.619 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.