Multiple sequence alignment - TraesCS7A01G206500

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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 TraesCS7A01G206500 chr7A 100.000 3423 0 0 1 3423 169027353 169023931 0.000000e+00 6322.0
1 TraesCS7A01G206500 chr7A 100.000 614 0 0 3684 4297 169023670 169023057 0.000000e+00 1134.0
2 TraesCS7A01G206500 chr7A 94.805 154 8 0 3270 3423 54837321 54837168 1.540000e-59 241.0
3 TraesCS7A01G206500 chr7A 94.805 154 8 0 3270 3423 85122912 85123065 1.540000e-59 241.0
4 TraesCS7A01G206500 chr7A 93.793 145 9 0 3269 3413 426645734 426645878 7.230000e-53 219.0
5 TraesCS7A01G206500 chr7A 91.026 156 11 2 3268 3421 539717663 539717817 1.570000e-49 207.0
6 TraesCS7A01G206500 chr7A 89.375 160 12 3 3269 3423 272942093 272941934 3.390000e-46 196.0
7 TraesCS7A01G206500 chr7A 88.000 50 4 2 501 550 116790222 116790269 1.670000e-04 58.4
8 TraesCS7A01G206500 chr7B 90.838 2292 130 41 1009 3267 131947809 131945565 0.000000e+00 2996.0
9 TraesCS7A01G206500 chr7B 93.236 547 30 6 308 853 131948512 131947972 0.000000e+00 798.0
10 TraesCS7A01G206500 chr7B 92.691 301 13 8 17 312 131949045 131948749 3.970000e-115 425.0
11 TraesCS7A01G206500 chr7B 81.882 287 43 7 1110 1393 131956882 131956602 2.580000e-57 233.0
12 TraesCS7A01G206500 chr7B 94.156 154 6 3 867 1019 131947986 131947835 9.290000e-57 231.0
13 TraesCS7A01G206500 chr7B 78.947 171 36 0 2172 2342 131955440 131955270 2.710000e-22 117.0
14 TraesCS7A01G206500 chr7D 91.413 1479 83 16 1832 3267 167531010 167529533 0.000000e+00 1988.0
15 TraesCS7A01G206500 chr7D 90.699 1344 65 23 880 2168 167532165 167530827 0.000000e+00 1735.0
16 TraesCS7A01G206500 chr7D 84.512 820 76 31 46 851 167532940 167532158 0.000000e+00 763.0
17 TraesCS7A01G206500 chr7D 83.275 287 39 7 1110 1393 167551142 167550862 5.510000e-64 255.0
18 TraesCS7A01G206500 chr7D 90.000 160 9 4 3268 3421 529487397 529487239 2.620000e-47 200.0
19 TraesCS7A01G206500 chr7D 81.871 171 20 10 1832 1993 167530821 167530653 2.700000e-27 134.0
20 TraesCS7A01G206500 chr5A 94.300 614 35 0 3684 4297 200593902 200594515 0.000000e+00 941.0
21 TraesCS7A01G206500 chr5A 88.100 479 50 4 3684 4159 546997813 546998287 2.900000e-156 562.0
22 TraesCS7A01G206500 chr5A 86.525 282 35 2 4018 4297 546998188 546998468 1.500000e-79 307.0
23 TraesCS7A01G206500 chr4A 88.935 479 46 5 3684 4159 516286205 516286679 6.190000e-163 584.0
24 TraesCS7A01G206500 chr4A 82.988 241 38 3 3684 3922 543345782 543345543 9.360000e-52 215.0
25 TraesCS7A01G206500 chr3A 88.009 442 47 3 3684 4123 531267434 531267871 6.370000e-143 518.0
26 TraesCS7A01G206500 chr3A 88.533 375 37 3 3751 4123 531269369 531269739 2.360000e-122 449.0
27 TraesCS7A01G206500 chr3A 88.533 375 37 3 3751 4123 531270303 531270673 2.360000e-122 449.0
28 TraesCS7A01G206500 chr3A 86.165 412 50 4 3751 4159 531268435 531268842 5.100000e-119 438.0
29 TraesCS7A01G206500 chr3A 87.189 281 33 2 4018 4296 531269677 531269956 2.490000e-82 316.0
30 TraesCS7A01G206500 chr3A 86.879 282 34 2 4018 4297 531270611 531270891 3.230000e-81 313.0
31 TraesCS7A01G206500 chr3A 86.477 281 35 2 4018 4296 531268743 531269022 5.400000e-79 305.0
32 TraesCS7A01G206500 chr3A 96.154 156 6 0 3268 3423 191529882 191529727 5.510000e-64 255.0
33 TraesCS7A01G206500 chr3A 91.667 156 10 3 3268 3421 579386518 579386364 3.370000e-51 213.0
34 TraesCS7A01G206500 chr2A 88.517 418 42 3 3708 4123 138523316 138523729 6.410000e-138 501.0
35 TraesCS7A01G206500 chr2A 93.590 156 9 1 3269 3423 9364592 9364437 9.290000e-57 231.0
36 TraesCS7A01G206500 chr3D 91.532 248 17 2 4050 4297 607102250 607102007 5.320000e-89 339.0
37 TraesCS7A01G206500 chr3D 83.117 77 6 6 508 582 583971421 583971492 3.590000e-06 63.9
38 TraesCS7A01G206500 chr3D 94.286 35 2 0 515 549 62169397 62169363 2.000000e-03 54.7
39 TraesCS7A01G206500 chr1D 75.728 618 116 26 2396 2996 349255621 349255021 3.270000e-71 279.0
40 TraesCS7A01G206500 chr1D 74.059 717 134 39 2295 2991 349479695 349479011 3.320000e-61 246.0
41 TraesCS7A01G206500 chr1B 75.728 618 116 27 2396 2996 470913263 470912663 3.270000e-71 279.0
42 TraesCS7A01G206500 chrUn 89.286 224 20 2 4076 4297 310260740 310260961 1.180000e-70 278.0
43 TraesCS7A01G206500 chrUn 89.593 221 19 2 4079 4297 311477595 311477377 1.180000e-70 278.0
44 TraesCS7A01G206500 chr1A 75.728 618 112 30 2396 2994 449625586 449624988 4.230000e-70 276.0
45 TraesCS7A01G206500 chr1A 84.615 130 15 4 483 610 392049402 392049276 1.620000e-24 124.0
46 TraesCS7A01G206500 chr5D 94.444 36 2 0 507 542 348271246 348271211 6.000000e-04 56.5
47 TraesCS7A01G206500 chr5B 94.444 36 2 0 507 542 408387700 408387665 6.000000e-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 TraesCS7A01G206500 chr7A 169023057 169027353 4296 True 3728.000000 6322 100.000000 1 4297 2 chr7A.!!$R3 4296
1 TraesCS7A01G206500 chr7B 131945565 131949045 3480 True 1112.500000 2996 92.730250 17 3267 4 chr7B.!!$R1 3250
2 TraesCS7A01G206500 chr7D 167529533 167532940 3407 True 1155.000000 1988 87.123750 46 3267 4 chr7D.!!$R3 3221
3 TraesCS7A01G206500 chr5A 200593902 200594515 613 False 941.000000 941 94.300000 3684 4297 1 chr5A.!!$F1 613
4 TraesCS7A01G206500 chr5A 546997813 546998468 655 False 434.500000 562 87.312500 3684 4297 2 chr5A.!!$F2 613
5 TraesCS7A01G206500 chr3A 531267434 531270891 3457 False 398.285714 518 87.397857 3684 4297 7 chr3A.!!$F1 613
6 TraesCS7A01G206500 chr1D 349255021 349255621 600 True 279.000000 279 75.728000 2396 2996 1 chr1D.!!$R1 600
7 TraesCS7A01G206500 chr1D 349479011 349479695 684 True 246.000000 246 74.059000 2295 2991 1 chr1D.!!$R2 696
8 TraesCS7A01G206500 chr1B 470912663 470913263 600 True 279.000000 279 75.728000 2396 2996 1 chr1B.!!$R1 600
9 TraesCS7A01G206500 chr1A 449624988 449625586 598 True 276.000000 276 75.728000 2396 2994 1 chr1A.!!$R2 598

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
986 1245 2.352814 CCGACGAACACAAGATTCCTCT 60.353 50.0 0.00 0.0 0.0 3.69 F
2806 3347 0.904865 TGAAGACGGTCATGGAGCCT 60.905 55.0 11.27 0.0 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2896 3437 0.180171 CGGGCATCCTGGTTATCACA 59.820 55.0 0.00 0.0 0.0 3.58 R
3966 5462 0.443869 CTCAAAGTCAATCGGCGTGG 59.556 55.0 6.85 0.0 0.0 4.94 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
879 1138 7.624360 TTTTGAGACACATCACTTGTTTAGT 57.376 32.000 0.00 0.00 36.00 2.24
880 1139 7.624360 TTTGAGACACATCACTTGTTTAGTT 57.376 32.000 0.00 0.00 36.00 2.24
986 1245 2.352814 CCGACGAACACAAGATTCCTCT 60.353 50.000 0.00 0.00 0.00 3.69
1007 1266 1.298014 CCCCCAGTTGTCTCAGCTC 59.702 63.158 0.00 0.00 0.00 4.09
1394 1698 2.370281 TCAAGCTCACCGTCTGATTC 57.630 50.000 0.00 0.00 0.00 2.52
1578 1892 4.202192 TGTGCACAACAATGGCTTTATTCA 60.202 37.500 19.28 0.00 35.24 2.57
1580 1894 4.749099 TGCACAACAATGGCTTTATTCAAC 59.251 37.500 0.00 0.00 0.00 3.18
1592 1906 4.458989 GCTTTATTCAACCAGTCCACATGA 59.541 41.667 0.00 0.00 0.00 3.07
1624 1938 6.139679 AGGATTAAAGGTCATGTCCAAGAA 57.860 37.500 11.70 2.38 0.00 2.52
1638 1954 6.682423 TGTCCAAGAATGTTGCTATGTATG 57.318 37.500 0.00 0.00 0.00 2.39
1708 2024 2.634815 AGAGCTATGGTGCCAAGATG 57.365 50.000 0.00 0.00 0.00 2.90
1761 2077 6.015603 TCACATGAATTTGCCATCAAACACTA 60.016 34.615 0.00 0.00 44.11 2.74
1762 2078 6.309494 CACATGAATTTGCCATCAAACACTAG 59.691 38.462 0.00 0.00 44.11 2.57
1774 2090 4.069304 TCAAACACTAGCAAATAACCGCT 58.931 39.130 0.00 0.00 42.34 5.52
1837 2153 7.856145 AGAAACCTGATATTAGCTCAACTTG 57.144 36.000 0.00 0.00 0.00 3.16
1881 2198 7.244886 TCTCTGTTTCTGATCTCCATACAAA 57.755 36.000 0.00 0.00 0.00 2.83
1883 2200 6.173339 TCTGTTTCTGATCTCCATACAAACC 58.827 40.000 0.00 0.00 0.00 3.27
1891 2208 6.720309 TGATCTCCATACAAACCTTGAATGA 58.280 36.000 0.00 0.00 0.00 2.57
1894 2211 5.705441 TCTCCATACAAACCTTGAATGACAC 59.295 40.000 0.00 0.00 0.00 3.67
1948 2475 1.810755 CAGTGCCTGCATATAGCCATG 59.189 52.381 0.00 0.00 44.83 3.66
1963 2490 9.617975 CATATAGCCATGTACTGATATACATCG 57.382 37.037 0.00 0.00 42.63 3.84
2025 2552 8.709386 ACTTGCTAGTGAACTAGATACATTTG 57.291 34.615 19.39 6.16 46.80 2.32
2104 2631 3.221771 CAGATCTGTCTGCCTAGCTAGT 58.778 50.000 19.31 0.00 44.86 2.57
2356 2883 2.285368 TCCGGGAGCCAGTTGGAT 60.285 61.111 0.00 0.00 37.39 3.41
2473 3000 4.519437 CTGCGCATGCTCTCCGGA 62.519 66.667 12.24 2.93 43.34 5.14
2515 3042 1.527380 GTGCCCCACGGAGTTGAAA 60.527 57.895 0.00 0.00 41.61 2.69
2569 3110 1.666011 CAGCCAGTACACGGACAGT 59.334 57.895 5.57 0.00 0.00 3.55
2806 3347 0.904865 TGAAGACGGTCATGGAGCCT 60.905 55.000 11.27 0.00 0.00 4.58
2857 3398 2.582436 CGGCGGTCCATGGTACTT 59.418 61.111 12.58 0.00 0.00 2.24
2893 3434 3.114616 GTGTGCTGCTGCGACGAT 61.115 61.111 11.21 0.00 43.34 3.73
2896 3437 4.747529 TGCTGCTGCGACGATGCT 62.748 61.111 11.21 0.00 43.34 3.79
2902 3443 0.871592 GCTGCGACGATGCTGTGATA 60.872 55.000 0.00 0.00 36.33 2.15
3023 3564 3.358076 CTGGAAGAGGCGTCCGTCC 62.358 68.421 16.25 16.25 38.06 4.79
3047 3588 1.826921 AGGTCGCCGTCGGTGATAT 60.827 57.895 28.90 18.01 44.40 1.63
3078 3619 2.574006 TCAAAGAAGCTGCAGGATGT 57.426 45.000 17.12 0.00 39.31 3.06
3092 3633 2.093973 CAGGATGTAGCCGAGAAACAGT 60.094 50.000 0.00 0.00 0.00 3.55
3135 3679 5.486526 ACTCTTTCCATCTCATGAGTTCAC 58.513 41.667 21.92 0.00 31.71 3.18
3149 3693 3.959478 TTCACGAGAACAAGTCGCT 57.041 47.368 0.00 0.00 41.26 4.93
3150 3694 1.487482 TTCACGAGAACAAGTCGCTG 58.513 50.000 0.00 0.00 41.26 5.18
3152 3696 1.202371 TCACGAGAACAAGTCGCTGTT 60.202 47.619 0.00 0.00 42.23 3.16
3157 3701 2.951676 GAACAAGTCGCTGTTCCTTC 57.048 50.000 11.57 0.00 46.29 3.46
3158 3702 2.484889 GAACAAGTCGCTGTTCCTTCT 58.515 47.619 11.57 0.00 46.29 2.85
3176 3738 2.031120 TCTTTTTGGCACCACTGGAAG 58.969 47.619 0.71 0.00 42.29 3.46
3206 3768 2.909965 TGGGAACAAAGCGTGGGC 60.910 61.111 0.00 0.00 37.44 5.36
3231 3793 6.685527 ACGGCCACAATTTTTGTTTTTAAT 57.314 29.167 2.24 0.00 43.23 1.40
3237 3799 8.773645 GCCACAATTTTTGTTTTTAATAGCTCT 58.226 29.630 0.00 0.00 43.23 4.09
3246 3808 7.615582 TGTTTTTAATAGCTCTGACTGATGG 57.384 36.000 0.00 0.00 0.00 3.51
3267 3829 4.895297 TGGTCTGAAAGGAAAAGCAAAGAT 59.105 37.500 0.00 0.00 0.00 2.40
3268 3830 5.363580 TGGTCTGAAAGGAAAAGCAAAGATT 59.636 36.000 0.00 0.00 0.00 2.40
3269 3831 6.549364 TGGTCTGAAAGGAAAAGCAAAGATTA 59.451 34.615 0.00 0.00 0.00 1.75
3270 3832 6.863645 GGTCTGAAAGGAAAAGCAAAGATTAC 59.136 38.462 0.00 0.00 0.00 1.89
3271 3833 6.863645 GTCTGAAAGGAAAAGCAAAGATTACC 59.136 38.462 0.00 0.00 0.00 2.85
3272 3834 5.768317 TGAAAGGAAAAGCAAAGATTACCG 58.232 37.500 0.00 0.00 0.00 4.02
3273 3835 5.533154 TGAAAGGAAAAGCAAAGATTACCGA 59.467 36.000 0.00 0.00 0.00 4.69
3274 3836 6.039941 TGAAAGGAAAAGCAAAGATTACCGAA 59.960 34.615 0.00 0.00 0.00 4.30
3275 3837 6.399639 AAGGAAAAGCAAAGATTACCGAAA 57.600 33.333 0.00 0.00 0.00 3.46
3276 3838 6.399639 AGGAAAAGCAAAGATTACCGAAAA 57.600 33.333 0.00 0.00 0.00 2.29
3277 3839 6.811954 AGGAAAAGCAAAGATTACCGAAAAA 58.188 32.000 0.00 0.00 0.00 1.94
3278 3840 6.923508 AGGAAAAGCAAAGATTACCGAAAAAG 59.076 34.615 0.00 0.00 0.00 2.27
3279 3841 6.145534 GGAAAAGCAAAGATTACCGAAAAAGG 59.854 38.462 0.00 0.00 37.30 3.11
3280 3842 4.174411 AGCAAAGATTACCGAAAAAGGC 57.826 40.909 0.00 0.00 33.69 4.35
3281 3843 3.826729 AGCAAAGATTACCGAAAAAGGCT 59.173 39.130 0.00 0.00 33.69 4.58
3282 3844 4.280929 AGCAAAGATTACCGAAAAAGGCTT 59.719 37.500 0.00 0.00 33.69 4.35
3283 3845 4.988540 GCAAAGATTACCGAAAAAGGCTTT 59.011 37.500 6.68 6.68 33.69 3.51
3284 3846 5.118664 GCAAAGATTACCGAAAAAGGCTTTC 59.881 40.000 13.76 0.41 33.69 2.62
3286 3848 2.691984 TTACCGAAAAAGGCTTTCGC 57.308 45.000 13.76 7.41 46.89 4.70
3296 3858 3.509659 GCTTTCGCCCCGCTTTAT 58.490 55.556 0.00 0.00 0.00 1.40
3297 3859 2.697819 GCTTTCGCCCCGCTTTATA 58.302 52.632 0.00 0.00 0.00 0.98
3298 3860 1.018910 GCTTTCGCCCCGCTTTATAA 58.981 50.000 0.00 0.00 0.00 0.98
3299 3861 1.402613 GCTTTCGCCCCGCTTTATAAA 59.597 47.619 0.00 0.00 0.00 1.40
3300 3862 2.034179 GCTTTCGCCCCGCTTTATAAAT 59.966 45.455 0.00 0.00 0.00 1.40
3301 3863 3.251487 GCTTTCGCCCCGCTTTATAAATA 59.749 43.478 0.00 0.00 0.00 1.40
3302 3864 4.261280 GCTTTCGCCCCGCTTTATAAATAA 60.261 41.667 0.00 0.00 0.00 1.40
3303 3865 5.733937 GCTTTCGCCCCGCTTTATAAATAAA 60.734 40.000 0.00 0.00 0.00 1.40
3315 3877 7.216920 CTTTATAAATAAAGCAAACCGCCAC 57.783 36.000 9.01 0.00 41.69 5.01
3316 3878 4.792521 ATAAATAAAGCAAACCGCCACA 57.207 36.364 0.00 0.00 44.04 4.17
3317 3879 2.723124 AATAAAGCAAACCGCCACAG 57.277 45.000 0.00 0.00 44.04 3.66
3318 3880 1.904287 ATAAAGCAAACCGCCACAGA 58.096 45.000 0.00 0.00 44.04 3.41
3319 3881 1.234821 TAAAGCAAACCGCCACAGAG 58.765 50.000 0.00 0.00 44.04 3.35
3320 3882 2.075426 AAAGCAAACCGCCACAGAGC 62.075 55.000 0.00 0.00 44.04 4.09
3321 3883 3.286751 GCAAACCGCCACAGAGCA 61.287 61.111 0.00 0.00 32.94 4.26
3322 3884 2.639286 CAAACCGCCACAGAGCAC 59.361 61.111 0.00 0.00 0.00 4.40
3323 3885 2.186160 CAAACCGCCACAGAGCACA 61.186 57.895 0.00 0.00 0.00 4.57
3324 3886 2.186826 AAACCGCCACAGAGCACAC 61.187 57.895 0.00 0.00 0.00 3.82
3325 3887 2.884997 AAACCGCCACAGAGCACACA 62.885 55.000 0.00 0.00 0.00 3.72
3326 3888 2.359107 CCGCCACAGAGCACACAT 60.359 61.111 0.00 0.00 0.00 3.21
3327 3889 1.079197 CCGCCACAGAGCACACATA 60.079 57.895 0.00 0.00 0.00 2.29
3328 3890 1.361668 CCGCCACAGAGCACACATAC 61.362 60.000 0.00 0.00 0.00 2.39
3329 3891 0.670239 CGCCACAGAGCACACATACA 60.670 55.000 0.00 0.00 0.00 2.29
3330 3892 1.522668 GCCACAGAGCACACATACAA 58.477 50.000 0.00 0.00 0.00 2.41
3331 3893 1.466167 GCCACAGAGCACACATACAAG 59.534 52.381 0.00 0.00 0.00 3.16
3332 3894 2.079158 CCACAGAGCACACATACAAGG 58.921 52.381 0.00 0.00 0.00 3.61
3333 3895 2.289631 CCACAGAGCACACATACAAGGA 60.290 50.000 0.00 0.00 0.00 3.36
3334 3896 2.738846 CACAGAGCACACATACAAGGAC 59.261 50.000 0.00 0.00 0.00 3.85
3335 3897 2.368548 ACAGAGCACACATACAAGGACA 59.631 45.455 0.00 0.00 0.00 4.02
3336 3898 3.181455 ACAGAGCACACATACAAGGACAA 60.181 43.478 0.00 0.00 0.00 3.18
3337 3899 3.434641 CAGAGCACACATACAAGGACAAG 59.565 47.826 0.00 0.00 0.00 3.16
3338 3900 3.071602 AGAGCACACATACAAGGACAAGT 59.928 43.478 0.00 0.00 0.00 3.16
3339 3901 3.815401 GAGCACACATACAAGGACAAGTT 59.185 43.478 0.00 0.00 0.00 2.66
3340 3902 3.815401 AGCACACATACAAGGACAAGTTC 59.185 43.478 0.00 0.00 0.00 3.01
3341 3903 3.563808 GCACACATACAAGGACAAGTTCA 59.436 43.478 0.00 0.00 0.00 3.18
3342 3904 4.554723 GCACACATACAAGGACAAGTTCAC 60.555 45.833 0.00 0.00 0.00 3.18
3343 3905 4.574421 CACACATACAAGGACAAGTTCACA 59.426 41.667 0.00 0.00 0.00 3.58
3344 3906 4.574828 ACACATACAAGGACAAGTTCACAC 59.425 41.667 0.00 0.00 0.00 3.82
3345 3907 3.807622 ACATACAAGGACAAGTTCACACG 59.192 43.478 0.00 0.00 0.00 4.49
3346 3908 1.014352 ACAAGGACAAGTTCACACGC 58.986 50.000 0.00 0.00 0.00 5.34
3347 3909 1.013596 CAAGGACAAGTTCACACGCA 58.986 50.000 0.00 0.00 0.00 5.24
3348 3910 1.014352 AAGGACAAGTTCACACGCAC 58.986 50.000 0.00 0.00 0.00 5.34
3349 3911 0.107897 AGGACAAGTTCACACGCACA 60.108 50.000 0.00 0.00 0.00 4.57
3350 3912 0.027586 GGACAAGTTCACACGCACAC 59.972 55.000 0.00 0.00 0.00 3.82
3351 3913 0.724549 GACAAGTTCACACGCACACA 59.275 50.000 0.00 0.00 0.00 3.72
3352 3914 1.129624 GACAAGTTCACACGCACACAA 59.870 47.619 0.00 0.00 0.00 3.33
3353 3915 1.130373 ACAAGTTCACACGCACACAAG 59.870 47.619 0.00 0.00 0.00 3.16
3354 3916 1.130373 CAAGTTCACACGCACACAAGT 59.870 47.619 0.00 0.00 0.00 3.16
3355 3917 1.006832 AGTTCACACGCACACAAGTC 58.993 50.000 0.00 0.00 0.00 3.01
3356 3918 1.006832 GTTCACACGCACACAAGTCT 58.993 50.000 0.00 0.00 0.00 3.24
3357 3919 1.004927 GTTCACACGCACACAAGTCTC 60.005 52.381 0.00 0.00 0.00 3.36
3358 3920 0.174617 TCACACGCACACAAGTCTCA 59.825 50.000 0.00 0.00 0.00 3.27
3359 3921 0.301687 CACACGCACACAAGTCTCAC 59.698 55.000 0.00 0.00 0.00 3.51
3360 3922 0.108377 ACACGCACACAAGTCTCACA 60.108 50.000 0.00 0.00 0.00 3.58
3361 3923 1.006086 CACGCACACAAGTCTCACAA 58.994 50.000 0.00 0.00 0.00 3.33
3362 3924 1.396648 CACGCACACAAGTCTCACAAA 59.603 47.619 0.00 0.00 0.00 2.83
3363 3925 1.396996 ACGCACACAAGTCTCACAAAC 59.603 47.619 0.00 0.00 0.00 2.93
3364 3926 1.396648 CGCACACAAGTCTCACAAACA 59.603 47.619 0.00 0.00 0.00 2.83
3365 3927 2.159585 CGCACACAAGTCTCACAAACAA 60.160 45.455 0.00 0.00 0.00 2.83
3366 3928 3.429085 GCACACAAGTCTCACAAACAAG 58.571 45.455 0.00 0.00 0.00 3.16
3367 3929 3.126858 GCACACAAGTCTCACAAACAAGA 59.873 43.478 0.00 0.00 0.00 3.02
3368 3930 4.728882 GCACACAAGTCTCACAAACAAGAG 60.729 45.833 0.00 0.00 0.00 2.85
3369 3931 3.941483 ACACAAGTCTCACAAACAAGAGG 59.059 43.478 0.00 0.00 32.76 3.69
3370 3932 4.191544 CACAAGTCTCACAAACAAGAGGA 58.808 43.478 0.00 0.00 32.76 3.71
3371 3933 4.635765 CACAAGTCTCACAAACAAGAGGAA 59.364 41.667 0.00 0.00 32.76 3.36
3372 3934 4.878397 ACAAGTCTCACAAACAAGAGGAAG 59.122 41.667 0.00 0.00 32.76 3.46
3373 3935 4.078639 AGTCTCACAAACAAGAGGAAGG 57.921 45.455 0.00 0.00 32.76 3.46
3374 3936 3.456277 AGTCTCACAAACAAGAGGAAGGT 59.544 43.478 0.00 0.00 32.76 3.50
3375 3937 4.080299 AGTCTCACAAACAAGAGGAAGGTT 60.080 41.667 0.00 0.00 32.76 3.50
3376 3938 4.640647 GTCTCACAAACAAGAGGAAGGTTT 59.359 41.667 0.00 0.00 35.27 3.27
3377 3939 5.125578 GTCTCACAAACAAGAGGAAGGTTTT 59.874 40.000 0.00 0.00 32.79 2.43
3378 3940 5.125417 TCTCACAAACAAGAGGAAGGTTTTG 59.875 40.000 0.00 0.00 32.79 2.44
3379 3941 3.865164 CACAAACAAGAGGAAGGTTTTGC 59.135 43.478 0.00 0.00 32.79 3.68
3380 3942 3.769300 ACAAACAAGAGGAAGGTTTTGCT 59.231 39.130 0.00 0.00 37.73 3.91
3381 3943 4.114794 CAAACAAGAGGAAGGTTTTGCTG 58.885 43.478 0.00 0.00 34.85 4.41
3382 3944 3.297134 ACAAGAGGAAGGTTTTGCTGA 57.703 42.857 0.00 0.00 34.85 4.26
3383 3945 3.217626 ACAAGAGGAAGGTTTTGCTGAG 58.782 45.455 0.00 0.00 34.85 3.35
3384 3946 2.555757 CAAGAGGAAGGTTTTGCTGAGG 59.444 50.000 0.00 0.00 34.85 3.86
3385 3947 1.074566 AGAGGAAGGTTTTGCTGAGGG 59.925 52.381 0.00 0.00 34.85 4.30
3386 3948 0.540597 AGGAAGGTTTTGCTGAGGGC 60.541 55.000 0.00 0.00 42.22 5.19
3395 3957 4.481195 GCTGAGGGCACAACTCAA 57.519 55.556 0.00 0.00 43.74 3.02
3396 3958 1.952263 GCTGAGGGCACAACTCAAC 59.048 57.895 0.00 0.00 43.74 3.18
3397 3959 0.819259 GCTGAGGGCACAACTCAACA 60.819 55.000 0.00 0.00 43.74 3.33
3398 3960 1.679139 CTGAGGGCACAACTCAACAA 58.321 50.000 0.00 0.00 43.74 2.83
3399 3961 1.605710 CTGAGGGCACAACTCAACAAG 59.394 52.381 0.00 0.00 43.74 3.16
3400 3962 0.312102 GAGGGCACAACTCAACAAGC 59.688 55.000 0.00 0.00 35.09 4.01
3401 3963 0.106519 AGGGCACAACTCAACAAGCT 60.107 50.000 0.00 0.00 0.00 3.74
3402 3964 0.312102 GGGCACAACTCAACAAGCTC 59.688 55.000 0.00 0.00 0.00 4.09
3403 3965 1.024271 GGCACAACTCAACAAGCTCA 58.976 50.000 0.00 0.00 0.00 4.26
3404 3966 1.405105 GGCACAACTCAACAAGCTCAA 59.595 47.619 0.00 0.00 0.00 3.02
3405 3967 2.159254 GGCACAACTCAACAAGCTCAAA 60.159 45.455 0.00 0.00 0.00 2.69
3406 3968 3.510719 GCACAACTCAACAAGCTCAAAA 58.489 40.909 0.00 0.00 0.00 2.44
3407 3969 3.925913 GCACAACTCAACAAGCTCAAAAA 59.074 39.130 0.00 0.00 0.00 1.94
3730 4292 2.288030 ACTGGTTTTCGGTAGACTCACG 60.288 50.000 0.00 0.00 32.15 4.35
3893 5389 0.443869 CACGGCAACTGATTTCTCCG 59.556 55.000 0.00 0.00 42.24 4.63
3896 5392 1.673033 CGGCAACTGATTTCTCCGTCT 60.673 52.381 0.00 0.00 32.93 4.18
4189 6662 0.967887 CAGAGTCTCGAGGGGAAGCA 60.968 60.000 13.56 0.00 0.00 3.91
4229 7636 1.583054 GTTGAGTGGAAGTCGTTGCT 58.417 50.000 0.00 0.00 39.85 3.91
4232 7639 1.134521 TGAGTGGAAGTCGTTGCTGTT 60.135 47.619 0.00 0.00 39.85 3.16
4275 7682 1.272092 CCTTGGTGAAGCCTCCAATGA 60.272 52.381 0.00 0.00 42.84 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
282 297 3.507103 ACATATTTTGAAGCGCATGCA 57.493 38.095 19.57 0.52 46.23 3.96
383 640 9.829507 TGAACATTTTTCAGATACACCATTTTT 57.170 25.926 0.00 0.00 0.00 1.94
428 686 8.853077 AATGTCTTACATTTTGAGACAGATGA 57.147 30.769 10.64 0.00 45.80 2.92
459 717 9.645059 TGAATATACTGCATCTATCTTAGTTGC 57.355 33.333 9.57 9.57 46.54 4.17
624 882 9.458374 GGACATGTAATAACATTTTTATTCCCG 57.542 33.333 0.00 0.00 44.07 5.14
713 972 8.511604 TTTTTGGAATGCCTGAACATTTTTAA 57.488 26.923 0.00 0.00 40.31 1.52
799 1058 8.145122 ACCCTAAAGAACATTTTTAATCGCAAA 58.855 29.630 0.00 0.00 0.00 3.68
800 1059 7.596995 CACCCTAAAGAACATTTTTAATCGCAA 59.403 33.333 0.00 0.00 0.00 4.85
801 1060 7.040340 TCACCCTAAAGAACATTTTTAATCGCA 60.040 33.333 0.00 0.00 0.00 5.10
854 1113 8.050778 ACTAAACAAGTGATGTGTCTCAAAAA 57.949 30.769 0.00 0.00 42.99 1.94
855 1114 7.624360 ACTAAACAAGTGATGTGTCTCAAAA 57.376 32.000 0.00 0.00 42.99 2.44
856 1115 7.415095 CCAACTAAACAAGTGATGTGTCTCAAA 60.415 37.037 0.00 0.00 42.99 2.69
857 1116 6.038161 CCAACTAAACAAGTGATGTGTCTCAA 59.962 38.462 0.00 0.00 42.99 3.02
858 1117 5.527214 CCAACTAAACAAGTGATGTGTCTCA 59.473 40.000 0.00 0.00 42.99 3.27
859 1118 5.527582 ACCAACTAAACAAGTGATGTGTCTC 59.472 40.000 0.00 0.00 42.99 3.36
860 1119 5.437060 ACCAACTAAACAAGTGATGTGTCT 58.563 37.500 0.00 0.00 42.99 3.41
861 1120 5.751243 ACCAACTAAACAAGTGATGTGTC 57.249 39.130 0.00 0.00 42.99 3.67
862 1121 6.238648 GCTAACCAACTAAACAAGTGATGTGT 60.239 38.462 0.00 0.00 42.99 3.72
863 1122 6.017109 AGCTAACCAACTAAACAAGTGATGTG 60.017 38.462 0.00 0.00 42.99 3.21
864 1123 6.017109 CAGCTAACCAACTAAACAAGTGATGT 60.017 38.462 0.00 0.00 46.82 3.06
865 1124 6.373779 CAGCTAACCAACTAAACAAGTGATG 58.626 40.000 0.00 0.00 38.88 3.07
866 1125 5.048713 GCAGCTAACCAACTAAACAAGTGAT 60.049 40.000 0.00 0.00 38.88 3.06
867 1126 4.274950 GCAGCTAACCAACTAAACAAGTGA 59.725 41.667 0.00 0.00 38.88 3.41
868 1127 4.275936 AGCAGCTAACCAACTAAACAAGTG 59.724 41.667 0.00 0.00 38.88 3.16
869 1128 4.461198 AGCAGCTAACCAACTAAACAAGT 58.539 39.130 0.00 0.00 41.49 3.16
870 1129 5.438761 AAGCAGCTAACCAACTAAACAAG 57.561 39.130 0.00 0.00 0.00 3.16
871 1130 4.277423 GGAAGCAGCTAACCAACTAAACAA 59.723 41.667 12.18 0.00 0.00 2.83
872 1131 3.818773 GGAAGCAGCTAACCAACTAAACA 59.181 43.478 12.18 0.00 0.00 2.83
873 1132 3.120304 CGGAAGCAGCTAACCAACTAAAC 60.120 47.826 15.91 0.00 0.00 2.01
874 1133 3.071479 CGGAAGCAGCTAACCAACTAAA 58.929 45.455 15.91 0.00 0.00 1.85
875 1134 2.300723 TCGGAAGCAGCTAACCAACTAA 59.699 45.455 15.91 0.00 0.00 2.24
876 1135 1.897133 TCGGAAGCAGCTAACCAACTA 59.103 47.619 15.91 0.00 0.00 2.24
877 1136 0.685097 TCGGAAGCAGCTAACCAACT 59.315 50.000 15.91 0.00 0.00 3.16
878 1137 1.666189 GATCGGAAGCAGCTAACCAAC 59.334 52.381 15.91 5.57 0.00 3.77
879 1138 1.277842 TGATCGGAAGCAGCTAACCAA 59.722 47.619 15.91 1.34 0.00 3.67
880 1139 0.901827 TGATCGGAAGCAGCTAACCA 59.098 50.000 15.91 6.36 0.00 3.67
993 1252 1.000827 ACGTGAGAGCTGAGACAACTG 60.001 52.381 0.00 0.00 0.00 3.16
994 1253 1.268352 GACGTGAGAGCTGAGACAACT 59.732 52.381 0.00 0.00 0.00 3.16
995 1254 1.268352 AGACGTGAGAGCTGAGACAAC 59.732 52.381 0.00 0.00 0.00 3.32
997 1256 1.160989 GAGACGTGAGAGCTGAGACA 58.839 55.000 0.00 0.00 0.00 3.41
998 1257 1.448985 AGAGACGTGAGAGCTGAGAC 58.551 55.000 0.00 0.00 0.00 3.36
999 1258 3.462982 GATAGAGACGTGAGAGCTGAGA 58.537 50.000 0.00 0.00 0.00 3.27
1001 1260 2.205911 CGATAGAGACGTGAGAGCTGA 58.794 52.381 0.00 0.00 39.76 4.26
1004 1263 0.040781 GGCGATAGAGACGTGAGAGC 60.041 60.000 0.00 0.00 39.76 4.09
1007 1266 1.369448 GCGGCGATAGAGACGTGAG 60.369 63.158 12.98 0.00 39.76 3.51
1082 1386 4.735358 GGTTGGTCGGGGGAAGGC 62.735 72.222 0.00 0.00 0.00 4.35
1373 1677 2.593346 ATCAGACGGTGAGCTTGATC 57.407 50.000 0.00 0.00 39.07 2.92
1447 1752 2.094762 ACTAACCATCGGCAGTTGAC 57.905 50.000 0.00 0.00 0.00 3.18
1470 1775 4.762251 GGTCAGATATGGAATTAGGTTGGC 59.238 45.833 0.00 0.00 0.00 4.52
1592 1906 6.840705 ACATGACCTTTAATCCTAATTGCCAT 59.159 34.615 0.00 0.00 0.00 4.40
1606 1920 5.048083 GCAACATTCTTGGACATGACCTTTA 60.048 40.000 15.29 0.68 0.00 1.85
1624 1938 5.246203 ACCGAGATACCATACATAGCAACAT 59.754 40.000 0.00 0.00 0.00 2.71
1667 1983 1.242076 AATCACAACTCAGCAGTGCC 58.758 50.000 12.58 0.00 31.06 5.01
1708 2024 8.807667 AATTTGTCAATGACAGAAACAATCTC 57.192 30.769 16.10 0.00 43.69 2.75
1774 2090 4.037923 TGCTCGTCATGTTCATAGCTGATA 59.962 41.667 0.00 0.00 0.00 2.15
1837 2153 8.410141 ACAGAGAAATGTATCTAGTTCACTAGC 58.590 37.037 8.88 0.00 44.24 3.42
1865 2181 6.373005 TTCAAGGTTTGTATGGAGATCAGA 57.627 37.500 0.00 0.00 0.00 3.27
1891 2208 4.833478 AGAAGGAGCTGAATGTATGTGT 57.167 40.909 0.00 0.00 0.00 3.72
1894 2211 5.695816 GCTAGAAGAAGGAGCTGAATGTATG 59.304 44.000 0.00 0.00 33.28 2.39
1904 2221 3.506067 CCTAGCTAGCTAGAAGAAGGAGC 59.494 52.174 40.98 8.13 46.56 4.70
1948 2475 8.162880 GCAATTTAGTGCGATGTATATCAGTAC 58.837 37.037 0.11 3.14 34.21 2.73
1963 2490 6.961554 GTGAGTAACACTATGCAATTTAGTGC 59.038 38.462 20.73 9.01 46.81 4.40
1987 2514 1.767759 AGCAAGTTGCCAAGTTGAGT 58.232 45.000 25.32 10.93 46.52 3.41
2025 2552 5.344743 TTGTATGGAGATCAGGAACAGAC 57.655 43.478 0.00 0.00 0.00 3.51
2104 2631 4.905456 AGTATATGCAGGTTACTGGCCTAA 59.095 41.667 3.32 0.00 45.04 2.69
2114 2641 8.815912 TGTGATGTATATCAGTATATGCAGGTT 58.184 33.333 1.89 0.00 43.66 3.50
2473 3000 1.204941 GAGTTCATGTACGACCAGGCT 59.795 52.381 0.00 0.00 0.00 4.58
2515 3042 3.736224 CATGGGGTGGCTGAGGCT 61.736 66.667 7.74 0.00 38.73 4.58
2806 3347 1.602237 GTCCTTCAAGATCCCCGCA 59.398 57.895 0.00 0.00 0.00 5.69
2893 3434 1.408683 GGCATCCTGGTTATCACAGCA 60.409 52.381 0.00 0.00 34.65 4.41
2896 3437 0.180171 CGGGCATCCTGGTTATCACA 59.820 55.000 0.00 0.00 0.00 3.58
3047 3588 3.798650 CTTTGATCGCGCCGCCAA 61.799 61.111 2.28 0.00 0.00 4.52
3078 3619 3.587797 AATCGAACTGTTTCTCGGCTA 57.412 42.857 0.00 0.00 35.76 3.93
3092 3633 8.547967 AAGAGTAATGCTCAAAACTAATCGAA 57.452 30.769 0.46 0.00 46.47 3.71
3144 3688 2.858646 GCCAAAAAGAAGGAACAGCGAC 60.859 50.000 0.00 0.00 0.00 5.19
3145 3689 1.336755 GCCAAAAAGAAGGAACAGCGA 59.663 47.619 0.00 0.00 0.00 4.93
3146 3690 1.066908 TGCCAAAAAGAAGGAACAGCG 59.933 47.619 0.00 0.00 0.00 5.18
3147 3691 2.473816 GTGCCAAAAAGAAGGAACAGC 58.526 47.619 0.00 0.00 33.35 4.40
3148 3692 2.430332 TGGTGCCAAAAAGAAGGAACAG 59.570 45.455 0.00 0.00 34.94 3.16
3149 3693 2.167487 GTGGTGCCAAAAAGAAGGAACA 59.833 45.455 0.00 0.00 34.94 3.18
3150 3694 2.430694 AGTGGTGCCAAAAAGAAGGAAC 59.569 45.455 0.00 0.00 32.25 3.62
3152 3696 2.031120 CAGTGGTGCCAAAAAGAAGGA 58.969 47.619 0.00 0.00 0.00 3.36
3153 3697 1.069049 CCAGTGGTGCCAAAAAGAAGG 59.931 52.381 0.00 0.00 0.00 3.46
3154 3698 2.031120 TCCAGTGGTGCCAAAAAGAAG 58.969 47.619 9.54 0.00 0.00 2.85
3155 3699 2.151502 TCCAGTGGTGCCAAAAAGAA 57.848 45.000 9.54 0.00 0.00 2.52
3157 3701 1.756538 ACTTCCAGTGGTGCCAAAAAG 59.243 47.619 9.54 6.03 0.00 2.27
3158 3702 1.859302 ACTTCCAGTGGTGCCAAAAA 58.141 45.000 9.54 0.00 0.00 1.94
3176 3738 6.255950 GCTTTGTTCCCAAATAATCGAGTAC 58.744 40.000 0.00 0.00 39.72 2.73
3186 3748 0.678950 CCCACGCTTTGTTCCCAAAT 59.321 50.000 0.00 0.00 39.72 2.32
3206 3768 5.726729 AAAAACAAAAATTGTGGCCGTAG 57.273 34.783 0.00 0.00 44.59 3.51
3222 3784 7.168219 ACCATCAGTCAGAGCTATTAAAAACA 58.832 34.615 0.00 0.00 0.00 2.83
3238 3800 4.083057 GCTTTTCCTTTCAGACCATCAGTC 60.083 45.833 0.00 0.00 46.71 3.51
3240 3802 3.822735 TGCTTTTCCTTTCAGACCATCAG 59.177 43.478 0.00 0.00 0.00 2.90
3246 3808 6.863645 GGTAATCTTTGCTTTTCCTTTCAGAC 59.136 38.462 0.00 0.00 0.00 3.51
3280 3842 3.982576 ATTTATAAAGCGGGGCGAAAG 57.017 42.857 3.94 0.00 0.00 2.62
3281 3843 5.823353 CTTTATTTATAAAGCGGGGCGAAA 58.177 37.500 8.78 0.00 41.69 3.46
3282 3844 5.427036 CTTTATTTATAAAGCGGGGCGAA 57.573 39.130 8.78 0.00 41.69 4.70
3292 3854 6.688578 TGTGGCGGTTTGCTTTATTTATAAA 58.311 32.000 0.00 0.00 45.43 1.40
3293 3855 6.151312 TCTGTGGCGGTTTGCTTTATTTATAA 59.849 34.615 0.00 0.00 45.43 0.98
3294 3856 5.648526 TCTGTGGCGGTTTGCTTTATTTATA 59.351 36.000 0.00 0.00 45.43 0.98
3295 3857 4.461081 TCTGTGGCGGTTTGCTTTATTTAT 59.539 37.500 0.00 0.00 45.43 1.40
3296 3858 3.821600 TCTGTGGCGGTTTGCTTTATTTA 59.178 39.130 0.00 0.00 45.43 1.40
3297 3859 2.625790 TCTGTGGCGGTTTGCTTTATTT 59.374 40.909 0.00 0.00 45.43 1.40
3298 3860 2.228822 CTCTGTGGCGGTTTGCTTTATT 59.771 45.455 0.00 0.00 45.43 1.40
3299 3861 1.812571 CTCTGTGGCGGTTTGCTTTAT 59.187 47.619 0.00 0.00 45.43 1.40
3300 3862 1.234821 CTCTGTGGCGGTTTGCTTTA 58.765 50.000 0.00 0.00 45.43 1.85
3301 3863 2.032981 CTCTGTGGCGGTTTGCTTT 58.967 52.632 0.00 0.00 45.43 3.51
3302 3864 2.555547 GCTCTGTGGCGGTTTGCTT 61.556 57.895 0.00 0.00 45.43 3.91
3303 3865 2.980233 GCTCTGTGGCGGTTTGCT 60.980 61.111 0.00 0.00 45.43 3.91
3304 3866 3.286751 TGCTCTGTGGCGGTTTGC 61.287 61.111 0.00 0.00 45.38 3.68
3305 3867 2.186160 TGTGCTCTGTGGCGGTTTG 61.186 57.895 0.00 0.00 34.52 2.93
3306 3868 2.186826 GTGTGCTCTGTGGCGGTTT 61.187 57.895 0.00 0.00 34.52 3.27
3307 3869 2.591715 GTGTGCTCTGTGGCGGTT 60.592 61.111 0.00 0.00 34.52 4.44
3308 3870 1.826340 TATGTGTGCTCTGTGGCGGT 61.826 55.000 0.00 0.00 34.52 5.68
3309 3871 1.079197 TATGTGTGCTCTGTGGCGG 60.079 57.895 0.00 0.00 34.52 6.13
3310 3872 0.670239 TGTATGTGTGCTCTGTGGCG 60.670 55.000 0.00 0.00 34.52 5.69
3311 3873 1.466167 CTTGTATGTGTGCTCTGTGGC 59.534 52.381 0.00 0.00 0.00 5.01
3312 3874 2.079158 CCTTGTATGTGTGCTCTGTGG 58.921 52.381 0.00 0.00 0.00 4.17
3313 3875 2.738846 GTCCTTGTATGTGTGCTCTGTG 59.261 50.000 0.00 0.00 0.00 3.66
3314 3876 2.368548 TGTCCTTGTATGTGTGCTCTGT 59.631 45.455 0.00 0.00 0.00 3.41
3315 3877 3.044235 TGTCCTTGTATGTGTGCTCTG 57.956 47.619 0.00 0.00 0.00 3.35
3316 3878 3.071602 ACTTGTCCTTGTATGTGTGCTCT 59.928 43.478 0.00 0.00 0.00 4.09
3317 3879 3.403038 ACTTGTCCTTGTATGTGTGCTC 58.597 45.455 0.00 0.00 0.00 4.26
3318 3880 3.492102 ACTTGTCCTTGTATGTGTGCT 57.508 42.857 0.00 0.00 0.00 4.40
3319 3881 3.563808 TGAACTTGTCCTTGTATGTGTGC 59.436 43.478 0.00 0.00 0.00 4.57
3320 3882 4.574421 TGTGAACTTGTCCTTGTATGTGTG 59.426 41.667 0.00 0.00 0.00 3.82
3321 3883 4.574828 GTGTGAACTTGTCCTTGTATGTGT 59.425 41.667 0.00 0.00 0.00 3.72
3322 3884 4.318760 CGTGTGAACTTGTCCTTGTATGTG 60.319 45.833 0.00 0.00 0.00 3.21
3323 3885 3.807622 CGTGTGAACTTGTCCTTGTATGT 59.192 43.478 0.00 0.00 0.00 2.29
3324 3886 3.363970 GCGTGTGAACTTGTCCTTGTATG 60.364 47.826 0.00 0.00 0.00 2.39
3325 3887 2.806244 GCGTGTGAACTTGTCCTTGTAT 59.194 45.455 0.00 0.00 0.00 2.29
3326 3888 2.206750 GCGTGTGAACTTGTCCTTGTA 58.793 47.619 0.00 0.00 0.00 2.41
3327 3889 1.014352 GCGTGTGAACTTGTCCTTGT 58.986 50.000 0.00 0.00 0.00 3.16
3328 3890 1.013596 TGCGTGTGAACTTGTCCTTG 58.986 50.000 0.00 0.00 0.00 3.61
3329 3891 1.014352 GTGCGTGTGAACTTGTCCTT 58.986 50.000 0.00 0.00 0.00 3.36
3330 3892 0.107897 TGTGCGTGTGAACTTGTCCT 60.108 50.000 0.00 0.00 0.00 3.85
3331 3893 0.027586 GTGTGCGTGTGAACTTGTCC 59.972 55.000 0.00 0.00 0.00 4.02
3332 3894 0.724549 TGTGTGCGTGTGAACTTGTC 59.275 50.000 0.00 0.00 0.00 3.18
3333 3895 1.130373 CTTGTGTGCGTGTGAACTTGT 59.870 47.619 0.00 0.00 0.00 3.16
3334 3896 1.130373 ACTTGTGTGCGTGTGAACTTG 59.870 47.619 0.00 0.00 0.00 3.16
3335 3897 1.396996 GACTTGTGTGCGTGTGAACTT 59.603 47.619 0.00 0.00 0.00 2.66
3336 3898 1.006832 GACTTGTGTGCGTGTGAACT 58.993 50.000 0.00 0.00 0.00 3.01
3337 3899 1.004927 GAGACTTGTGTGCGTGTGAAC 60.005 52.381 0.00 0.00 0.00 3.18
3338 3900 1.286501 GAGACTTGTGTGCGTGTGAA 58.713 50.000 0.00 0.00 0.00 3.18
3339 3901 0.174617 TGAGACTTGTGTGCGTGTGA 59.825 50.000 0.00 0.00 0.00 3.58
3340 3902 0.301687 GTGAGACTTGTGTGCGTGTG 59.698 55.000 0.00 0.00 0.00 3.82
3341 3903 0.108377 TGTGAGACTTGTGTGCGTGT 60.108 50.000 0.00 0.00 0.00 4.49
3342 3904 1.006086 TTGTGAGACTTGTGTGCGTG 58.994 50.000 0.00 0.00 0.00 5.34
3343 3905 1.396996 GTTTGTGAGACTTGTGTGCGT 59.603 47.619 0.00 0.00 0.00 5.24
3344 3906 1.396648 TGTTTGTGAGACTTGTGTGCG 59.603 47.619 0.00 0.00 0.00 5.34
3345 3907 3.126858 TCTTGTTTGTGAGACTTGTGTGC 59.873 43.478 0.00 0.00 0.00 4.57
3346 3908 4.201851 CCTCTTGTTTGTGAGACTTGTGTG 60.202 45.833 0.00 0.00 32.44 3.82
3347 3909 3.941483 CCTCTTGTTTGTGAGACTTGTGT 59.059 43.478 0.00 0.00 32.44 3.72
3348 3910 4.191544 TCCTCTTGTTTGTGAGACTTGTG 58.808 43.478 0.00 0.00 32.44 3.33
3349 3911 4.487714 TCCTCTTGTTTGTGAGACTTGT 57.512 40.909 0.00 0.00 32.44 3.16
3350 3912 4.274459 CCTTCCTCTTGTTTGTGAGACTTG 59.726 45.833 0.00 0.00 32.44 3.16
3351 3913 4.080299 ACCTTCCTCTTGTTTGTGAGACTT 60.080 41.667 0.00 0.00 32.44 3.01
3352 3914 3.456277 ACCTTCCTCTTGTTTGTGAGACT 59.544 43.478 0.00 0.00 32.44 3.24
3353 3915 3.809905 ACCTTCCTCTTGTTTGTGAGAC 58.190 45.455 0.00 0.00 32.44 3.36
3354 3916 4.503714 AACCTTCCTCTTGTTTGTGAGA 57.496 40.909 0.00 0.00 32.44 3.27
3355 3917 5.343249 CAAAACCTTCCTCTTGTTTGTGAG 58.657 41.667 0.00 0.00 32.85 3.51
3356 3918 4.381505 GCAAAACCTTCCTCTTGTTTGTGA 60.382 41.667 0.00 0.00 32.85 3.58
3357 3919 3.865164 GCAAAACCTTCCTCTTGTTTGTG 59.135 43.478 0.00 0.00 32.85 3.33
3358 3920 3.769300 AGCAAAACCTTCCTCTTGTTTGT 59.231 39.130 0.00 0.00 32.85 2.83
3359 3921 4.114794 CAGCAAAACCTTCCTCTTGTTTG 58.885 43.478 0.00 0.00 32.85 2.93
3360 3922 4.023291 TCAGCAAAACCTTCCTCTTGTTT 58.977 39.130 0.00 0.00 33.86 2.83
3361 3923 3.631250 TCAGCAAAACCTTCCTCTTGTT 58.369 40.909 0.00 0.00 0.00 2.83
3362 3924 3.217626 CTCAGCAAAACCTTCCTCTTGT 58.782 45.455 0.00 0.00 0.00 3.16
3363 3925 2.555757 CCTCAGCAAAACCTTCCTCTTG 59.444 50.000 0.00 0.00 0.00 3.02
3364 3926 2.489802 CCCTCAGCAAAACCTTCCTCTT 60.490 50.000 0.00 0.00 0.00 2.85
3365 3927 1.074566 CCCTCAGCAAAACCTTCCTCT 59.925 52.381 0.00 0.00 0.00 3.69
3366 3928 1.539157 CCCTCAGCAAAACCTTCCTC 58.461 55.000 0.00 0.00 0.00 3.71
3367 3929 0.540597 GCCCTCAGCAAAACCTTCCT 60.541 55.000 0.00 0.00 42.97 3.36
3368 3930 1.967535 GCCCTCAGCAAAACCTTCC 59.032 57.895 0.00 0.00 42.97 3.46
3378 3940 0.819259 TGTTGAGTTGTGCCCTCAGC 60.819 55.000 0.00 0.00 39.91 4.26
3379 3941 1.605710 CTTGTTGAGTTGTGCCCTCAG 59.394 52.381 0.00 0.00 39.91 3.35
3380 3942 1.679139 CTTGTTGAGTTGTGCCCTCA 58.321 50.000 0.00 0.00 37.18 3.86
3381 3943 0.312102 GCTTGTTGAGTTGTGCCCTC 59.688 55.000 0.00 0.00 0.00 4.30
3382 3944 0.106519 AGCTTGTTGAGTTGTGCCCT 60.107 50.000 0.00 0.00 0.00 5.19
3383 3945 0.312102 GAGCTTGTTGAGTTGTGCCC 59.688 55.000 0.00 0.00 0.00 5.36
3384 3946 1.024271 TGAGCTTGTTGAGTTGTGCC 58.976 50.000 0.00 0.00 0.00 5.01
3385 3947 2.849880 TTGAGCTTGTTGAGTTGTGC 57.150 45.000 0.00 0.00 0.00 4.57
3730 4292 7.015226 AGGTTTAAGTTTGTTACACGGTTAC 57.985 36.000 0.00 0.00 0.00 2.50
3893 5389 3.360533 CGCTGATGAATTTCATGCAGAC 58.639 45.455 26.06 19.81 37.20 3.51
3896 5392 1.473278 TGCGCTGATGAATTTCATGCA 59.527 42.857 16.41 15.38 37.20 3.96
3966 5462 0.443869 CTCAAAGTCAATCGGCGTGG 59.556 55.000 6.85 0.00 0.00 4.94
4074 6545 1.617755 CGACTCAAGCGTTCGCACAT 61.618 55.000 18.95 2.48 0.00 3.21
4229 7636 3.731136 GCTGAAGTGCGGACAACA 58.269 55.556 10.52 7.89 0.00 3.33
4275 7682 1.485895 GATTGCTGCTCCTCTCTCCTT 59.514 52.381 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.