Multiple sequence alignment - TraesCS2B01G298600

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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 TraesCS2B01G298600 chr2B 100.000 3462 0 0 1 3462 418279342 418275881 0.000000e+00 6394.0
1 TraesCS2B01G298600 chr2B 82.031 128 20 3 3215 3341 793448854 793448729 4.730000e-19 106.0
2 TraesCS2B01G298600 chr2B 100.000 31 0 0 2189 2219 134367353 134367323 1.340000e-04 58.4
3 TraesCS2B01G298600 chr2B 100.000 29 0 0 2189 2217 638002775 638002803 2.000000e-03 54.7
4 TraesCS2B01G298600 chr2D 91.399 2151 113 21 4 2137 351984181 351982086 0.000000e+00 2881.0
5 TraesCS2B01G298600 chr2D 91.366 1274 71 15 2211 3462 351982079 351980823 0.000000e+00 1707.0
6 TraesCS2B01G298600 chr2D 88.851 296 32 1 1 295 351985029 351984734 2.540000e-96 363.0
7 TraesCS2B01G298600 chr2D 87.500 112 12 1 3232 3343 586806321 586806212 1.010000e-25 128.0
8 TraesCS2B01G298600 chr2D 75.333 300 53 18 3059 3341 2617373 2617078 1.300000e-24 124.0
9 TraesCS2B01G298600 chr2D 83.465 127 21 0 3215 3341 619419028 619419154 6.070000e-23 119.0
10 TraesCS2B01G298600 chr2D 86.047 86 8 3 3064 3148 107701066 107700984 4.760000e-14 89.8
11 TraesCS2B01G298600 chr2A 91.840 1446 35 24 629 2059 469812843 469811466 0.000000e+00 1940.0
12 TraesCS2B01G298600 chr2A 92.063 567 20 11 2222 2780 469811285 469810736 0.000000e+00 774.0
13 TraesCS2B01G298600 chr2A 88.169 355 25 7 3109 3462 469810285 469809947 1.160000e-109 407.0
14 TraesCS2B01G298600 chr2A 90.970 299 20 5 2826 3118 469810737 469810440 2.500000e-106 396.0
15 TraesCS2B01G298600 chr2A 96.685 181 4 2 101 280 632622277 632622098 2.020000e-77 300.0
16 TraesCS2B01G298600 chr2A 97.688 173 2 2 101 273 705822004 705821834 2.610000e-76 296.0
17 TraesCS2B01G298600 chr2A 96.341 82 3 0 560 641 469812949 469812868 6.030000e-28 135.0
18 TraesCS2B01G298600 chr2A 82.857 70 12 0 3089 3158 497439048 497438979 2.880000e-06 63.9
19 TraesCS2B01G298600 chr5B 96.354 192 1 4 102 293 283982423 283982238 9.330000e-81 311.0
20 TraesCS2B01G298600 chr6B 99.398 166 1 0 100 265 137385211 137385376 5.620000e-78 302.0
21 TraesCS2B01G298600 chr6B 97.222 36 1 0 2134 2169 409981696 409981731 1.040000e-05 62.1
22 TraesCS2B01G298600 chr6B 97.222 36 1 0 2134 2169 410394163 410394198 1.040000e-05 62.1
23 TraesCS2B01G298600 chr6B 100.000 29 0 0 2186 2214 156733540 156733512 2.000000e-03 54.7
24 TraesCS2B01G298600 chr7A 98.810 168 2 0 98 265 13105262 13105429 2.020000e-77 300.0
25 TraesCS2B01G298600 chr7A 85.149 101 15 0 3063 3163 295953279 295953379 1.700000e-18 104.0
26 TraesCS2B01G298600 chr3B 97.714 175 3 1 95 269 156649974 156649801 2.020000e-77 300.0
27 TraesCS2B01G298600 chr3B 96.648 179 3 2 96 273 461200580 461200404 9.400000e-76 294.0
28 TraesCS2B01G298600 chr3B 100.000 31 0 0 2189 2219 778457638 778457608 1.340000e-04 58.4
29 TraesCS2B01G298600 chr1B 98.246 171 3 0 95 265 447321966 447322136 2.020000e-77 300.0
30 TraesCS2B01G298600 chr4D 85.600 125 18 0 3215 3339 306460298 306460422 7.800000e-27 132.0
31 TraesCS2B01G298600 chr4A 85.484 124 18 0 3218 3341 137941730 137941607 2.800000e-26 130.0
32 TraesCS2B01G298600 chr4A 100.000 35 0 0 2134 2168 679069699 679069665 8.020000e-07 65.8
33 TraesCS2B01G298600 chr3D 86.916 107 13 1 3213 3319 87483714 87483609 6.070000e-23 119.0
34 TraesCS2B01G298600 chr3D 97.222 36 1 0 2134 2169 80264769 80264734 1.040000e-05 62.1
35 TraesCS2B01G298600 chr3D 97.222 36 1 0 2134 2169 203727042 203727007 1.040000e-05 62.1
36 TraesCS2B01G298600 chr3D 97.222 36 1 0 2134 2169 434026422 434026387 1.040000e-05 62.1
37 TraesCS2B01G298600 chr7B 83.505 97 15 1 3064 3159 373060249 373060153 4.760000e-14 89.8
38 TraesCS2B01G298600 chr3A 82.000 100 17 1 3059 3158 75571667 75571569 2.210000e-12 84.2
39 TraesCS2B01G298600 chr5D 100.000 36 0 0 2134 2169 326116539 326116574 2.230000e-07 67.6
40 TraesCS2B01G298600 chr5D 100.000 29 0 0 2186 2214 392065371 392065343 2.000000e-03 54.7
41 TraesCS2B01G298600 chr1A 100.000 34 0 0 2134 2167 8293152 8293119 2.880000e-06 63.9
42 TraesCS2B01G298600 chr1A 96.875 32 1 0 2189 2220 498178619 498178588 2.000000e-03 54.7
43 TraesCS2B01G298600 chr1A 100.000 29 0 0 2189 2217 564981793 564981765 2.000000e-03 54.7
44 TraesCS2B01G298600 chr6D 97.222 36 1 0 2134 2169 97868752 97868717 1.040000e-05 62.1
45 TraesCS2B01G298600 chr4B 87.037 54 7 0 3105 3158 604620719 604620666 1.040000e-05 62.1
46 TraesCS2B01G298600 chr5A 97.059 34 0 1 2189 2221 526398876 526398843 4.830000e-04 56.5
47 TraesCS2B01G298600 chr7D 100.000 29 0 0 2189 2217 426777012 426777040 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 TraesCS2B01G298600 chr2B 418275881 418279342 3461 True 6394.000000 6394 100.000000 1 3462 1 chr2B.!!$R2 3461
1 TraesCS2B01G298600 chr2D 351980823 351985029 4206 True 1650.333333 2881 90.538667 1 3462 3 chr2D.!!$R4 3461
2 TraesCS2B01G298600 chr2A 469809947 469812949 3002 True 730.400000 1940 91.876600 560 3462 5 chr2A.!!$R4 2902

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
765 1649 0.035036 TCGACGGCATAAACAACCCA 59.965 50.0 0.00 0.00 0.0 4.51 F
766 1650 0.446222 CGACGGCATAAACAACCCAG 59.554 55.0 0.00 0.00 0.0 4.45 F
769 1653 0.525761 CGGCATAAACAACCCAGTGG 59.474 55.0 0.63 0.63 37.8 4.00 F
796 1680 0.636647 AATCCAACCCCCTCCAATCC 59.363 55.0 0.00 0.00 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2197 3175 0.108281 GCAAGTACTCCCTCCGTTCC 60.108 60.0 0.0 0.00 0.0 3.62 R
2201 3179 0.179073 CCATGCAAGTACTCCCTCCG 60.179 60.0 0.0 0.00 0.0 4.63 R
2202 3180 0.181350 CCCATGCAAGTACTCCCTCC 59.819 60.0 0.0 0.00 0.0 4.30 R
2720 3736 0.251634 TGTTCATGGCACGGCATAGA 59.748 50.0 5.7 4.07 0.0 1.98 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
31 32 4.468095 AGGTTGAATTTGAACTTCGTCG 57.532 40.909 0.00 0.00 0.00 5.12
34 35 4.260456 GGTTGAATTTGAACTTCGTCGACA 60.260 41.667 17.16 0.00 0.00 4.35
47 48 3.659786 TCGTCGACACTTTTGGATGAAT 58.340 40.909 17.16 0.00 0.00 2.57
55 56 6.232581 ACACTTTTGGATGAATTTTGTGGA 57.767 33.333 0.00 0.00 0.00 4.02
60 61 6.669125 TTTGGATGAATTTTGTGGATGTCT 57.331 33.333 0.00 0.00 0.00 3.41
62 63 5.323581 TGGATGAATTTTGTGGATGTCTGA 58.676 37.500 0.00 0.00 0.00 3.27
63 64 5.953548 TGGATGAATTTTGTGGATGTCTGAT 59.046 36.000 0.00 0.00 0.00 2.90
64 65 6.127563 TGGATGAATTTTGTGGATGTCTGATG 60.128 38.462 0.00 0.00 0.00 3.07
68 69 3.786368 TTTGTGGATGTCTGATGACCA 57.214 42.857 0.00 0.00 42.28 4.02
72 73 3.820467 TGTGGATGTCTGATGACCAAAAC 59.180 43.478 0.00 0.00 42.28 2.43
74 75 2.159517 GGATGTCTGATGACCAAAACGC 60.160 50.000 0.00 0.00 42.28 4.84
86 87 5.242434 TGACCAAAACGCTATGTTCTATGT 58.758 37.500 0.00 0.00 40.84 2.29
91 92 7.012044 ACCAAAACGCTATGTTCTATGTTATCC 59.988 37.037 0.00 0.00 40.84 2.59
103 104 8.737175 TGTTCTATGTTATCCCGTATGATCTAC 58.263 37.037 0.00 0.00 0.00 2.59
122 123 5.136105 TCTACTCCCTCCGTTCCTAAATAC 58.864 45.833 0.00 0.00 0.00 1.89
125 126 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
160 161 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
161 162 3.581755 TCAACAAGTGACTACATACGGC 58.418 45.455 0.00 0.00 0.00 5.68
224 226 5.984725 ACATCCGTATGTTGAGTCCATTTA 58.015 37.500 0.00 0.00 44.07 1.40
229 231 7.757526 TCCGTATGTTGAGTCCATTTAAAATG 58.242 34.615 0.00 0.00 0.00 2.32
230 232 6.472163 CCGTATGTTGAGTCCATTTAAAATGC 59.528 38.462 0.00 0.00 0.00 3.56
234 236 7.156876 TGTTGAGTCCATTTAAAATGCCTAG 57.843 36.000 0.00 0.00 0.00 3.02
243 245 8.522830 TCCATTTAAAATGCCTAGAAAGACAAG 58.477 33.333 0.00 0.00 0.00 3.16
254 256 6.127980 GCCTAGAAAGACAAGTATTTGGGAAC 60.128 42.308 2.81 0.00 38.66 3.62
279 281 3.938963 AGGGAGTACGTAATTTGCATGTG 59.061 43.478 0.00 0.00 0.00 3.21
295 297 4.749099 TGCATGTGTTTGTATGAAAAAGGC 59.251 37.500 0.00 0.00 0.00 4.35
297 299 4.640789 TGTGTTTGTATGAAAAAGGCGT 57.359 36.364 0.00 0.00 0.00 5.68
298 300 5.752892 TGTGTTTGTATGAAAAAGGCGTA 57.247 34.783 0.00 0.00 0.00 4.42
300 302 5.151389 GTGTTTGTATGAAAAAGGCGTAGG 58.849 41.667 0.00 0.00 0.00 3.18
301 303 5.049267 GTGTTTGTATGAAAAAGGCGTAGGA 60.049 40.000 0.00 0.00 0.00 2.94
302 304 5.708230 TGTTTGTATGAAAAAGGCGTAGGAT 59.292 36.000 0.00 0.00 0.00 3.24
318 1159 3.821421 AGGATATTTGAGGTCCGTGAC 57.179 47.619 0.00 0.00 37.12 3.67
320 1161 4.543689 AGGATATTTGAGGTCCGTGACTA 58.456 43.478 4.41 0.00 37.12 2.59
325 1166 0.333652 TGAGGTCCGTGACTATGGGA 59.666 55.000 4.41 0.00 33.52 4.37
328 1169 0.464452 GGTCCGTGACTATGGGAAGG 59.536 60.000 4.41 0.00 33.52 3.46
338 1179 6.183360 CGTGACTATGGGAAGGACAAAATTAC 60.183 42.308 0.00 0.00 0.00 1.89
341 1182 7.893302 TGACTATGGGAAGGACAAAATTACAAT 59.107 33.333 0.00 0.00 0.00 2.71
344 1185 6.739331 TGGGAAGGACAAAATTACAATTGT 57.261 33.333 16.68 16.68 42.18 2.71
345 1186 7.130681 TGGGAAGGACAAAATTACAATTGTT 57.869 32.000 17.78 0.00 39.73 2.83
347 1188 6.364976 GGGAAGGACAAAATTACAATTGTTCG 59.635 38.462 17.78 2.10 39.53 3.95
348 1189 6.921307 GGAAGGACAAAATTACAATTGTTCGT 59.079 34.615 17.78 5.04 39.53 3.85
350 1191 5.689961 AGGACAAAATTACAATTGTTCGTGC 59.310 36.000 17.78 10.05 39.53 5.34
354 1195 7.197017 ACAAAATTACAATTGTTCGTGCACTA 58.803 30.769 17.78 0.00 36.39 2.74
356 1197 5.933187 ATTACAATTGTTCGTGCACTACA 57.067 34.783 17.78 15.60 0.00 2.74
360 1201 1.657822 TTGTTCGTGCACTACAAGCA 58.342 45.000 22.70 9.57 40.19 3.91
364 1205 0.663269 TCGTGCACTACAAGCAGACG 60.663 55.000 16.19 0.00 43.63 4.18
367 1208 0.599991 TGCACTACAAGCAGACGTGG 60.600 55.000 0.00 0.00 37.02 4.94
369 1210 0.319900 CACTACAAGCAGACGTGGCT 60.320 55.000 5.53 5.53 45.15 4.75
376 1218 2.936912 GCAGACGTGGCTGGAGAGT 61.937 63.158 4.63 0.00 36.41 3.24
404 1246 1.334960 CGTTTGAGAGGCGCAATTTGT 60.335 47.619 10.83 0.00 0.00 2.83
413 1255 1.632422 GCGCAATTTGTCAATCCTGG 58.368 50.000 0.30 0.00 0.00 4.45
418 1260 4.379652 GCAATTTGTCAATCCTGGTTGTT 58.620 39.130 0.00 0.00 0.00 2.83
428 1270 3.228188 TCCTGGTTGTTGATGCTCTTT 57.772 42.857 0.00 0.00 0.00 2.52
446 1288 7.081349 TGCTCTTTGTGAACCAATAATTAACG 58.919 34.615 0.00 0.00 31.81 3.18
491 1333 7.068839 TGTTTAAACAAGAATCAACCCAGCTAA 59.931 33.333 18.54 0.00 35.67 3.09
535 1377 5.193099 ACTTTAGATTTGTAGGTGGCCAT 57.807 39.130 9.72 0.00 0.00 4.40
570 1416 3.323403 AGGTAGCGGTCTACTAGTATCGT 59.677 47.826 2.33 3.03 43.61 3.73
685 1569 0.607489 GGTGCTCAGTTCATGCCTGT 60.607 55.000 10.74 0.00 0.00 4.00
765 1649 0.035036 TCGACGGCATAAACAACCCA 59.965 50.000 0.00 0.00 0.00 4.51
766 1650 0.446222 CGACGGCATAAACAACCCAG 59.554 55.000 0.00 0.00 0.00 4.45
767 1651 1.530323 GACGGCATAAACAACCCAGT 58.470 50.000 0.00 0.00 0.00 4.00
768 1652 1.199097 GACGGCATAAACAACCCAGTG 59.801 52.381 0.00 0.00 0.00 3.66
769 1653 0.525761 CGGCATAAACAACCCAGTGG 59.474 55.000 0.63 0.63 37.80 4.00
770 1654 1.884497 CGGCATAAACAACCCAGTGGA 60.884 52.381 11.95 0.00 34.81 4.02
771 1655 1.818674 GGCATAAACAACCCAGTGGAG 59.181 52.381 11.95 3.13 34.81 3.86
772 1656 2.514803 GCATAAACAACCCAGTGGAGT 58.485 47.619 11.95 3.87 34.81 3.85
773 1657 3.560453 GGCATAAACAACCCAGTGGAGTA 60.560 47.826 11.95 0.00 34.81 2.59
774 1658 4.076394 GCATAAACAACCCAGTGGAGTAA 58.924 43.478 11.95 0.00 34.81 2.24
775 1659 4.705023 GCATAAACAACCCAGTGGAGTAAT 59.295 41.667 11.95 1.66 34.81 1.89
776 1660 5.185056 GCATAAACAACCCAGTGGAGTAATT 59.815 40.000 11.95 2.78 34.81 1.40
777 1661 6.376018 GCATAAACAACCCAGTGGAGTAATTA 59.624 38.462 11.95 5.03 34.81 1.40
778 1662 7.094118 GCATAAACAACCCAGTGGAGTAATTAA 60.094 37.037 11.95 0.00 34.81 1.40
779 1663 8.966868 CATAAACAACCCAGTGGAGTAATTAAT 58.033 33.333 11.95 0.00 34.81 1.40
780 1664 7.462571 AAACAACCCAGTGGAGTAATTAATC 57.537 36.000 11.95 4.32 34.81 1.75
781 1665 5.506708 ACAACCCAGTGGAGTAATTAATCC 58.493 41.667 22.26 22.26 40.67 3.01
782 1666 5.014755 ACAACCCAGTGGAGTAATTAATCCA 59.985 40.000 26.59 26.59 46.93 3.41
796 1680 0.636647 AATCCAACCCCCTCCAATCC 59.363 55.000 0.00 0.00 0.00 3.01
799 1683 1.307647 CAACCCCCTCCAATCCCTG 59.692 63.158 0.00 0.00 0.00 4.45
801 1685 2.697644 CCCCCTCCAATCCCTGCT 60.698 66.667 0.00 0.00 0.00 4.24
802 1686 2.599597 CCCCTCCAATCCCTGCTG 59.400 66.667 0.00 0.00 0.00 4.41
827 1711 0.836400 TCTTCTTCCCCTCCGCTGTT 60.836 55.000 0.00 0.00 0.00 3.16
881 1770 5.011023 GTCCAAACAAGATTCCTTCCACATT 59.989 40.000 0.00 0.00 0.00 2.71
901 1790 1.377333 AAAAGGCTGCGAGGGCTAC 60.377 57.895 4.75 0.00 41.31 3.58
1488 2386 2.363018 CTCAGGGCTCTCGTCCCA 60.363 66.667 0.48 0.00 46.36 4.37
1511 2409 7.119262 CCCAAACATCACAAAGGTTAGTACTAG 59.881 40.741 2.23 0.00 0.00 2.57
1524 2424 7.572814 AGGTTAGTACTAGTAGTTCCTACTGG 58.427 42.308 22.09 12.32 45.52 4.00
1529 2429 7.111466 AGTACTAGTAGTTCCTACTGGACTTG 58.889 42.308 18.10 2.81 44.65 3.16
1530 2430 4.705991 ACTAGTAGTTCCTACTGGACTTGC 59.294 45.833 18.10 0.00 44.65 4.01
1546 2446 4.034510 GGACTTGCAATTTGTATCCTCTCG 59.965 45.833 0.00 0.00 0.00 4.04
1554 2454 1.092348 TGTATCCTCTCGTGTCGTGG 58.908 55.000 0.00 0.00 0.00 4.94
1579 2479 6.387465 TCGATAGAAACAGTTTGTGGAGTAG 58.613 40.000 2.34 0.00 46.15 2.57
1832 2733 3.834799 GGCGACGACGAGGGGAAT 61.835 66.667 12.29 0.00 42.66 3.01
2036 2937 3.400590 GACCGCGTCGTGTCAACC 61.401 66.667 4.92 0.00 31.22 3.77
2079 3057 2.327940 GTTGCAAGCAACGACGCT 59.672 55.556 20.51 0.00 45.24 5.07
2081 3059 3.222126 TTGCAAGCAACGACGCTCG 62.222 57.895 2.89 5.97 42.89 5.03
2106 3084 9.787532 CGTCAAATAACCATTATTCATTTCTGT 57.212 29.630 0.00 0.00 34.88 3.41
2125 3103 8.651391 TTTCTGTGACAAGTAATTTTAGACGA 57.349 30.769 0.00 0.00 0.00 4.20
2147 3125 9.378597 GACGAAGAAAGTATTTGAACTAAAACC 57.621 33.333 0.00 0.00 39.27 3.27
2148 3126 8.895737 ACGAAGAAAGTATTTGAACTAAAACCA 58.104 29.630 0.00 0.00 39.27 3.67
2149 3127 9.166126 CGAAGAAAGTATTTGAACTAAAACCAC 57.834 33.333 0.00 0.00 39.27 4.16
2150 3128 9.166126 GAAGAAAGTATTTGAACTAAAACCACG 57.834 33.333 0.00 0.00 39.27 4.94
2151 3129 8.441312 AGAAAGTATTTGAACTAAAACCACGA 57.559 30.769 0.00 0.00 39.27 4.35
2152 3130 8.340443 AGAAAGTATTTGAACTAAAACCACGAC 58.660 33.333 0.00 0.00 39.27 4.34
2153 3131 6.219302 AGTATTTGAACTAAAACCACGACG 57.781 37.500 0.00 0.00 0.00 5.12
2154 3132 5.984926 AGTATTTGAACTAAAACCACGACGA 59.015 36.000 0.00 0.00 0.00 4.20
2155 3133 5.738118 ATTTGAACTAAAACCACGACGAA 57.262 34.783 0.00 0.00 0.00 3.85
2156 3134 5.738118 TTTGAACTAAAACCACGACGAAT 57.262 34.783 0.00 0.00 0.00 3.34
2157 3135 6.841443 TTTGAACTAAAACCACGACGAATA 57.159 33.333 0.00 0.00 0.00 1.75
2158 3136 6.841443 TTGAACTAAAACCACGACGAATAA 57.159 33.333 0.00 0.00 0.00 1.40
2159 3137 7.424227 TTGAACTAAAACCACGACGAATAAT 57.576 32.000 0.00 0.00 0.00 1.28
2160 3138 7.424227 TGAACTAAAACCACGACGAATAATT 57.576 32.000 0.00 0.00 0.00 1.40
2161 3139 7.863666 TGAACTAAAACCACGACGAATAATTT 58.136 30.769 0.00 0.00 0.00 1.82
2162 3140 7.799447 TGAACTAAAACCACGACGAATAATTTG 59.201 33.333 0.00 0.00 0.00 2.32
2163 3141 7.424227 ACTAAAACCACGACGAATAATTTGA 57.576 32.000 0.00 0.00 0.00 2.69
2164 3142 7.863666 ACTAAAACCACGACGAATAATTTGAA 58.136 30.769 0.00 0.00 0.00 2.69
2165 3143 8.344098 ACTAAAACCACGACGAATAATTTGAAA 58.656 29.630 0.00 0.00 0.00 2.69
2166 3144 6.979701 AAACCACGACGAATAATTTGAAAC 57.020 33.333 0.00 0.00 0.00 2.78
2167 3145 4.704457 ACCACGACGAATAATTTGAAACG 58.296 39.130 0.00 0.00 0.00 3.60
2168 3146 4.085884 CCACGACGAATAATTTGAAACGG 58.914 43.478 0.00 0.00 0.00 4.44
2169 3147 4.377635 CCACGACGAATAATTTGAAACGGT 60.378 41.667 0.00 0.00 0.00 4.83
2170 3148 4.779523 CACGACGAATAATTTGAAACGGTC 59.220 41.667 0.00 0.00 0.00 4.79
2171 3149 4.448395 ACGACGAATAATTTGAAACGGTCA 59.552 37.500 0.00 0.00 0.00 4.02
2172 3150 4.779523 CGACGAATAATTTGAAACGGTCAC 59.220 41.667 0.00 0.00 35.39 3.67
2173 3151 5.038247 ACGAATAATTTGAAACGGTCACC 57.962 39.130 0.00 0.00 35.39 4.02
2174 3152 4.083164 ACGAATAATTTGAAACGGTCACCC 60.083 41.667 0.00 0.00 35.39 4.61
2203 3181 8.642908 AAAAAGAAAAGAGTAATTTGGAACGG 57.357 30.769 0.00 0.00 0.00 4.44
2204 3182 7.576861 AAAGAAAAGAGTAATTTGGAACGGA 57.423 32.000 0.00 0.00 0.00 4.69
2205 3183 6.803154 AGAAAAGAGTAATTTGGAACGGAG 57.197 37.500 0.00 0.00 0.00 4.63
2206 3184 5.705905 AGAAAAGAGTAATTTGGAACGGAGG 59.294 40.000 0.00 0.00 0.00 4.30
2207 3185 3.629142 AGAGTAATTTGGAACGGAGGG 57.371 47.619 0.00 0.00 0.00 4.30
2208 3186 3.178865 AGAGTAATTTGGAACGGAGGGA 58.821 45.455 0.00 0.00 0.00 4.20
2209 3187 3.197983 AGAGTAATTTGGAACGGAGGGAG 59.802 47.826 0.00 0.00 0.00 4.30
2297 3291 1.919240 TCCAGAGCTCCAAACGAGTA 58.081 50.000 10.93 0.00 41.10 2.59
2298 3292 1.819288 TCCAGAGCTCCAAACGAGTAG 59.181 52.381 10.93 0.00 41.10 2.57
2299 3293 1.546476 CCAGAGCTCCAAACGAGTAGT 59.454 52.381 10.93 0.00 41.10 2.73
2300 3294 2.753452 CCAGAGCTCCAAACGAGTAGTA 59.247 50.000 10.93 0.00 41.10 1.82
2311 3305 9.852091 CTCCAAACGAGTAGTAATACTTAGTTT 57.148 33.333 21.41 21.41 39.43 2.66
2536 3538 1.302271 GTTTGTCCCTGTCCGTCCC 60.302 63.158 0.00 0.00 0.00 4.46
2662 3672 2.032377 CGGCGCCGTTAAATGTATGAAT 60.032 45.455 39.71 0.00 34.35 2.57
2666 3676 4.670621 GCGCCGTTAAATGTATGAATCAAG 59.329 41.667 0.00 0.00 0.00 3.02
2720 3736 4.115516 GTGAGTGATGCACTATCGTTCAT 58.884 43.478 0.00 0.00 45.44 2.57
2743 3759 3.027170 GCCGTGCCATGAACAGACG 62.027 63.158 0.00 0.00 0.00 4.18
2753 3769 0.385098 TGAACAGACGCTCGTACACG 60.385 55.000 0.00 0.00 41.45 4.49
2764 3781 0.656785 TCGTACACGTTTTTGCCCAC 59.343 50.000 1.19 0.00 40.80 4.61
2770 3787 1.001158 CACGTTTTTGCCCACGGTATT 60.001 47.619 0.00 0.00 40.84 1.89
2781 3798 1.003972 CCACGGTATTTATGCAGTGCG 60.004 52.381 11.20 0.00 37.29 5.34
2810 3827 7.072263 AGAAGAATTAGCACTGGCATATACT 57.928 36.000 0.00 0.00 44.61 2.12
2811 3828 6.933521 AGAAGAATTAGCACTGGCATATACTG 59.066 38.462 0.00 0.00 44.61 2.74
2884 3902 0.739462 TTCAAGCACGTAGGCATCGG 60.739 55.000 0.36 0.00 35.83 4.18
2899 3917 2.859032 GCATCGGTCAAGTACTCGATCC 60.859 54.545 12.72 2.69 38.57 3.36
2930 3948 9.470399 TGTGACACAGATTATAAACTAGGACTA 57.530 33.333 3.56 0.00 0.00 2.59
2986 4004 5.068855 AGGGTAAGCGATTAAGTAGGTTCTC 59.931 44.000 0.00 0.00 0.00 2.87
3044 4062 8.417884 GTTCTGACTTCTGAGTTATATTAGCCT 58.582 37.037 0.00 0.00 35.88 4.58
3057 4075 9.184523 AGTTATATTAGCCTTTGTACAATGCAA 57.815 29.630 24.25 18.10 0.00 4.08
3149 4335 2.983879 ATGCACACCCTACCCCTGC 61.984 63.158 0.00 0.00 0.00 4.85
3158 4344 1.265454 CCTACCCCTGCGAGAACCTT 61.265 60.000 0.00 0.00 0.00 3.50
3186 4372 4.758674 CCGGCACATTATCTTCAGATTGAT 59.241 41.667 0.00 0.00 36.05 2.57
3195 4381 7.715265 TTATCTTCAGATTGATAAAGTCGCC 57.285 36.000 0.00 0.00 33.74 5.54
3211 4397 4.760047 CCGCAGACCCCTTCGTGG 62.760 72.222 0.00 0.00 0.00 4.94
3213 4399 2.990479 GCAGACCCCTTCGTGGAT 59.010 61.111 0.00 0.00 38.35 3.41
3300 4486 1.585651 AACCTTGGTGGGTTGGTCCA 61.586 55.000 0.00 0.00 46.51 4.02
3318 4504 2.158579 TCCAACCACAAGGAACCTAACC 60.159 50.000 0.00 0.00 38.69 2.85
3358 4544 4.349663 TCGCACAATGCAAGGTATTTAC 57.650 40.909 0.00 0.00 45.36 2.01
3405 4592 5.921004 TGGTTTATTTTTCAAGCACATGC 57.079 34.783 0.00 0.00 42.49 4.06
3433 4620 1.747355 CCTTGCATTCTTCGGATGCTT 59.253 47.619 8.44 0.00 41.52 3.91
3434 4621 2.479049 CCTTGCATTCTTCGGATGCTTG 60.479 50.000 8.44 1.98 41.52 4.01
3435 4622 1.825090 TGCATTCTTCGGATGCTTGT 58.175 45.000 8.44 0.00 41.52 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 2.804697 TCATCCAAAAGTGTCGACGA 57.195 45.000 11.62 0.00 0.00 4.20
31 32 6.279882 TCCACAAAATTCATCCAAAAGTGTC 58.720 36.000 0.00 0.00 0.00 3.67
34 35 6.829849 ACATCCACAAAATTCATCCAAAAGT 58.170 32.000 0.00 0.00 0.00 2.66
47 48 4.097551 TGGTCATCAGACATCCACAAAA 57.902 40.909 0.00 0.00 46.80 2.44
55 56 2.783135 AGCGTTTTGGTCATCAGACAT 58.217 42.857 0.00 0.00 46.80 3.06
60 61 4.323417 AGAACATAGCGTTTTGGTCATCA 58.677 39.130 10.10 0.00 38.19 3.07
62 63 5.880332 ACATAGAACATAGCGTTTTGGTCAT 59.120 36.000 10.10 0.14 38.19 3.06
63 64 5.242434 ACATAGAACATAGCGTTTTGGTCA 58.758 37.500 10.10 0.00 38.19 4.02
64 65 5.796350 ACATAGAACATAGCGTTTTGGTC 57.204 39.130 0.00 0.00 38.19 4.02
68 69 6.202188 CGGGATAACATAGAACATAGCGTTTT 59.798 38.462 0.00 0.00 38.19 2.43
72 73 4.806330 ACGGGATAACATAGAACATAGCG 58.194 43.478 0.00 0.00 0.00 4.26
74 75 9.737427 GATCATACGGGATAACATAGAACATAG 57.263 37.037 0.00 0.00 0.00 2.23
86 87 5.507637 GAGGGAGTAGATCATACGGGATAA 58.492 45.833 0.00 0.00 0.00 1.75
91 92 2.085320 CGGAGGGAGTAGATCATACGG 58.915 57.143 0.00 0.00 0.00 4.02
103 104 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
122 123 9.050601 ACTTGTTGAAATCTCTAGAAAGACAAG 57.949 33.333 17.75 17.75 33.18 3.16
125 126 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
157 158 0.881118 ATTCACTCATTTTGCGCCGT 59.119 45.000 4.18 0.00 0.00 5.68
160 161 4.091424 GTGTAGATTCACTCATTTTGCGC 58.909 43.478 0.00 0.00 35.68 6.09
161 162 5.536554 AGTGTAGATTCACTCATTTTGCG 57.463 39.130 0.00 0.00 44.07 4.85
213 214 7.888021 TCTTTCTAGGCATTTTAAATGGACTCA 59.112 33.333 17.89 0.00 0.00 3.41
224 226 8.306761 CCAAATACTTGTCTTTCTAGGCATTTT 58.693 33.333 0.00 0.00 35.56 1.82
229 231 5.497474 TCCCAAATACTTGTCTTTCTAGGC 58.503 41.667 0.00 0.00 0.00 3.93
230 232 6.092259 CGTTCCCAAATACTTGTCTTTCTAGG 59.908 42.308 0.00 0.00 0.00 3.02
234 236 4.758165 TCCGTTCCCAAATACTTGTCTTTC 59.242 41.667 0.00 0.00 0.00 2.62
243 245 1.558294 ACTCCCTCCGTTCCCAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
249 251 0.394352 TACGTACTCCCTCCGTTCCC 60.394 60.000 0.00 0.00 36.12 3.97
254 256 2.199236 GCAAATTACGTACTCCCTCCG 58.801 52.381 0.00 0.00 0.00 4.63
279 281 5.616488 TCCTACGCCTTTTTCATACAAAC 57.384 39.130 0.00 0.00 0.00 2.93
295 297 3.317149 TCACGGACCTCAAATATCCTACG 59.683 47.826 0.00 0.00 0.00 3.51
297 299 4.543689 AGTCACGGACCTCAAATATCCTA 58.456 43.478 1.06 0.00 32.18 2.94
298 300 3.375699 AGTCACGGACCTCAAATATCCT 58.624 45.455 1.06 0.00 32.18 3.24
300 302 5.230942 CCATAGTCACGGACCTCAAATATC 58.769 45.833 1.06 0.00 32.18 1.63
301 303 4.040461 CCCATAGTCACGGACCTCAAATAT 59.960 45.833 1.06 0.00 32.18 1.28
302 304 3.386726 CCCATAGTCACGGACCTCAAATA 59.613 47.826 1.06 0.00 32.18 1.40
318 1159 8.531146 ACAATTGTAATTTTGTCCTTCCCATAG 58.469 33.333 9.97 0.00 30.43 2.23
320 1161 7.315066 ACAATTGTAATTTTGTCCTTCCCAT 57.685 32.000 9.97 0.00 30.43 4.00
325 1166 6.200097 GCACGAACAATTGTAATTTTGTCCTT 59.800 34.615 12.39 0.00 35.09 3.36
328 1169 6.198216 AGTGCACGAACAATTGTAATTTTGTC 59.802 34.615 12.39 2.79 35.09 3.18
338 1179 2.973224 GCTTGTAGTGCACGAACAATTG 59.027 45.455 29.04 22.36 33.01 2.32
341 1182 1.597195 CTGCTTGTAGTGCACGAACAA 59.403 47.619 27.85 27.85 36.37 2.83
344 1185 1.497991 GTCTGCTTGTAGTGCACGAA 58.502 50.000 12.01 5.05 36.37 3.85
345 1186 0.663269 CGTCTGCTTGTAGTGCACGA 60.663 55.000 12.01 2.52 36.37 4.35
347 1188 0.508641 CACGTCTGCTTGTAGTGCAC 59.491 55.000 9.40 9.40 36.37 4.57
348 1189 0.599991 CCACGTCTGCTTGTAGTGCA 60.600 55.000 0.00 0.00 38.81 4.57
350 1191 0.319900 AGCCACGTCTGCTTGTAGTG 60.320 55.000 3.31 0.00 34.87 2.74
354 1195 2.281070 CCAGCCACGTCTGCTTGT 60.281 61.111 6.38 0.00 36.81 3.16
356 1197 2.164865 CTCTCCAGCCACGTCTGCTT 62.165 60.000 6.38 0.00 36.81 3.91
360 1201 1.979693 GGACTCTCCAGCCACGTCT 60.980 63.158 0.00 0.00 36.28 4.18
364 1205 4.803426 CGCGGACTCTCCAGCCAC 62.803 72.222 0.00 0.00 35.91 5.01
376 1218 4.735132 CTCTCAAACGCCCGCGGA 62.735 66.667 30.73 2.78 44.69 5.54
394 1236 1.067635 ACCAGGATTGACAAATTGCGC 60.068 47.619 0.00 0.00 0.00 6.09
404 1246 3.084039 GAGCATCAACAACCAGGATTGA 58.916 45.455 0.00 0.40 36.81 2.57
413 1255 4.044426 GGTTCACAAAGAGCATCAACAAC 58.956 43.478 0.00 0.00 37.82 3.32
418 1260 6.839124 ATTATTGGTTCACAAAGAGCATCA 57.161 33.333 0.00 0.00 43.46 3.07
428 1270 4.079970 TGCCCGTTAATTATTGGTTCACA 58.920 39.130 3.58 0.00 0.00 3.58
446 1288 2.106511 ACATGGATATGTACCTGTGCCC 59.893 50.000 0.00 0.00 45.45 5.36
535 1377 3.137913 ACCGCTACCTAGGTCTATCTGAA 59.862 47.826 20.32 0.00 35.50 3.02
570 1416 2.571653 ACTGCTACTAGTGCATGGGAAA 59.428 45.455 16.77 0.00 39.86 3.13
765 1649 4.079385 GGGGGTTGGATTAATTACTCCACT 60.079 45.833 20.85 0.00 41.20 4.00
766 1650 4.079385 AGGGGGTTGGATTAATTACTCCAC 60.079 45.833 20.85 15.85 41.20 4.02
767 1651 4.123745 AGGGGGTTGGATTAATTACTCCA 58.876 43.478 18.05 18.05 39.78 3.86
768 1652 4.447325 GGAGGGGGTTGGATTAATTACTCC 60.447 50.000 13.60 13.60 34.67 3.85
769 1653 4.167307 TGGAGGGGGTTGGATTAATTACTC 59.833 45.833 0.00 0.00 0.00 2.59
770 1654 4.123745 TGGAGGGGGTTGGATTAATTACT 58.876 43.478 0.00 0.00 0.00 2.24
771 1655 4.529716 TGGAGGGGGTTGGATTAATTAC 57.470 45.455 0.00 0.00 0.00 1.89
772 1656 5.400886 GGATTGGAGGGGGTTGGATTAATTA 60.401 44.000 0.00 0.00 0.00 1.40
773 1657 4.556697 GATTGGAGGGGGTTGGATTAATT 58.443 43.478 0.00 0.00 0.00 1.40
774 1658 3.116746 GGATTGGAGGGGGTTGGATTAAT 60.117 47.826 0.00 0.00 0.00 1.40
775 1659 2.246327 GGATTGGAGGGGGTTGGATTAA 59.754 50.000 0.00 0.00 0.00 1.40
776 1660 1.856920 GGATTGGAGGGGGTTGGATTA 59.143 52.381 0.00 0.00 0.00 1.75
777 1661 0.636647 GGATTGGAGGGGGTTGGATT 59.363 55.000 0.00 0.00 0.00 3.01
778 1662 1.296662 GGGATTGGAGGGGGTTGGAT 61.297 60.000 0.00 0.00 0.00 3.41
779 1663 1.933812 GGGATTGGAGGGGGTTGGA 60.934 63.158 0.00 0.00 0.00 3.53
780 1664 1.935931 AGGGATTGGAGGGGGTTGG 60.936 63.158 0.00 0.00 0.00 3.77
781 1665 1.307647 CAGGGATTGGAGGGGGTTG 59.692 63.158 0.00 0.00 0.00 3.77
782 1666 2.626467 GCAGGGATTGGAGGGGGTT 61.626 63.158 0.00 0.00 0.00 4.11
783 1667 3.023735 GCAGGGATTGGAGGGGGT 61.024 66.667 0.00 0.00 0.00 4.95
784 1668 2.697644 AGCAGGGATTGGAGGGGG 60.698 66.667 0.00 0.00 0.00 5.40
785 1669 0.988145 TACAGCAGGGATTGGAGGGG 60.988 60.000 0.00 0.00 0.00 4.79
786 1670 0.181350 GTACAGCAGGGATTGGAGGG 59.819 60.000 0.00 0.00 0.00 4.30
802 1686 1.413077 CGGAGGGGAAGAAGATGGTAC 59.587 57.143 0.00 0.00 0.00 3.34
827 1711 2.304470 TGCTGCGCCCTATATGGAATTA 59.696 45.455 4.18 0.00 38.35 1.40
857 1746 3.888930 TGTGGAAGGAATCTTGTTTGGAC 59.111 43.478 0.00 0.00 32.52 4.02
881 1770 1.836999 TAGCCCTCGCAGCCTTTTGA 61.837 55.000 0.00 0.00 37.52 2.69
901 1790 1.599419 GGGTGCCGCGCTTTTTATATG 60.599 52.381 5.56 0.00 0.00 1.78
936 1825 0.674895 AGTGATTGAGGCAAGGCGTC 60.675 55.000 4.12 4.12 42.76 5.19
937 1826 0.250901 AAGTGATTGAGGCAAGGCGT 60.251 50.000 0.00 0.00 0.00 5.68
986 1875 3.184581 GTGCTCCATTACCGATTCGATTC 59.815 47.826 7.83 0.00 0.00 2.52
1402 2300 3.003763 GGTCTTGGAGCGGTCCCT 61.004 66.667 29.73 0.00 43.15 4.20
1488 2386 9.924650 CTACTAGTACTAACCTTTGTGATGTTT 57.075 33.333 3.76 0.00 0.00 2.83
1524 2424 4.631813 ACGAGAGGATACAAATTGCAAGTC 59.368 41.667 4.94 0.00 41.41 3.01
1529 2429 3.000322 CGACACGAGAGGATACAAATTGC 60.000 47.826 0.00 0.00 41.41 3.56
1530 2430 4.031765 CACGACACGAGAGGATACAAATTG 59.968 45.833 0.00 0.00 41.41 2.32
1554 2454 4.989168 ACTCCACAAACTGTTTCTATCGAC 59.011 41.667 2.13 0.00 0.00 4.20
1579 2479 2.369394 CTCCCAGTAAGAATTGGTGCC 58.631 52.381 0.00 0.00 30.56 5.01
1904 2805 0.314302 ACTCCACCGTCACGAAGAAG 59.686 55.000 0.00 0.00 0.00 2.85
2036 2937 3.444388 GGAGTAGTACCTTGAGTGTGAGG 59.556 52.174 0.00 0.00 39.02 3.86
2077 3055 8.856490 AAATGAATAATGGTTATTTGACGAGC 57.144 30.769 0.00 0.00 36.04 5.03
2106 3084 9.321562 ACTTTCTTCGTCTAAAATTACTTGTCA 57.678 29.630 0.00 0.00 0.00 3.58
2125 3103 8.895737 TCGTGGTTTTAGTTCAAATACTTTCTT 58.104 29.630 0.00 0.00 0.00 2.52
2137 3115 8.011106 TCAAATTATTCGTCGTGGTTTTAGTTC 58.989 33.333 0.00 0.00 0.00 3.01
2138 3116 7.863666 TCAAATTATTCGTCGTGGTTTTAGTT 58.136 30.769 0.00 0.00 0.00 2.24
2140 3118 8.624028 GTTTCAAATTATTCGTCGTGGTTTTAG 58.376 33.333 0.00 0.00 0.00 1.85
2141 3119 7.320797 CGTTTCAAATTATTCGTCGTGGTTTTA 59.679 33.333 0.00 0.00 0.00 1.52
2142 3120 6.141053 CGTTTCAAATTATTCGTCGTGGTTTT 59.859 34.615 0.00 0.00 0.00 2.43
2143 3121 5.622041 CGTTTCAAATTATTCGTCGTGGTTT 59.378 36.000 0.00 0.00 0.00 3.27
2144 3122 5.141568 CGTTTCAAATTATTCGTCGTGGTT 58.858 37.500 0.00 0.00 0.00 3.67
2145 3123 4.377635 CCGTTTCAAATTATTCGTCGTGGT 60.378 41.667 0.00 0.00 0.00 4.16
2146 3124 4.085884 CCGTTTCAAATTATTCGTCGTGG 58.914 43.478 0.00 0.00 0.00 4.94
2147 3125 4.704457 ACCGTTTCAAATTATTCGTCGTG 58.296 39.130 0.00 0.00 0.00 4.35
2148 3126 4.448395 TGACCGTTTCAAATTATTCGTCGT 59.552 37.500 0.00 0.00 0.00 4.34
2149 3127 4.779523 GTGACCGTTTCAAATTATTCGTCG 59.220 41.667 0.00 0.00 35.39 5.12
2150 3128 5.084055 GGTGACCGTTTCAAATTATTCGTC 58.916 41.667 0.00 0.00 35.39 4.20
2151 3129 4.083164 GGGTGACCGTTTCAAATTATTCGT 60.083 41.667 0.00 0.00 43.64 3.85
2152 3130 4.408694 GGGTGACCGTTTCAAATTATTCG 58.591 43.478 0.00 0.00 43.64 3.34
2178 3156 8.471609 TCCGTTCCAAATTACTCTTTTCTTTTT 58.528 29.630 0.00 0.00 0.00 1.94
2179 3157 8.002984 TCCGTTCCAAATTACTCTTTTCTTTT 57.997 30.769 0.00 0.00 0.00 2.27
2180 3158 7.255486 CCTCCGTTCCAAATTACTCTTTTCTTT 60.255 37.037 0.00 0.00 0.00 2.52
2181 3159 6.206829 CCTCCGTTCCAAATTACTCTTTTCTT 59.793 38.462 0.00 0.00 0.00 2.52
2182 3160 5.705905 CCTCCGTTCCAAATTACTCTTTTCT 59.294 40.000 0.00 0.00 0.00 2.52
2183 3161 5.106277 CCCTCCGTTCCAAATTACTCTTTTC 60.106 44.000 0.00 0.00 0.00 2.29
2184 3162 4.765339 CCCTCCGTTCCAAATTACTCTTTT 59.235 41.667 0.00 0.00 0.00 2.27
2185 3163 4.042435 TCCCTCCGTTCCAAATTACTCTTT 59.958 41.667 0.00 0.00 0.00 2.52
2186 3164 3.585732 TCCCTCCGTTCCAAATTACTCTT 59.414 43.478 0.00 0.00 0.00 2.85
2187 3165 3.178865 TCCCTCCGTTCCAAATTACTCT 58.821 45.455 0.00 0.00 0.00 3.24
2188 3166 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2189 3167 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2190 3168 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2191 3169 4.098894 AGTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
2192 3170 2.910977 AGTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
2193 3171 2.547990 AGTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
2194 3172 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
2195 3173 1.621814 CAAGTACTCCCTCCGTTCCAA 59.378 52.381 0.00 0.00 0.00 3.53
2196 3174 1.263356 CAAGTACTCCCTCCGTTCCA 58.737 55.000 0.00 0.00 0.00 3.53
2197 3175 0.108281 GCAAGTACTCCCTCCGTTCC 60.108 60.000 0.00 0.00 0.00 3.62
2198 3176 0.606604 TGCAAGTACTCCCTCCGTTC 59.393 55.000 0.00 0.00 0.00 3.95
2199 3177 1.066143 CATGCAAGTACTCCCTCCGTT 60.066 52.381 0.00 0.00 0.00 4.44
2200 3178 0.537188 CATGCAAGTACTCCCTCCGT 59.463 55.000 0.00 0.00 0.00 4.69
2201 3179 0.179073 CCATGCAAGTACTCCCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
2202 3180 0.181350 CCCATGCAAGTACTCCCTCC 59.819 60.000 0.00 0.00 0.00 4.30
2203 3181 1.204146 TCCCATGCAAGTACTCCCTC 58.796 55.000 0.00 0.00 0.00 4.30
2204 3182 1.668826 TTCCCATGCAAGTACTCCCT 58.331 50.000 0.00 0.00 0.00 4.20
2205 3183 2.736670 ATTCCCATGCAAGTACTCCC 57.263 50.000 0.00 0.00 0.00 4.30
2206 3184 4.706962 AGAAAATTCCCATGCAAGTACTCC 59.293 41.667 0.00 0.00 0.00 3.85
2207 3185 5.649831 AGAGAAAATTCCCATGCAAGTACTC 59.350 40.000 0.00 0.00 0.00 2.59
2208 3186 5.574188 AGAGAAAATTCCCATGCAAGTACT 58.426 37.500 0.00 0.00 0.00 2.73
2209 3187 5.447818 CGAGAGAAAATTCCCATGCAAGTAC 60.448 44.000 0.00 0.00 0.00 2.73
2311 3305 1.752498 ACGGCGATACCACATCAGTAA 59.248 47.619 16.62 0.00 39.03 2.24
2337 3331 2.061773 CTTCACTAACCTGCACAGACG 58.938 52.381 0.00 0.00 0.00 4.18
2338 3332 1.801178 GCTTCACTAACCTGCACAGAC 59.199 52.381 0.00 0.00 0.00 3.51
2339 3333 1.416030 TGCTTCACTAACCTGCACAGA 59.584 47.619 0.00 0.00 0.00 3.41
2340 3334 1.882912 TGCTTCACTAACCTGCACAG 58.117 50.000 0.00 0.00 0.00 3.66
2508 3510 1.352352 CAGGGACAAACCAGAGGACAT 59.648 52.381 0.00 0.00 41.20 3.06
2536 3538 0.940126 GCAGCCATCTGTTACGGATG 59.060 55.000 23.24 23.24 44.32 3.51
2662 3672 1.593933 GCGTTTGTTACCGTCACTTGA 59.406 47.619 0.00 0.00 0.00 3.02
2666 3676 1.125566 GCTAGCGTTTGTTACCGTCAC 59.874 52.381 0.00 0.00 0.00 3.67
2720 3736 0.251634 TGTTCATGGCACGGCATAGA 59.748 50.000 5.70 4.07 0.00 1.98
2743 3759 0.385098 GGGCAAAAACGTGTACGAGC 60.385 55.000 11.79 6.70 43.02 5.03
2753 3769 3.615056 GCATAAATACCGTGGGCAAAAAC 59.385 43.478 0.00 0.00 0.00 2.43
2764 3781 0.383002 CGCGCACTGCATAAATACCG 60.383 55.000 8.75 0.00 46.97 4.02
2770 3787 1.572956 TTCTTGCGCGCACTGCATAA 61.573 50.000 36.72 16.99 46.97 1.90
2781 3798 2.476854 CCAGTGCTAATTCTTCTTGCGC 60.477 50.000 0.00 0.00 34.78 6.09
2810 3827 0.037326 GTACAGCAGCAGTGGTAGCA 60.037 55.000 15.68 0.00 31.49 3.49
2811 3828 0.741221 GGTACAGCAGCAGTGGTAGC 60.741 60.000 0.00 1.46 31.49 3.58
2816 3833 4.291047 CTGGGTACAGCAGCAGTG 57.709 61.111 0.00 0.00 38.01 3.66
2884 3902 3.440872 ACAGTCTGGATCGAGTACTTGAC 59.559 47.826 15.25 9.11 0.00 3.18
2899 3917 9.295214 CTAGTTTATAATCTGTGTCACAGTCTG 57.705 37.037 27.97 8.09 46.03 3.51
3067 4085 4.033129 GCGTCTGCATTTATACCGTGTTAA 59.967 41.667 0.00 0.00 42.15 2.01
3082 4100 1.864029 GCATATGTACGAGCGTCTGCA 60.864 52.381 4.29 0.00 46.23 4.41
3149 4335 0.672401 TGCCGGCTTAAAGGTTCTCG 60.672 55.000 29.70 0.00 0.00 4.04
3158 4344 3.876914 CTGAAGATAATGTGCCGGCTTAA 59.123 43.478 29.70 13.61 0.00 1.85
3186 4372 2.263540 GGGTCTGCGGCGACTTTA 59.736 61.111 12.98 0.00 34.38 1.85
3211 4397 3.126514 CAGTTCTTCTGGTGATGTGCATC 59.873 47.826 5.30 5.30 40.23 3.91
3213 4399 2.104622 TCAGTTCTTCTGGTGATGTGCA 59.895 45.455 0.00 0.00 43.76 4.57
3246 4432 5.012975 ACTTGGCATTGGTGGTCATATTTTT 59.987 36.000 0.00 0.00 0.00 1.94
3285 4471 4.688770 GTTGGACCAACCCACCAA 57.311 55.556 24.53 0.00 38.30 3.67
3300 4486 3.053170 AGTTGGTTAGGTTCCTTGTGGTT 60.053 43.478 0.00 0.00 34.23 3.67
3358 4544 0.247736 CCCTTTCGGAGACACCTCTG 59.752 60.000 0.00 0.00 45.18 3.35
3405 4592 2.096496 CGAAGAATGCAAGGTGCTTAGG 59.904 50.000 0.00 0.00 45.31 2.69
3433 4620 5.048224 GTCCTACTACAAGCTAAGTGACACA 60.048 44.000 8.59 0.00 0.00 3.72
3434 4621 5.400703 GTCCTACTACAAGCTAAGTGACAC 58.599 45.833 0.00 0.00 0.00 3.67
3435 4622 4.461781 GGTCCTACTACAAGCTAAGTGACA 59.538 45.833 6.56 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.