Multiple sequence alignment - TraesCS5D01G438600

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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 TraesCS5D01G438600 chr5D 100.000 2492 0 0 1 2492 491847905 491845414 0.000000e+00 4602.0
1 TraesCS5D01G438600 chr5D 91.662 1907 80 35 654 2490 491797372 491795475 0.000000e+00 2567.0
2 TraesCS5D01G438600 chr5D 86.436 693 65 14 662 1334 492222865 492222182 0.000000e+00 732.0
3 TraesCS5D01G438600 chr5D 91.971 411 29 3 1169 1576 490968807 490969216 7.730000e-160 573.0
4 TraesCS5D01G438600 chr5D 85.435 563 53 14 674 1221 492068393 492067845 2.160000e-155 558.0
5 TraesCS5D01G438600 chr5D 83.128 486 47 17 186 659 491797857 491797395 6.410000e-111 411.0
6 TraesCS5D01G438600 chr5D 92.531 241 18 0 1263 1503 490954672 490954912 1.830000e-91 346.0
7 TraesCS5D01G438600 chr5D 99.465 187 1 0 1 187 17796294 17796480 8.540000e-90 340.0
8 TraesCS5D01G438600 chr5D 98.438 192 3 0 1 192 526840471 526840662 3.070000e-89 339.0
9 TraesCS5D01G438600 chr5D 93.694 222 11 3 3 224 348541372 348541590 1.850000e-86 329.0
10 TraesCS5D01G438600 chr5D 83.686 331 44 8 1424 1753 492067163 492066842 1.120000e-78 303.0
11 TraesCS5D01G438600 chr5D 83.182 220 28 7 1875 2094 464621165 464621375 2.530000e-45 193.0
12 TraesCS5D01G438600 chr5D 94.595 74 4 0 1741 1814 492203434 492203361 5.630000e-22 115.0
13 TraesCS5D01G438600 chr5D 97.059 34 0 1 186 218 491800879 491800846 3.460000e-04 56.5
14 TraesCS5D01G438600 chr5A 86.030 1131 100 41 663 1762 614367621 614366518 0.000000e+00 1160.0
15 TraesCS5D01G438600 chr5A 88.969 834 69 13 863 1683 614409188 614408365 0.000000e+00 1009.0
16 TraesCS5D01G438600 chr5A 90.428 397 34 3 1168 1561 613457460 613457855 1.020000e-143 520.0
17 TraesCS5D01G438600 chr5A 88.462 156 16 2 1011 1165 613457273 613457427 1.180000e-43 187.0
18 TraesCS5D01G438600 chr5A 85.088 114 16 1 2320 2432 438336888 438336775 5.630000e-22 115.0
19 TraesCS5D01G438600 chr5B 86.020 1123 66 38 709 1762 606853999 606852899 0.000000e+00 1120.0
20 TraesCS5D01G438600 chr5B 90.961 697 46 9 863 1544 606871319 606870625 0.000000e+00 922.0
21 TraesCS5D01G438600 chr5B 91.971 411 28 3 1169 1576 605518603 605519011 2.780000e-159 571.0
22 TraesCS5D01G438600 chr5B 88.387 155 16 2 1011 1164 605518418 605518571 4.230000e-43 185.0
23 TraesCS5D01G438600 chr5B 90.625 128 10 2 1627 1753 606870513 606870387 4.260000e-38 169.0
24 TraesCS5D01G438600 chr5B 97.674 43 1 0 2250 2292 121005124 121005082 9.560000e-10 75.0
25 TraesCS5D01G438600 chr1D 97.970 197 4 0 3 199 462060623 462060427 2.370000e-90 342.0
26 TraesCS5D01G438600 chr1D 98.947 190 2 0 3 192 478076471 478076660 8.540000e-90 340.0
27 TraesCS5D01G438600 chr1D 98.446 193 2 1 1 192 423642253 423642445 3.070000e-89 339.0
28 TraesCS5D01G438600 chr6D 97.475 198 5 0 3 200 410092912 410093109 3.070000e-89 339.0
29 TraesCS5D01G438600 chr4D 98.947 190 1 1 3 192 13583375 13583187 3.070000e-89 339.0
30 TraesCS5D01G438600 chr4D 97.949 195 4 0 3 197 126596195 126596389 3.070000e-89 339.0
31 TraesCS5D01G438600 chr7A 81.469 286 41 8 1820 2094 409255672 409255956 8.970000e-55 224.0
32 TraesCS5D01G438600 chr7D 84.507 213 32 1 1875 2086 12899756 12899968 2.510000e-50 209.0
33 TraesCS5D01G438600 chr7B 80.275 218 42 1 1848 2064 158374391 158374608 1.980000e-36 163.0
34 TraesCS5D01G438600 chr3B 86.154 65 8 1 1875 1939 30274775 30274712 4.450000e-08 69.4


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 TraesCS5D01G438600 chr5D 491845414 491847905 2491 True 4602.0 4602 100.000000 1 2492 1 chr5D.!!$R1 2491
1 TraesCS5D01G438600 chr5D 491795475 491800879 5404 True 1011.5 2567 90.616333 186 2490 3 chr5D.!!$R4 2304
2 TraesCS5D01G438600 chr5D 492222182 492222865 683 True 732.0 732 86.436000 662 1334 1 chr5D.!!$R3 672
3 TraesCS5D01G438600 chr5D 492066842 492068393 1551 True 430.5 558 84.560500 674 1753 2 chr5D.!!$R5 1079
4 TraesCS5D01G438600 chr5A 614366518 614367621 1103 True 1160.0 1160 86.030000 663 1762 1 chr5A.!!$R2 1099
5 TraesCS5D01G438600 chr5A 614408365 614409188 823 True 1009.0 1009 88.969000 863 1683 1 chr5A.!!$R3 820
6 TraesCS5D01G438600 chr5A 613457273 613457855 582 False 353.5 520 89.445000 1011 1561 2 chr5A.!!$F1 550
7 TraesCS5D01G438600 chr5B 606852899 606853999 1100 True 1120.0 1120 86.020000 709 1762 1 chr5B.!!$R2 1053
8 TraesCS5D01G438600 chr5B 606870387 606871319 932 True 545.5 922 90.793000 863 1753 2 chr5B.!!$R3 890
9 TraesCS5D01G438600 chr5B 605518418 605519011 593 False 378.0 571 90.179000 1011 1576 2 chr5B.!!$F1 565

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
79 80 0.037697 TGTGATAACGCTTCCGCTGT 60.038 50.0 0.0 0.0 38.22 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1850 5434 1.070134 TGAAGCCCTAAATCGGATCGG 59.93 52.381 0.0 0.0 0.0 4.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 0.883833 ACGTTCGGTACTTGATCGGT 59.116 50.000 17.26 0.00 33.92 4.69
25 26 1.135575 ACGTTCGGTACTTGATCGGTC 60.136 52.381 17.26 0.00 33.92 4.79
27 28 0.452987 TTCGGTACTTGATCGGTCGG 59.547 55.000 0.00 0.00 30.29 4.79
29 30 0.666913 CGGTACTTGATCGGTCGGAT 59.333 55.000 0.00 0.00 38.35 4.18
37 38 0.661552 GATCGGTCGGATCGTGAAGA 59.338 55.000 10.85 0.00 42.02 2.87
38 39 0.381089 ATCGGTCGGATCGTGAAGAC 59.619 55.000 10.85 0.00 0.00 3.01
40 41 1.505353 GGTCGGATCGTGAAGACGT 59.495 57.895 0.00 0.00 46.20 4.34
42 43 1.530646 GGTCGGATCGTGAAGACGTAC 60.531 57.143 0.00 0.00 46.20 3.67
49 50 2.403259 TCGTGAAGACGTACGACTACA 58.597 47.619 24.41 13.28 46.20 2.74
50 51 2.995939 TCGTGAAGACGTACGACTACAT 59.004 45.455 24.41 6.17 46.20 2.29
51 52 3.061295 TCGTGAAGACGTACGACTACATC 59.939 47.826 24.41 15.62 46.20 3.06
52 53 3.181527 CGTGAAGACGTACGACTACATCA 60.182 47.826 24.41 18.00 42.54 3.07
53 54 4.332788 GTGAAGACGTACGACTACATCAG 58.667 47.826 24.41 0.00 0.00 2.90
54 55 3.181513 TGAAGACGTACGACTACATCAGC 60.182 47.826 24.41 4.60 0.00 4.26
57 58 0.928908 CGTACGACTACATCAGCCGC 60.929 60.000 10.44 0.00 0.00 6.53
60 61 1.516386 CGACTACATCAGCCGCGTT 60.516 57.895 4.92 0.00 0.00 4.84
62 63 0.736325 GACTACATCAGCCGCGTTGT 60.736 55.000 4.92 3.31 0.00 3.32
63 64 1.014044 ACTACATCAGCCGCGTTGTG 61.014 55.000 4.92 7.05 0.00 3.33
64 65 0.735978 CTACATCAGCCGCGTTGTGA 60.736 55.000 4.92 4.94 0.00 3.58
65 66 0.108377 TACATCAGCCGCGTTGTGAT 60.108 50.000 4.92 7.32 0.00 3.06
67 68 1.006086 CATCAGCCGCGTTGTGATAA 58.994 50.000 4.92 0.00 29.64 1.75
68 69 1.006832 ATCAGCCGCGTTGTGATAAC 58.993 50.000 4.92 0.00 0.00 1.89
69 70 1.058748 CAGCCGCGTTGTGATAACG 59.941 57.895 10.16 10.16 45.56 3.18
75 76 3.850207 CGTTGTGATAACGCTTCCG 57.150 52.632 0.75 0.00 36.82 4.30
76 77 0.247145 CGTTGTGATAACGCTTCCGC 60.247 55.000 0.75 0.00 36.82 5.54
77 78 1.076332 GTTGTGATAACGCTTCCGCT 58.924 50.000 0.00 0.00 38.22 5.52
78 79 1.075542 TTGTGATAACGCTTCCGCTG 58.924 50.000 0.00 0.00 38.22 5.18
79 80 0.037697 TGTGATAACGCTTCCGCTGT 60.038 50.000 0.00 0.00 38.22 4.40
80 81 0.645868 GTGATAACGCTTCCGCTGTC 59.354 55.000 0.00 0.00 38.22 3.51
81 82 0.800683 TGATAACGCTTCCGCTGTCG 60.801 55.000 0.00 0.00 38.22 4.35
99 100 2.101700 GGTCTACGAGGGTACGTGG 58.898 63.158 0.00 0.00 46.02 4.94
101 102 3.159298 TCTACGAGGGTACGTGGAC 57.841 57.895 0.00 0.00 45.53 4.02
102 103 0.324614 TCTACGAGGGTACGTGGACA 59.675 55.000 0.00 0.00 45.53 4.02
105 106 1.108727 ACGAGGGTACGTGGACAACA 61.109 55.000 0.00 0.00 44.84 3.33
106 107 0.665369 CGAGGGTACGTGGACAACAC 60.665 60.000 0.00 0.00 46.78 3.32
115 116 0.321996 GTGGACAACACTCTCCCCTC 59.678 60.000 0.00 0.00 46.72 4.30
117 118 0.899019 GGACAACACTCTCCCCTCTC 59.101 60.000 0.00 0.00 0.00 3.20
119 120 0.178958 ACAACACTCTCCCCTCTCGT 60.179 55.000 0.00 0.00 0.00 4.18
120 121 0.969894 CAACACTCTCCCCTCTCGTT 59.030 55.000 0.00 0.00 0.00 3.85
121 122 0.969894 AACACTCTCCCCTCTCGTTG 59.030 55.000 0.00 0.00 0.00 4.10
122 123 1.216710 CACTCTCCCCTCTCGTTGC 59.783 63.158 0.00 0.00 0.00 4.17
123 124 1.077625 ACTCTCCCCTCTCGTTGCT 59.922 57.895 0.00 0.00 0.00 3.91
124 125 0.331954 ACTCTCCCCTCTCGTTGCTA 59.668 55.000 0.00 0.00 0.00 3.49
125 126 1.063567 ACTCTCCCCTCTCGTTGCTAT 60.064 52.381 0.00 0.00 0.00 2.97
127 128 0.249657 CTCCCCTCTCGTTGCTATGC 60.250 60.000 0.00 0.00 0.00 3.14
128 129 0.975556 TCCCCTCTCGTTGCTATGCA 60.976 55.000 0.00 0.00 36.47 3.96
129 130 0.107456 CCCCTCTCGTTGCTATGCAT 59.893 55.000 3.79 3.79 38.76 3.96
130 131 1.506493 CCCTCTCGTTGCTATGCATC 58.494 55.000 0.19 0.00 38.76 3.91
131 132 1.202568 CCCTCTCGTTGCTATGCATCA 60.203 52.381 0.19 0.00 38.76 3.07
132 133 1.863454 CCTCTCGTTGCTATGCATCAC 59.137 52.381 0.19 0.00 38.76 3.06
133 134 1.863454 CTCTCGTTGCTATGCATCACC 59.137 52.381 0.19 0.00 38.76 4.02
134 135 1.206849 TCTCGTTGCTATGCATCACCA 59.793 47.619 0.19 0.00 38.76 4.17
136 137 1.941975 TCGTTGCTATGCATCACCATG 59.058 47.619 0.19 0.00 38.76 3.66
137 138 1.941975 CGTTGCTATGCATCACCATGA 59.058 47.619 0.19 0.00 38.76 3.07
139 140 3.364664 CGTTGCTATGCATCACCATGATC 60.365 47.826 0.19 0.00 38.76 2.92
140 141 3.782656 TGCTATGCATCACCATGATCT 57.217 42.857 0.19 0.00 34.28 2.75
142 143 3.818773 TGCTATGCATCACCATGATCTTG 59.181 43.478 0.19 1.60 34.28 3.02
143 144 3.366070 GCTATGCATCACCATGATCTTGC 60.366 47.826 0.19 0.00 34.28 4.01
144 145 1.018910 TGCATCACCATGATCTTGCG 58.981 50.000 3.07 0.30 34.28 4.85
145 146 1.019673 GCATCACCATGATCTTGCGT 58.980 50.000 3.07 0.87 34.28 5.24
147 148 2.011947 CATCACCATGATCTTGCGTGT 58.988 47.619 19.89 6.63 34.28 4.49
148 149 1.441738 TCACCATGATCTTGCGTGTG 58.558 50.000 19.89 14.96 0.00 3.82
149 150 0.179181 CACCATGATCTTGCGTGTGC 60.179 55.000 15.81 0.00 43.20 4.57
161 162 2.325509 GCGTGTGCGTAGGAAATTTT 57.674 45.000 0.00 0.00 40.81 1.82
162 163 2.657184 GCGTGTGCGTAGGAAATTTTT 58.343 42.857 0.00 0.00 40.81 1.94
182 183 6.956202 TTTTTGAAATTACTACGTTCCCCA 57.044 33.333 0.00 0.00 0.00 4.96
184 185 5.945466 TTGAAATTACTACGTTCCCCAAC 57.055 39.130 0.00 0.00 0.00 3.77
185 186 4.970711 TGAAATTACTACGTTCCCCAACA 58.029 39.130 0.00 0.00 32.14 3.33
186 187 4.756135 TGAAATTACTACGTTCCCCAACAC 59.244 41.667 0.00 0.00 32.14 3.32
187 188 2.837532 TTACTACGTTCCCCAACACC 57.162 50.000 0.00 0.00 32.14 4.16
188 189 2.014010 TACTACGTTCCCCAACACCT 57.986 50.000 0.00 0.00 32.14 4.00
189 190 0.683412 ACTACGTTCCCCAACACCTC 59.317 55.000 0.00 0.00 32.14 3.85
241 3079 1.520342 GCACGATGAGCTCCTCCAC 60.520 63.158 12.15 0.00 0.00 4.02
242 3080 1.893062 CACGATGAGCTCCTCCACA 59.107 57.895 12.15 0.00 0.00 4.17
245 3083 3.584586 GATGAGCTCCTCCACATCG 57.415 57.895 12.15 0.00 31.74 3.84
268 3106 2.468532 CTCCGCGTACGCAACAAC 59.531 61.111 36.44 9.56 42.06 3.32
269 3107 2.279318 TCCGCGTACGCAACAACA 60.279 55.556 36.44 12.64 42.06 3.33
275 3114 0.233848 CGTACGCAACAACAACTCCC 59.766 55.000 0.52 0.00 0.00 4.30
280 3119 1.826054 CAACAACAACTCCCGGCCA 60.826 57.895 2.24 0.00 0.00 5.36
292 3131 4.429212 CGGCCATCGTCGACACCA 62.429 66.667 17.16 0.00 0.00 4.17
308 3147 2.587194 CAGATCCGCCGCTGGAAG 60.587 66.667 7.82 0.00 42.46 3.46
309 3148 3.077556 AGATCCGCCGCTGGAAGT 61.078 61.111 7.82 0.00 42.46 3.01
310 3149 2.125106 GATCCGCCGCTGGAAGTT 60.125 61.111 7.82 0.00 42.46 2.66
311 3150 2.436646 ATCCGCCGCTGGAAGTTG 60.437 61.111 7.82 0.00 42.46 3.16
312 3151 2.852495 GATCCGCCGCTGGAAGTTGA 62.852 60.000 7.82 0.00 42.46 3.18
313 3152 2.257409 ATCCGCCGCTGGAAGTTGAT 62.257 55.000 7.82 0.00 42.46 2.57
314 3153 2.464459 CCGCCGCTGGAAGTTGATC 61.464 63.158 0.00 0.00 35.30 2.92
315 3154 1.448540 CGCCGCTGGAAGTTGATCT 60.449 57.895 0.00 0.00 35.30 2.75
316 3155 1.699656 CGCCGCTGGAAGTTGATCTG 61.700 60.000 0.00 0.00 35.30 2.90
317 3156 1.986575 GCCGCTGGAAGTTGATCTGC 61.987 60.000 0.00 0.00 35.30 4.26
318 3157 0.392193 CCGCTGGAAGTTGATCTGCT 60.392 55.000 0.00 0.00 35.30 4.24
319 3158 0.725686 CGCTGGAAGTTGATCTGCTG 59.274 55.000 0.00 0.00 35.30 4.41
325 3164 1.016130 AAGTTGATCTGCTGCCGTCG 61.016 55.000 0.00 0.00 0.00 5.12
328 3167 1.014044 TTGATCTGCTGCCGTCGTTC 61.014 55.000 0.00 0.00 0.00 3.95
348 3187 1.177401 GACATGGCTTGAAAGGGGAC 58.823 55.000 7.45 0.00 0.00 4.46
350 3189 1.272147 ACATGGCTTGAAAGGGGACTC 60.272 52.381 7.45 0.00 42.68 3.36
359 3198 0.983378 AAAGGGGACTCGATGGGGAG 60.983 60.000 0.00 0.00 42.68 4.30
360 3199 1.886730 AAGGGGACTCGATGGGGAGA 61.887 60.000 0.00 0.00 42.68 3.71
361 3200 1.834822 GGGGACTCGATGGGGAGAG 60.835 68.421 0.00 0.00 37.49 3.20
362 3201 1.834822 GGGACTCGATGGGGAGAGG 60.835 68.421 0.00 0.00 37.49 3.69
363 3202 1.230497 GGACTCGATGGGGAGAGGA 59.770 63.158 0.00 0.00 37.49 3.71
364 3203 0.397254 GGACTCGATGGGGAGAGGAA 60.397 60.000 0.00 0.00 37.49 3.36
365 3204 1.486211 GACTCGATGGGGAGAGGAAA 58.514 55.000 0.00 0.00 37.49 3.13
366 3205 1.137282 GACTCGATGGGGAGAGGAAAC 59.863 57.143 0.00 0.00 37.49 2.78
367 3206 1.195115 CTCGATGGGGAGAGGAAACA 58.805 55.000 0.00 0.00 36.08 2.83
395 3234 2.033141 GAGTGGAGCAAGCCAGCA 59.967 61.111 0.55 0.00 38.95 4.41
427 3266 2.619177 CTGTCGTCTAGGATTCGTCCAT 59.381 50.000 0.00 0.00 0.00 3.41
428 3267 2.357952 TGTCGTCTAGGATTCGTCCATG 59.642 50.000 0.00 0.00 0.00 3.66
433 3272 3.381908 GTCTAGGATTCGTCCATGTGAGT 59.618 47.826 0.00 0.00 0.00 3.41
441 3280 5.984233 TTCGTCCATGTGAGTATTTATGC 57.016 39.130 0.00 0.00 0.00 3.14
445 3284 5.289595 GTCCATGTGAGTATTTATGCGAGA 58.710 41.667 0.00 0.00 0.00 4.04
448 3287 5.928264 CCATGTGAGTATTTATGCGAGATCA 59.072 40.000 0.00 0.00 0.00 2.92
449 3288 6.424812 CCATGTGAGTATTTATGCGAGATCAA 59.575 38.462 0.00 0.00 0.00 2.57
450 3289 7.359849 CCATGTGAGTATTTATGCGAGATCAAG 60.360 40.741 0.00 0.00 0.00 3.02
451 3290 6.573434 TGTGAGTATTTATGCGAGATCAAGT 58.427 36.000 0.00 0.00 0.00 3.16
452 3291 6.476706 TGTGAGTATTTATGCGAGATCAAGTG 59.523 38.462 0.00 0.00 0.00 3.16
454 3293 5.300752 AGTATTTATGCGAGATCAAGTGGG 58.699 41.667 0.00 0.00 0.00 4.61
461 3311 2.124695 GATCAAGTGGGGCGGTCC 60.125 66.667 0.00 0.00 0.00 4.46
476 3326 1.450134 GTCCGACATGGCAGATGCA 60.450 57.895 7.19 0.00 44.36 3.96
499 3349 4.070552 GCGTGTCCGAGCCTCCTT 62.071 66.667 0.00 0.00 35.63 3.36
503 3353 1.887198 CGTGTCCGAGCCTCCTTATAT 59.113 52.381 0.00 0.00 35.63 0.86
504 3354 2.095161 CGTGTCCGAGCCTCCTTATATC 60.095 54.545 0.00 0.00 35.63 1.63
507 3357 3.100671 GTCCGAGCCTCCTTATATCCAT 58.899 50.000 0.00 0.00 0.00 3.41
508 3358 3.515901 GTCCGAGCCTCCTTATATCCATT 59.484 47.826 0.00 0.00 0.00 3.16
510 3360 3.118592 CCGAGCCTCCTTATATCCATTCC 60.119 52.174 0.00 0.00 0.00 3.01
512 3362 4.020218 CGAGCCTCCTTATATCCATTCCAA 60.020 45.833 0.00 0.00 0.00 3.53
533 3383 2.668144 TGTAGGTTGGGTTTGAAGGG 57.332 50.000 0.00 0.00 0.00 3.95
554 3404 2.030562 AGGTCCCAAACGTCTGCG 59.969 61.111 0.00 0.00 44.93 5.18
555 3405 3.047877 GGTCCCAAACGTCTGCGG 61.048 66.667 0.00 0.00 43.45 5.69
573 3423 1.448893 GACATCTGCGGGCGGTTTA 60.449 57.895 0.00 0.00 0.00 2.01
581 3431 1.269154 TGCGGGCGGTTTAAAAAGAAC 60.269 47.619 0.00 0.00 0.00 3.01
601 3451 5.354234 AGAACGGCTAAGTCATGGTTTTATG 59.646 40.000 0.00 0.00 0.00 1.90
625 3475 0.246635 GCACTGACTGGACCGTATGT 59.753 55.000 0.00 0.00 0.00 2.29
626 3476 1.337823 GCACTGACTGGACCGTATGTT 60.338 52.381 0.00 0.00 0.00 2.71
646 3496 0.387565 CCGGTGGGGTTGAAAAAGTG 59.612 55.000 0.00 0.00 0.00 3.16
667 3546 0.592148 GTCCGTAGATGGGTAGCGAG 59.408 60.000 0.00 0.00 0.00 5.03
670 3549 0.592148 CGTAGATGGGTAGCGAGGTC 59.408 60.000 0.00 0.00 0.00 3.85
701 3580 1.126846 CGCTAACTCGTCTTTGCCTTG 59.873 52.381 0.00 0.00 0.00 3.61
702 3581 1.135944 GCTAACTCGTCTTTGCCTTGC 60.136 52.381 0.00 0.00 0.00 4.01
703 3582 2.417719 CTAACTCGTCTTTGCCTTGCT 58.582 47.619 0.00 0.00 0.00 3.91
704 3583 1.230324 AACTCGTCTTTGCCTTGCTC 58.770 50.000 0.00 0.00 0.00 4.26
837 3724 1.429930 TGGTTGCTACCCTGTCTGAA 58.570 50.000 15.00 0.00 44.35 3.02
838 3725 1.985159 TGGTTGCTACCCTGTCTGAAT 59.015 47.619 15.00 0.00 44.35 2.57
930 3851 2.579787 GACCGCTCGATCACACCG 60.580 66.667 0.00 0.00 0.00 4.94
987 3917 1.582968 GGAGTGTTCGCGGACTACA 59.417 57.895 20.15 9.46 0.00 2.74
1850 5434 2.206536 CCCTCTCCCGATCTGCTCC 61.207 68.421 0.00 0.00 0.00 4.70
1852 5436 2.519541 TCTCCCGATCTGCTCCCG 60.520 66.667 0.00 0.00 0.00 5.14
1853 5437 2.519541 CTCCCGATCTGCTCCCGA 60.520 66.667 0.00 0.00 0.00 5.14
1854 5438 1.905843 CTCCCGATCTGCTCCCGAT 60.906 63.158 0.00 0.00 0.00 4.18
1855 5439 1.872197 CTCCCGATCTGCTCCCGATC 61.872 65.000 0.00 0.00 35.16 3.69
1856 5440 2.653702 CCGATCTGCTCCCGATCC 59.346 66.667 0.00 0.00 35.06 3.36
1857 5441 2.256764 CGATCTGCTCCCGATCCG 59.743 66.667 0.00 0.00 35.06 4.18
1928 5529 3.219198 GGGGATGATGGCAACGGC 61.219 66.667 0.00 0.00 42.51 5.68
1951 5552 2.432628 CGTTCTCCACCACGGCTC 60.433 66.667 0.00 0.00 32.58 4.70
1954 5555 2.583441 TTCTCCACCACGGCTCCAG 61.583 63.158 0.00 0.00 33.14 3.86
1987 5588 1.252215 TGAAGATCCGCACGGGTGTA 61.252 55.000 9.58 0.00 37.00 2.90
2020 5621 4.760047 GTCTGGTGTCGGCGGCAT 62.760 66.667 20.33 0.00 0.00 4.40
2022 5623 2.586079 CTGGTGTCGGCGGCATAG 60.586 66.667 20.33 15.83 0.00 2.23
2048 5650 4.969196 CCCATCCGCCGTCGATGG 62.969 72.222 19.87 19.87 40.16 3.51
2104 5706 3.064324 GCTCCGGCCAAGCACAAT 61.064 61.111 19.59 0.00 39.61 2.71
2109 5711 1.973281 CGGCCAAGCACAATCCTGT 60.973 57.895 2.24 0.00 35.63 4.00
2118 5720 0.238289 CACAATCCTGTCGTGGTTGC 59.762 55.000 0.00 0.00 31.64 4.17
2130 5732 2.006888 CGTGGTTGCGGACAAGATAAT 58.993 47.619 0.00 0.00 36.16 1.28
2131 5733 2.223021 CGTGGTTGCGGACAAGATAATG 60.223 50.000 0.00 0.00 36.16 1.90
2142 5744 6.738731 GCGGACAAGATAATGACCAGAATCTA 60.739 42.308 0.00 0.00 35.26 1.98
2154 5756 6.980577 TGACCAGAATCTAAATAAACCCCAT 58.019 36.000 0.00 0.00 0.00 4.00
2156 5758 8.561769 TGACCAGAATCTAAATAAACCCCATAA 58.438 33.333 0.00 0.00 0.00 1.90
2157 5759 9.416284 GACCAGAATCTAAATAAACCCCATAAA 57.584 33.333 0.00 0.00 0.00 1.40
2222 5824 5.935945 TGATGGGTCGATGGTATGTTATTT 58.064 37.500 0.00 0.00 0.00 1.40
2310 5912 7.045416 TGACAAGAAGTTTAGTTAGTGAGCAA 58.955 34.615 0.00 0.00 0.00 3.91
2311 5913 7.551262 TGACAAGAAGTTTAGTTAGTGAGCAAA 59.449 33.333 0.00 0.00 0.00 3.68
2325 5950 8.560374 GTTAGTGAGCAAAATAAAGACAGACTT 58.440 33.333 0.00 0.00 40.98 3.01
2351 5976 4.167554 TGCTTACCAACTAAATTTGCCG 57.832 40.909 0.00 0.00 0.00 5.69
2354 5979 2.432206 ACCAACTAAATTTGCCGTGC 57.568 45.000 0.00 0.00 0.00 5.34
2357 5982 2.030363 CCAACTAAATTTGCCGTGCTCA 60.030 45.455 0.00 0.00 0.00 4.26
2359 5984 4.236935 CAACTAAATTTGCCGTGCTCAAT 58.763 39.130 0.00 0.00 0.00 2.57
2366 5991 9.891828 CTAAATTTGCCGTGCTCAATAAATATA 57.108 29.630 0.00 0.00 0.00 0.86
2411 6036 6.480524 TTTGTCATAGTCAAATCCTGAACG 57.519 37.500 0.00 0.00 35.22 3.95
2447 6072 6.632909 TCAGCATCCATTTGTAATTTCTTGG 58.367 36.000 0.00 0.00 0.00 3.61
2450 6075 6.438425 AGCATCCATTTGTAATTTCTTGGTCT 59.562 34.615 0.00 0.00 0.00 3.85
2451 6076 6.532657 GCATCCATTTGTAATTTCTTGGTCTG 59.467 38.462 0.00 0.00 0.00 3.51
2459 6084 6.843752 TGTAATTTCTTGGTCTGGGAAACTA 58.156 36.000 0.00 0.00 32.84 2.24
2477 6102 8.179615 GGGAAACTATAAATGTTAGTTTGGACG 58.820 37.037 12.18 0.00 45.33 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.159517 ACCGATCAAGTACCGAACGTAC 60.160 50.000 10.35 0.00 46.69 3.67
4 5 2.083774 ACCGATCAAGTACCGAACGTA 58.916 47.619 10.35 0.00 0.00 3.57
5 6 0.883833 ACCGATCAAGTACCGAACGT 59.116 50.000 10.35 0.00 0.00 3.99
7 8 1.542544 CGACCGATCAAGTACCGAAC 58.457 55.000 0.00 0.00 0.00 3.95
8 9 0.452987 CCGACCGATCAAGTACCGAA 59.547 55.000 0.00 0.00 0.00 4.30
9 10 0.392863 TCCGACCGATCAAGTACCGA 60.393 55.000 0.00 0.00 0.00 4.69
10 11 0.666913 ATCCGACCGATCAAGTACCG 59.333 55.000 0.00 0.00 0.00 4.02
11 12 1.334779 CGATCCGACCGATCAAGTACC 60.335 57.143 4.93 0.00 46.85 3.34
12 13 1.332997 ACGATCCGACCGATCAAGTAC 59.667 52.381 0.00 0.00 46.85 2.73
13 14 1.332686 CACGATCCGACCGATCAAGTA 59.667 52.381 0.00 0.00 46.85 2.24
14 15 0.100682 CACGATCCGACCGATCAAGT 59.899 55.000 0.00 0.00 46.85 3.16
16 17 0.812549 TTCACGATCCGACCGATCAA 59.187 50.000 0.00 0.00 46.85 2.57
17 18 0.380733 CTTCACGATCCGACCGATCA 59.619 55.000 0.00 0.00 46.85 2.92
18 19 0.661552 TCTTCACGATCCGACCGATC 59.338 55.000 0.00 0.00 43.58 3.69
19 20 0.381089 GTCTTCACGATCCGACCGAT 59.619 55.000 0.00 0.00 0.00 4.18
20 21 1.798735 GTCTTCACGATCCGACCGA 59.201 57.895 0.00 0.00 0.00 4.69
21 22 4.379221 GTCTTCACGATCCGACCG 57.621 61.111 0.00 0.00 0.00 4.79
32 33 3.181513 GCTGATGTAGTCGTACGTCTTCA 60.182 47.826 19.61 19.79 43.23 3.02
33 34 3.352652 GCTGATGTAGTCGTACGTCTTC 58.647 50.000 19.61 15.02 43.23 2.87
34 35 2.097142 GGCTGATGTAGTCGTACGTCTT 59.903 50.000 19.61 2.66 43.23 3.01
35 36 1.669779 GGCTGATGTAGTCGTACGTCT 59.330 52.381 18.54 18.54 43.23 4.18
47 48 0.108377 TATCACAACGCGGCTGATGT 60.108 50.000 19.72 10.56 0.00 3.06
48 49 1.006086 TTATCACAACGCGGCTGATG 58.994 50.000 19.72 13.00 0.00 3.07
49 50 1.006832 GTTATCACAACGCGGCTGAT 58.993 50.000 12.47 15.08 0.00 2.90
50 51 1.348538 CGTTATCACAACGCGGCTGA 61.349 55.000 12.47 8.15 36.82 4.26
51 52 1.058748 CGTTATCACAACGCGGCTG 59.941 57.895 12.47 10.26 36.82 4.85
52 53 3.470267 CGTTATCACAACGCGGCT 58.530 55.556 12.47 0.00 36.82 5.52
57 58 3.850207 CGGAAGCGTTATCACAACG 57.150 52.632 5.22 5.22 45.56 4.10
74 75 2.403987 CCTCGTAGACCGACAGCG 59.596 66.667 0.00 0.00 41.60 5.18
75 76 0.745845 TACCCTCGTAGACCGACAGC 60.746 60.000 0.00 0.00 41.60 4.40
76 77 1.012841 GTACCCTCGTAGACCGACAG 58.987 60.000 0.00 0.00 41.60 3.51
77 78 0.740868 CGTACCCTCGTAGACCGACA 60.741 60.000 0.00 0.00 41.60 4.35
78 79 0.741221 ACGTACCCTCGTAGACCGAC 60.741 60.000 0.00 0.00 41.60 4.79
79 80 0.740868 CACGTACCCTCGTAGACCGA 60.741 60.000 0.00 0.00 45.00 4.69
80 81 1.709147 CCACGTACCCTCGTAGACCG 61.709 65.000 0.00 0.00 42.27 4.79
81 82 0.392998 TCCACGTACCCTCGTAGACC 60.393 60.000 0.00 0.00 42.27 3.85
82 83 0.729690 GTCCACGTACCCTCGTAGAC 59.270 60.000 0.00 2.79 42.50 2.59
84 85 1.135575 GTTGTCCACGTACCCTCGTAG 60.136 57.143 0.00 0.00 42.27 3.51
85 86 0.881118 GTTGTCCACGTACCCTCGTA 59.119 55.000 0.00 0.00 42.27 3.43
86 87 1.108727 TGTTGTCCACGTACCCTCGT 61.109 55.000 0.00 0.00 45.10 4.18
87 88 0.665369 GTGTTGTCCACGTACCCTCG 60.665 60.000 0.00 0.00 33.61 4.63
88 89 3.206090 GTGTTGTCCACGTACCCTC 57.794 57.895 0.00 0.00 33.61 4.30
93 94 4.748514 AGGGGAGAGTGTTGTCCACGTA 62.749 54.545 0.00 0.00 44.77 3.57
96 97 0.321996 GAGGGGAGAGTGTTGTCCAC 59.678 60.000 0.00 0.00 40.47 4.02
98 99 0.899019 GAGAGGGGAGAGTGTTGTCC 59.101 60.000 0.00 0.00 36.03 4.02
99 100 0.528470 CGAGAGGGGAGAGTGTTGTC 59.472 60.000 0.00 0.00 0.00 3.18
101 102 0.969894 AACGAGAGGGGAGAGTGTTG 59.030 55.000 0.00 0.00 0.00 3.33
102 103 0.969894 CAACGAGAGGGGAGAGTGTT 59.030 55.000 0.00 0.00 0.00 3.32
105 106 0.331954 TAGCAACGAGAGGGGAGAGT 59.668 55.000 0.00 0.00 0.00 3.24
106 107 1.339610 CATAGCAACGAGAGGGGAGAG 59.660 57.143 0.00 0.00 0.00 3.20
107 108 1.403814 CATAGCAACGAGAGGGGAGA 58.596 55.000 0.00 0.00 0.00 3.71
111 112 1.202568 TGATGCATAGCAACGAGAGGG 60.203 52.381 0.00 0.00 43.62 4.30
112 113 1.863454 GTGATGCATAGCAACGAGAGG 59.137 52.381 0.00 0.00 43.62 3.69
113 114 1.863454 GGTGATGCATAGCAACGAGAG 59.137 52.381 0.00 0.00 43.62 3.20
115 116 1.655484 TGGTGATGCATAGCAACGAG 58.345 50.000 0.00 0.00 43.62 4.18
117 118 1.941975 TCATGGTGATGCATAGCAACG 59.058 47.619 0.00 1.35 43.62 4.10
119 120 4.094830 AGATCATGGTGATGCATAGCAA 57.905 40.909 0.00 0.00 43.62 3.91
120 121 3.782656 AGATCATGGTGATGCATAGCA 57.217 42.857 0.00 4.86 44.86 3.49
121 122 3.366070 GCAAGATCATGGTGATGCATAGC 60.366 47.826 0.00 0.00 37.20 2.97
122 123 3.120304 CGCAAGATCATGGTGATGCATAG 60.120 47.826 0.00 0.00 37.20 2.23
123 124 2.809696 CGCAAGATCATGGTGATGCATA 59.190 45.455 0.00 0.00 37.20 3.14
124 125 1.607148 CGCAAGATCATGGTGATGCAT 59.393 47.619 0.00 0.00 37.20 3.96
125 126 1.018910 CGCAAGATCATGGTGATGCA 58.981 50.000 11.83 0.00 37.20 3.96
127 128 2.011947 ACACGCAAGATCATGGTGATG 58.988 47.619 19.56 8.58 37.20 3.07
128 129 2.011947 CACACGCAAGATCATGGTGAT 58.988 47.619 19.56 0.00 40.34 3.06
129 130 1.441738 CACACGCAAGATCATGGTGA 58.558 50.000 19.56 0.00 43.62 4.02
130 131 0.179181 GCACACGCAAGATCATGGTG 60.179 55.000 14.17 14.17 43.62 4.17
131 132 1.638388 CGCACACGCAAGATCATGGT 61.638 55.000 0.00 0.00 43.62 3.55
132 133 1.061411 CGCACACGCAAGATCATGG 59.939 57.895 0.00 0.00 43.62 3.66
133 134 0.998669 TACGCACACGCAAGATCATG 59.001 50.000 0.00 0.00 45.53 3.07
134 135 1.280982 CTACGCACACGCAAGATCAT 58.719 50.000 0.00 0.00 45.53 2.45
136 137 0.457853 TCCTACGCACACGCAAGATC 60.458 55.000 0.00 0.00 45.53 2.75
137 138 0.037697 TTCCTACGCACACGCAAGAT 60.038 50.000 0.00 0.00 45.53 2.40
139 140 0.796312 ATTTCCTACGCACACGCAAG 59.204 50.000 0.00 0.00 45.53 4.01
140 141 1.231221 AATTTCCTACGCACACGCAA 58.769 45.000 0.00 0.00 45.53 4.85
142 143 2.325509 AAAATTTCCTACGCACACGC 57.674 45.000 0.00 0.00 45.53 5.34
159 160 6.956202 TGGGGAACGTAGTAATTTCAAAAA 57.044 33.333 0.00 0.00 45.00 1.94
160 161 6.320672 TGTTGGGGAACGTAGTAATTTCAAAA 59.679 34.615 0.00 0.00 45.00 2.44
161 162 5.826737 TGTTGGGGAACGTAGTAATTTCAAA 59.173 36.000 0.00 0.00 45.00 2.69
162 163 5.239087 GTGTTGGGGAACGTAGTAATTTCAA 59.761 40.000 0.00 0.00 45.00 2.69
163 164 4.756135 GTGTTGGGGAACGTAGTAATTTCA 59.244 41.667 0.00 0.00 45.00 2.69
164 165 4.154737 GGTGTTGGGGAACGTAGTAATTTC 59.845 45.833 0.00 0.00 45.00 2.17
165 166 4.074259 GGTGTTGGGGAACGTAGTAATTT 58.926 43.478 0.00 0.00 45.00 1.82
166 167 3.328637 AGGTGTTGGGGAACGTAGTAATT 59.671 43.478 0.00 0.00 45.00 1.40
167 168 2.908351 AGGTGTTGGGGAACGTAGTAAT 59.092 45.455 0.00 0.00 45.00 1.89
169 170 1.895131 GAGGTGTTGGGGAACGTAGTA 59.105 52.381 0.00 0.00 45.00 1.82
171 172 0.036671 GGAGGTGTTGGGGAACGTAG 60.037 60.000 0.00 0.00 0.00 3.51
172 173 1.482748 GGGAGGTGTTGGGGAACGTA 61.483 60.000 0.00 0.00 0.00 3.57
173 174 2.826003 GGGAGGTGTTGGGGAACGT 61.826 63.158 0.00 0.00 0.00 3.99
175 176 1.074951 CTGGGAGGTGTTGGGGAAC 59.925 63.158 0.00 0.00 0.00 3.62
176 177 2.160171 CCTGGGAGGTGTTGGGGAA 61.160 63.158 0.00 0.00 0.00 3.97
177 178 2.531685 CCTGGGAGGTGTTGGGGA 60.532 66.667 0.00 0.00 0.00 4.81
186 187 4.785453 GCGGCTTGACCTGGGAGG 62.785 72.222 0.00 0.00 42.49 4.30
227 3065 0.749649 ACGATGTGGAGGAGCTCATC 59.250 55.000 19.95 19.95 34.98 2.92
228 3066 0.749649 GACGATGTGGAGGAGCTCAT 59.250 55.000 17.19 8.81 31.08 2.90
229 3067 1.323271 GGACGATGTGGAGGAGCTCA 61.323 60.000 17.19 0.00 31.08 4.26
259 3097 2.184167 CCGGGAGTTGTTGTTGCGT 61.184 57.895 0.00 0.00 0.00 5.24
260 3098 2.637025 CCGGGAGTTGTTGTTGCG 59.363 61.111 0.00 0.00 0.00 4.85
261 3099 2.335011 GCCGGGAGTTGTTGTTGC 59.665 61.111 2.18 0.00 0.00 4.17
262 3100 1.178534 ATGGCCGGGAGTTGTTGTTG 61.179 55.000 2.18 0.00 0.00 3.33
263 3101 0.893727 GATGGCCGGGAGTTGTTGTT 60.894 55.000 2.18 0.00 0.00 2.83
265 3103 2.398554 CGATGGCCGGGAGTTGTTG 61.399 63.158 2.18 0.00 33.91 3.33
266 3104 2.046314 CGATGGCCGGGAGTTGTT 60.046 61.111 2.18 0.00 33.91 2.83
268 3106 2.511600 GACGATGGCCGGGAGTTG 60.512 66.667 2.18 0.00 43.93 3.16
269 3107 4.143333 CGACGATGGCCGGGAGTT 62.143 66.667 2.18 0.00 43.93 3.01
275 3114 4.429212 TGGTGTCGACGATGGCCG 62.429 66.667 11.62 0.00 45.44 6.13
280 3119 1.728069 CGGATCTGGTGTCGACGAT 59.272 57.895 11.62 7.23 0.00 3.73
292 3131 2.660064 AACTTCCAGCGGCGGATCT 61.660 57.895 9.78 0.00 34.19 2.75
305 3144 0.723981 GACGGCAGCAGATCAACTTC 59.276 55.000 0.00 0.00 0.00 3.01
306 3145 1.016130 CGACGGCAGCAGATCAACTT 61.016 55.000 0.00 0.00 0.00 2.66
307 3146 1.446792 CGACGGCAGCAGATCAACT 60.447 57.895 0.00 0.00 0.00 3.16
308 3147 1.291877 AACGACGGCAGCAGATCAAC 61.292 55.000 0.00 0.00 0.00 3.18
309 3148 1.005037 AACGACGGCAGCAGATCAA 60.005 52.632 0.00 0.00 0.00 2.57
310 3149 1.446099 GAACGACGGCAGCAGATCA 60.446 57.895 0.00 0.00 0.00 2.92
311 3150 2.508891 CGAACGACGGCAGCAGATC 61.509 63.158 0.00 0.00 38.46 2.75
312 3151 2.507102 CGAACGACGGCAGCAGAT 60.507 61.111 0.00 0.00 38.46 2.90
313 3152 3.666253 TCGAACGACGGCAGCAGA 61.666 61.111 0.00 0.00 42.82 4.26
314 3153 3.470567 GTCGAACGACGGCAGCAG 61.471 66.667 11.38 0.00 46.56 4.24
325 3164 1.200020 CCCTTTCAAGCCATGTCGAAC 59.800 52.381 0.00 0.00 0.00 3.95
328 3167 0.322456 TCCCCTTTCAAGCCATGTCG 60.322 55.000 0.00 0.00 0.00 4.35
348 3187 1.195115 TGTTTCCTCTCCCCATCGAG 58.805 55.000 0.00 0.00 0.00 4.04
350 3189 2.027192 TCTTTGTTTCCTCTCCCCATCG 60.027 50.000 0.00 0.00 0.00 3.84
359 3198 4.513318 CACTCCACTTCTCTTTGTTTCCTC 59.487 45.833 0.00 0.00 0.00 3.71
360 3199 4.455606 CACTCCACTTCTCTTTGTTTCCT 58.544 43.478 0.00 0.00 0.00 3.36
361 3200 3.565902 CCACTCCACTTCTCTTTGTTTCC 59.434 47.826 0.00 0.00 0.00 3.13
362 3201 4.451900 TCCACTCCACTTCTCTTTGTTTC 58.548 43.478 0.00 0.00 0.00 2.78
363 3202 4.455606 CTCCACTCCACTTCTCTTTGTTT 58.544 43.478 0.00 0.00 0.00 2.83
364 3203 3.745797 GCTCCACTCCACTTCTCTTTGTT 60.746 47.826 0.00 0.00 0.00 2.83
365 3204 2.224402 GCTCCACTCCACTTCTCTTTGT 60.224 50.000 0.00 0.00 0.00 2.83
366 3205 2.224378 TGCTCCACTCCACTTCTCTTTG 60.224 50.000 0.00 0.00 0.00 2.77
367 3206 2.050144 TGCTCCACTCCACTTCTCTTT 58.950 47.619 0.00 0.00 0.00 2.52
395 3234 3.700198 GACGACAGTCAAACCCCTT 57.300 52.632 0.41 0.00 46.32 3.95
427 3266 6.476706 CACTTGATCTCGCATAAATACTCACA 59.523 38.462 0.00 0.00 0.00 3.58
428 3267 6.074088 CCACTTGATCTCGCATAAATACTCAC 60.074 42.308 0.00 0.00 0.00 3.51
433 3272 4.641396 CCCCACTTGATCTCGCATAAATA 58.359 43.478 0.00 0.00 0.00 1.40
441 3280 2.202932 CCGCCCCACTTGATCTCG 60.203 66.667 0.00 0.00 0.00 4.04
445 3284 4.096003 CGGACCGCCCCACTTGAT 62.096 66.667 0.00 0.00 0.00 2.57
461 3311 1.759293 CGAGTGCATCTGCCATGTCG 61.759 60.000 0.00 0.00 41.18 4.35
485 3335 2.158370 TGGATATAAGGAGGCTCGGACA 60.158 50.000 8.69 0.00 0.00 4.02
496 3346 8.796475 CAACCTACATTTGGAATGGATATAAGG 58.204 37.037 5.73 0.00 0.00 2.69
499 3349 7.147033 ACCCAACCTACATTTGGAATGGATATA 60.147 37.037 2.58 0.00 45.69 0.86
503 3353 3.076785 ACCCAACCTACATTTGGAATGGA 59.923 43.478 2.58 0.00 45.69 3.41
504 3354 3.440127 ACCCAACCTACATTTGGAATGG 58.560 45.455 2.58 0.00 45.69 3.16
507 3357 4.547671 TCAAACCCAACCTACATTTGGAA 58.452 39.130 2.58 0.00 45.69 3.53
508 3358 4.186077 TCAAACCCAACCTACATTTGGA 57.814 40.909 2.58 0.00 45.69 3.53
510 3360 4.262420 CCCTTCAAACCCAACCTACATTTG 60.262 45.833 0.00 0.00 0.00 2.32
512 3362 3.116900 ACCCTTCAAACCCAACCTACATT 60.117 43.478 0.00 0.00 0.00 2.71
533 3383 1.227853 AGACGTTTGGGACCTGCAC 60.228 57.895 0.00 0.00 0.00 4.57
554 3404 2.862674 TAAACCGCCCGCAGATGTCC 62.863 60.000 0.00 0.00 0.00 4.02
555 3405 1.022451 TTAAACCGCCCGCAGATGTC 61.022 55.000 0.00 0.00 0.00 3.06
563 3413 1.663730 CCGTTCTTTTTAAACCGCCCG 60.664 52.381 0.00 0.00 0.00 6.13
573 3423 4.142038 ACCATGACTTAGCCGTTCTTTTT 58.858 39.130 0.00 0.00 0.00 1.94
581 3431 5.333339 CGATCATAAAACCATGACTTAGCCG 60.333 44.000 0.00 0.00 37.74 5.52
601 3451 1.153549 GGTCCAGTCAGTGCCGATC 60.154 63.158 0.00 0.00 0.00 3.69
625 3475 1.342175 ACTTTTTCAACCCCACCGGAA 60.342 47.619 9.46 0.00 34.64 4.30
626 3476 0.259356 ACTTTTTCAACCCCACCGGA 59.741 50.000 9.46 0.00 34.64 5.14
632 3482 1.066454 CGGACACACTTTTTCAACCCC 59.934 52.381 0.00 0.00 0.00 4.95
633 3483 1.746787 ACGGACACACTTTTTCAACCC 59.253 47.619 0.00 0.00 0.00 4.11
646 3496 0.030369 CGCTACCCATCTACGGACAC 59.970 60.000 0.00 0.00 0.00 3.67
701 3580 0.435008 CGTCTGTTACACGCAAGAGC 59.565 55.000 0.00 0.00 43.62 4.09
751 3631 0.940519 CAACGAACACGTCCGGCTTA 60.941 55.000 0.00 0.00 39.39 3.09
772 3653 1.375908 GCATCTGTGCCCAAGACGA 60.376 57.895 0.00 0.00 45.76 4.20
925 3846 2.126463 CGTGCGTGATCTCGGTGT 60.126 61.111 17.94 0.00 0.00 4.16
987 3917 1.285023 GTCCATCGCCGCTACGTAT 59.715 57.895 0.00 0.00 0.00 3.06
1437 4948 1.526575 CTGGGTTGTGCTTGGCGATT 61.527 55.000 0.00 0.00 0.00 3.34
1850 5434 1.070134 TGAAGCCCTAAATCGGATCGG 59.930 52.381 0.00 0.00 0.00 4.18
1852 5436 2.550180 GCTTGAAGCCCTAAATCGGATC 59.450 50.000 5.74 0.00 34.48 3.36
1853 5437 2.576615 GCTTGAAGCCCTAAATCGGAT 58.423 47.619 5.74 0.00 34.48 4.18
1854 5438 2.038387 GCTTGAAGCCCTAAATCGGA 57.962 50.000 5.74 0.00 34.48 4.55
1906 5507 3.007684 TTGCCATCATCCCCCACCC 62.008 63.158 0.00 0.00 0.00 4.61
1909 5510 2.275089 CGTTGCCATCATCCCCCA 59.725 61.111 0.00 0.00 0.00 4.96
1954 5555 3.039202 CTTCACCGCAACCGCATCC 62.039 63.158 0.00 0.00 38.40 3.51
1970 5571 1.217244 GTACACCCGTGCGGATCTT 59.783 57.895 12.71 0.00 37.50 2.40
2016 5617 1.504275 ATGGGCCCTCATCCTATGCC 61.504 60.000 25.70 0.00 41.42 4.40
2086 5688 3.574074 ATTGTGCTTGGCCGGAGCT 62.574 57.895 25.66 8.18 40.75 4.09
2090 5692 2.361610 AGGATTGTGCTTGGCCGG 60.362 61.111 0.00 0.00 0.00 6.13
2104 5706 3.228017 TCCGCAACCACGACAGGA 61.228 61.111 0.00 0.00 34.06 3.86
2109 5711 0.604073 TATCTTGTCCGCAACCACGA 59.396 50.000 0.00 0.00 34.06 4.35
2118 5720 5.605534 AGATTCTGGTCATTATCTTGTCCG 58.394 41.667 0.00 0.00 0.00 4.79
2130 5732 6.395780 TGGGGTTTATTTAGATTCTGGTCA 57.604 37.500 0.00 0.00 0.00 4.02
2131 5733 8.990163 TTATGGGGTTTATTTAGATTCTGGTC 57.010 34.615 0.00 0.00 0.00 4.02
2142 5744 7.255001 CGAGTAGCGATTTTATGGGGTTTATTT 60.255 37.037 0.00 0.00 44.57 1.40
2171 5773 1.000506 GAGTACCAACGAACTGCCAGA 59.999 52.381 0.00 0.00 0.00 3.86
2302 5904 6.543831 ACAAGTCTGTCTTTATTTTGCTCACT 59.456 34.615 0.00 0.00 33.63 3.41
2320 5945 4.357918 AGTTGGTAAGCATGACAAGTCT 57.642 40.909 0.00 0.00 0.00 3.24
2325 5950 6.155827 GCAAATTTAGTTGGTAAGCATGACA 58.844 36.000 0.00 0.00 0.00 3.58
2392 6017 5.411361 CCAAACGTTCAGGATTTGACTATGA 59.589 40.000 12.98 0.00 35.73 2.15
2411 6036 5.841957 ATGGATGCTGATAAGTTCCAAAC 57.158 39.130 7.70 0.00 39.74 2.93
2450 6075 9.016438 GTCCAAACTAACATTTATAGTTTCCCA 57.984 33.333 8.32 0.00 45.69 4.37
2451 6076 8.179615 CGTCCAAACTAACATTTATAGTTTCCC 58.820 37.037 8.32 1.13 45.69 3.97
2459 6084 7.383687 TCTCTGACGTCCAAACTAACATTTAT 58.616 34.615 14.12 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.