Multiple sequence alignment - TraesCS7B01G388000

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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 TraesCS7B01G388000 chr7B 100.000 5784 0 0 781 6564 653900228 653894445 0.000000e+00 10682
1 TraesCS7B01G388000 chr7B 100.000 311 0 0 1 311 653901008 653900698 5.710000e-160 575
2 TraesCS7B01G388000 chr7B 88.732 142 14 2 3653 3792 215235636 215235777 8.750000e-39 172
3 TraesCS7B01G388000 chr7A 90.303 5641 316 115 1039 6564 675401509 675395985 0.000000e+00 7173
4 TraesCS7B01G388000 chr7A 81.707 246 16 13 72 311 675402036 675401814 1.880000e-40 178
5 TraesCS7B01G388000 chr7A 91.765 85 6 1 795 878 675401767 675401683 4.160000e-22 117
6 TraesCS7B01G388000 chr7D 88.371 2898 159 75 797 3604 585308510 585305701 0.000000e+00 3321
7 TraesCS7B01G388000 chr7D 94.049 1294 48 7 4774 6038 585304577 585303284 0.000000e+00 1936
8 TraesCS7B01G388000 chr7D 93.700 1127 47 7 3638 4741 585305703 585304578 0.000000e+00 1666
9 TraesCS7B01G388000 chr7D 85.448 536 44 12 6032 6564 585303226 585302722 1.620000e-145 527
10 TraesCS7B01G388000 chr7D 81.447 318 16 21 1 311 585308851 585308570 3.080000e-53 220
11 TraesCS7B01G388000 chr5D 91.061 1253 62 20 3548 4781 532657269 532656048 0.000000e+00 1648
12 TraesCS7B01G388000 chr5D 94.973 915 43 3 4859 5772 532656051 532655139 0.000000e+00 1432
13 TraesCS7B01G388000 chr5D 94.228 693 29 8 2804 3493 532657953 532657269 0.000000e+00 1048
14 TraesCS7B01G388000 chr5D 91.886 456 19 8 5769 6213 532655115 532654667 7.230000e-174 621
15 TraesCS7B01G388000 chr1D 89.441 161 15 1 3653 3811 493750246 493750406 1.120000e-47 202
16 TraesCS7B01G388000 chr1D 90.141 142 12 1 3653 3792 46105303 46105162 4.040000e-42 183
17 TraesCS7B01G388000 chr5A 89.441 161 13 3 3653 3811 647701323 647701165 4.010000e-47 200
18 TraesCS7B01G388000 chr5A 89.437 142 13 1 3653 3792 705521761 705521620 1.880000e-40 178
19 TraesCS7B01G388000 chr5A 86.335 161 20 1 3653 3811 510202152 510202312 2.430000e-39 174


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 TraesCS7B01G388000 chr7B 653894445 653901008 6563 True 5628.500000 10682 100.000 1 6564 2 chr7B.!!$R1 6563
1 TraesCS7B01G388000 chr7A 675395985 675402036 6051 True 2489.333333 7173 87.925 72 6564 3 chr7A.!!$R1 6492
2 TraesCS7B01G388000 chr7D 585302722 585308851 6129 True 1534.000000 3321 88.603 1 6564 5 chr7D.!!$R1 6563
3 TraesCS7B01G388000 chr5D 532654667 532657953 3286 True 1187.250000 1648 93.037 2804 6213 4 chr5D.!!$R1 3409

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
306 328 0.033504 GAGGAATATCTGCGGCGGAA 59.966 55.0 16.55 5.91 0.00 4.30 F
888 921 0.103937 GAGCTCAATCCACCCGAGAG 59.896 60.0 9.40 0.00 0.00 3.20 F
932 965 0.179000 CTGCCTACCTGCTAGTTGGG 59.821 60.0 8.66 2.97 33.77 4.12 F
1465 1551 0.249405 CTCTGATTCTCCTGCCTCGC 60.249 60.0 0.00 0.00 0.00 5.03 F
2265 2403 0.441145 CATTCCGTTCCGTTCCGTTC 59.559 55.0 0.00 0.00 0.00 3.95 F
2548 2686 0.471591 TTTTCCATGGCTGGTGGCTT 60.472 50.0 6.96 0.00 43.61 4.35 F
3201 3342 0.924823 AGCCATCATGGAGGAGCTTT 59.075 50.0 8.30 0.00 40.96 3.51 F
4397 4574 0.108138 ATCTACACGAAGGCTGCCAC 60.108 55.0 22.65 13.27 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1208 1275 0.036952 CGGAAGCAGGAAAGCAGAGA 60.037 55.0 0.00 0.00 36.85 3.10 R
2598 2736 0.033405 AAATCAGCAGGAGCAGCCAT 60.033 50.0 0.00 0.00 45.49 4.40 R
2901 3042 0.178068 ACACCGATATGTCCAGCACC 59.822 55.0 0.00 0.00 0.00 5.01 R
3201 3342 0.378610 CGCAGAGCTCATCGTAGTCA 59.621 55.0 17.77 0.00 0.00 3.41 R
3251 3392 2.566833 AGGAGTTAGTGTTGCATGCA 57.433 45.0 18.46 18.46 0.00 3.96 R
4397 4574 1.024271 CCCTGTGAATTATGTGCCGG 58.976 55.0 0.00 0.00 0.00 6.13 R
4922 5101 0.321298 GCTTTCCGCCCTGTCACTAA 60.321 55.0 0.00 0.00 0.00 2.24 R
5621 5809 1.087501 GAAAGCGGGAGGATCACAAC 58.912 55.0 0.00 0.00 39.81 3.32 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
35 36 4.843516 ACCATTCCATTACCACCACAATTT 59.156 37.500 0.00 0.00 0.00 1.82
122 127 5.953571 ACCTATTTTATTCCCTAGCCTTGG 58.046 41.667 0.00 0.00 0.00 3.61
172 183 4.378459 GCAGGTCACTACATAAAGTTGCAC 60.378 45.833 0.00 0.00 32.34 4.57
186 197 2.125753 GCACTGCACCGGAGAGAG 60.126 66.667 9.46 2.16 0.00 3.20
187 198 2.640302 GCACTGCACCGGAGAGAGA 61.640 63.158 9.46 0.00 0.00 3.10
205 216 1.202510 AGAGTCCTCATTGCTCATCGC 60.203 52.381 0.00 0.00 39.77 4.58
206 217 5.594247 GAGAGTCCTCATTGCTCATCGCA 62.594 52.174 0.00 0.00 42.15 5.10
207 218 6.821669 GAGAGTCCTCATTGCTCATCGCAT 62.822 50.000 0.00 0.00 42.78 4.73
213 224 2.586914 TGCTCATCGCATCGCCTG 60.587 61.111 0.00 0.00 45.47 4.85
214 225 2.587194 GCTCATCGCATCGCCTGT 60.587 61.111 0.00 0.00 38.92 4.00
215 226 2.593134 GCTCATCGCATCGCCTGTC 61.593 63.158 0.00 0.00 38.92 3.51
216 227 1.953138 CTCATCGCATCGCCTGTCC 60.953 63.158 0.00 0.00 0.00 4.02
217 228 2.969238 CATCGCATCGCCTGTCCC 60.969 66.667 0.00 0.00 0.00 4.46
218 229 4.241555 ATCGCATCGCCTGTCCCC 62.242 66.667 0.00 0.00 0.00 4.81
235 246 1.075600 CCCCTCTCACTCCCTCTCC 60.076 68.421 0.00 0.00 0.00 3.71
239 250 0.926293 CTCTCACTCCCTCTCCCTCT 59.074 60.000 0.00 0.00 0.00 3.69
241 252 0.926293 CTCACTCCCTCTCCCTCTCT 59.074 60.000 0.00 0.00 0.00 3.10
243 254 0.926293 CACTCCCTCTCCCTCTCTCT 59.074 60.000 0.00 0.00 0.00 3.10
306 328 0.033504 GAGGAATATCTGCGGCGGAA 59.966 55.000 16.55 5.91 0.00 4.30
858 891 1.702957 ACCCGTCCTCCATTTTCTTGA 59.297 47.619 0.00 0.00 0.00 3.02
884 917 1.817099 GCAGAGCTCAATCCACCCG 60.817 63.158 17.77 0.00 0.00 5.28
887 920 0.324738 AGAGCTCAATCCACCCGAGA 60.325 55.000 17.77 0.00 0.00 4.04
888 921 0.103937 GAGCTCAATCCACCCGAGAG 59.896 60.000 9.40 0.00 0.00 3.20
889 922 0.616111 AGCTCAATCCACCCGAGAGT 60.616 55.000 0.00 0.00 0.00 3.24
890 923 1.112113 GCTCAATCCACCCGAGAGTA 58.888 55.000 0.00 0.00 0.00 2.59
891 924 1.689273 GCTCAATCCACCCGAGAGTAT 59.311 52.381 0.00 0.00 0.00 2.12
892 925 2.891580 GCTCAATCCACCCGAGAGTATA 59.108 50.000 0.00 0.00 0.00 1.47
893 926 3.305471 GCTCAATCCACCCGAGAGTATAC 60.305 52.174 0.00 0.00 0.00 1.47
894 927 4.145807 CTCAATCCACCCGAGAGTATACT 58.854 47.826 4.68 4.68 0.00 2.12
895 928 3.889538 TCAATCCACCCGAGAGTATACTG 59.110 47.826 10.90 0.00 0.00 2.74
898 931 1.338337 CCACCCGAGAGTATACTGCTG 59.662 57.143 10.90 0.00 0.00 4.41
900 933 1.323412 CCCGAGAGTATACTGCTGCT 58.677 55.000 10.90 0.26 0.00 4.24
901 934 1.000827 CCCGAGAGTATACTGCTGCTG 60.001 57.143 10.90 4.89 0.00 4.41
902 935 1.601663 CCGAGAGTATACTGCTGCTGC 60.602 57.143 10.90 8.89 40.20 5.25
903 936 1.336440 CGAGAGTATACTGCTGCTGCT 59.664 52.381 10.90 0.00 40.48 4.24
904 937 2.741612 GAGAGTATACTGCTGCTGCTG 58.258 52.381 10.90 18.66 42.70 4.41
905 938 1.202510 AGAGTATACTGCTGCTGCTGC 60.203 52.381 22.51 22.51 41.07 5.25
907 940 1.227350 TATACTGCTGCTGCTGCCG 60.227 57.895 25.44 21.84 41.07 5.69
919 952 3.150335 CTGCCGCTCCTCTGCCTA 61.150 66.667 0.00 0.00 0.00 3.93
920 953 3.438017 CTGCCGCTCCTCTGCCTAC 62.438 68.421 0.00 0.00 0.00 3.18
929 962 1.007238 TCCTCTGCCTACCTGCTAGTT 59.993 52.381 0.00 0.00 0.00 2.24
932 965 0.179000 CTGCCTACCTGCTAGTTGGG 59.821 60.000 8.66 2.97 33.77 4.12
940 973 3.815396 GCTAGTTGGGGCGCTTGC 61.815 66.667 7.64 0.00 38.11 4.01
941 974 2.045926 CTAGTTGGGGCGCTTGCT 60.046 61.111 7.64 1.49 39.13 3.91
942 975 1.220749 CTAGTTGGGGCGCTTGCTA 59.779 57.895 7.64 2.66 39.13 3.49
943 976 1.078708 TAGTTGGGGCGCTTGCTAC 60.079 57.895 7.64 0.00 39.13 3.58
945 978 3.960136 TTGGGGCGCTTGCTACCA 61.960 61.111 7.64 3.84 41.53 3.25
946 979 4.715523 TGGGGCGCTTGCTACCAC 62.716 66.667 7.64 0.00 39.50 4.16
949 982 4.410400 GGCGCTTGCTACCACCCT 62.410 66.667 7.64 0.00 39.13 4.34
980 1025 2.482142 CGATTCCAGTTGGAGGAGTAGC 60.482 54.545 0.51 0.00 46.36 3.58
1009 1056 3.119316 TCTCTTCTCTTCAATGCGAGGAC 60.119 47.826 0.00 0.00 0.00 3.85
1101 1168 2.670934 ACCAGCAGCAAGGAAGCG 60.671 61.111 10.66 0.00 40.15 4.68
1108 1175 1.610673 AGCAAGGAAGCGGAGGAGA 60.611 57.895 0.00 0.00 40.15 3.71
1126 1193 3.454858 GAGAGGAGGGATATAATGGCCA 58.545 50.000 8.56 8.56 0.00 5.36
1158 1225 4.225267 GGTATCCTTCTTCTTCAACCTCCA 59.775 45.833 0.00 0.00 0.00 3.86
1159 1226 5.104318 GGTATCCTTCTTCTTCAACCTCCAT 60.104 44.000 0.00 0.00 0.00 3.41
1160 1227 4.292186 TCCTTCTTCTTCAACCTCCATG 57.708 45.455 0.00 0.00 0.00 3.66
1166 1233 1.003580 TCTTCAACCTCCATGCCAGAC 59.996 52.381 0.00 0.00 0.00 3.51
1195 1262 3.531538 CTGAGGGCGCAGTATTTTTCTA 58.468 45.455 10.83 0.00 0.00 2.10
1208 1275 9.004717 GCAGTATTTTTCTACTTCTCTTTTCCT 57.995 33.333 0.00 0.00 29.41 3.36
1394 1463 2.016604 GCCGTGGCCACTGATTGATTA 61.017 52.381 32.28 0.00 34.56 1.75
1465 1551 0.249405 CTCTGATTCTCCTGCCTCGC 60.249 60.000 0.00 0.00 0.00 5.03
1534 1620 9.986833 ATAAATTCAAGCTGTTTTTGTTTGTTC 57.013 25.926 0.00 0.00 0.00 3.18
1535 1621 5.854431 TTCAAGCTGTTTTTGTTTGTTCC 57.146 34.783 0.00 0.00 0.00 3.62
1536 1622 4.249661 TCAAGCTGTTTTTGTTTGTTCCC 58.750 39.130 0.00 0.00 0.00 3.97
1537 1623 4.020662 TCAAGCTGTTTTTGTTTGTTCCCT 60.021 37.500 0.00 0.00 0.00 4.20
1539 1625 4.252878 AGCTGTTTTTGTTTGTTCCCTTG 58.747 39.130 0.00 0.00 0.00 3.61
1540 1626 4.000325 GCTGTTTTTGTTTGTTCCCTTGT 59.000 39.130 0.00 0.00 0.00 3.16
1584 1676 7.368480 ACTTAATTCGTGTTATTACCACACC 57.632 36.000 0.00 0.00 41.39 4.16
1620 1722 7.042389 CCAAGAACTGACAGAGTTTAGTCTTTC 60.042 40.741 10.08 0.00 45.48 2.62
1624 1726 7.113658 ACTGACAGAGTTTAGTCTTTCTGAA 57.886 36.000 10.08 0.00 39.46 3.02
1630 1732 9.232473 ACAGAGTTTAGTCTTTCTGAAGTTTTT 57.768 29.630 7.29 0.00 39.46 1.94
1650 1769 4.445452 TTTAGTATTCTCGTGCTTCGGT 57.555 40.909 2.56 0.00 40.32 4.69
1651 1770 4.445452 TTAGTATTCTCGTGCTTCGGTT 57.555 40.909 2.56 0.00 40.32 4.44
1652 1771 5.565592 TTAGTATTCTCGTGCTTCGGTTA 57.434 39.130 2.56 0.00 40.32 2.85
1728 1858 3.507622 CCCATTTCAACCCTCAAGAGTTC 59.492 47.826 0.00 0.00 0.00 3.01
1805 1936 7.854557 TGGAGAGATTATTGATGTCAGTTTG 57.145 36.000 0.00 0.00 30.63 2.93
1862 1994 2.203112 TGAGCCATCTGCCGCATC 60.203 61.111 0.00 0.00 42.71 3.91
1868 2000 1.664017 CATCTGCCGCATCTCTCCG 60.664 63.158 0.00 0.00 0.00 4.63
1897 2029 3.698040 AGACTGATGGCATGTCAAATTCC 59.302 43.478 17.22 0.00 33.56 3.01
1949 2081 3.323751 AGAATTGAATTTGTGCCAGCC 57.676 42.857 0.00 0.00 0.00 4.85
1950 2082 2.633967 AGAATTGAATTTGTGCCAGCCA 59.366 40.909 0.00 0.00 0.00 4.75
2044 2176 1.750399 CGGATCCTGGCCCTGTTTG 60.750 63.158 10.75 0.00 0.00 2.93
2068 2200 8.202745 TGCAACTGTTTTAAATTTTAGGTTGG 57.797 30.769 0.00 0.00 34.17 3.77
2077 2209 3.806949 ATTTTAGGTTGGGCTGTCTCA 57.193 42.857 0.00 0.00 0.00 3.27
2082 2214 1.279271 AGGTTGGGCTGTCTCATGTAC 59.721 52.381 0.00 0.00 0.00 2.90
2180 2318 7.696755 TGACATCCACATTTCTTTATCAATCG 58.303 34.615 0.00 0.00 0.00 3.34
2204 2342 3.037549 ACCCACTTGATCCTTTTGCAAA 58.962 40.909 8.05 8.05 0.00 3.68
2208 2346 5.185635 CCCACTTGATCCTTTTGCAAATAGA 59.814 40.000 13.65 12.96 0.00 1.98
2218 2356 7.125391 TCCTTTTGCAAATAGACCAATCCTAT 58.875 34.615 13.65 0.00 0.00 2.57
2262 2400 0.671163 TTCCATTCCGTTCCGTTCCG 60.671 55.000 0.00 0.00 0.00 4.30
2263 2401 1.375013 CCATTCCGTTCCGTTCCGT 60.375 57.895 0.00 0.00 0.00 4.69
2264 2402 0.952010 CCATTCCGTTCCGTTCCGTT 60.952 55.000 0.00 0.00 0.00 4.44
2265 2403 0.441145 CATTCCGTTCCGTTCCGTTC 59.559 55.000 0.00 0.00 0.00 3.95
2266 2404 0.671472 ATTCCGTTCCGTTCCGTTCC 60.671 55.000 0.00 0.00 0.00 3.62
2302 2440 1.515736 GCGCAAGGAAAGCATCAGC 60.516 57.895 0.30 0.00 38.63 4.26
2313 2451 2.421399 GCATCAGCTTTGGAGGGGC 61.421 63.158 0.00 0.00 37.91 5.80
2314 2452 2.117156 CATCAGCTTTGGAGGGGCG 61.117 63.158 0.00 0.00 0.00 6.13
2315 2453 4.722700 TCAGCTTTGGAGGGGCGC 62.723 66.667 0.00 0.00 0.00 6.53
2317 2455 4.729918 AGCTTTGGAGGGGCGCAG 62.730 66.667 10.83 0.00 0.00 5.18
2478 2616 4.649218 TGGAAAAATAGAATAGGGCCTTGC 59.351 41.667 13.45 0.88 0.00 4.01
2533 2671 1.067060 AGCGGGCTTTGTCTTGTTTTC 59.933 47.619 0.00 0.00 0.00 2.29
2546 2684 1.293179 GTTTTCCATGGCTGGTGGC 59.707 57.895 6.96 0.00 43.61 5.01
2548 2686 0.471591 TTTTCCATGGCTGGTGGCTT 60.472 50.000 6.96 0.00 43.61 4.35
2570 2708 6.803807 GCTTGTTTTGTCCATGAATAAGACTC 59.196 38.462 0.00 0.00 0.00 3.36
2598 2736 2.580962 TGTTGCCATGCAGACTTGTTA 58.419 42.857 0.00 0.00 40.61 2.41
2657 2795 1.801178 GTCTGTCTGGTTAGTGCAAGC 59.199 52.381 0.00 0.00 35.11 4.01
2658 2796 1.694150 TCTGTCTGGTTAGTGCAAGCT 59.306 47.619 0.00 0.00 35.58 3.74
2952 3093 1.153249 CTCCGACGAGAGCTCCTCT 60.153 63.158 10.93 0.00 44.28 3.69
3182 3323 1.103803 CCCGAGATCGAGAAGTGGAA 58.896 55.000 3.31 0.00 43.02 3.53
3201 3342 0.924823 AGCCATCATGGAGGAGCTTT 59.075 50.000 8.30 0.00 40.96 3.51
3210 3351 2.457598 TGGAGGAGCTTTGACTACGAT 58.542 47.619 0.00 0.00 0.00 3.73
3251 3392 6.114187 TGACAGATTCAGTTCAGGTAACAT 57.886 37.500 0.00 0.00 40.83 2.71
3252 3393 5.934043 TGACAGATTCAGTTCAGGTAACATG 59.066 40.000 0.00 0.00 40.83 3.21
3253 3394 4.697352 ACAGATTCAGTTCAGGTAACATGC 59.303 41.667 0.00 0.00 40.83 4.06
3254 3395 4.696877 CAGATTCAGTTCAGGTAACATGCA 59.303 41.667 0.00 0.00 40.83 3.96
3388 3530 5.841957 AATTGTACTGCCATGATTTCTCC 57.158 39.130 0.00 0.00 0.00 3.71
3393 3535 2.766263 ACTGCCATGATTTCTCCGAGTA 59.234 45.455 0.00 0.00 0.00 2.59
3399 3541 6.183360 TGCCATGATTTCTCCGAGTATAAAGA 60.183 38.462 0.00 0.00 0.00 2.52
3456 3598 7.023171 AGGTTAATGATGGTTGTTACTGGTA 57.977 36.000 0.00 0.00 0.00 3.25
3457 3599 7.463431 AGGTTAATGATGGTTGTTACTGGTAA 58.537 34.615 0.00 0.00 0.00 2.85
3474 3617 6.543735 ACTGGTAAGCTAGTTGGAAAATTCT 58.456 36.000 0.00 0.00 32.17 2.40
3501 3644 5.569355 ACCAGACCACATTATTGTCATCAA 58.431 37.500 0.00 0.00 37.98 2.57
3517 3663 8.707938 TTGTCATCAATTATCACTCTGTACTG 57.292 34.615 0.00 0.00 0.00 2.74
4046 4195 3.758973 TTGTCGCGGTGGCTTCCAA 62.759 57.895 6.13 0.00 34.18 3.53
4233 4395 9.955208 TGAAAACATATGCATGATCATAAGAAC 57.045 29.630 10.16 0.00 35.96 3.01
4235 4397 6.732531 ACATATGCATGATCATAAGAACCG 57.267 37.500 10.16 0.00 35.96 4.44
4278 4455 4.520492 ACCATTTAAAAGAGGTGCTGTCAG 59.480 41.667 8.91 0.00 32.04 3.51
4287 4464 2.757868 GAGGTGCTGTCAGTCTAGTGAT 59.242 50.000 0.93 0.00 0.00 3.06
4300 4477 7.650104 GTCAGTCTAGTGATAAATGGAGCTTAC 59.350 40.741 0.00 0.00 0.00 2.34
4361 4538 4.201910 CGGTTCAATATCGCACTTGGAATT 60.202 41.667 0.00 0.00 0.00 2.17
4397 4574 0.108138 ATCTACACGAAGGCTGCCAC 60.108 55.000 22.65 13.27 0.00 5.01
4415 4592 1.401552 CACCGGCACATAATTCACAGG 59.598 52.381 0.00 0.00 0.00 4.00
4506 4683 3.988050 TACACTAGCCCCACCCCCG 62.988 68.421 0.00 0.00 0.00 5.73
4672 4850 9.236006 AGTTTGATATGTTTCTGAATACTGCTT 57.764 29.630 0.00 0.00 0.00 3.91
4694 4872 7.012044 TGCTTCATGTTCATGATGACTTCATAG 59.988 37.037 23.44 13.39 43.40 2.23
4888 5067 5.766670 GCATGGGATCATAAATGAGAAGACA 59.233 40.000 0.00 0.00 40.64 3.41
4891 5070 6.586344 TGGGATCATAAATGAGAAGACAGAC 58.414 40.000 0.00 0.00 40.64 3.51
4954 5133 1.014564 GGAAAGCCGTGGACTCTTCG 61.015 60.000 0.00 0.00 0.00 3.79
4992 5171 7.982354 GGTGATATGGGTTAGTATAGCAGATTC 59.018 40.741 0.00 0.00 0.00 2.52
5012 5194 8.718158 AGATTCCTCTGATATACTTCATCACA 57.282 34.615 0.00 0.00 0.00 3.58
5015 5197 7.904558 TCCTCTGATATACTTCATCACAAGT 57.095 36.000 0.00 0.00 39.94 3.16
5016 5198 8.996651 TCCTCTGATATACTTCATCACAAGTA 57.003 34.615 0.00 0.00 41.92 2.24
5017 5199 9.072375 TCCTCTGATATACTTCATCACAAGTAG 57.928 37.037 0.11 0.00 41.20 2.57
5018 5200 9.072375 CCTCTGATATACTTCATCACAAGTAGA 57.928 37.037 0.11 0.00 41.20 2.59
5031 5213 8.481314 TCATCACAAGTAGATTCAATTAGCTCT 58.519 33.333 0.00 0.00 0.00 4.09
5193 5381 1.372997 GAAACCGCTGCTCGAGTCA 60.373 57.895 15.13 11.48 41.67 3.41
5509 5697 3.440872 GTGATTCAGAGGACTACACTCGT 59.559 47.826 0.00 0.00 39.90 4.18
5565 5753 4.798433 TGCGTTGGAGCAGTGAAT 57.202 50.000 0.00 0.00 42.92 2.57
5621 5809 6.864560 TTTTGTACATCGTGACTATCTTCG 57.135 37.500 0.00 0.00 0.00 3.79
5702 5890 2.281484 TGTCGTTTGCCTCCCTGC 60.281 61.111 0.00 0.00 0.00 4.85
5757 5945 5.183713 CCAATGGTCACTGTATGTTGTGATT 59.816 40.000 0.00 0.00 43.75 2.57
6125 6407 7.441836 TCAGTGAACTACAGCAAATTCTTCTA 58.558 34.615 0.00 0.00 0.00 2.10
6174 6456 2.949447 CCTAGGCAAGGTGGCATAAAT 58.051 47.619 0.00 0.00 46.46 1.40
6177 6459 4.892934 CCTAGGCAAGGTGGCATAAATAAA 59.107 41.667 0.00 0.00 46.46 1.40
6178 6460 5.539955 CCTAGGCAAGGTGGCATAAATAAAT 59.460 40.000 0.00 0.00 46.46 1.40
6253 6546 7.562135 GGTTACCTCATTACAATACCTGAAGA 58.438 38.462 0.00 0.00 0.00 2.87
6255 6548 9.614792 GTTACCTCATTACAATACCTGAAGATT 57.385 33.333 0.00 0.00 0.00 2.40
6264 6557 5.940470 ACAATACCTGAAGATTTCACCTCAC 59.060 40.000 0.00 0.00 35.46 3.51
6267 6560 2.416747 CTGAAGATTTCACCTCACGCA 58.583 47.619 0.00 0.00 35.46 5.24
6387 6680 1.228063 CTGGTGCAGCTTCACAGGT 60.228 57.895 18.29 0.00 38.66 4.00
6408 6701 4.195416 GTTGAATGGAGAGGATTCTGGTC 58.805 47.826 0.00 0.00 32.53 4.02
6462 6755 3.013219 GGCAAGGAAACTGAGAGGATTC 58.987 50.000 0.00 0.00 42.68 2.52
6513 6806 0.605319 GGTTCATTGCGACTCCACCA 60.605 55.000 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 3.340814 TGGCACAAGGAAAAGCAAAAA 57.659 38.095 0.00 0.00 31.92 1.94
95 100 9.416284 CAAGGCTAGGGAATAAAATAGGTTTTA 57.584 33.333 0.00 0.00 42.28 1.52
122 127 1.066257 CACACAACACAGGCCAAGC 59.934 57.895 5.01 0.00 0.00 4.01
172 183 1.662438 GGACTCTCTCTCCGGTGCAG 61.662 65.000 0.00 0.00 0.00 4.41
216 227 1.075600 GAGAGGGAGTGAGAGGGGG 60.076 68.421 0.00 0.00 0.00 5.40
217 228 1.075600 GGAGAGGGAGTGAGAGGGG 60.076 68.421 0.00 0.00 0.00 4.79
218 229 1.075600 GGGAGAGGGAGTGAGAGGG 60.076 68.421 0.00 0.00 0.00 4.30
219 230 0.106217 GAGGGAGAGGGAGTGAGAGG 60.106 65.000 0.00 0.00 0.00 3.69
220 231 0.926293 AGAGGGAGAGGGAGTGAGAG 59.074 60.000 0.00 0.00 0.00 3.20
221 232 0.923358 GAGAGGGAGAGGGAGTGAGA 59.077 60.000 0.00 0.00 0.00 3.27
222 233 0.926293 AGAGAGGGAGAGGGAGTGAG 59.074 60.000 0.00 0.00 0.00 3.51
223 234 0.923358 GAGAGAGGGAGAGGGAGTGA 59.077 60.000 0.00 0.00 0.00 3.41
224 235 0.926293 AGAGAGAGGGAGAGGGAGTG 59.074 60.000 0.00 0.00 0.00 3.51
225 236 1.222567 GAGAGAGAGGGAGAGGGAGT 58.777 60.000 0.00 0.00 0.00 3.85
226 237 1.421646 GAGAGAGAGAGGGAGAGGGAG 59.578 61.905 0.00 0.00 0.00 4.30
227 238 1.010793 AGAGAGAGAGAGGGAGAGGGA 59.989 57.143 0.00 0.00 0.00 4.20
230 241 3.325135 GGTCTAGAGAGAGAGAGGGAGAG 59.675 56.522 0.00 0.00 30.20 3.20
235 246 4.227197 AGAGAGGTCTAGAGAGAGAGAGG 58.773 52.174 0.00 0.00 30.20 3.69
239 250 2.963101 CGGAGAGAGGTCTAGAGAGAGA 59.037 54.545 0.00 0.00 30.97 3.10
241 252 2.754465 ACGGAGAGAGGTCTAGAGAGA 58.246 52.381 0.00 0.00 30.97 3.10
243 254 4.409574 ACAATACGGAGAGAGGTCTAGAGA 59.590 45.833 0.00 0.00 30.97 3.10
780 802 4.403734 GGGAGAGAGGTAGAGGATTGTAG 58.596 52.174 0.00 0.00 0.00 2.74
781 803 3.140519 GGGGAGAGAGGTAGAGGATTGTA 59.859 52.174 0.00 0.00 0.00 2.41
782 804 2.090999 GGGGAGAGAGGTAGAGGATTGT 60.091 54.545 0.00 0.00 0.00 2.71
783 805 2.178984 AGGGGAGAGAGGTAGAGGATTG 59.821 54.545 0.00 0.00 0.00 2.67
784 806 2.449345 GAGGGGAGAGAGGTAGAGGATT 59.551 54.545 0.00 0.00 0.00 3.01
785 807 2.070573 GAGGGGAGAGAGGTAGAGGAT 58.929 57.143 0.00 0.00 0.00 3.24
786 808 1.525175 GAGGGGAGAGAGGTAGAGGA 58.475 60.000 0.00 0.00 0.00 3.71
787 809 0.481128 GGAGGGGAGAGAGGTAGAGG 59.519 65.000 0.00 0.00 0.00 3.69
788 810 0.481128 GGGAGGGGAGAGAGGTAGAG 59.519 65.000 0.00 0.00 0.00 2.43
789 811 1.354168 CGGGAGGGGAGAGAGGTAGA 61.354 65.000 0.00 0.00 0.00 2.59
790 812 1.151908 CGGGAGGGGAGAGAGGTAG 59.848 68.421 0.00 0.00 0.00 3.18
791 813 0.327867 TACGGGAGGGGAGAGAGGTA 60.328 60.000 0.00 0.00 0.00 3.08
792 814 1.000041 ATACGGGAGGGGAGAGAGGT 61.000 60.000 0.00 0.00 0.00 3.85
793 815 0.188834 AATACGGGAGGGGAGAGAGG 59.811 60.000 0.00 0.00 0.00 3.69
794 816 2.973983 TAATACGGGAGGGGAGAGAG 57.026 55.000 0.00 0.00 0.00 3.20
795 817 3.917324 ATTAATACGGGAGGGGAGAGA 57.083 47.619 0.00 0.00 0.00 3.10
858 891 2.584261 ATTGAGCTCTGCACGGCGAT 62.584 55.000 16.62 0.00 0.00 4.58
884 917 2.741612 CAGCAGCAGCAGTATACTCTC 58.258 52.381 1.26 0.00 45.49 3.20
887 920 0.179062 GGCAGCAGCAGCAGTATACT 60.179 55.000 12.41 0.00 45.49 2.12
888 921 1.493950 CGGCAGCAGCAGCAGTATAC 61.494 60.000 12.41 0.00 45.49 1.47
889 922 1.227350 CGGCAGCAGCAGCAGTATA 60.227 57.895 12.41 0.00 45.49 1.47
890 923 2.513204 CGGCAGCAGCAGCAGTAT 60.513 61.111 12.41 0.00 45.49 2.12
902 935 3.150335 TAGGCAGAGGAGCGGCAG 61.150 66.667 1.45 0.00 39.65 4.85
903 936 3.461773 GTAGGCAGAGGAGCGGCA 61.462 66.667 1.45 0.00 39.65 5.69
904 937 4.228567 GGTAGGCAGAGGAGCGGC 62.229 72.222 0.00 0.00 36.94 6.53
905 938 2.443016 AGGTAGGCAGAGGAGCGG 60.443 66.667 0.00 0.00 34.64 5.52
907 940 0.757188 TAGCAGGTAGGCAGAGGAGC 60.757 60.000 0.00 0.00 35.83 4.70
909 942 0.631753 ACTAGCAGGTAGGCAGAGGA 59.368 55.000 11.38 0.00 35.83 3.71
910 943 1.137872 CAACTAGCAGGTAGGCAGAGG 59.862 57.143 11.38 0.00 35.83 3.69
911 944 1.137872 CCAACTAGCAGGTAGGCAGAG 59.862 57.143 11.38 0.00 35.83 3.35
912 945 1.195115 CCAACTAGCAGGTAGGCAGA 58.805 55.000 11.38 0.00 35.83 4.26
916 949 1.527370 GCCCCAACTAGCAGGTAGG 59.473 63.158 11.38 0.00 32.29 3.18
917 950 1.144057 CGCCCCAACTAGCAGGTAG 59.856 63.158 5.02 5.02 34.52 3.18
918 951 3.026431 GCGCCCCAACTAGCAGGTA 62.026 63.158 0.00 0.00 0.00 3.08
919 952 4.410400 GCGCCCCAACTAGCAGGT 62.410 66.667 0.00 0.00 0.00 4.00
920 953 3.628646 AAGCGCCCCAACTAGCAGG 62.629 63.158 2.29 0.00 0.00 4.85
929 962 4.715523 GTGGTAGCAAGCGCCCCA 62.716 66.667 2.29 0.00 39.83 4.96
940 973 2.058595 CCGGACAGGAGGGTGGTAG 61.059 68.421 0.00 0.00 45.00 3.18
941 974 2.038329 CCGGACAGGAGGGTGGTA 59.962 66.667 0.00 0.00 45.00 3.25
945 978 4.779733 ATCGCCGGACAGGAGGGT 62.780 66.667 5.05 0.00 45.00 4.34
946 979 3.447025 GAATCGCCGGACAGGAGGG 62.447 68.421 5.05 0.00 45.00 4.30
947 980 2.107141 GAATCGCCGGACAGGAGG 59.893 66.667 5.05 0.00 45.00 4.30
948 981 2.107141 GGAATCGCCGGACAGGAG 59.893 66.667 5.05 0.00 45.00 3.69
949 982 2.682136 TGGAATCGCCGGACAGGA 60.682 61.111 5.05 0.00 45.00 3.86
959 992 2.482142 GCTACTCCTCCAACTGGAATCG 60.482 54.545 0.00 0.00 44.91 3.34
980 1025 5.108517 GCATTGAAGAGAAGAGACTACAGG 58.891 45.833 0.00 0.00 0.00 4.00
984 1029 4.097135 CCTCGCATTGAAGAGAAGAGACTA 59.903 45.833 10.07 0.00 36.65 2.59
985 1030 3.119173 CCTCGCATTGAAGAGAAGAGACT 60.119 47.826 10.07 0.00 36.65 3.24
986 1031 3.119316 TCCTCGCATTGAAGAGAAGAGAC 60.119 47.826 10.07 0.00 36.65 3.36
1056 1123 0.667792 AGTTCGCTTTCGAGGACAGC 60.668 55.000 0.00 0.00 46.34 4.40
1090 1157 1.610673 TCTCCTCCGCTTCCTTGCT 60.611 57.895 0.00 0.00 0.00 3.91
1101 1168 4.294347 CCATTATATCCCTCCTCTCCTCC 58.706 52.174 0.00 0.00 0.00 4.30
1108 1175 2.279173 GGTGGCCATTATATCCCTCCT 58.721 52.381 9.72 0.00 0.00 3.69
1151 1218 0.617413 CAGAGTCTGGCATGGAGGTT 59.383 55.000 12.67 0.00 0.00 3.50
1152 1219 1.270414 CCAGAGTCTGGCATGGAGGT 61.270 60.000 26.03 0.00 45.13 3.85
1195 1262 4.972751 AAGCAGAGAGGAAAAGAGAAGT 57.027 40.909 0.00 0.00 0.00 3.01
1208 1275 0.036952 CGGAAGCAGGAAAGCAGAGA 60.037 55.000 0.00 0.00 36.85 3.10
1246 1315 1.002624 GAGTTTCGTCATGGCCCCA 60.003 57.895 0.00 0.00 0.00 4.96
1273 1342 1.268899 CCTGCAGGTTCAAGCAAGAAG 59.731 52.381 25.53 0.00 40.73 2.85
1277 1346 2.554636 CGCCTGCAGGTTCAAGCAA 61.555 57.895 32.81 0.00 40.73 3.91
1312 1381 2.757508 TCTGCTGCTCCTCCTCCG 60.758 66.667 0.00 0.00 0.00 4.63
1322 1391 4.527583 CTCCGCCCTCTCTGCTGC 62.528 72.222 0.00 0.00 0.00 5.25
1323 1392 3.847602 CCTCCGCCCTCTCTGCTG 61.848 72.222 0.00 0.00 0.00 4.41
1382 1451 5.879223 AGCAGAGGAAAGTAATCAATCAGTG 59.121 40.000 0.00 0.00 0.00 3.66
1394 1463 2.759795 GGGGCAGCAGAGGAAAGT 59.240 61.111 0.00 0.00 0.00 2.66
1414 1500 2.296471 AGGATCCGGCTAATTACTCACG 59.704 50.000 5.98 0.00 0.00 4.35
1465 1551 1.030457 GGATTCTGCAATCTGCCTGG 58.970 55.000 0.00 0.00 44.23 4.45
1509 1595 8.447053 GGAACAAACAAAAACAGCTTGAATTTA 58.553 29.630 0.00 0.00 0.00 1.40
1510 1596 7.304735 GGAACAAACAAAAACAGCTTGAATTT 58.695 30.769 0.00 0.00 0.00 1.82
1511 1597 6.128035 GGGAACAAACAAAAACAGCTTGAATT 60.128 34.615 0.00 0.00 0.00 2.17
1512 1598 5.353956 GGGAACAAACAAAAACAGCTTGAAT 59.646 36.000 0.00 0.00 0.00 2.57
1521 1607 6.735678 ATGAACAAGGGAACAAACAAAAAC 57.264 33.333 0.00 0.00 0.00 2.43
1527 1613 5.293324 GGTTGAAATGAACAAGGGAACAAAC 59.707 40.000 0.00 0.00 0.00 2.93
1531 1617 4.664150 TGGTTGAAATGAACAAGGGAAC 57.336 40.909 0.00 0.00 0.00 3.62
1534 1620 5.212532 TGATTGGTTGAAATGAACAAGGG 57.787 39.130 0.00 0.00 0.00 3.95
1535 1621 5.697633 CCTTGATTGGTTGAAATGAACAAGG 59.302 40.000 0.00 0.00 43.22 3.61
1536 1622 6.421801 GTCCTTGATTGGTTGAAATGAACAAG 59.578 38.462 0.00 0.00 34.15 3.16
1537 1623 6.098124 AGTCCTTGATTGGTTGAAATGAACAA 59.902 34.615 0.00 0.00 0.00 2.83
1539 1625 6.089249 AGTCCTTGATTGGTTGAAATGAAC 57.911 37.500 0.00 0.00 0.00 3.18
1540 1626 6.729690 AAGTCCTTGATTGGTTGAAATGAA 57.270 33.333 0.00 0.00 0.00 2.57
1630 1732 4.445452 AACCGAAGCACGAGAATACTAA 57.555 40.909 4.96 0.00 45.77 2.24
1631 1733 5.762825 ATAACCGAAGCACGAGAATACTA 57.237 39.130 4.96 0.00 45.77 1.82
1632 1734 4.650754 ATAACCGAAGCACGAGAATACT 57.349 40.909 4.96 0.00 45.77 2.12
1634 1736 4.980434 GCTTATAACCGAAGCACGAGAATA 59.020 41.667 4.96 0.00 46.97 1.75
1648 1767 6.229733 AGAGATTCTGCATCTGCTTATAACC 58.770 40.000 3.53 0.00 42.92 2.85
1650 1769 8.743085 AAAAGAGATTCTGCATCTGCTTATAA 57.257 30.769 3.53 0.00 42.92 0.98
1651 1770 8.743085 AAAAAGAGATTCTGCATCTGCTTATA 57.257 30.769 3.53 0.00 42.92 0.98
1652 1771 7.642082 AAAAAGAGATTCTGCATCTGCTTAT 57.358 32.000 3.53 0.00 42.92 1.73
1703 1833 0.189574 TTGAGGGTTGAAATGGGGCA 59.810 50.000 0.00 0.00 0.00 5.36
1705 1835 2.225117 ACTCTTGAGGGTTGAAATGGGG 60.225 50.000 2.55 0.00 0.00 4.96
1716 1846 3.891366 ACACAAATTGGAACTCTTGAGGG 59.109 43.478 0.00 0.00 0.00 4.30
1805 1936 1.076705 GAAACAGGGCCAGGATCCC 60.077 63.158 8.55 0.00 44.25 3.85
1850 1982 1.664017 CGGAGAGATGCGGCAGATG 60.664 63.158 9.25 0.00 0.00 2.90
1856 1988 3.491267 GTCTTTTATTCGGAGAGATGCGG 59.509 47.826 0.00 0.00 38.43 5.69
1857 1989 4.208047 CAGTCTTTTATTCGGAGAGATGCG 59.792 45.833 0.00 0.00 38.43 4.73
1859 1991 6.423302 CCATCAGTCTTTTATTCGGAGAGATG 59.577 42.308 0.00 0.00 38.43 2.90
1862 1994 4.509600 GCCATCAGTCTTTTATTCGGAGAG 59.490 45.833 0.00 0.00 38.43 3.20
1868 2000 6.441093 TGACATGCCATCAGTCTTTTATTC 57.559 37.500 0.00 0.00 33.56 1.75
1897 2029 9.732130 TTGAAATGAGGTAAATTAAATTTGGGG 57.268 29.630 0.00 0.00 33.82 4.96
2044 2176 7.635423 CCCAACCTAAAATTTAAAACAGTTGC 58.365 34.615 0.00 0.00 32.69 4.17
2068 2200 1.410882 GGAGAGGTACATGAGACAGCC 59.589 57.143 0.00 0.00 0.00 4.85
2077 2209 6.599638 GCAGTCTTTTATTTGGAGAGGTACAT 59.400 38.462 0.00 0.00 0.00 2.29
2082 2214 5.295540 GCTAGCAGTCTTTTATTTGGAGAGG 59.704 44.000 10.63 0.00 0.00 3.69
2180 2318 1.273327 CAAAAGGATCAAGTGGGTGCC 59.727 52.381 0.00 0.00 0.00 5.01
2204 2342 5.426833 GCAGGGACATATAGGATTGGTCTAT 59.573 44.000 0.00 0.00 0.00 1.98
2208 2346 3.326521 TGCAGGGACATATAGGATTGGT 58.673 45.455 0.00 0.00 0.00 3.67
2265 2403 1.079127 CTACCACGTCCAAGGCTGG 60.079 63.158 0.00 0.00 45.08 4.85
2266 2404 1.079127 CCTACCACGTCCAAGGCTG 60.079 63.158 0.00 0.00 0.00 4.85
2278 2416 1.674322 GCTTTCCTTGCGCCTACCA 60.674 57.895 4.18 0.00 0.00 3.25
2313 2451 3.129502 CATCTGCACCACCCTGCG 61.130 66.667 0.00 0.00 40.31 5.18
2314 2452 2.034687 ACATCTGCACCACCCTGC 59.965 61.111 0.00 0.00 37.70 4.85
2315 2453 0.250858 TTGACATCTGCACCACCCTG 60.251 55.000 0.00 0.00 0.00 4.45
2316 2454 0.700564 ATTGACATCTGCACCACCCT 59.299 50.000 0.00 0.00 0.00 4.34
2317 2455 1.549203 AATTGACATCTGCACCACCC 58.451 50.000 0.00 0.00 0.00 4.61
2478 2616 5.146460 CAAGGTACAAATCATTGTCACACG 58.854 41.667 0.00 0.00 46.78 4.49
2546 2684 7.308435 GGAGTCTTATTCATGGACAAAACAAG 58.692 38.462 0.00 0.00 32.98 3.16
2548 2686 5.710099 GGGAGTCTTATTCATGGACAAAACA 59.290 40.000 0.00 0.00 32.98 2.83
2598 2736 0.033405 AAATCAGCAGGAGCAGCCAT 60.033 50.000 0.00 0.00 45.49 4.40
2658 2796 2.596851 GCTCTCTTCCTGGGCCACA 61.597 63.158 0.00 0.00 0.00 4.17
2691 2829 2.745884 CCCGCATCGGCAGTTTCA 60.746 61.111 0.00 0.00 46.86 2.69
2865 3006 2.108157 TCGGTGCACTCGCTGTTT 59.892 55.556 17.98 0.00 39.64 2.83
2901 3042 0.178068 ACACCGATATGTCCAGCACC 59.822 55.000 0.00 0.00 0.00 5.01
3182 3323 0.924823 AAAGCTCCTCCATGATGGCT 59.075 50.000 6.59 0.00 37.47 4.75
3201 3342 0.378610 CGCAGAGCTCATCGTAGTCA 59.621 55.000 17.77 0.00 0.00 3.41
3251 3392 2.566833 AGGAGTTAGTGTTGCATGCA 57.433 45.000 18.46 18.46 0.00 3.96
3252 3393 3.941483 ACATAGGAGTTAGTGTTGCATGC 59.059 43.478 11.82 11.82 0.00 4.06
3253 3394 5.872635 CAACATAGGAGTTAGTGTTGCATG 58.127 41.667 4.43 0.00 43.11 4.06
3308 3449 5.509272 CACAAGCTTTGCAATGATAGTAACG 59.491 40.000 15.97 0.00 0.00 3.18
3386 3528 4.404715 CCTCAAACCCTCTTTATACTCGGA 59.595 45.833 0.00 0.00 0.00 4.55
3388 3530 5.340439 ACCTCAAACCCTCTTTATACTCG 57.660 43.478 0.00 0.00 0.00 4.18
3393 3535 6.447084 TGATTAGGACCTCAAACCCTCTTTAT 59.553 38.462 0.00 0.00 0.00 1.40
3399 3541 4.111577 TCATGATTAGGACCTCAAACCCT 58.888 43.478 0.00 0.00 0.00 4.34
3456 3598 7.686434 TGGTACTAGAATTTTCCAACTAGCTT 58.314 34.615 0.00 0.00 36.71 3.74
3457 3599 7.180408 TCTGGTACTAGAATTTTCCAACTAGCT 59.820 37.037 6.45 0.00 36.71 3.32
3474 3617 6.860790 TGACAATAATGTGGTCTGGTACTA 57.139 37.500 0.00 0.00 40.74 1.82
3501 3644 9.877178 CTAAAGAAACCAGTACAGAGTGATAAT 57.123 33.333 0.00 0.00 0.00 1.28
3517 3663 5.515797 AAACTGGACAAGCTAAAGAAACC 57.484 39.130 0.00 0.00 0.00 3.27
3616 3765 6.886178 AATGGTACTTGTACTCCCAACTAT 57.114 37.500 10.26 0.00 0.00 2.12
3619 3768 6.317893 CCAATAATGGTACTTGTACTCCCAAC 59.682 42.308 10.26 0.00 42.18 3.77
3620 3769 6.419791 CCAATAATGGTACTTGTACTCCCAA 58.580 40.000 10.26 0.00 42.18 4.12
3621 3770 5.996644 CCAATAATGGTACTTGTACTCCCA 58.003 41.667 10.26 1.78 42.18 4.37
3672 3821 9.294030 GTCAGGCAAAAATGTTTAGAGATAATG 57.706 33.333 0.00 0.00 0.00 1.90
3846 3995 2.731976 CGCTATTATTCCAAGCTCGGAC 59.268 50.000 0.00 0.00 33.75 4.79
3983 4132 6.349363 GCCTAACTAACAAATTGTTCAGAGGG 60.349 42.308 15.22 13.40 40.22 4.30
4046 4195 9.706529 AGATATTTGCTCTATTTCTCCCTTTTT 57.293 29.630 0.00 0.00 0.00 1.94
4177 4339 9.593134 GAAGAAGTACTACATGAAGTGATGATT 57.407 33.333 0.00 0.00 0.00 2.57
4259 4421 5.036117 AGACTGACAGCACCTCTTTTAAA 57.964 39.130 1.25 0.00 0.00 1.52
4278 4455 6.926272 CAGGTAAGCTCCATTTATCACTAGAC 59.074 42.308 0.00 0.00 0.00 2.59
4287 4464 5.296151 CCTGATCAGGTAAGCTCCATTTA 57.704 43.478 30.55 0.00 43.61 1.40
4361 4538 6.055588 GTGTAGATAAAATAGCCCTTCAGCA 58.944 40.000 0.00 0.00 34.23 4.41
4397 4574 1.024271 CCCTGTGAATTATGTGCCGG 58.976 55.000 0.00 0.00 0.00 6.13
4415 4592 6.705863 AGAATATTTGAAGCCTTGATGTCC 57.294 37.500 0.00 0.00 0.00 4.02
4463 4640 6.130569 ACAGGCTAGCAGTAGAATTAGTACT 58.869 40.000 18.24 0.00 0.00 2.73
4554 4732 4.730657 CCAAAATCTGAGATCTGTGCAAC 58.269 43.478 0.00 0.00 37.35 4.17
4782 4960 4.277476 TGAAACATTGTTCTGGTCCACTT 58.723 39.130 1.83 0.00 0.00 3.16
4888 5067 1.000506 ACTCCGTATGCAAACACGTCT 59.999 47.619 15.02 0.00 36.44 4.18
4891 5070 3.784199 GCAATACTCCGTATGCAAACACG 60.784 47.826 10.81 10.81 37.89 4.49
4922 5101 0.321298 GCTTTCCGCCCTGTCACTAA 60.321 55.000 0.00 0.00 0.00 2.24
4954 5133 3.209410 CCATATCACCAGGCTTTGTCTC 58.791 50.000 0.00 0.00 0.00 3.36
4992 5171 9.072375 TCTACTTGTGATGAAGTATATCAGAGG 57.928 37.037 0.00 0.00 37.70 3.69
5008 5190 7.978414 CAGAGAGCTAATTGAATCTACTTGTGA 59.022 37.037 0.00 0.00 0.00 3.58
5009 5191 7.978414 TCAGAGAGCTAATTGAATCTACTTGTG 59.022 37.037 0.00 0.00 0.00 3.33
5011 5193 8.939201 TTCAGAGAGCTAATTGAATCTACTTG 57.061 34.615 0.00 0.00 0.00 3.16
5113 5301 5.452077 GGATTCCAGAAGCACGTAACTATCT 60.452 44.000 0.00 0.00 0.00 1.98
5193 5381 1.341080 CCAGCCCCTTCATGTTGTTT 58.659 50.000 0.00 0.00 0.00 2.83
5352 5540 5.120830 AGTTTACAGTGTTCATTCTGCGATC 59.879 40.000 0.00 0.00 35.37 3.69
5621 5809 1.087501 GAAAGCGGGAGGATCACAAC 58.912 55.000 0.00 0.00 39.81 3.32
5702 5890 5.879223 AGAAATGACACCTTAGATCAGCAAG 59.121 40.000 0.00 0.00 0.00 4.01
5757 5945 1.644509 ACAGGCATACAGGTCACAGA 58.355 50.000 0.00 0.00 0.00 3.41
5833 6048 2.332063 ATAAACCCTGCAGATGACCG 57.668 50.000 17.39 0.00 0.00 4.79
6077 6357 9.531942 CTGAAAACAAAATATGCAATATGGCTA 57.468 29.630 3.19 0.00 38.94 3.93
6125 6407 3.449018 CAGAGTACTGCATAGTGGAGGTT 59.551 47.826 0.00 0.00 40.38 3.50
6178 6460 8.397906 GCAAGCACAATATTGTCTCTGTATTTA 58.602 33.333 18.25 0.00 39.91 1.40
6221 6512 7.597743 GGTATTGTAATGAGGTAACCGATGTAG 59.402 40.741 0.00 0.00 37.17 2.74
6253 6546 6.751514 TTAATGTTATGCGTGAGGTGAAAT 57.248 33.333 0.00 0.00 0.00 2.17
6255 6548 5.470437 TGTTTAATGTTATGCGTGAGGTGAA 59.530 36.000 0.00 0.00 0.00 3.18
6264 6557 6.883129 TGGATACGATGTTTAATGTTATGCG 58.117 36.000 0.00 0.00 42.51 4.73
6267 6560 9.793259 AATCCTGGATACGATGTTTAATGTTAT 57.207 29.630 10.13 0.00 42.51 1.89
6387 6680 4.107072 AGACCAGAATCCTCTCCATTCAA 58.893 43.478 0.00 0.00 33.34 2.69
6408 6701 2.178890 GCGAGGCTCAGATGGCAAG 61.179 63.158 15.95 0.00 34.73 4.01
6462 6755 0.945265 TTCGGTTGGTTTACGAGGCG 60.945 55.000 0.00 0.00 37.95 5.52
6492 6785 0.605319 GTGGAGTCGCAATGAACCCA 60.605 55.000 0.00 0.00 0.00 4.51
6513 6806 7.223582 GCTGATTTTCATCGGACGATCATATAT 59.776 37.037 3.94 0.00 37.97 0.86


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

AutoCloner maintained by Alex Coulton.