Multiple sequence alignment - TraesCS2D01G404000

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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 TraesCS2D01G404000 chr2D 100.000 2322 0 0 882 3203 518605126 518607447 0.000000e+00 4289.0
1 TraesCS2D01G404000 chr2D 100.000 475 0 0 1 475 518604245 518604719 0.000000e+00 878.0
2 TraesCS2D01G404000 chr2B 94.154 1300 71 4 940 2238 610913330 610914625 0.000000e+00 1975.0
3 TraesCS2D01G404000 chr2B 89.097 587 38 12 2319 2889 610914623 610915199 0.000000e+00 706.0
4 TraesCS2D01G404000 chr2B 90.491 326 16 9 2891 3203 610915650 610915973 1.780000e-112 416.0
5 TraesCS2D01G404000 chr2A 92.807 570 29 6 2326 2889 662891483 662892046 0.000000e+00 815.0
6 TraesCS2D01G404000 chr2A 93.082 318 16 4 2891 3203 662892413 662892729 8.100000e-126 460.0
7 TraesCS2D01G404000 chr7D 93.380 287 19 0 1 287 15227217 15227503 2.950000e-115 425.0
8 TraesCS2D01G404000 chr7D 91.289 287 22 2 1 287 371266748 371266465 3.870000e-104 388.0
9 TraesCS2D01G404000 chr7A 92.759 290 18 1 1 287 418111509 418111220 1.780000e-112 416.0
10 TraesCS2D01G404000 chr7A 83.234 167 18 3 318 475 418110161 418109996 9.260000e-31 145.0
11 TraesCS2D01G404000 chr7A 92.553 94 7 0 2227 2320 657720314 657720221 5.570000e-28 135.0
12 TraesCS2D01G404000 chr3D 92.683 287 20 1 1 287 164995660 164995375 2.300000e-111 412.0
13 TraesCS2D01G404000 chr3D 82.424 165 17 4 322 475 602793093 602792930 2.000000e-27 134.0
14 TraesCS2D01G404000 chr3D 80.263 152 28 2 318 468 419658400 419658550 2.610000e-21 113.0
15 TraesCS2D01G404000 chr3D 79.195 149 29 2 321 469 360717761 360717615 5.650000e-18 102.0
16 TraesCS2D01G404000 chr1B 91.289 287 25 0 1 287 43995834 43995548 3.000000e-105 392.0
17 TraesCS2D01G404000 chr1B 90.592 287 27 0 1 287 43980247 43979961 6.480000e-102 381.0
18 TraesCS2D01G404000 chr1B 79.085 153 30 2 318 469 56614684 56614835 1.570000e-18 104.0
19 TraesCS2D01G404000 chr1D 91.065 291 19 6 1 287 182054248 182053961 1.390000e-103 387.0
20 TraesCS2D01G404000 chr1D 92.553 94 6 1 2228 2320 407351086 407351179 2.000000e-27 134.0
21 TraesCS2D01G404000 chr6D 90.722 291 22 4 1 287 418532944 418533233 1.800000e-102 383.0
22 TraesCS2D01G404000 chr6D 83.333 120 20 0 353 472 262607903 262607784 9.390000e-21 111.0
23 TraesCS2D01G404000 chr4D 90.244 287 28 0 1 287 66567132 66567418 3.020000e-100 375.0
24 TraesCS2D01G404000 chr4D 87.611 113 13 1 2210 2321 71301573 71301685 2.590000e-26 130.0
25 TraesCS2D01G404000 chr4D 93.182 88 6 0 2234 2321 230661390 230661477 2.590000e-26 130.0
26 TraesCS2D01G404000 chr7B 96.471 85 3 0 2236 2320 213251967 213252051 1.200000e-29 141.0
27 TraesCS2D01G404000 chr7B 91.753 97 8 0 2225 2321 315581325 315581229 5.570000e-28 135.0
28 TraesCS2D01G404000 chr7B 86.726 113 14 1 2210 2321 672602097 672601985 1.210000e-24 124.0
29 TraesCS2D01G404000 chr6A 83.784 148 22 2 324 471 145596969 145597114 4.310000e-29 139.0
30 TraesCS2D01G404000 chr5B 94.444 90 2 3 2234 2321 442754384 442754472 5.570000e-28 135.0
31 TraesCS2D01G404000 chr5B 91.753 97 6 2 2227 2321 556628613 556628709 2.000000e-27 134.0
32 TraesCS2D01G404000 chr4A 81.250 144 23 4 327 468 503325428 503325569 2.610000e-21 113.0
33 TraesCS2D01G404000 chr3A 80.556 144 26 2 326 468 553211806 553211664 3.380000e-20 110.0
34 TraesCS2D01G404000 chrUn 85.185 54 6 1 2511 2564 178188177 178188126 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 TraesCS2D01G404000 chr2D 518604245 518607447 3202 False 2583.500000 4289 100.000000 1 3203 2 chr2D.!!$F1 3202
1 TraesCS2D01G404000 chr2B 610913330 610915973 2643 False 1032.333333 1975 91.247333 940 3203 3 chr2B.!!$F1 2263
2 TraesCS2D01G404000 chr2A 662891483 662892729 1246 False 637.500000 815 92.944500 2326 3203 2 chr2A.!!$F1 877
3 TraesCS2D01G404000 chr7A 418109996 418111509 1513 True 280.500000 416 87.996500 1 475 2 chr7A.!!$R2 474

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 0.104304 AGAACAACTGTCGGCGAAGT 59.896 50.0 12.92 14.68 0.0 3.01 F
1546 2588 0.168128 GGCGAACTTTCCGGTTGATG 59.832 55.0 0.00 0.00 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1814 2856 0.255033 AATAGGCCACCCGGTTTCTC 59.745 55.0 5.01 0.0 35.76 2.87 R
2717 3776 0.179000 CTCAATCTCAACCTCCCCGG 59.821 60.0 0.00 0.0 39.35 5.73 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
20 21 2.561569 CTCTTGGTCGTTGTTGTCCTT 58.438 47.619 0.00 0.00 0.00 3.36
40 41 3.281341 TGCGAAACATGTTGAACATCC 57.719 42.857 12.82 1.05 36.53 3.51
55 56 1.012086 CATCCGAACCATCTGCACAG 58.988 55.000 0.00 0.00 0.00 3.66
58 59 1.376424 CGAACCATCTGCACAGCCT 60.376 57.895 0.00 0.00 0.00 4.58
79 80 0.104304 AGAACAACTGTCGGCGAAGT 59.896 50.000 12.92 14.68 0.00 3.01
85 86 1.800315 CTGTCGGCGAAGTACACGG 60.800 63.158 12.92 0.00 0.00 4.94
217 221 2.359478 GGTCGCCCAATGGTTCGT 60.359 61.111 10.15 0.00 0.00 3.85
289 1277 2.014093 GACTTGCGCTCGTCGAATGG 62.014 60.000 9.73 0.00 41.67 3.16
310 1298 2.283529 GGAGCGGTGTGGGAGAAGA 61.284 63.158 0.00 0.00 0.00 2.87
316 1304 0.840722 GGTGTGGGAGAAGAGGGGAA 60.841 60.000 0.00 0.00 0.00 3.97
327 1359 0.402121 AGAGGGGAAGCCTGTTTGTC 59.598 55.000 0.00 0.00 0.00 3.18
330 1362 1.600916 GGGAAGCCTGTTTGTCGCT 60.601 57.895 0.00 0.00 0.00 4.93
400 1441 4.074647 CGGGTTCAACCTGGGTTC 57.925 61.111 7.63 0.00 41.01 3.62
403 1444 2.265904 GGTTCAACCTGGGTTCGCC 61.266 63.158 0.00 2.08 36.00 5.54
444 1485 2.099592 ACCGGCGATAAACAACGATCTA 59.900 45.455 9.30 0.00 0.00 1.98
445 1486 3.117794 CCGGCGATAAACAACGATCTAA 58.882 45.455 9.30 0.00 0.00 2.10
451 1492 1.084289 AAACAACGATCTAAGGGCGC 58.916 50.000 0.00 0.00 0.00 6.53
456 1497 0.816825 ACGATCTAAGGGCGCGACTA 60.817 55.000 13.91 0.00 0.00 2.59
469 1510 1.466950 CGCGACTAGGCCAATTTTTCA 59.533 47.619 5.01 0.00 0.00 2.69
910 1951 4.685169 AAAACGATGAGTTGCCATGTAG 57.315 40.909 0.00 0.00 43.37 2.74
911 1952 1.656652 ACGATGAGTTGCCATGTAGC 58.343 50.000 0.00 0.00 0.00 3.58
912 1953 1.066215 ACGATGAGTTGCCATGTAGCA 60.066 47.619 0.00 0.00 42.17 3.49
918 1959 2.876955 TGCCATGTAGCAAAGCGC 59.123 55.556 0.00 0.00 40.56 5.92
919 1960 1.970640 TGCCATGTAGCAAAGCGCA 60.971 52.632 11.47 0.00 46.13 6.09
920 1961 1.226491 GCCATGTAGCAAAGCGCAG 60.226 57.895 11.47 0.00 46.13 5.18
921 1962 1.430632 CCATGTAGCAAAGCGCAGG 59.569 57.895 11.47 0.00 46.13 4.85
922 1963 1.226491 CATGTAGCAAAGCGCAGGC 60.226 57.895 11.47 10.32 46.13 4.85
923 1964 1.675310 ATGTAGCAAAGCGCAGGCA 60.675 52.632 11.47 0.00 46.13 4.75
924 1965 1.926511 ATGTAGCAAAGCGCAGGCAC 61.927 55.000 11.47 11.06 46.13 5.01
925 1966 2.281414 TAGCAAAGCGCAGGCACA 60.281 55.556 11.47 0.00 46.13 4.57
926 1967 1.896183 TAGCAAAGCGCAGGCACAA 60.896 52.632 11.47 0.00 46.13 3.33
927 1968 1.451337 TAGCAAAGCGCAGGCACAAA 61.451 50.000 11.47 0.00 46.13 2.83
928 1969 1.665599 GCAAAGCGCAGGCACAAAT 60.666 52.632 11.47 0.00 43.41 2.32
929 1970 0.388391 GCAAAGCGCAGGCACAAATA 60.388 50.000 11.47 0.00 43.41 1.40
930 1971 1.736696 GCAAAGCGCAGGCACAAATAT 60.737 47.619 11.47 0.00 43.41 1.28
931 1972 2.609350 CAAAGCGCAGGCACAAATATT 58.391 42.857 11.47 0.00 43.41 1.28
932 1973 2.282701 AAGCGCAGGCACAAATATTG 57.717 45.000 11.47 0.00 43.41 1.90
933 1974 1.176527 AGCGCAGGCACAAATATTGT 58.823 45.000 11.47 0.00 46.75 2.71
934 1975 1.545582 AGCGCAGGCACAAATATTGTT 59.454 42.857 11.47 0.00 43.23 2.83
935 1976 1.655099 GCGCAGGCACAAATATTGTTG 59.345 47.619 0.30 0.00 43.23 3.33
936 1977 2.926159 GCGCAGGCACAAATATTGTTGT 60.926 45.455 0.30 0.00 43.23 3.32
937 1978 3.316283 CGCAGGCACAAATATTGTTGTT 58.684 40.909 0.00 0.00 43.23 2.83
938 1979 3.121611 CGCAGGCACAAATATTGTTGTTG 59.878 43.478 0.00 0.00 43.23 3.33
952 1993 8.970691 ATATTGTTGTTGTGAGCAATTTACTC 57.029 30.769 0.00 0.00 36.92 2.59
979 2020 2.357517 AGAAAGCTCCCACGCACG 60.358 61.111 0.00 0.00 0.00 5.34
1008 2050 3.463585 GCCACCACCATGCCCATG 61.464 66.667 1.28 1.28 38.51 3.66
1063 2105 1.351080 CCTCCTCCACATCCATGCCT 61.351 60.000 0.00 0.00 0.00 4.75
1125 2167 2.479730 CGGGAGGAACAACGAGATACTG 60.480 54.545 0.00 0.00 0.00 2.74
1127 2169 2.186076 GAGGAACAACGAGATACTGCG 58.814 52.381 0.00 0.00 0.00 5.18
1128 2170 0.645868 GGAACAACGAGATACTGCGC 59.354 55.000 0.00 0.00 0.00 6.09
1185 2227 2.930040 CAATCTGTACCTGTACCGCAAG 59.070 50.000 5.07 0.00 35.26 4.01
1191 2233 0.676782 ACCTGTACCGCAAGAATGGC 60.677 55.000 0.00 0.00 43.02 4.40
1232 2274 0.392193 GTGCTCTCCATGGTGGACAG 60.392 60.000 12.58 4.17 42.67 3.51
1314 2356 0.611340 ACTTCTTCGTCTACCGGGCT 60.611 55.000 6.32 0.00 37.11 5.19
1350 2392 0.179089 CTCTCAAGCTACTGCCGCAT 60.179 55.000 0.00 0.00 40.80 4.73
1374 2416 0.736325 CATGTTCCGTCGACAGGGAC 60.736 60.000 23.04 23.04 36.25 4.46
1446 2488 1.546476 CTGGTACCGAGCATATCCTCC 59.454 57.143 7.57 0.00 31.28 4.30
1522 2564 1.002366 AGATCTGATTGTTGCGTCGC 58.998 50.000 11.10 11.10 0.00 5.19
1546 2588 0.168128 GGCGAACTTTCCGGTTGATG 59.832 55.000 0.00 0.00 0.00 3.07
1560 2602 4.101448 GATGCCCCCGTCAGCACT 62.101 66.667 0.00 0.00 42.84 4.40
1594 2636 1.284785 CCCAACACCATACATCCACCT 59.715 52.381 0.00 0.00 0.00 4.00
1607 2649 3.276857 CATCCACCTTGATCACTCTTGG 58.723 50.000 0.00 0.00 0.00 3.61
1612 2654 1.280133 CCTTGATCACTCTTGGAGGCA 59.720 52.381 0.00 0.00 33.35 4.75
1662 2704 3.677601 CATAGTTTTCTGCGACATGCTG 58.322 45.455 0.00 0.00 46.63 4.41
1706 2748 2.756042 TTCCACTGCCACTGCCACT 61.756 57.895 0.00 0.00 36.33 4.00
1709 2751 2.111878 ACTGCCACTGCCACTGAC 59.888 61.111 0.00 0.00 36.33 3.51
1711 2753 4.269523 TGCCACTGCCACTGACCC 62.270 66.667 0.00 0.00 36.33 4.46
1712 2754 3.958860 GCCACTGCCACTGACCCT 61.959 66.667 0.00 0.00 0.00 4.34
1785 2827 2.886081 CTCGTTGAGGTGGATTCTGAG 58.114 52.381 0.00 0.00 0.00 3.35
1802 2844 2.431023 AGATCGTTGATCTCCCGGG 58.569 57.895 16.85 16.85 45.03 5.73
1814 2856 2.751436 CCCGGGCACTTGTGATGG 60.751 66.667 8.08 2.67 0.00 3.51
1828 2870 1.749258 GATGGAGAAACCGGGTGGC 60.749 63.158 6.32 0.00 42.61 5.01
1886 2928 1.734465 GATCAACAAGAGCGACAAGGG 59.266 52.381 0.00 0.00 0.00 3.95
1912 2954 3.548818 GCGTAATTCTTATGCTGCTTGGG 60.549 47.826 0.00 0.00 43.22 4.12
1930 2972 1.228657 GGACAAGGTGACCACGCTTC 61.229 60.000 3.63 0.00 32.46 3.86
1934 2976 2.432628 GGTGACCACGCTTCGAGG 60.433 66.667 0.00 1.33 42.89 4.63
1935 2977 3.112709 GTGACCACGCTTCGAGGC 61.113 66.667 9.88 9.88 41.05 4.70
2024 3066 2.981784 ACCCAGCTATTAGCATGGATGA 59.018 45.455 24.17 0.00 45.56 2.92
2025 3067 3.244700 ACCCAGCTATTAGCATGGATGAC 60.245 47.826 24.17 0.00 45.56 3.06
2038 3080 1.134431 TGGATGACGGTGATGGTGATG 60.134 52.381 0.00 0.00 0.00 3.07
2095 3137 0.588252 CAAGTCGTGGGTTCTTGCTG 59.412 55.000 0.00 0.00 33.51 4.41
2110 3152 4.433615 TCTTGCTGTTGATACGAGGAATC 58.566 43.478 0.00 0.00 0.00 2.52
2111 3153 2.809446 TGCTGTTGATACGAGGAATCG 58.191 47.619 0.00 0.00 39.31 3.34
2122 3164 0.881118 GAGGAATCGCAAGGTGCAAA 59.119 50.000 0.61 0.00 45.36 3.68
2147 3189 1.488393 AGCTTACTCTGGCCATCTTCC 59.512 52.381 5.51 0.00 0.00 3.46
2150 3192 0.833287 TACTCTGGCCATCTTCCTGC 59.167 55.000 5.51 0.00 0.00 4.85
2199 3241 4.822026 ACTGCACTTGTAGTATCTCCAAC 58.178 43.478 0.00 0.00 39.21 3.77
2200 3242 4.528596 ACTGCACTTGTAGTATCTCCAACT 59.471 41.667 0.00 0.00 39.21 3.16
2201 3243 5.715279 ACTGCACTTGTAGTATCTCCAACTA 59.285 40.000 0.00 0.00 39.21 2.24
2202 3244 6.127591 ACTGCACTTGTAGTATCTCCAACTAG 60.128 42.308 0.00 0.00 39.21 2.57
2207 3249 9.610705 CACTTGTAGTATCTCCAACTAGTAGTA 57.389 37.037 2.50 0.00 30.26 1.82
2240 3282 7.440523 CAATCCTGCAGGTAATTATTACTCC 57.559 40.000 31.58 0.00 36.39 3.85
2241 3283 5.562298 TCCTGCAGGTAATTATTACTCCC 57.438 43.478 31.58 0.00 36.39 4.30
2242 3284 5.224441 TCCTGCAGGTAATTATTACTCCCT 58.776 41.667 31.58 1.56 36.39 4.20
2243 3285 5.307196 TCCTGCAGGTAATTATTACTCCCTC 59.693 44.000 31.58 0.00 36.39 4.30
2244 3286 5.513267 CCTGCAGGTAATTATTACTCCCTCC 60.513 48.000 25.53 0.00 36.39 4.30
2245 3287 4.039973 TGCAGGTAATTATTACTCCCTCCG 59.960 45.833 13.86 0.00 36.39 4.63
2246 3288 4.040095 GCAGGTAATTATTACTCCCTCCGT 59.960 45.833 13.86 0.00 36.39 4.69
2247 3289 5.454329 GCAGGTAATTATTACTCCCTCCGTT 60.454 44.000 13.86 0.00 36.39 4.44
2248 3290 6.221659 CAGGTAATTATTACTCCCTCCGTTC 58.778 44.000 13.86 0.00 36.39 3.95
2249 3291 5.306419 AGGTAATTATTACTCCCTCCGTTCC 59.694 44.000 13.86 0.00 36.39 3.62
2250 3292 5.070847 GGTAATTATTACTCCCTCCGTTCCA 59.929 44.000 13.86 0.00 36.39 3.53
2251 3293 5.703730 AATTATTACTCCCTCCGTTCCAA 57.296 39.130 0.00 0.00 0.00 3.53
2252 3294 5.703730 ATTATTACTCCCTCCGTTCCAAA 57.296 39.130 0.00 0.00 0.00 3.28
2253 3295 5.502089 TTATTACTCCCTCCGTTCCAAAA 57.498 39.130 0.00 0.00 0.00 2.44
2254 3296 4.586306 ATTACTCCCTCCGTTCCAAAAT 57.414 40.909 0.00 0.00 0.00 1.82
2255 3297 5.703730 ATTACTCCCTCCGTTCCAAAATA 57.296 39.130 0.00 0.00 0.00 1.40
2256 3298 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2257 3299 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2258 3300 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2259 3301 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2260 3302 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2261 3303 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
2262 3304 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
2263 3305 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
2264 3306 2.612212 CCGTTCCAAAATAGATGACCCG 59.388 50.000 0.00 0.00 0.00 5.28
2265 3307 3.527533 CGTTCCAAAATAGATGACCCGA 58.472 45.455 0.00 0.00 0.00 5.14
2266 3308 3.308866 CGTTCCAAAATAGATGACCCGAC 59.691 47.826 0.00 0.00 0.00 4.79
2267 3309 4.514401 GTTCCAAAATAGATGACCCGACT 58.486 43.478 0.00 0.00 0.00 4.18
2268 3310 4.837093 TCCAAAATAGATGACCCGACTT 57.163 40.909 0.00 0.00 0.00 3.01
2269 3311 5.174037 TCCAAAATAGATGACCCGACTTT 57.826 39.130 0.00 0.00 0.00 2.66
2270 3312 6.302535 TCCAAAATAGATGACCCGACTTTA 57.697 37.500 0.00 0.00 0.00 1.85
2271 3313 6.713276 TCCAAAATAGATGACCCGACTTTAA 58.287 36.000 0.00 0.00 0.00 1.52
2272 3314 7.343357 TCCAAAATAGATGACCCGACTTTAAT 58.657 34.615 0.00 0.00 0.00 1.40
2273 3315 7.497909 TCCAAAATAGATGACCCGACTTTAATC 59.502 37.037 0.00 0.00 0.00 1.75
2274 3316 7.499232 CCAAAATAGATGACCCGACTTTAATCT 59.501 37.037 0.00 0.00 0.00 2.40
2275 3317 9.542462 CAAAATAGATGACCCGACTTTAATCTA 57.458 33.333 0.00 0.00 32.74 1.98
2277 3319 9.543783 AAATAGATGACCCGACTTTAATCTAAC 57.456 33.333 0.00 0.00 32.15 2.34
2278 3320 6.793505 AGATGACCCGACTTTAATCTAACT 57.206 37.500 0.00 0.00 0.00 2.24
2279 3321 7.184067 AGATGACCCGACTTTAATCTAACTT 57.816 36.000 0.00 0.00 0.00 2.66
2280 3322 7.621796 AGATGACCCGACTTTAATCTAACTTT 58.378 34.615 0.00 0.00 0.00 2.66
2281 3323 7.549488 AGATGACCCGACTTTAATCTAACTTTG 59.451 37.037 0.00 0.00 0.00 2.77
2282 3324 6.527423 TGACCCGACTTTAATCTAACTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
2283 3325 7.669427 TGACCCGACTTTAATCTAACTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
2284 3326 7.599998 TGACCCGACTTTAATCTAACTTTGTAC 59.400 37.037 0.00 0.00 0.00 2.90
2285 3327 7.444299 ACCCGACTTTAATCTAACTTTGTACA 58.556 34.615 0.00 0.00 0.00 2.90
2286 3328 7.933033 ACCCGACTTTAATCTAACTTTGTACAA 59.067 33.333 3.59 3.59 0.00 2.41
2287 3329 8.776470 CCCGACTTTAATCTAACTTTGTACAAA 58.224 33.333 19.53 19.53 0.00 2.83
2310 3352 8.970691 AAAATTGAGTCATCTATTTTGGAACG 57.029 30.769 11.47 0.00 44.08 3.95
2311 3353 6.683974 ATTGAGTCATCTATTTTGGAACGG 57.316 37.500 0.00 0.00 0.00 4.44
2312 3354 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
2313 3355 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
2314 3356 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
2315 3357 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
2316 3358 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2317 3359 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2331 3373 2.422519 GGAGGGAGTACGTGATACCTGA 60.423 54.545 10.16 0.00 33.85 3.86
2384 3426 4.502645 CGTTCACCATTTCTTTTGGAACAC 59.497 41.667 0.00 0.00 39.29 3.32
2388 3430 5.300792 TCACCATTTCTTTTGGAACACCTAC 59.699 40.000 0.00 0.00 39.29 3.18
2404 3446 8.368668 GGAACACCTACTAAGAGTAATATGCAT 58.631 37.037 3.79 3.79 29.00 3.96
2406 3448 9.547753 AACACCTACTAAGAGTAATATGCATTG 57.452 33.333 3.54 0.00 29.00 2.82
2436 3478 5.746990 AGGAGCACTGAGTATTTAACTGT 57.253 39.130 0.00 0.00 39.07 3.55
2475 3519 8.624776 GGCTATACTATGCATTTCAGACTTTTT 58.375 33.333 3.54 0.00 0.00 1.94
2486 3530 6.464895 TTTCAGACTTTTTGCTTGTTTGTG 57.535 33.333 0.00 0.00 0.00 3.33
2564 3614 2.977772 AACTATCTGGCTGCTCAGAC 57.022 50.000 18.65 0.00 45.27 3.51
2572 3622 0.965439 GGCTGCTCAGACGATCCTAT 59.035 55.000 0.00 0.00 0.00 2.57
2604 3654 9.974980 TTAGTTTCTTCTTTGTTTGTTCTGTTT 57.025 25.926 0.00 0.00 0.00 2.83
2621 3679 6.867662 TCTGTTTCTTCAATCTCCAAGAAC 57.132 37.500 0.00 0.00 38.16 3.01
2646 3704 3.504906 ACTCTGTTTCATTGGATGCAGTG 59.495 43.478 3.15 3.15 31.32 3.66
2710 3769 5.991606 GGGAATAAATTAAGGCAGCATTTCC 59.008 40.000 0.00 0.00 0.00 3.13
2717 3776 1.739067 AGGCAGCATTTCCGTAAGTC 58.261 50.000 0.00 0.00 0.00 3.01
2791 3854 6.496338 AAACAATCTAATGTTCTTCCGGTC 57.504 37.500 0.00 0.00 42.49 4.79
2831 3894 3.637821 TCCTAAGTAGATCATGCCCCT 57.362 47.619 0.00 0.00 0.00 4.79
2832 3895 3.941629 TCCTAAGTAGATCATGCCCCTT 58.058 45.455 0.00 0.00 0.00 3.95
2889 3952 5.178809 CACCTTGCTACTAGTACACCAAAAC 59.821 44.000 0.00 0.00 0.00 2.43
2896 4408 3.994392 ACTAGTACACCAAAACTCATGCG 59.006 43.478 0.00 0.00 0.00 4.73
2944 4456 2.033194 GCACCGCCACTCCACTTAC 61.033 63.158 0.00 0.00 0.00 2.34
2971 4484 1.308998 AGTGGAAACCTTGTTGCTCG 58.691 50.000 0.00 0.00 0.00 5.03
3088 4601 4.279169 ACTGTCAGCACATGCAATACTTTT 59.721 37.500 6.64 0.00 45.16 2.27
3126 4648 0.178992 ACCACACACCAATCACCAGG 60.179 55.000 0.00 0.00 0.00 4.45
3191 4717 6.370718 ACACGGTCTTCCACTTAATTTGATAC 59.629 38.462 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.425312 ACATGTTTCGCAAGGACAACAA 59.575 40.909 0.00 0.00 37.35 2.83
18 19 3.670055 GGATGTTCAACATGTTTCGCAAG 59.330 43.478 8.05 0.00 39.27 4.01
20 21 2.350293 CGGATGTTCAACATGTTTCGCA 60.350 45.455 8.05 8.16 39.27 5.10
40 41 0.108186 TAGGCTGTGCAGATGGTTCG 60.108 55.000 0.00 0.00 0.00 3.95
55 56 0.796927 GCCGACAGTTGTTCTTAGGC 59.203 55.000 0.00 0.00 36.32 3.93
58 59 2.223876 ACTTCGCCGACAGTTGTTCTTA 60.224 45.455 0.00 0.00 0.00 2.10
79 80 1.933500 GCTCAGTTCTTTCGCCGTGTA 60.934 52.381 0.00 0.00 0.00 2.90
85 86 3.028366 GCCGGCTCAGTTCTTTCGC 62.028 63.158 22.15 0.00 0.00 4.70
117 121 4.351938 CGCCAACGTCGAGGGTCA 62.352 66.667 10.27 0.00 33.53 4.02
164 168 1.595311 ACAAGTGGCATGGGATCCTA 58.405 50.000 12.58 5.82 0.00 2.94
173 177 2.576832 GGCCTGCAACAAGTGGCAT 61.577 57.895 13.72 0.00 46.53 4.40
204 208 1.809207 CCATGACGAACCATTGGGC 59.191 57.895 7.78 0.00 37.90 5.36
249 253 4.367023 CGACCCCGACTTCGCCAA 62.367 66.667 0.00 0.00 38.22 4.52
270 274 1.341802 CATTCGACGAGCGCAAGTC 59.658 57.895 20.65 20.65 40.61 3.01
299 1287 1.201429 GCTTCCCCTCTTCTCCCACA 61.201 60.000 0.00 0.00 0.00 4.17
301 1289 1.616628 GGCTTCCCCTCTTCTCCCA 60.617 63.158 0.00 0.00 0.00 4.37
316 1304 0.882042 CTGTCAGCGACAAACAGGCT 60.882 55.000 11.49 0.00 42.26 4.58
383 1424 1.964373 CGAACCCAGGTTGAACCCG 60.964 63.158 11.41 0.00 39.75 5.28
386 1427 2.613506 CGGCGAACCCAGGTTGAAC 61.614 63.158 6.84 0.00 38.60 3.18
390 1431 3.881104 AACCGGCGAACCCAGGTT 61.881 61.111 9.30 0.56 42.06 3.50
391 1432 4.636435 CAACCGGCGAACCCAGGT 62.636 66.667 9.30 0.00 40.62 4.00
393 1434 0.675522 ATAACAACCGGCGAACCCAG 60.676 55.000 9.30 0.00 0.00 4.45
403 1444 0.882474 TTGGGCCGAAATAACAACCG 59.118 50.000 0.00 0.00 0.00 4.44
451 1492 2.817258 TGGTGAAAAATTGGCCTAGTCG 59.183 45.455 3.32 0.00 0.00 4.18
888 1929 4.615912 GCTACATGGCAACTCATCGTTTTT 60.616 41.667 0.00 0.00 32.27 1.94
889 1930 3.119849 GCTACATGGCAACTCATCGTTTT 60.120 43.478 0.00 0.00 32.27 2.43
890 1931 2.420022 GCTACATGGCAACTCATCGTTT 59.580 45.455 0.00 0.00 32.27 3.60
891 1932 2.009774 GCTACATGGCAACTCATCGTT 58.990 47.619 0.00 0.00 35.88 3.85
892 1933 1.066215 TGCTACATGGCAACTCATCGT 60.066 47.619 0.00 0.00 39.43 3.73
893 1934 1.655484 TGCTACATGGCAACTCATCG 58.345 50.000 0.00 0.00 39.43 3.84
901 1942 1.925415 CTGCGCTTTGCTACATGGCA 61.925 55.000 9.73 0.00 46.63 4.92
902 1943 1.226491 CTGCGCTTTGCTACATGGC 60.226 57.895 9.73 0.00 46.63 4.40
903 1944 1.430632 CCTGCGCTTTGCTACATGG 59.569 57.895 9.73 0.00 46.63 3.66
904 1945 1.226491 GCCTGCGCTTTGCTACATG 60.226 57.895 9.73 0.00 46.63 3.21
905 1946 1.675310 TGCCTGCGCTTTGCTACAT 60.675 52.632 9.73 0.00 46.63 2.29
906 1947 2.281414 TGCCTGCGCTTTGCTACA 60.281 55.556 9.73 0.00 46.63 2.74
907 1948 2.128853 TTGTGCCTGCGCTTTGCTAC 62.129 55.000 9.73 9.80 46.63 3.58
908 1949 1.451337 TTTGTGCCTGCGCTTTGCTA 61.451 50.000 9.73 0.00 46.63 3.49
909 1950 2.091102 ATTTGTGCCTGCGCTTTGCT 62.091 50.000 9.73 0.00 46.63 3.91
910 1951 0.388391 TATTTGTGCCTGCGCTTTGC 60.388 50.000 9.73 9.29 46.70 3.68
911 1952 2.282701 ATATTTGTGCCTGCGCTTTG 57.717 45.000 9.73 0.00 35.36 2.77
912 1953 2.029110 ACAATATTTGTGCCTGCGCTTT 60.029 40.909 9.73 0.00 43.48 3.51
913 1954 1.545582 ACAATATTTGTGCCTGCGCTT 59.454 42.857 9.73 0.00 43.48 4.68
914 1955 1.176527 ACAATATTTGTGCCTGCGCT 58.823 45.000 9.73 0.00 43.48 5.92
915 1956 1.655099 CAACAATATTTGTGCCTGCGC 59.345 47.619 0.00 0.00 44.59 6.09
916 1957 2.945278 ACAACAATATTTGTGCCTGCG 58.055 42.857 0.00 0.00 44.59 5.18
917 1958 4.057432 ACAACAACAATATTTGTGCCTGC 58.943 39.130 0.00 0.00 44.59 4.85
918 1959 5.288015 TCACAACAACAATATTTGTGCCTG 58.712 37.500 10.93 2.08 46.39 4.85
919 1960 5.528043 TCACAACAACAATATTTGTGCCT 57.472 34.783 10.93 0.00 46.39 4.75
920 1961 4.150451 GCTCACAACAACAATATTTGTGCC 59.850 41.667 10.93 3.47 46.39 5.01
921 1962 4.744137 TGCTCACAACAACAATATTTGTGC 59.256 37.500 10.93 6.71 46.39 4.57
923 1964 8.436046 AAATTGCTCACAACAACAATATTTGT 57.564 26.923 0.00 0.00 41.78 2.83
924 1965 9.796062 GTAAATTGCTCACAACAACAATATTTG 57.204 29.630 0.00 0.00 38.99 2.32
925 1966 9.762933 AGTAAATTGCTCACAACAACAATATTT 57.237 25.926 0.00 0.00 38.99 1.40
926 1967 9.410556 GAGTAAATTGCTCACAACAACAATATT 57.589 29.630 6.21 0.00 38.99 1.28
927 1968 8.575589 TGAGTAAATTGCTCACAACAACAATAT 58.424 29.630 9.68 0.00 38.99 1.28
928 1969 7.935520 TGAGTAAATTGCTCACAACAACAATA 58.064 30.769 9.68 0.00 38.99 1.90
929 1970 6.804677 TGAGTAAATTGCTCACAACAACAAT 58.195 32.000 9.68 0.00 38.99 2.71
930 1971 6.094742 TCTGAGTAAATTGCTCACAACAACAA 59.905 34.615 9.68 0.00 38.99 2.83
931 1972 5.588246 TCTGAGTAAATTGCTCACAACAACA 59.412 36.000 9.68 0.00 38.99 3.33
932 1973 6.060028 TCTGAGTAAATTGCTCACAACAAC 57.940 37.500 9.68 0.00 38.99 3.32
933 1974 6.072508 GGATCTGAGTAAATTGCTCACAACAA 60.073 38.462 9.68 0.00 38.99 2.83
934 1975 5.412594 GGATCTGAGTAAATTGCTCACAACA 59.587 40.000 9.68 0.00 38.99 3.33
935 1976 5.412594 TGGATCTGAGTAAATTGCTCACAAC 59.587 40.000 9.68 0.00 38.99 3.32
936 1977 5.559770 TGGATCTGAGTAAATTGCTCACAA 58.440 37.500 9.68 2.28 37.98 3.33
937 1978 5.164620 TGGATCTGAGTAAATTGCTCACA 57.835 39.130 9.68 4.14 37.98 3.58
938 1979 5.877012 TCTTGGATCTGAGTAAATTGCTCAC 59.123 40.000 9.68 1.60 37.98 3.51
944 1985 7.401246 AGCTTTCTCTTGGATCTGAGTAAATT 58.599 34.615 0.00 0.00 0.00 1.82
952 1993 2.238144 TGGGAGCTTTCTCTTGGATCTG 59.762 50.000 0.00 0.00 39.31 2.90
1104 2146 1.749634 AGTATCTCGTTGTTCCTCCCG 59.250 52.381 0.00 0.00 0.00 5.14
1116 2158 2.296480 GGAAGCGCGCAGTATCTCG 61.296 63.158 35.10 0.00 0.00 4.04
1128 2170 2.330924 GATTGGGGAGGAGGGAAGCG 62.331 65.000 0.00 0.00 0.00 4.68
1156 2198 1.210478 CAGGTACAGATTGGAGGGGTG 59.790 57.143 0.00 0.00 0.00 4.61
1157 2199 1.203440 ACAGGTACAGATTGGAGGGGT 60.203 52.381 0.00 0.00 0.00 4.95
1232 2274 1.522580 GCGTGGAAGAGGATGAGGC 60.523 63.158 0.00 0.00 0.00 4.70
1314 2356 3.998672 GACGGCTCGTTGGGGTCA 61.999 66.667 1.80 0.00 41.37 4.02
1350 2392 0.896479 TGTCGACGGAACATGGAGGA 60.896 55.000 11.62 0.00 0.00 3.71
1522 2564 2.325082 CCGGAAAGTTCGCCTGTGG 61.325 63.158 0.00 0.00 0.00 4.17
1532 2574 1.304134 GGGGCATCAACCGGAAAGT 60.304 57.895 9.46 0.00 0.00 2.66
1546 2588 2.125106 CTTAGTGCTGACGGGGGC 60.125 66.667 0.00 0.00 0.00 5.80
1560 2602 4.473196 TGGTGTTGGGATAAGATCTGCTTA 59.527 41.667 0.00 0.00 42.92 3.09
1565 2607 6.240002 GGATGTATGGTGTTGGGATAAGATCT 60.240 42.308 0.00 0.00 0.00 2.75
1594 2636 1.003580 GGTGCCTCCAAGAGTGATCAA 59.996 52.381 0.00 0.00 35.97 2.57
1618 2660 2.352805 CCAGAGGTCAACCCAGGC 59.647 66.667 0.00 0.00 36.42 4.85
1620 2662 2.046892 CGCCAGAGGTCAACCCAG 60.047 66.667 0.00 0.00 36.42 4.45
1662 2704 4.121691 AGCGCATGATGCTCTGAC 57.878 55.556 16.17 0.00 42.25 3.51
1689 2731 3.170672 AGTGGCAGTGGCAGTGGA 61.171 61.111 24.96 0.00 40.26 4.02
1706 2748 0.909610 CCTTGCAGGTCCTAGGGTCA 60.910 60.000 9.46 0.00 0.00 4.02
1709 2751 1.639635 ATGCCTTGCAGGTCCTAGGG 61.640 60.000 9.46 0.00 43.65 3.53
1711 2753 2.565841 GTAATGCCTTGCAGGTCCTAG 58.434 52.381 0.00 0.00 43.65 3.02
1712 2754 1.211949 GGTAATGCCTTGCAGGTCCTA 59.788 52.381 0.00 0.00 43.65 2.94
1785 2827 1.301009 GCCCGGGAGATCAACGATC 60.301 63.158 29.31 0.00 39.17 3.69
1802 2844 1.197721 CGGTTTCTCCATCACAAGTGC 59.802 52.381 0.00 0.00 35.57 4.40
1814 2856 0.255033 AATAGGCCACCCGGTTTCTC 59.745 55.000 5.01 0.00 35.76 2.87
1828 2870 2.093447 AGTTCTCTGTTCGGCCAATAGG 60.093 50.000 2.24 0.00 38.23 2.57
1857 2899 2.227388 GCTCTTGTTGATCCAAGTGGTG 59.773 50.000 10.38 3.57 42.01 4.17
1878 2920 1.082117 AATTACGCTCGCCCTTGTCG 61.082 55.000 0.00 0.00 0.00 4.35
1912 2954 1.557443 CGAAGCGTGGTCACCTTGTC 61.557 60.000 0.00 0.00 0.00 3.18
1930 2972 1.006805 GGATGATGTCGGAGCCTCG 60.007 63.158 0.00 0.00 0.00 4.63
1934 2976 4.643733 CGAGGATGATGTCGGAGC 57.356 61.111 0.00 0.00 32.40 4.70
2024 3066 2.270352 AACAACATCACCATCACCGT 57.730 45.000 0.00 0.00 0.00 4.83
2025 3067 3.119990 GGTAAACAACATCACCATCACCG 60.120 47.826 0.00 0.00 0.00 4.94
2038 3080 0.872388 CTGGCCGTCAGGTAAACAAC 59.128 55.000 0.00 0.00 39.76 3.32
2095 3137 2.540101 CCTTGCGATTCCTCGTATCAAC 59.460 50.000 0.00 0.00 46.71 3.18
2111 3153 6.038714 AGAGTAAGCTATATTTTGCACCTTGC 59.961 38.462 0.00 0.00 45.29 4.01
2122 3164 6.296145 GGAAGATGGCCAGAGTAAGCTATATT 60.296 42.308 13.05 0.00 34.63 1.28
2199 3241 6.349777 GCAGGATTGCTGGAGTATACTACTAG 60.350 46.154 16.20 12.15 46.95 2.57
2200 3242 5.477291 GCAGGATTGCTGGAGTATACTACTA 59.523 44.000 16.20 2.32 46.95 1.82
2201 3243 4.282195 GCAGGATTGCTGGAGTATACTACT 59.718 45.833 16.20 0.00 46.95 2.57
2202 3244 4.561105 GCAGGATTGCTGGAGTATACTAC 58.439 47.826 8.29 8.29 46.95 2.73
2215 3257 6.072452 GGAGTAATAATTACCTGCAGGATTGC 60.072 42.308 39.19 27.06 42.64 3.56
2222 3264 4.039973 CGGAGGGAGTAATAATTACCTGCA 59.960 45.833 8.95 0.00 36.40 4.41
2235 3277 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
2236 3278 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
2237 3279 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2238 3280 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2239 3281 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
2240 3282 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
2241 3283 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
2242 3284 3.680475 CGGGTCATCTATTTTGGAACGGA 60.680 47.826 0.00 0.00 0.00 4.69
2243 3285 2.612212 CGGGTCATCTATTTTGGAACGG 59.388 50.000 0.00 0.00 0.00 4.44
2244 3286 3.308866 GTCGGGTCATCTATTTTGGAACG 59.691 47.826 0.00 0.00 0.00 3.95
2245 3287 4.514401 AGTCGGGTCATCTATTTTGGAAC 58.486 43.478 0.00 0.00 0.00 3.62
2246 3288 4.837093 AGTCGGGTCATCTATTTTGGAA 57.163 40.909 0.00 0.00 0.00 3.53
2247 3289 4.837093 AAGTCGGGTCATCTATTTTGGA 57.163 40.909 0.00 0.00 0.00 3.53
2248 3290 6.995511 TTAAAGTCGGGTCATCTATTTTGG 57.004 37.500 0.00 0.00 0.00 3.28
2249 3291 8.438676 AGATTAAAGTCGGGTCATCTATTTTG 57.561 34.615 0.00 0.00 0.00 2.44
2251 3293 9.543783 GTTAGATTAAAGTCGGGTCATCTATTT 57.456 33.333 0.00 0.00 0.00 1.40
2252 3294 8.925338 AGTTAGATTAAAGTCGGGTCATCTATT 58.075 33.333 0.00 0.00 0.00 1.73
2253 3295 8.480133 AGTTAGATTAAAGTCGGGTCATCTAT 57.520 34.615 0.00 0.00 0.00 1.98
2254 3296 7.893124 AGTTAGATTAAAGTCGGGTCATCTA 57.107 36.000 0.00 0.00 0.00 1.98
2255 3297 6.793505 AGTTAGATTAAAGTCGGGTCATCT 57.206 37.500 0.00 0.00 0.00 2.90
2256 3298 7.333672 ACAAAGTTAGATTAAAGTCGGGTCATC 59.666 37.037 0.00 0.00 0.00 2.92
2257 3299 7.166167 ACAAAGTTAGATTAAAGTCGGGTCAT 58.834 34.615 0.00 0.00 0.00 3.06
2258 3300 6.527423 ACAAAGTTAGATTAAAGTCGGGTCA 58.473 36.000 0.00 0.00 0.00 4.02
2259 3301 7.599998 TGTACAAAGTTAGATTAAAGTCGGGTC 59.400 37.037 0.00 0.00 0.00 4.46
2260 3302 7.444299 TGTACAAAGTTAGATTAAAGTCGGGT 58.556 34.615 0.00 0.00 0.00 5.28
2261 3303 7.894376 TGTACAAAGTTAGATTAAAGTCGGG 57.106 36.000 0.00 0.00 0.00 5.14
2283 3325 9.696917 GTTCCAAAATAGATGACTCAATTTTGT 57.303 29.630 18.01 0.00 43.14 2.83
2284 3326 8.853345 CGTTCCAAAATAGATGACTCAATTTTG 58.147 33.333 15.00 15.00 43.77 2.44
2285 3327 8.028938 CCGTTCCAAAATAGATGACTCAATTTT 58.971 33.333 0.00 0.00 33.07 1.82
2286 3328 7.393234 TCCGTTCCAAAATAGATGACTCAATTT 59.607 33.333 0.00 0.00 0.00 1.82
2287 3329 6.884295 TCCGTTCCAAAATAGATGACTCAATT 59.116 34.615 0.00 0.00 0.00 2.32
2288 3330 6.414732 TCCGTTCCAAAATAGATGACTCAAT 58.585 36.000 0.00 0.00 0.00 2.57
2289 3331 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
2290 3332 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
2291 3333 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
2292 3334 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
2293 3335 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
2294 3336 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2295 3337 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2296 3338 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2297 3339 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2298 3340 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2299 3341 3.119029 CGTACTCCCTCCGTTCCAAAATA 60.119 47.826 0.00 0.00 0.00 1.40
2300 3342 2.354403 CGTACTCCCTCCGTTCCAAAAT 60.354 50.000 0.00 0.00 0.00 1.82
2301 3343 1.001181 CGTACTCCCTCCGTTCCAAAA 59.999 52.381 0.00 0.00 0.00 2.44
2302 3344 0.604578 CGTACTCCCTCCGTTCCAAA 59.395 55.000 0.00 0.00 0.00 3.28
2303 3345 0.540365 ACGTACTCCCTCCGTTCCAA 60.540 55.000 0.00 0.00 0.00 3.53
2304 3346 1.075482 ACGTACTCCCTCCGTTCCA 59.925 57.895 0.00 0.00 0.00 3.53
2305 3347 0.962356 TCACGTACTCCCTCCGTTCC 60.962 60.000 0.00 0.00 31.46 3.62
2306 3348 1.101331 ATCACGTACTCCCTCCGTTC 58.899 55.000 0.00 0.00 31.46 3.95
2307 3349 2.019984 GTATCACGTACTCCCTCCGTT 58.980 52.381 0.00 0.00 31.46 4.44
2308 3350 1.673168 GTATCACGTACTCCCTCCGT 58.327 55.000 0.00 0.00 34.71 4.69
2309 3351 0.950116 GGTATCACGTACTCCCTCCG 59.050 60.000 0.00 0.00 33.64 4.63
2310 3352 1.955080 CAGGTATCACGTACTCCCTCC 59.045 57.143 0.00 0.00 33.64 4.30
2311 3353 2.928334 TCAGGTATCACGTACTCCCTC 58.072 52.381 0.00 0.00 33.64 4.30
2312 3354 3.596940 ATCAGGTATCACGTACTCCCT 57.403 47.619 0.00 0.00 33.64 4.20
2313 3355 4.215827 CAGTATCAGGTATCACGTACTCCC 59.784 50.000 0.00 0.00 33.64 4.30
2314 3356 5.049543 GTCAGTATCAGGTATCACGTACTCC 60.050 48.000 0.00 0.00 33.64 3.85
2315 3357 5.759273 AGTCAGTATCAGGTATCACGTACTC 59.241 44.000 0.00 0.00 33.64 2.59
2316 3358 5.682659 AGTCAGTATCAGGTATCACGTACT 58.317 41.667 0.00 0.00 33.64 2.73
2317 3359 7.488187 TTAGTCAGTATCAGGTATCACGTAC 57.512 40.000 0.00 0.00 0.00 3.67
2404 3446 3.327757 ACTCAGTGCTCCTAACCAATCAA 59.672 43.478 0.00 0.00 0.00 2.57
2406 3448 3.618690 ACTCAGTGCTCCTAACCAATC 57.381 47.619 0.00 0.00 0.00 2.67
2455 3499 6.336842 AGCAAAAAGTCTGAAATGCATAGT 57.663 33.333 0.00 0.00 36.30 2.12
2475 3519 5.888691 TCTAAACAAGACACAAACAAGCA 57.111 34.783 0.00 0.00 0.00 3.91
2486 3530 8.543774 GCACACAGTATATCATCTAAACAAGAC 58.456 37.037 0.00 0.00 36.93 3.01
2604 3654 7.015682 ACAGAGTAAGTTCTTGGAGATTGAAGA 59.984 37.037 0.00 0.00 0.00 2.87
2621 3679 5.413833 ACTGCATCCAATGAAACAGAGTAAG 59.586 40.000 0.00 0.00 33.77 2.34
2646 3704 2.152016 GCACCTTAAGTCCAACCTGAC 58.848 52.381 0.97 0.00 35.43 3.51
2688 3746 6.273071 ACGGAAATGCTGCCTTAATTTATTC 58.727 36.000 0.00 0.00 0.00 1.75
2710 3769 1.217244 CAACCTCCCCGGACTTACG 59.783 63.158 0.73 0.00 36.31 3.18
2717 3776 0.179000 CTCAATCTCAACCTCCCCGG 59.821 60.000 0.00 0.00 39.35 5.73
2791 3854 4.715792 AGGATAGATATGATGTCCAGCCAG 59.284 45.833 0.00 0.00 0.00 4.85
2876 3939 2.739913 GCGCATGAGTTTTGGTGTACTA 59.260 45.455 0.30 0.00 0.00 1.82
2944 4456 5.236263 GCAACAAGGTTTCCACTTAATTTGG 59.764 40.000 0.00 0.00 35.18 3.28
2971 4484 9.791801 ATAAAATTAAATATCCAACAATGCCCC 57.208 29.630 0.00 0.00 0.00 5.80
3126 4648 7.949962 GCGTCAATTTTTATCTTACTTTTTGGC 59.050 33.333 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.