Multiple sequence alignment - TraesCS6A01G232900

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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 TraesCS6A01G232900 chr6A 100.000 2843 0 0 1572 4414 440529311 440532153 0.000000e+00 5251.0
1 TraesCS6A01G232900 chr6A 100.000 1099 0 0 1 1099 440527740 440528838 0.000000e+00 2030.0
2 TraesCS6A01G232900 chr6D 93.562 1227 46 4 2464 3661 306029677 306030899 0.000000e+00 1797.0
3 TraesCS6A01G232900 chr6D 88.274 452 35 8 1596 2041 306027556 306027995 3.910000e-145 525.0
4 TraesCS6A01G232900 chr6D 93.793 290 13 3 1 289 306026420 306026705 8.770000e-117 431.0
5 TraesCS6A01G232900 chr6D 86.792 371 36 7 2050 2409 306028966 306029334 6.880000e-108 401.0
6 TraesCS6A01G232900 chr6D 90.877 285 21 3 3684 3967 306032818 306033098 1.160000e-100 377.0
7 TraesCS6A01G232900 chr6D 89.963 269 20 1 4152 4413 306033096 306033364 1.520000e-89 340.0
8 TraesCS6A01G232900 chr6D 97.368 190 5 0 300 489 306026754 306026943 1.530000e-84 324.0
9 TraesCS6A01G232900 chr6B 91.747 1248 63 16 2487 3729 470801649 470800437 0.000000e+00 1698.0
10 TraesCS6A01G232900 chr6B 91.709 1170 59 14 1572 2735 470802538 470801401 0.000000e+00 1589.0
11 TraesCS6A01G232900 chr6B 85.144 727 53 30 298 985 470803424 470802714 0.000000e+00 693.0
12 TraesCS6A01G232900 chr6B 92.784 291 19 2 1 289 470803758 470803468 1.900000e-113 420.0
13 TraesCS6A01G232900 chr6B 82.963 270 36 6 4152 4414 470799233 470798967 7.380000e-58 235.0
14 TraesCS6A01G232900 chr6B 92.453 53 2 2 3965 4016 568722684 568722735 1.700000e-09 75.0
15 TraesCS6A01G232900 chr3B 79.487 156 17 6 3963 4104 302365725 302365571 3.630000e-16 97.1
16 TraesCS6A01G232900 chr3B 90.385 52 4 1 3965 4016 422948637 422948587 2.850000e-07 67.6
17 TraesCS6A01G232900 chr3B 94.595 37 2 0 3849 3885 78521055 78521019 1.710000e-04 58.4
18 TraesCS6A01G232900 chr3B 92.683 41 2 1 3845 3885 773632262 773632301 1.710000e-04 58.4
19 TraesCS6A01G232900 chr3D 92.453 53 2 2 3965 4016 301067716 301067665 1.700000e-09 75.0
20 TraesCS6A01G232900 chr3D 93.478 46 3 0 4223 4268 496939705 496939660 7.920000e-08 69.4
21 TraesCS6A01G232900 chr3D 91.489 47 3 1 3965 4011 155014949 155014904 3.690000e-06 63.9
22 TraesCS6A01G232900 chr2A 91.667 48 4 0 3972 4019 175784590 175784637 2.850000e-07 67.6
23 TraesCS6A01G232900 chr2D 97.368 38 1 0 3848 3885 567483592 567483555 1.020000e-06 65.8
24 TraesCS6A01G232900 chr7A 88.679 53 4 2 3854 3905 715699963 715699912 3.690000e-06 63.9
25 TraesCS6A01G232900 chr5D 91.489 47 3 1 3965 4011 351558763 351558808 3.690000e-06 63.9
26 TraesCS6A01G232900 chr4B 91.489 47 2 2 3971 4016 96791535 96791490 3.690000e-06 63.9
27 TraesCS6A01G232900 chr7B 100.000 32 0 0 3854 3885 533763734 533763703 4.770000e-05 60.2
28 TraesCS6A01G232900 chr2B 100.000 31 0 0 3855 3885 505812295 505812265 1.710000e-04 58.4
29 TraesCS6A01G232900 chr4D 100.000 30 0 0 3856 3885 169122895 169122924 6.170000e-04 56.5
30 TraesCS6A01G232900 chr4D 100.000 30 0 0 3856 3885 494846037 494846066 6.170000e-04 56.5


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 TraesCS6A01G232900 chr6A 440527740 440532153 4413 False 3640.500000 5251 100.000000 1 4414 2 chr6A.!!$F1 4413
1 TraesCS6A01G232900 chr6D 306026420 306033364 6944 False 599.285714 1797 91.518429 1 4413 7 chr6D.!!$F1 4412
2 TraesCS6A01G232900 chr6B 470798967 470803758 4791 True 927.000000 1698 88.869400 1 4414 5 chr6B.!!$R1 4413

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
890 976 0.519519 TTTGCCGCCTATGTTTCGTG 59.480 50.0 0.0 0.0 0.0 4.35 F
1942 2068 0.119358 ACTAGGGGGCTCTTTGGACT 59.881 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2509 3918 1.002468 CGAGGAAACAAACAGGCACAG 60.002 52.381 0.0 0.0 0.00 3.66 R
3940 8292 2.032290 GCCTTGGCCGTATTTCGTATTC 60.032 50.000 0.0 0.0 37.94 1.75 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
58 59 9.708092 TTCAAATGCATTTTAGTCATGATTCAA 57.292 25.926 21.95 0.00 0.00 2.69
194 196 8.441312 AGTTTCAAATGCATCTGAACATTTTT 57.559 26.923 14.97 0.00 42.34 1.94
218 220 5.010314 TGAGTTGAAGCTGCATTTGAATCTT 59.990 36.000 0.00 0.00 0.00 2.40
365 406 4.963276 GCCACTAGCATGACACATTAAA 57.037 40.909 0.00 0.00 42.97 1.52
457 498 8.502047 AGAAAAACTAGGAGTAAGGGTAAAGA 57.498 34.615 0.00 0.00 0.00 2.52
493 534 7.557719 AGGGAATATCACACAACCAATAGAAAG 59.442 37.037 0.00 0.00 0.00 2.62
503 545 4.828072 ACCAATAGAAAGGGAGAGACAC 57.172 45.455 0.00 0.00 0.00 3.67
512 554 1.694696 AGGGAGAGACACTTTCCACAC 59.305 52.381 9.84 0.00 36.60 3.82
554 596 5.443185 TTTCTGATTTTGCAGGTCTCTTG 57.557 39.130 0.00 0.00 36.55 3.02
607 649 7.312657 ACTGCATGTACTTTGACTATGAATG 57.687 36.000 0.00 0.00 0.00 2.67
684 731 9.710979 TTGTTTTAAACGAATAGAGTTGTTCAG 57.289 29.630 3.28 0.00 31.43 3.02
693 740 6.455646 CGAATAGAGTTGTTCAGGCATGTTAC 60.456 42.308 0.00 0.00 0.00 2.50
696 770 4.275936 AGAGTTGTTCAGGCATGTTACAAC 59.724 41.667 28.06 28.06 44.29 3.32
761 838 9.506018 AAAAGATCAATAAATGTGGAAAAAGGG 57.494 29.630 0.00 0.00 0.00 3.95
764 843 9.050154 AGATCAATAAATGTGGAAAAAGGGAAT 57.950 29.630 0.00 0.00 0.00 3.01
820 903 2.344872 GAACACGTTACCGGGCCT 59.655 61.111 6.32 0.00 42.77 5.19
884 970 4.517285 CATATAGGATTTGCCGCCTATGT 58.483 43.478 10.77 2.63 44.89 2.29
890 976 0.519519 TTTGCCGCCTATGTTTCGTG 59.480 50.000 0.00 0.00 0.00 4.35
915 1007 4.554036 GCCGCACCCTCTCCCATC 62.554 72.222 0.00 0.00 0.00 3.51
916 1008 4.227134 CCGCACCCTCTCCCATCG 62.227 72.222 0.00 0.00 0.00 3.84
917 1009 3.461773 CGCACCCTCTCCCATCGT 61.462 66.667 0.00 0.00 0.00 3.73
918 1010 2.501610 GCACCCTCTCCCATCGTC 59.498 66.667 0.00 0.00 0.00 4.20
927 1019 2.618241 CTCTCCCATCGTCAGAGAAGAG 59.382 54.545 0.00 0.00 36.52 2.85
992 1114 2.571757 CTGCGCCGAGGAGTACAA 59.428 61.111 4.18 0.00 33.20 2.41
1013 1135 1.700042 GGATTCATGGAGCCCGAGGT 61.700 60.000 0.00 0.00 0.00 3.85
1023 1145 2.291043 GCCCGAGGTCTCCAAGGAA 61.291 63.158 0.00 0.00 0.00 3.36
1046 1168 1.965754 GAGAAGCAGCCGATGGAGGT 61.966 60.000 0.00 0.00 0.00 3.85
1068 1190 2.107953 GCCGGAGATCCAGCAGAC 59.892 66.667 5.05 0.00 39.22 3.51
1672 1794 9.624373 ATGAATCATGTTCTAATAAGTGCTCTT 57.376 29.630 6.25 6.25 37.65 2.85
1730 1854 3.106407 GCAGTGTCCAGCGACGAC 61.106 66.667 0.00 0.00 42.37 4.34
1899 2023 3.209410 CAGAGGTAATCCACTTGATGCC 58.791 50.000 0.00 0.00 32.49 4.40
1939 2065 0.833949 GAGACTAGGGGGCTCTTTGG 59.166 60.000 0.00 0.00 46.30 3.28
1940 2066 0.417841 AGACTAGGGGGCTCTTTGGA 59.582 55.000 0.00 0.00 0.00 3.53
1941 2067 0.542333 GACTAGGGGGCTCTTTGGAC 59.458 60.000 0.00 0.00 0.00 4.02
1942 2068 0.119358 ACTAGGGGGCTCTTTGGACT 59.881 55.000 0.00 0.00 0.00 3.85
1943 2069 1.365028 ACTAGGGGGCTCTTTGGACTA 59.635 52.381 0.00 0.00 0.00 2.59
1944 2070 2.021936 ACTAGGGGGCTCTTTGGACTAT 60.022 50.000 0.00 0.00 0.00 2.12
1958 2085 9.125026 CTCTTTGGACTATAATGCCTTTACATT 57.875 33.333 0.00 0.00 42.73 2.71
2041 2170 2.997980 TCCTAATGGCGAAGATTGCAA 58.002 42.857 0.00 0.00 0.00 4.08
2042 2171 3.351740 TCCTAATGGCGAAGATTGCAAA 58.648 40.909 1.71 0.00 0.00 3.68
2043 2172 3.761218 TCCTAATGGCGAAGATTGCAAAA 59.239 39.130 1.71 0.00 0.00 2.44
2044 2173 4.219507 TCCTAATGGCGAAGATTGCAAAAA 59.780 37.500 1.71 0.00 0.00 1.94
2086 3185 8.525316 TGAAGACGGAACAACTTATATCTGTTA 58.475 33.333 0.00 0.00 33.53 2.41
2087 3186 8.699283 AAGACGGAACAACTTATATCTGTTAC 57.301 34.615 0.00 0.00 33.53 2.50
2125 3228 0.318441 GTGCTGTGACTGCCTCTGTA 59.682 55.000 11.94 0.00 0.00 2.74
2170 3273 9.674824 GCATTAGTTTGATAAATTCATGGAGAG 57.325 33.333 0.00 0.00 33.34 3.20
2215 3318 3.517296 TCATGTTTAGGGAAGTTGGCA 57.483 42.857 0.00 0.00 0.00 4.92
2229 3332 6.435428 GGAAGTTGGCATATTGTTAATACCG 58.565 40.000 0.00 0.00 0.00 4.02
2357 3461 7.614192 TGTCTAGGATAACTGTGTACATCTCAA 59.386 37.037 0.00 0.00 0.00 3.02
2370 3474 7.095397 TGTGTACATCTCAATTGTTCCTAAACG 60.095 37.037 5.13 0.00 38.28 3.60
2411 3515 6.055588 GGCTTTGCTTATGTGAGAGGTATTA 58.944 40.000 0.00 0.00 0.00 0.98
2448 3552 7.448469 AGAAACCACTGTTTTAGATTAGCATGT 59.552 33.333 0.00 0.00 44.57 3.21
2450 3554 5.106157 ACCACTGTTTTAGATTAGCATGTGC 60.106 40.000 0.00 0.00 42.49 4.57
2461 3565 7.670009 AGATTAGCATGTGCAATCTATCTTC 57.330 36.000 20.69 4.82 41.94 2.87
2462 3566 7.222161 AGATTAGCATGTGCAATCTATCTTCA 58.778 34.615 20.69 0.00 41.94 3.02
2740 4176 2.598686 TTTGCTTTGCACAATGCTCA 57.401 40.000 18.44 6.31 45.31 4.26
2741 4177 2.143008 TTGCTTTGCACAATGCTCAG 57.857 45.000 18.44 3.15 45.31 3.35
2768 4204 2.658325 GCTTGCTTTGCACAAGATAACG 59.342 45.455 17.19 0.00 45.99 3.18
2883 4319 3.554934 TCTTGCCACCCATCATGTAATC 58.445 45.455 0.00 0.00 0.00 1.75
2884 4320 3.053768 TCTTGCCACCCATCATGTAATCA 60.054 43.478 0.00 0.00 0.00 2.57
2907 4343 2.554032 CTGTTTCCCAAGCCTTGTACAG 59.446 50.000 3.37 7.57 0.00 2.74
2911 4347 4.440826 TTCCCAAGCCTTGTACAGTTAA 57.559 40.909 3.37 0.00 0.00 2.01
2921 4357 8.086143 AGCCTTGTACAGTTAAACTATATCCA 57.914 34.615 0.00 0.00 0.00 3.41
2931 4369 8.116753 CAGTTAAACTATATCCACGCAGAAAAG 58.883 37.037 0.00 0.00 0.00 2.27
2966 4405 6.706270 CACCAGATAAAGTTGTCACTGTACTT 59.294 38.462 0.00 0.00 31.60 2.24
3032 4471 8.230472 ACCCTGAATGCTTTAAATATTCTCAG 57.770 34.615 18.46 13.04 33.21 3.35
3282 4721 4.378459 GGAAAGTAACGGCTGTTGATTCTG 60.378 45.833 21.37 0.00 39.12 3.02
3607 5050 4.068599 CAGACTTTTCAGAGGGGAAGAAC 58.931 47.826 0.00 0.00 0.00 3.01
3631 5074 4.148128 TCCTTGCAAAAATGGAAGCAAA 57.852 36.364 0.00 0.00 45.18 3.68
3649 5092 7.011669 GGAAGCAAATGGATAAACATGAATTGG 59.988 37.037 0.00 0.00 0.00 3.16
3651 5094 7.043565 AGCAAATGGATAAACATGAATTGGAC 58.956 34.615 0.00 0.00 0.00 4.02
3654 5097 9.386010 CAAATGGATAAACATGAATTGGACATT 57.614 29.630 0.00 4.41 0.00 2.71
3707 7046 7.981789 TGTTACTATCTTCAAGTCATGGCTTAG 59.018 37.037 13.20 7.90 0.00 2.18
3719 7058 3.118261 TCATGGCTTAGAGGGAATGTGTC 60.118 47.826 0.00 0.00 0.00 3.67
3724 7063 3.942115 GCTTAGAGGGAATGTGTCCTTTC 59.058 47.826 0.00 0.00 46.92 2.62
3734 7869 5.069119 GGAATGTGTCCTTTCCTTTCAAAGT 59.931 40.000 0.00 0.00 43.98 2.66
3745 7880 5.165961 TCCTTTCAAAGTAGGGAGATGTG 57.834 43.478 0.00 0.00 32.20 3.21
3859 8210 9.747293 AGTAACTCTTGTAACAAAGAACTACTC 57.253 33.333 0.00 0.00 35.79 2.59
3863 8214 6.756221 TCTTGTAACAAAGAACTACTCCCTC 58.244 40.000 0.00 0.00 33.25 4.30
3864 8215 5.479124 TGTAACAAAGAACTACTCCCTCC 57.521 43.478 0.00 0.00 0.00 4.30
3876 8227 6.093617 ACTACTCCCTCCGATCCATATTAT 57.906 41.667 0.00 0.00 0.00 1.28
3888 8239 6.473778 CCGATCCATATTATTTGTCGCTAGAG 59.526 42.308 0.00 0.00 0.00 2.43
3940 8292 8.731605 CATCTTCTCCATGATATCAATCTTTGG 58.268 37.037 9.99 12.33 37.41 3.28
3943 8295 9.298250 CTTCTCCATGATATCAATCTTTGGAAT 57.702 33.333 20.32 0.00 41.00 3.01
3964 8316 0.808755 CGAAATACGGCCAAGGCTTT 59.191 50.000 11.40 3.41 41.60 3.51
3965 8317 2.011222 CGAAATACGGCCAAGGCTTTA 58.989 47.619 11.40 3.04 41.60 1.85
3966 8318 2.031683 CGAAATACGGCCAAGGCTTTAG 59.968 50.000 11.40 0.65 41.60 1.85
3967 8319 2.052782 AATACGGCCAAGGCTTTAGG 57.947 50.000 11.40 0.00 41.60 2.69
3968 8320 0.182775 ATACGGCCAAGGCTTTAGGG 59.817 55.000 11.40 0.00 41.60 3.53
3969 8321 1.202769 TACGGCCAAGGCTTTAGGGT 61.203 55.000 11.40 0.00 41.60 4.34
3970 8322 1.749258 CGGCCAAGGCTTTAGGGTC 60.749 63.158 11.40 0.00 41.60 4.46
3971 8323 1.382629 GGCCAAGGCTTTAGGGTCA 59.617 57.895 11.40 0.00 41.60 4.02
3972 8324 0.681243 GGCCAAGGCTTTAGGGTCAG 60.681 60.000 11.40 0.00 41.60 3.51
3973 8325 0.038310 GCCAAGGCTTTAGGGTCAGT 59.962 55.000 3.29 0.00 38.26 3.41
3974 8326 1.950954 GCCAAGGCTTTAGGGTCAGTC 60.951 57.143 3.29 0.00 38.26 3.51
3975 8327 1.340114 CCAAGGCTTTAGGGTCAGTCC 60.340 57.143 0.00 0.00 0.00 3.85
3976 8328 1.630878 CAAGGCTTTAGGGTCAGTCCT 59.369 52.381 0.00 0.00 40.79 3.85
3977 8329 2.040412 CAAGGCTTTAGGGTCAGTCCTT 59.960 50.000 0.00 0.00 38.30 3.36
3978 8330 2.349445 AGGCTTTAGGGTCAGTCCTTT 58.651 47.619 0.00 0.00 38.30 3.11
3979 8331 2.716969 AGGCTTTAGGGTCAGTCCTTTT 59.283 45.455 0.00 0.00 38.30 2.27
3980 8332 2.820197 GGCTTTAGGGTCAGTCCTTTTG 59.180 50.000 0.00 0.00 38.30 2.44
3981 8333 2.820197 GCTTTAGGGTCAGTCCTTTTGG 59.180 50.000 0.00 0.00 38.30 3.28
3982 8334 3.421844 CTTTAGGGTCAGTCCTTTTGGG 58.578 50.000 0.00 0.00 40.87 4.12
3983 8335 2.127651 TAGGGTCAGTCCTTTTGGGT 57.872 50.000 0.00 0.00 40.87 4.51
3984 8336 0.478507 AGGGTCAGTCCTTTTGGGTG 59.521 55.000 0.00 0.00 40.87 4.61
3985 8337 0.539669 GGGTCAGTCCTTTTGGGTGG 60.540 60.000 0.00 0.00 40.87 4.61
3986 8338 1.179174 GGTCAGTCCTTTTGGGTGGC 61.179 60.000 0.00 0.00 40.87 5.01
3987 8339 0.178990 GTCAGTCCTTTTGGGTGGCT 60.179 55.000 0.00 0.00 40.87 4.75
3988 8340 0.555769 TCAGTCCTTTTGGGTGGCTT 59.444 50.000 0.00 0.00 40.87 4.35
3989 8341 1.777878 TCAGTCCTTTTGGGTGGCTTA 59.222 47.619 0.00 0.00 40.87 3.09
3990 8342 2.175931 TCAGTCCTTTTGGGTGGCTTAA 59.824 45.455 0.00 0.00 40.87 1.85
3991 8343 2.962421 CAGTCCTTTTGGGTGGCTTAAA 59.038 45.455 0.00 0.00 40.87 1.52
3992 8344 3.386402 CAGTCCTTTTGGGTGGCTTAAAA 59.614 43.478 0.00 0.00 40.87 1.52
3993 8345 4.034410 AGTCCTTTTGGGTGGCTTAAAAA 58.966 39.130 0.00 0.00 40.87 1.94
4020 8372 4.008074 CTGTCTCTTCCCAGCTTAAACA 57.992 45.455 0.00 0.00 0.00 2.83
4021 8373 4.583871 CTGTCTCTTCCCAGCTTAAACAT 58.416 43.478 0.00 0.00 0.00 2.71
4022 8374 5.734720 CTGTCTCTTCCCAGCTTAAACATA 58.265 41.667 0.00 0.00 0.00 2.29
4023 8375 6.121776 TGTCTCTTCCCAGCTTAAACATAA 57.878 37.500 0.00 0.00 0.00 1.90
4024 8376 6.539173 TGTCTCTTCCCAGCTTAAACATAAA 58.461 36.000 0.00 0.00 0.00 1.40
4025 8377 7.175104 TGTCTCTTCCCAGCTTAAACATAAAT 58.825 34.615 0.00 0.00 0.00 1.40
4026 8378 7.669722 TGTCTCTTCCCAGCTTAAACATAAATT 59.330 33.333 0.00 0.00 0.00 1.82
4027 8379 8.523658 GTCTCTTCCCAGCTTAAACATAAATTT 58.476 33.333 0.00 0.00 0.00 1.82
4028 8380 8.739972 TCTCTTCCCAGCTTAAACATAAATTTC 58.260 33.333 0.00 0.00 0.00 2.17
4029 8381 8.650143 TCTTCCCAGCTTAAACATAAATTTCT 57.350 30.769 0.00 0.00 0.00 2.52
4030 8382 9.088987 TCTTCCCAGCTTAAACATAAATTTCTT 57.911 29.630 0.00 0.00 0.00 2.52
4031 8383 9.143631 CTTCCCAGCTTAAACATAAATTTCTTG 57.856 33.333 0.00 0.00 0.00 3.02
4032 8384 8.415950 TCCCAGCTTAAACATAAATTTCTTGA 57.584 30.769 0.00 0.00 0.00 3.02
4033 8385 8.522830 TCCCAGCTTAAACATAAATTTCTTGAG 58.477 33.333 0.00 0.00 0.00 3.02
4034 8386 8.522830 CCCAGCTTAAACATAAATTTCTTGAGA 58.477 33.333 0.00 0.00 0.00 3.27
4035 8387 9.346725 CCAGCTTAAACATAAATTTCTTGAGAC 57.653 33.333 0.00 0.00 0.00 3.36
4070 8422 7.097834 AGTTACACCATCACTAGTTTAGAAGC 58.902 38.462 0.00 0.00 0.00 3.86
4071 8423 4.833390 ACACCATCACTAGTTTAGAAGCC 58.167 43.478 0.00 0.00 0.00 4.35
4072 8424 4.532521 ACACCATCACTAGTTTAGAAGCCT 59.467 41.667 0.00 0.00 0.00 4.58
4073 8425 5.013183 ACACCATCACTAGTTTAGAAGCCTT 59.987 40.000 0.00 0.00 0.00 4.35
4074 8426 6.212791 ACACCATCACTAGTTTAGAAGCCTTA 59.787 38.462 0.00 0.00 0.00 2.69
4075 8427 6.758886 CACCATCACTAGTTTAGAAGCCTTAG 59.241 42.308 0.00 0.00 0.00 2.18
4076 8428 6.440965 ACCATCACTAGTTTAGAAGCCTTAGT 59.559 38.462 0.00 0.00 0.00 2.24
4077 8429 6.758886 CCATCACTAGTTTAGAAGCCTTAGTG 59.241 42.308 0.00 3.69 36.11 2.74
4078 8430 7.363880 CCATCACTAGTTTAGAAGCCTTAGTGA 60.364 40.741 12.76 12.76 44.19 3.41
4079 8431 7.534723 TCACTAGTTTAGAAGCCTTAGTGAA 57.465 36.000 9.08 0.00 39.45 3.18
4080 8432 8.135382 TCACTAGTTTAGAAGCCTTAGTGAAT 57.865 34.615 9.08 0.00 39.45 2.57
4081 8433 9.251440 TCACTAGTTTAGAAGCCTTAGTGAATA 57.749 33.333 9.08 0.00 39.45 1.75
4082 8434 9.871238 CACTAGTTTAGAAGCCTTAGTGAATAA 57.129 33.333 0.00 0.00 36.68 1.40
4090 8442 7.807680 AGAAGCCTTAGTGAATAAGAAAAACG 58.192 34.615 0.62 0.00 43.17 3.60
4091 8443 6.496338 AGCCTTAGTGAATAAGAAAAACGG 57.504 37.500 0.62 0.00 43.17 4.44
4092 8444 6.002082 AGCCTTAGTGAATAAGAAAAACGGT 58.998 36.000 0.62 0.00 43.17 4.83
4093 8445 6.489022 AGCCTTAGTGAATAAGAAAAACGGTT 59.511 34.615 0.62 0.00 43.17 4.44
4094 8446 7.013942 AGCCTTAGTGAATAAGAAAAACGGTTT 59.986 33.333 0.62 0.00 43.17 3.27
4095 8447 8.291740 GCCTTAGTGAATAAGAAAAACGGTTTA 58.708 33.333 6.53 0.00 43.17 2.01
4100 8452 8.842280 AGTGAATAAGAAAAACGGTTTATGTGA 58.158 29.630 6.53 0.00 0.00 3.58
4101 8453 9.453325 GTGAATAAGAAAAACGGTTTATGTGAA 57.547 29.630 6.53 0.00 0.00 3.18
4105 8457 6.822073 AGAAAAACGGTTTATGTGAAAAGC 57.178 33.333 6.53 0.00 34.33 3.51
4106 8458 6.569780 AGAAAAACGGTTTATGTGAAAAGCT 58.430 32.000 6.53 0.00 35.26 3.74
4107 8459 7.708998 AGAAAAACGGTTTATGTGAAAAGCTA 58.291 30.769 6.53 0.00 35.26 3.32
4108 8460 7.860872 AGAAAAACGGTTTATGTGAAAAGCTAG 59.139 33.333 6.53 0.00 35.26 3.42
4109 8461 6.870971 AAACGGTTTATGTGAAAAGCTAGA 57.129 33.333 3.90 0.00 35.26 2.43
4110 8462 6.481954 AACGGTTTATGTGAAAAGCTAGAG 57.518 37.500 0.00 0.00 35.26 2.43
4111 8463 5.790593 ACGGTTTATGTGAAAAGCTAGAGA 58.209 37.500 0.00 0.00 35.26 3.10
4112 8464 6.407202 ACGGTTTATGTGAAAAGCTAGAGAT 58.593 36.000 0.00 0.00 35.26 2.75
4113 8465 6.879458 ACGGTTTATGTGAAAAGCTAGAGATT 59.121 34.615 0.00 0.00 35.26 2.40
4114 8466 8.038944 ACGGTTTATGTGAAAAGCTAGAGATTA 58.961 33.333 0.00 0.00 35.26 1.75
4115 8467 8.543774 CGGTTTATGTGAAAAGCTAGAGATTAG 58.456 37.037 0.00 0.00 35.26 1.73
4116 8468 9.601217 GGTTTATGTGAAAAGCTAGAGATTAGA 57.399 33.333 0.00 0.00 34.73 2.10
4147 8499 5.514274 TTTTAGTCTGCCAAAAGAACTGG 57.486 39.130 0.00 0.00 36.99 4.00
4177 8529 3.678056 AGTGAACTACAGCCAAATCGA 57.322 42.857 0.00 0.00 0.00 3.59
4186 8538 1.069296 CAGCCAAATCGAAACAGCGAA 60.069 47.619 0.00 0.00 44.22 4.70
4191 8543 3.980775 CCAAATCGAAACAGCGAAAATGT 59.019 39.130 0.00 0.00 44.22 2.71
4197 8549 3.303066 CGAAACAGCGAAAATGTCACTCA 60.303 43.478 0.00 0.00 0.00 3.41
4273 8629 3.261643 GCCCATCCAAAAGGATGAAAAGT 59.738 43.478 22.56 0.00 46.04 2.66
4297 8656 8.993424 AGTCATAATCCTTGAACATACTTAGGT 58.007 33.333 0.00 0.00 0.00 3.08
4298 8657 9.614792 GTCATAATCCTTGAACATACTTAGGTT 57.385 33.333 0.00 0.00 32.32 3.50
4329 8688 4.871822 TCCTCCAGAGATAGATGTTGTCA 58.128 43.478 0.00 0.00 0.00 3.58
4335 8694 8.311395 TCCAGAGATAGATGTTGTCAAACTAT 57.689 34.615 7.47 7.47 37.19 2.12
4346 8705 9.553064 GATGTTGTCAAACTATAAGATCCTCAT 57.447 33.333 0.00 0.00 37.19 2.90
4395 8761 3.119316 TCACAATGAACCACACCAACAAC 60.119 43.478 0.00 0.00 0.00 3.32
4408 8774 3.249799 CACCAACAACAGCGACAGAAATA 59.750 43.478 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
194 196 4.521639 AGATTCAAATGCAGCTTCAACTCA 59.478 37.500 0.00 0.00 0.00 3.41
289 292 5.399604 AAGGCGACATTATTACGTAAAGC 57.600 39.130 12.81 8.97 0.00 3.51
290 293 7.061634 GCTTAAGGCGACATTATTACGTAAAG 58.938 38.462 12.81 5.59 0.00 1.85
457 498 4.949856 GTGTGATATTCCCTGGTGATTTGT 59.050 41.667 0.00 0.00 0.00 2.83
493 534 1.605712 CGTGTGGAAAGTGTCTCTCCC 60.606 57.143 0.00 0.00 0.00 4.30
531 573 5.047519 CCAAGAGACCTGCAAAATCAGAAAT 60.048 40.000 0.00 0.00 36.19 2.17
615 657 7.268872 CACATGCACAAACTTTTTCTTCAAAAC 59.731 33.333 0.00 0.00 30.89 2.43
660 702 7.322938 GCCTGAACAACTCTATTCGTTTAAAAC 59.677 37.037 0.00 0.00 0.00 2.43
664 706 5.543714 TGCCTGAACAACTCTATTCGTTTA 58.456 37.500 0.00 0.00 0.00 2.01
668 710 3.935203 ACATGCCTGAACAACTCTATTCG 59.065 43.478 0.00 0.00 0.00 3.34
753 830 9.607988 TCCTGTTTTTCTTTTATTCCCTTTTTC 57.392 29.630 0.00 0.00 0.00 2.29
904 996 0.106469 TCTCTGACGATGGGAGAGGG 60.106 60.000 0.00 0.00 35.02 4.30
910 1002 2.100584 CCTTCTCTTCTCTGACGATGGG 59.899 54.545 0.00 0.00 0.00 4.00
911 1003 3.020274 TCCTTCTCTTCTCTGACGATGG 58.980 50.000 0.00 0.00 0.00 3.51
912 1004 3.944650 TCTCCTTCTCTTCTCTGACGATG 59.055 47.826 0.00 0.00 0.00 3.84
915 1007 4.006989 TCTTCTCCTTCTCTTCTCTGACG 58.993 47.826 0.00 0.00 0.00 4.35
916 1008 4.399303 CCTCTTCTCCTTCTCTTCTCTGAC 59.601 50.000 0.00 0.00 0.00 3.51
917 1009 4.290985 TCCTCTTCTCCTTCTCTTCTCTGA 59.709 45.833 0.00 0.00 0.00 3.27
918 1010 4.599041 TCCTCTTCTCCTTCTCTTCTCTG 58.401 47.826 0.00 0.00 0.00 3.35
927 1019 2.494073 TCGCTCTTTCCTCTTCTCCTTC 59.506 50.000 0.00 0.00 0.00 3.46
990 1112 1.027357 CGGGCTCCATGAATCCTTTG 58.973 55.000 0.00 0.00 0.00 2.77
991 1113 0.918983 TCGGGCTCCATGAATCCTTT 59.081 50.000 0.00 0.00 0.00 3.11
992 1114 0.471617 CTCGGGCTCCATGAATCCTT 59.528 55.000 0.00 0.00 0.00 3.36
1023 1145 3.465403 ATCGGCTGCTTCTCCGCT 61.465 61.111 0.00 0.00 44.91 5.52
1046 1168 2.444706 CTGGATCTCCGGCCTCCA 60.445 66.667 15.81 15.81 39.43 3.86
1068 1190 2.442643 TTACCTAGGTCGCGGGGG 60.443 66.667 20.32 4.22 0.00 5.40
1609 1731 1.273986 TGCCAGATTGCAGGAGCCTA 61.274 55.000 0.00 0.00 41.13 3.93
1646 1768 9.624373 AAGAGCACTTATTAGAACATGATTCAT 57.376 29.630 0.00 0.00 34.28 2.57
1672 1794 8.500753 AATTGGCGAATCAGTACAATTACTTA 57.499 30.769 0.00 0.00 39.26 2.24
1730 1854 3.061322 CTCCACGGAGTAGTCTATCTCG 58.939 54.545 4.83 0.00 41.61 4.04
1899 2023 2.616376 CTGAGACGAGACCCTATGTGAG 59.384 54.545 0.00 0.00 0.00 3.51
1991 2120 5.467035 TTGCTGCAAAGCCTTATAGTTTT 57.533 34.783 13.51 0.00 0.00 2.43
2044 2173 8.002984 TCCGTCTTCACCTTTAAAGAATTTTT 57.997 30.769 16.98 0.00 40.09 1.94
2045 2174 7.576861 TCCGTCTTCACCTTTAAAGAATTTT 57.423 32.000 16.98 0.00 40.09 1.82
2046 2175 7.067737 TGTTCCGTCTTCACCTTTAAAGAATTT 59.932 33.333 16.98 0.00 43.42 1.82
2048 2177 6.059484 TGTTCCGTCTTCACCTTTAAAGAAT 58.941 36.000 16.98 1.49 33.53 2.40
2086 3185 4.700213 GCACAATCCCAATAGTACTTGTGT 59.300 41.667 17.06 3.37 43.20 3.72
2087 3186 4.943705 AGCACAATCCCAATAGTACTTGTG 59.056 41.667 13.32 13.32 43.79 3.33
2411 3515 1.707427 AGTGGTTTCTGCTTCCAGGAT 59.293 47.619 0.00 0.00 39.61 3.24
2489 3898 7.168637 GGCACAGTTAAGAATGATGCATTTATG 59.831 37.037 0.00 0.00 33.90 1.90
2490 3899 7.069085 AGGCACAGTTAAGAATGATGCATTTAT 59.931 33.333 0.00 0.00 33.90 1.40
2491 3900 6.377996 AGGCACAGTTAAGAATGATGCATTTA 59.622 34.615 0.00 0.00 33.90 1.40
2492 3901 5.186409 AGGCACAGTTAAGAATGATGCATTT 59.814 36.000 0.00 0.00 33.90 2.32
2509 3918 1.002468 CGAGGAAACAAACAGGCACAG 60.002 52.381 0.00 0.00 0.00 3.66
2740 4176 4.279169 TCTTGTGCAAAGCAAGCTATTTCT 59.721 37.500 9.98 0.00 41.47 2.52
2741 4177 4.549458 TCTTGTGCAAAGCAAGCTATTTC 58.451 39.130 9.98 0.00 41.47 2.17
2768 4204 5.916883 ACACGTATATATCACGGTTAGTTGC 59.083 40.000 12.74 0.00 43.59 4.17
2844 4280 5.215252 CAAGAGGACTTGGTCTAAGAACA 57.785 43.478 2.52 0.00 46.67 3.18
2883 4319 2.242043 ACAAGGCTTGGGAAACAGATG 58.758 47.619 29.26 2.49 34.12 2.90
2884 4320 2.683211 ACAAGGCTTGGGAAACAGAT 57.317 45.000 29.26 3.81 34.12 2.90
2907 4343 8.193250 TCTTTTCTGCGTGGATATAGTTTAAC 57.807 34.615 0.00 0.00 0.00 2.01
2911 4347 6.653320 TGTTTCTTTTCTGCGTGGATATAGTT 59.347 34.615 0.00 0.00 0.00 2.24
2921 4357 4.261031 GGTGTACATGTTTCTTTTCTGCGT 60.261 41.667 2.30 0.00 0.00 5.24
2931 4369 7.871853 ACAACTTTATCTGGTGTACATGTTTC 58.128 34.615 2.30 0.00 0.00 2.78
3032 4471 7.389053 AGGTGAACAATCAGAAAGACAGATAAC 59.611 37.037 0.00 0.00 35.88 1.89
3282 4721 2.357637 TGTTTGCAACTTCTGGTGTAGC 59.642 45.455 0.00 0.00 0.00 3.58
3589 5032 3.508845 TGGTTCTTCCCCTCTGAAAAG 57.491 47.619 0.00 0.00 34.77 2.27
3607 5050 3.004862 GCTTCCATTTTTGCAAGGATGG 58.995 45.455 25.74 25.74 40.28 3.51
3631 5074 8.081517 ACAATGTCCAATTCATGTTTATCCAT 57.918 30.769 0.00 0.00 0.00 3.41
3649 5092 7.553881 TTTCAAGCCTATAAGCTACAATGTC 57.446 36.000 0.00 0.00 44.11 3.06
3678 5121 6.540189 GCCATGACTTGAAGATAGTAACATGT 59.460 38.462 0.00 0.00 31.20 3.21
3719 7058 5.242795 TCTCCCTACTTTGAAAGGAAAGG 57.757 43.478 10.02 11.96 37.27 3.11
3724 7063 4.911390 ACACATCTCCCTACTTTGAAAGG 58.089 43.478 10.02 0.00 0.00 3.11
3734 7869 6.098409 GGTCATTCTAGAAACACATCTCCCTA 59.902 42.308 9.71 0.00 0.00 3.53
3811 7946 7.333528 ACTCTGTGATTTCTCAGATCTACTC 57.666 40.000 11.52 0.00 43.06 2.59
3812 7947 8.682710 GTTACTCTGTGATTTCTCAGATCTACT 58.317 37.037 11.52 0.00 43.06 2.57
3813 7948 8.682710 AGTTACTCTGTGATTTCTCAGATCTAC 58.317 37.037 11.52 9.76 43.06 2.59
3859 8210 4.870426 CGACAAATAATATGGATCGGAGGG 59.130 45.833 0.00 0.00 0.00 4.30
3863 8214 6.330278 TCTAGCGACAAATAATATGGATCGG 58.670 40.000 0.00 0.00 0.00 4.18
3864 8215 7.251281 TCTCTAGCGACAAATAATATGGATCG 58.749 38.462 0.00 0.00 0.00 3.69
3876 8227 5.472478 TCTTTGTACTCTCTCTAGCGACAAA 59.528 40.000 0.00 0.00 35.74 2.83
3940 8292 2.032290 GCCTTGGCCGTATTTCGTATTC 60.032 50.000 0.00 0.00 37.94 1.75
3943 8295 0.538118 AGCCTTGGCCGTATTTCGTA 59.462 50.000 8.17 0.00 37.94 3.43
3964 8316 1.702957 CACCCAAAAGGACTGACCCTA 59.297 52.381 0.00 0.00 39.89 3.53
3965 8317 0.478507 CACCCAAAAGGACTGACCCT 59.521 55.000 0.00 0.00 39.89 4.34
3966 8318 0.539669 CCACCCAAAAGGACTGACCC 60.540 60.000 0.00 0.00 39.89 4.46
3967 8319 1.179174 GCCACCCAAAAGGACTGACC 61.179 60.000 0.00 0.00 39.89 4.02
3968 8320 0.178990 AGCCACCCAAAAGGACTGAC 60.179 55.000 0.00 0.00 39.89 3.51
3969 8321 0.555769 AAGCCACCCAAAAGGACTGA 59.444 50.000 0.00 0.00 39.89 3.41
3970 8322 2.286365 TAAGCCACCCAAAAGGACTG 57.714 50.000 0.00 0.00 39.89 3.51
3971 8323 3.322191 TTTAAGCCACCCAAAAGGACT 57.678 42.857 0.00 0.00 39.89 3.85
3972 8324 4.409718 TTTTTAAGCCACCCAAAAGGAC 57.590 40.909 0.00 0.00 39.89 3.85
3999 8351 4.008074 TGTTTAAGCTGGGAAGAGACAG 57.992 45.455 0.00 0.00 37.76 3.51
4000 8352 4.640771 ATGTTTAAGCTGGGAAGAGACA 57.359 40.909 0.00 0.00 0.00 3.41
4001 8353 7.631717 ATTTATGTTTAAGCTGGGAAGAGAC 57.368 36.000 0.00 0.00 0.00 3.36
4002 8354 8.650143 AAATTTATGTTTAAGCTGGGAAGAGA 57.350 30.769 0.00 0.00 0.00 3.10
4003 8355 8.743714 AGAAATTTATGTTTAAGCTGGGAAGAG 58.256 33.333 0.00 0.00 0.00 2.85
4004 8356 8.650143 AGAAATTTATGTTTAAGCTGGGAAGA 57.350 30.769 0.00 0.00 0.00 2.87
4005 8357 9.143631 CAAGAAATTTATGTTTAAGCTGGGAAG 57.856 33.333 0.00 0.00 0.00 3.46
4006 8358 8.865090 TCAAGAAATTTATGTTTAAGCTGGGAA 58.135 29.630 0.00 0.00 0.00 3.97
4007 8359 8.415950 TCAAGAAATTTATGTTTAAGCTGGGA 57.584 30.769 0.00 0.00 0.00 4.37
4008 8360 8.522830 TCTCAAGAAATTTATGTTTAAGCTGGG 58.477 33.333 0.00 0.00 0.00 4.45
4009 8361 9.346725 GTCTCAAGAAATTTATGTTTAAGCTGG 57.653 33.333 0.00 0.00 0.00 4.85
4044 8396 8.248945 GCTTCTAAACTAGTGATGGTGTAACTA 58.751 37.037 0.00 0.00 36.74 2.24
4045 8397 7.097834 GCTTCTAAACTAGTGATGGTGTAACT 58.902 38.462 0.00 0.00 36.74 2.24
4046 8398 6.313164 GGCTTCTAAACTAGTGATGGTGTAAC 59.687 42.308 0.00 0.00 0.00 2.50
4047 8399 6.212791 AGGCTTCTAAACTAGTGATGGTGTAA 59.787 38.462 0.00 0.00 0.00 2.41
4048 8400 5.720041 AGGCTTCTAAACTAGTGATGGTGTA 59.280 40.000 0.00 0.00 0.00 2.90
4049 8401 4.532521 AGGCTTCTAAACTAGTGATGGTGT 59.467 41.667 0.00 0.00 0.00 4.16
4050 8402 5.091261 AGGCTTCTAAACTAGTGATGGTG 57.909 43.478 0.00 0.00 0.00 4.17
4051 8403 5.763876 AAGGCTTCTAAACTAGTGATGGT 57.236 39.130 0.00 0.00 0.00 3.55
4052 8404 6.758886 CACTAAGGCTTCTAAACTAGTGATGG 59.241 42.308 15.61 0.00 36.68 3.51
4053 8405 7.548097 TCACTAAGGCTTCTAAACTAGTGATG 58.452 38.462 18.14 0.00 38.09 3.07
4054 8406 7.719871 TCACTAAGGCTTCTAAACTAGTGAT 57.280 36.000 18.14 0.00 38.09 3.06
4055 8407 7.534723 TTCACTAAGGCTTCTAAACTAGTGA 57.465 36.000 18.14 18.14 40.29 3.41
4056 8408 9.871238 TTATTCACTAAGGCTTCTAAACTAGTG 57.129 33.333 14.84 14.84 36.11 2.74
4064 8416 8.932791 CGTTTTTCTTATTCACTAAGGCTTCTA 58.067 33.333 1.30 0.00 37.91 2.10
4065 8417 7.094762 CCGTTTTTCTTATTCACTAAGGCTTCT 60.095 37.037 1.30 0.00 37.91 2.85
4066 8418 7.021790 CCGTTTTTCTTATTCACTAAGGCTTC 58.978 38.462 1.30 0.00 37.91 3.86
4067 8419 6.489022 ACCGTTTTTCTTATTCACTAAGGCTT 59.511 34.615 4.58 4.58 37.91 4.35
4068 8420 6.002082 ACCGTTTTTCTTATTCACTAAGGCT 58.998 36.000 0.00 0.00 37.91 4.58
4069 8421 6.250344 ACCGTTTTTCTTATTCACTAAGGC 57.750 37.500 0.00 0.00 37.91 4.35
4074 8426 8.842280 TCACATAAACCGTTTTTCTTATTCACT 58.158 29.630 0.96 0.00 0.00 3.41
4075 8427 9.453325 TTCACATAAACCGTTTTTCTTATTCAC 57.547 29.630 0.96 0.00 0.00 3.18
4079 8431 8.974408 GCTTTTCACATAAACCGTTTTTCTTAT 58.026 29.630 0.96 0.00 0.00 1.73
4080 8432 8.192110 AGCTTTTCACATAAACCGTTTTTCTTA 58.808 29.630 0.96 0.00 0.00 2.10
4081 8433 7.039270 AGCTTTTCACATAAACCGTTTTTCTT 58.961 30.769 0.96 0.00 0.00 2.52
4082 8434 6.569780 AGCTTTTCACATAAACCGTTTTTCT 58.430 32.000 0.96 0.00 0.00 2.52
4083 8435 6.822073 AGCTTTTCACATAAACCGTTTTTC 57.178 33.333 0.96 0.00 0.00 2.29
4084 8436 7.708998 TCTAGCTTTTCACATAAACCGTTTTT 58.291 30.769 0.96 0.00 0.00 1.94
4085 8437 7.227910 TCTCTAGCTTTTCACATAAACCGTTTT 59.772 33.333 0.96 0.00 0.00 2.43
4086 8438 6.708949 TCTCTAGCTTTTCACATAAACCGTTT 59.291 34.615 1.40 1.40 0.00 3.60
4087 8439 6.228258 TCTCTAGCTTTTCACATAAACCGTT 58.772 36.000 0.00 0.00 0.00 4.44
4088 8440 5.790593 TCTCTAGCTTTTCACATAAACCGT 58.209 37.500 0.00 0.00 0.00 4.83
4089 8441 6.910536 ATCTCTAGCTTTTCACATAAACCG 57.089 37.500 0.00 0.00 0.00 4.44
4090 8442 9.601217 TCTAATCTCTAGCTTTTCACATAAACC 57.399 33.333 0.00 0.00 0.00 3.27
4095 8447 8.869109 AGCTATCTAATCTCTAGCTTTTCACAT 58.131 33.333 0.00 0.00 44.34 3.21
4096 8448 8.243961 AGCTATCTAATCTCTAGCTTTTCACA 57.756 34.615 0.00 0.00 44.34 3.58
4124 8476 5.901552 CCAGTTCTTTTGGCAGACTAAAAA 58.098 37.500 0.00 0.00 0.00 1.94
4125 8477 5.514274 CCAGTTCTTTTGGCAGACTAAAA 57.486 39.130 0.00 0.00 0.00 1.52
4135 8487 2.586648 ACTAGGGCCAGTTCTTTTGG 57.413 50.000 6.18 0.00 38.78 3.28
4136 8488 5.048713 CACTTTACTAGGGCCAGTTCTTTTG 60.049 44.000 6.18 0.00 0.00 2.44
4137 8489 5.070685 CACTTTACTAGGGCCAGTTCTTTT 58.929 41.667 6.18 0.00 0.00 2.27
4138 8490 4.349930 TCACTTTACTAGGGCCAGTTCTTT 59.650 41.667 6.18 0.00 0.00 2.52
4139 8491 3.908103 TCACTTTACTAGGGCCAGTTCTT 59.092 43.478 6.18 0.00 0.00 2.52
4140 8492 3.517612 TCACTTTACTAGGGCCAGTTCT 58.482 45.455 6.18 0.00 0.00 3.01
4141 8493 3.975168 TCACTTTACTAGGGCCAGTTC 57.025 47.619 6.18 0.00 0.00 3.01
4142 8494 3.651423 AGTTCACTTTACTAGGGCCAGTT 59.349 43.478 6.18 0.00 0.00 3.16
4143 8495 3.248888 AGTTCACTTTACTAGGGCCAGT 58.751 45.455 6.18 10.09 0.00 4.00
4144 8496 3.983044 AGTTCACTTTACTAGGGCCAG 57.017 47.619 6.18 3.63 0.00 4.85
4145 8497 4.161876 TGTAGTTCACTTTACTAGGGCCA 58.838 43.478 6.18 0.00 0.00 5.36
4146 8498 4.756502 CTGTAGTTCACTTTACTAGGGCC 58.243 47.826 0.00 0.00 0.00 5.80
4147 8499 4.182339 GCTGTAGTTCACTTTACTAGGGC 58.818 47.826 0.00 0.00 0.00 5.19
4148 8500 4.222145 TGGCTGTAGTTCACTTTACTAGGG 59.778 45.833 0.00 0.00 0.00 3.53
4149 8501 5.401531 TGGCTGTAGTTCACTTTACTAGG 57.598 43.478 0.00 0.00 0.00 3.02
4150 8502 7.201444 CGATTTGGCTGTAGTTCACTTTACTAG 60.201 40.741 0.00 0.00 0.00 2.57
4177 8529 4.836125 ATGAGTGACATTTTCGCTGTTT 57.164 36.364 0.00 0.00 45.59 2.83
4186 8538 3.753272 GTGCAGGTGTATGAGTGACATTT 59.247 43.478 0.00 0.00 40.07 2.32
4191 8543 3.769300 AGTATGTGCAGGTGTATGAGTGA 59.231 43.478 0.00 0.00 0.00 3.41
4197 8549 4.826274 AGTGAAGTATGTGCAGGTGTAT 57.174 40.909 0.00 0.00 0.00 2.29
4233 8585 2.431057 GGGCGACTCAAGAGGATTTCTA 59.569 50.000 1.73 0.00 34.14 2.10
4273 8629 9.613428 CAACCTAAGTATGTTCAAGGATTATGA 57.387 33.333 0.00 0.00 0.00 2.15
4294 8653 0.046242 TGGAGGATCATCCCCAACCT 59.954 55.000 23.08 0.00 37.19 3.50
4297 8656 1.294986 TCTCTGGAGGATCATCCCCAA 59.705 52.381 23.08 7.97 36.75 4.12
4298 8657 0.944238 TCTCTGGAGGATCATCCCCA 59.056 55.000 23.08 12.10 37.19 4.96
4329 8688 7.770897 AGCGTTTTGATGAGGATCTTATAGTTT 59.229 33.333 0.00 0.00 34.92 2.66
4335 8694 7.327975 TCTTTAGCGTTTTGATGAGGATCTTA 58.672 34.615 0.00 0.00 34.92 2.10
4346 8705 4.062991 GGAGTCCTTCTTTAGCGTTTTGA 58.937 43.478 0.41 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.