Multiple sequence alignment - TraesCS7D01G504200

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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 TraesCS7D01G504200 chr7D 100.000 3647 0 0 1 3647 610422598 610418952 0.000000e+00 6735.0
1 TraesCS7D01G504200 chr7D 92.795 2540 128 25 666 3175 608272455 608274969 0.000000e+00 3626.0
2 TraesCS7D01G504200 chr7D 91.249 2297 128 24 586 2871 608222067 608224301 0.000000e+00 3061.0
3 TraesCS7D01G504200 chr7D 90.926 1653 104 20 1700 3334 514918648 514920272 0.000000e+00 2180.0
4 TraesCS7D01G504200 chr7D 86.486 481 36 10 1 454 514908353 514908831 5.440000e-138 501.0
5 TraesCS7D01G504200 chr7D 83.688 564 34 12 1 564 608269718 608270223 2.550000e-131 479.0
6 TraesCS7D01G504200 chr7D 82.883 333 45 7 201 525 610705271 610705599 4.610000e-74 289.0
7 TraesCS7D01G504200 chr7D 92.391 92 3 2 586 673 608270209 608270300 1.060000e-25 128.0
8 TraesCS7D01G504200 chr7B 92.674 2771 158 20 661 3390 696238401 696241167 0.000000e+00 3951.0
9 TraesCS7D01G504200 chr7B 94.212 2419 120 14 989 3390 698682699 698685114 0.000000e+00 3674.0
10 TraesCS7D01G504200 chr7B 94.632 1863 83 10 1385 3232 693664476 693666336 0.000000e+00 2870.0
11 TraesCS7D01G504200 chr7B 91.356 1770 119 18 587 2340 693681458 693683209 0.000000e+00 2390.0
12 TraesCS7D01G504200 chr7B 92.279 1075 58 11 2332 3392 693684866 693685929 0.000000e+00 1502.0
13 TraesCS7D01G504200 chr7B 91.859 1081 55 13 2332 3390 693698819 693699888 0.000000e+00 1478.0
14 TraesCS7D01G504200 chr7B 93.384 529 31 3 2789 3314 693716221 693716748 0.000000e+00 780.0
15 TraesCS7D01G504200 chr7B 93.917 411 22 1 586 996 693663612 693664019 5.170000e-173 617.0
16 TraesCS7D01G504200 chr7B 89.086 394 30 7 175 564 693713634 693714018 9.160000e-131 477.0
17 TraesCS7D01G504200 chr7B 86.414 449 32 10 109 549 694746427 694746854 7.130000e-127 464.0
18 TraesCS7D01G504200 chr7B 93.548 310 17 1 644 953 698682399 698682705 3.320000e-125 459.0
19 TraesCS7D01G504200 chr7B 89.560 364 28 6 162 524 693678338 693678692 1.540000e-123 453.0
20 TraesCS7D01G504200 chr7B 89.560 364 28 6 162 524 693693855 693694209 1.540000e-123 453.0
21 TraesCS7D01G504200 chr7B 77.893 769 122 27 903 1656 696297740 696298475 5.590000e-118 435.0
22 TraesCS7D01G504200 chr7B 86.967 399 27 14 188 566 696237994 696238387 3.370000e-115 425.0
23 TraesCS7D01G504200 chr7B 87.245 392 16 7 602 982 694746851 694747219 2.030000e-112 416.0
24 TraesCS7D01G504200 chr7B 92.281 285 17 3 283 566 698676429 698676709 2.040000e-107 399.0
25 TraesCS7D01G504200 chr7B 90.941 287 22 1 280 566 693663346 693663628 2.050000e-102 383.0
26 TraesCS7D01G504200 chr7B 87.572 346 18 14 586 909 693714004 693714346 9.560000e-101 377.0
27 TraesCS7D01G504200 chr7B 88.646 229 24 2 1 228 693663116 693663343 9.970000e-71 278.0
28 TraesCS7D01G504200 chr7B 91.045 201 17 1 4 203 696230259 696230459 1.670000e-68 270.0
29 TraesCS7D01G504200 chr7B 92.568 148 11 0 1 148 693674104 693674251 2.850000e-51 213.0
30 TraesCS7D01G504200 chr7B 96.491 114 4 0 3534 3647 126134060 126134173 4.810000e-44 189.0
31 TraesCS7D01G504200 chr7B 94.828 58 3 0 586 643 698676693 698676750 1.390000e-14 91.6
32 TraesCS7D01G504200 chrUn 93.518 2530 130 17 887 3395 77521196 77523712 0.000000e+00 3733.0
33 TraesCS7D01G504200 chrUn 91.314 1773 120 18 587 2343 364811047 364809293 0.000000e+00 2390.0
34 TraesCS7D01G504200 chrUn 88.264 818 71 17 587 1388 344773534 344772726 0.000000e+00 955.0
35 TraesCS7D01G504200 chrUn 90.121 577 40 7 1 566 77515035 77515605 0.000000e+00 734.0
36 TraesCS7D01G504200 chrUn 93.375 317 16 2 586 900 77515589 77515902 7.130000e-127 464.0
37 TraesCS7D01G504200 chrUn 92.135 267 19 2 3127 3392 254027811 254028076 3.440000e-100 375.0
38 TraesCS7D01G504200 chr7A 94.227 2373 96 15 735 3080 700299946 700302304 0.000000e+00 3585.0
39 TraesCS7D01G504200 chr7A 93.932 2373 103 15 735 3080 700337764 700340122 0.000000e+00 3546.0
40 TraesCS7D01G504200 chr7A 87.129 404 18 10 3008 3390 700302280 700302670 9.360000e-116 427.0
41 TraesCS7D01G504200 chr7A 87.129 404 18 10 3008 3390 700340098 700340488 9.360000e-116 427.0
42 TraesCS7D01G504200 chr5D 88.424 1650 157 11 1113 2729 3632899 3634547 0.000000e+00 1958.0
43 TraesCS7D01G504200 chr5D 88.303 1650 159 10 1113 2729 3660818 3659170 0.000000e+00 1947.0
44 TraesCS7D01G504200 chr4A 88.777 695 62 8 2622 3307 662021098 662020411 0.000000e+00 837.0
45 TraesCS7D01G504200 chr4A 88.609 676 55 9 2641 3307 662051488 662050826 0.000000e+00 802.0
46 TraesCS7D01G504200 chr4A 89.643 560 41 6 1 549 735184639 735184086 0.000000e+00 697.0
47 TraesCS7D01G504200 chr4A 86.957 621 48 11 505 1118 662053338 662052744 0.000000e+00 667.0
48 TraesCS7D01G504200 chr6B 87.719 114 14 0 3503 3616 65028272 65028159 2.280000e-27 134.0


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 TraesCS7D01G504200 chr7D 610418952 610422598 3646 True 6735.000000 6735 100.000000 1 3647 1 chr7D.!!$R1 3646
1 TraesCS7D01G504200 chr7D 608222067 608224301 2234 False 3061.000000 3061 91.249000 586 2871 1 chr7D.!!$F3 2285
2 TraesCS7D01G504200 chr7D 514918648 514920272 1624 False 2180.000000 2180 90.926000 1700 3334 1 chr7D.!!$F2 1634
3 TraesCS7D01G504200 chr7D 608269718 608274969 5251 False 1411.000000 3626 89.624667 1 3175 3 chr7D.!!$F5 3174
4 TraesCS7D01G504200 chr7B 696237994 696241167 3173 False 2188.000000 3951 89.820500 188 3390 2 chr7B.!!$F11 3202
5 TraesCS7D01G504200 chr7B 698682399 698685114 2715 False 2066.500000 3674 93.880000 644 3390 2 chr7B.!!$F13 2746
6 TraesCS7D01G504200 chr7B 693698819 693699888 1069 False 1478.000000 1478 91.859000 2332 3390 1 chr7B.!!$F4 1058
7 TraesCS7D01G504200 chr7B 693678338 693685929 7591 False 1448.333333 2390 91.065000 162 3392 3 chr7B.!!$F8 3230
8 TraesCS7D01G504200 chr7B 693663116 693666336 3220 False 1037.000000 2870 92.034000 1 3232 4 chr7B.!!$F7 3231
9 TraesCS7D01G504200 chr7B 693713634 693716748 3114 False 544.666667 780 90.014000 175 3314 3 chr7B.!!$F9 3139
10 TraesCS7D01G504200 chr7B 694746427 694747219 792 False 440.000000 464 86.829500 109 982 2 chr7B.!!$F10 873
11 TraesCS7D01G504200 chr7B 696297740 696298475 735 False 435.000000 435 77.893000 903 1656 1 chr7B.!!$F6 753
12 TraesCS7D01G504200 chrUn 77521196 77523712 2516 False 3733.000000 3733 93.518000 887 3395 1 chrUn.!!$F1 2508
13 TraesCS7D01G504200 chrUn 364809293 364811047 1754 True 2390.000000 2390 91.314000 587 2343 1 chrUn.!!$R2 1756
14 TraesCS7D01G504200 chrUn 344772726 344773534 808 True 955.000000 955 88.264000 587 1388 1 chrUn.!!$R1 801
15 TraesCS7D01G504200 chrUn 77515035 77515902 867 False 599.000000 734 91.748000 1 900 2 chrUn.!!$F3 899
16 TraesCS7D01G504200 chr7A 700299946 700302670 2724 False 2006.000000 3585 90.678000 735 3390 2 chr7A.!!$F1 2655
17 TraesCS7D01G504200 chr7A 700337764 700340488 2724 False 1986.500000 3546 90.530500 735 3390 2 chr7A.!!$F2 2655
18 TraesCS7D01G504200 chr5D 3632899 3634547 1648 False 1958.000000 1958 88.424000 1113 2729 1 chr5D.!!$F1 1616
19 TraesCS7D01G504200 chr5D 3659170 3660818 1648 True 1947.000000 1947 88.303000 1113 2729 1 chr5D.!!$R1 1616
20 TraesCS7D01G504200 chr4A 662020411 662021098 687 True 837.000000 837 88.777000 2622 3307 1 chr4A.!!$R1 685
21 TraesCS7D01G504200 chr4A 662050826 662053338 2512 True 734.500000 802 87.783000 505 3307 2 chr4A.!!$R3 2802
22 TraesCS7D01G504200 chr4A 735184086 735184639 553 True 697.000000 697 89.643000 1 549 1 chr4A.!!$R2 548

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
577 1867 0.112412 GTGCCTTTCCCAGGGAAGAA 59.888 55.0 20.9 6.73 46.54 2.52 F
1000 6069 0.248825 GCAAAATCACCACACACGCA 60.249 50.0 0.0 0.00 0.00 5.24 F
2364 9421 0.250338 ACGAGCTGTTTGGGGAAGTC 60.250 55.0 0.0 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 7069 0.890996 CTCCAGACGCTTTTGCCCTT 60.891 55.0 0.00 0.00 43.93 3.95 R
2592 9679 0.593128 CCTCGGGTGCTTTGTCTTTG 59.407 55.0 0.00 0.00 0.00 2.77 R
3411 10769 0.108089 TAAAATAGACAGGCGCGGCA 60.108 50.0 34.94 14.33 0.00 5.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 8.947115 CCAAAAGGTCGAGTTCTATTAAAATCT 58.053 33.333 0.00 0.00 0.00 2.40
65 66 3.778954 AACATAGGAATAGCAGAGGCC 57.221 47.619 0.00 0.00 42.56 5.19
85 86 3.077359 CCGAAAAATGAAGGCTCTCAGT 58.923 45.455 0.00 0.00 0.00 3.41
135 136 1.265236 TTGGTGGCCCAATGACATTC 58.735 50.000 0.00 0.00 45.93 2.67
138 139 2.024560 TGGTGGCCCAATGACATTCATA 60.025 45.455 0.00 0.00 35.76 2.15
228 231 5.447573 CGAAGGCTCAGAAGAAAAGAAAAG 58.552 41.667 0.00 0.00 0.00 2.27
230 233 6.072783 CGAAGGCTCAGAAGAAAAGAAAAGAT 60.073 38.462 0.00 0.00 0.00 2.40
231 234 7.521261 CGAAGGCTCAGAAGAAAAGAAAAGATT 60.521 37.037 0.00 0.00 0.00 2.40
232 235 6.979465 AGGCTCAGAAGAAAAGAAAAGATTG 58.021 36.000 0.00 0.00 0.00 2.67
233 236 6.774656 AGGCTCAGAAGAAAAGAAAAGATTGA 59.225 34.615 0.00 0.00 0.00 2.57
234 237 6.860539 GGCTCAGAAGAAAAGAAAAGATTGAC 59.139 38.462 0.00 0.00 0.00 3.18
238 241 6.634436 CAGAAGAAAAGAAAAGATTGACCGTG 59.366 38.462 0.00 0.00 0.00 4.94
250 253 3.389925 TTGACCGTGAATCCGTACTTT 57.610 42.857 0.00 0.00 0.00 2.66
274 277 2.806945 CCCCCTCATGCTGAGTTAAA 57.193 50.000 10.86 0.00 42.80 1.52
276 279 3.019564 CCCCCTCATGCTGAGTTAAAAG 58.980 50.000 10.86 0.00 42.80 2.27
438 513 0.169672 ACCGTGACGTAGGATTCGTG 59.830 55.000 3.64 0.00 41.64 4.35
493 568 1.888172 TGTGGTTTGTACACGCCCG 60.888 57.895 11.18 0.00 41.64 6.13
567 1857 3.256281 AGCTAAGCTGTGCCTTTCC 57.744 52.632 7.48 0.00 37.57 3.13
568 1858 0.322906 AGCTAAGCTGTGCCTTTCCC 60.323 55.000 7.48 0.00 37.57 3.97
569 1859 0.609131 GCTAAGCTGTGCCTTTCCCA 60.609 55.000 0.00 0.00 0.00 4.37
572 1862 2.677875 GCTGTGCCTTTCCCAGGG 60.678 66.667 0.00 0.00 44.16 4.45
573 1863 3.170362 CTGTGCCTTTCCCAGGGA 58.830 61.111 3.01 3.01 44.16 4.20
574 1864 1.460255 CTGTGCCTTTCCCAGGGAA 59.540 57.895 18.05 18.05 46.54 3.97
575 1865 0.610232 CTGTGCCTTTCCCAGGGAAG 60.610 60.000 20.90 11.80 46.54 3.46
577 1867 0.112412 GTGCCTTTCCCAGGGAAGAA 59.888 55.000 20.90 6.73 46.54 2.52
579 1869 1.219213 TGCCTTTCCCAGGGAAGAAAA 59.781 47.619 20.90 5.59 40.90 2.29
580 1870 2.325484 GCCTTTCCCAGGGAAGAAAAA 58.675 47.619 20.90 5.20 43.06 1.94
661 3504 0.590230 CTTCATCTCGCCGACGACTC 60.590 60.000 0.00 0.00 45.12 3.36
707 5717 7.466590 GCATCTCTGATTAGTTTCAAAGCTACC 60.467 40.741 0.00 0.00 0.00 3.18
997 6066 3.181487 ACTTCAGCAAAATCACCACACAC 60.181 43.478 0.00 0.00 0.00 3.82
1000 6069 0.248825 GCAAAATCACCACACACGCA 60.249 50.000 0.00 0.00 0.00 5.24
1003 6080 1.317613 AAATCACCACACACGCATGT 58.682 45.000 0.00 0.00 40.80 3.21
1061 6416 1.547372 GTCCAGGTCACTACGGCTTTA 59.453 52.381 0.00 0.00 0.00 1.85
1066 6421 2.167900 AGGTCACTACGGCTTTACATCC 59.832 50.000 0.00 0.00 0.00 3.51
1086 6444 2.868583 CCACACAATATCAAGAGGAGCG 59.131 50.000 0.00 0.00 0.00 5.03
1105 6477 3.757248 CTAGGTCCGGCCATGGCAC 62.757 68.421 36.56 25.67 44.11 5.01
1218 6603 2.490217 CGCCTCTACCTCACCACG 59.510 66.667 0.00 0.00 0.00 4.94
1314 6705 4.268687 CGCAGCGACTTCTTCCTT 57.731 55.556 9.98 0.00 0.00 3.36
1550 6941 2.014857 CTACCGAGTCGTCTTCCATCA 58.985 52.381 12.31 0.00 0.00 3.07
1662 7053 2.949177 TCACCAACAATGCTAGTGGT 57.051 45.000 0.00 0.00 0.00 4.16
1665 7056 3.326588 TCACCAACAATGCTAGTGGTAGT 59.673 43.478 0.48 0.00 0.00 2.73
1678 7069 1.980036 GTGGTAGTTGGAACCCCTACA 59.020 52.381 14.92 4.39 40.07 2.74
1860 7251 1.190178 ACCTTCTTTACGGACCGCCT 61.190 55.000 15.39 0.00 0.00 5.52
2151 7542 2.600769 AAGGTGACGCTCTCGGGT 60.601 61.111 0.00 0.00 40.69 5.28
2364 9421 0.250338 ACGAGCTGTTTGGGGAAGTC 60.250 55.000 0.00 0.00 0.00 3.01
2592 9679 3.251972 CAGAGGTGAAGAAAGGCAAAGAC 59.748 47.826 0.00 0.00 0.00 3.01
2595 9682 4.023291 AGGTGAAGAAAGGCAAAGACAAA 58.977 39.130 0.00 0.00 0.00 2.83
2830 10080 4.914504 CGTGCAACAATACAAAATGCTACA 59.085 37.500 0.00 0.00 37.86 2.74
2841 10099 9.893305 AATACAAAATGCTACAGTAACAAGAAC 57.107 29.630 0.00 0.00 0.00 3.01
2842 10100 6.735130 ACAAAATGCTACAGTAACAAGAACC 58.265 36.000 0.00 0.00 0.00 3.62
2852 10110 3.692593 AGTAACAAGAACCACACGCTTTT 59.307 39.130 0.00 0.00 0.00 2.27
2854 10112 2.088423 ACAAGAACCACACGCTTTTCA 58.912 42.857 0.00 0.00 0.00 2.69
3081 10394 1.551883 AGCAACCCAATTCTGCATTCC 59.448 47.619 0.00 0.00 38.58 3.01
3157 10485 5.284188 CAGAGCGTCGTTTACAAAACAAAAA 59.716 36.000 3.68 0.00 0.00 1.94
3201 10550 3.939592 ACTCGCCTATAAAACTTCCTTGC 59.060 43.478 0.00 0.00 0.00 4.01
3208 10557 6.992715 GCCTATAAAACTTCCTTGCTCTGATA 59.007 38.462 0.00 0.00 0.00 2.15
3319 10668 1.148273 GCTCACCTTGTGGTCACCA 59.852 57.895 0.00 0.00 46.60 4.17
3392 10750 7.281841 TGATGAGCATGTTTTGATGGATACTA 58.718 34.615 0.00 0.00 37.61 1.82
3393 10751 7.443272 TGATGAGCATGTTTTGATGGATACTAG 59.557 37.037 0.00 0.00 37.61 2.57
3394 10752 6.888105 TGAGCATGTTTTGATGGATACTAGA 58.112 36.000 0.00 0.00 37.61 2.43
3395 10753 6.763135 TGAGCATGTTTTGATGGATACTAGAC 59.237 38.462 0.00 0.00 37.61 2.59
3396 10754 6.058183 AGCATGTTTTGATGGATACTAGACC 58.942 40.000 0.00 0.00 37.61 3.85
3397 10755 5.822519 GCATGTTTTGATGGATACTAGACCA 59.177 40.000 0.00 3.59 40.57 4.02
3399 10757 7.521099 GCATGTTTTGATGGATACTAGACCATG 60.521 40.741 19.34 9.60 45.41 3.66
3400 10758 7.194112 TGTTTTGATGGATACTAGACCATGA 57.806 36.000 19.34 12.09 45.41 3.07
3401 10759 7.629157 TGTTTTGATGGATACTAGACCATGAA 58.371 34.615 19.34 15.88 45.41 2.57
3402 10760 7.770433 TGTTTTGATGGATACTAGACCATGAAG 59.230 37.037 19.34 0.00 45.41 3.02
3403 10761 6.425210 TTGATGGATACTAGACCATGAAGG 57.575 41.667 19.34 0.00 45.41 3.46
3404 10762 4.284490 TGATGGATACTAGACCATGAAGGC 59.716 45.833 19.34 9.60 45.41 4.35
3405 10763 2.972713 TGGATACTAGACCATGAAGGCC 59.027 50.000 0.00 0.00 38.33 5.19
3406 10764 2.303311 GGATACTAGACCATGAAGGCCC 59.697 54.545 0.00 0.00 43.14 5.80
3407 10765 1.410004 TACTAGACCATGAAGGCCCG 58.590 55.000 0.00 0.00 43.14 6.13
3408 10766 1.227674 CTAGACCATGAAGGCCCGC 60.228 63.158 0.00 0.00 43.14 6.13
3409 10767 2.978452 CTAGACCATGAAGGCCCGCG 62.978 65.000 0.00 0.00 43.14 6.46
3410 10768 4.778143 GACCATGAAGGCCCGCGT 62.778 66.667 4.92 0.00 43.14 6.01
3411 10769 4.344865 ACCATGAAGGCCCGCGTT 62.345 61.111 4.92 0.00 43.14 4.84
3412 10770 3.814268 CCATGAAGGCCCGCGTTG 61.814 66.667 4.92 0.00 0.00 4.10
3413 10771 4.481112 CATGAAGGCCCGCGTTGC 62.481 66.667 4.92 7.42 0.00 4.17
3426 10784 2.511600 GTTGCCGCGCCTGTCTAT 60.512 61.111 0.00 0.00 0.00 1.98
3427 10785 2.106683 GTTGCCGCGCCTGTCTATT 61.107 57.895 0.00 0.00 0.00 1.73
3428 10786 1.376683 TTGCCGCGCCTGTCTATTT 60.377 52.632 0.00 0.00 0.00 1.40
3429 10787 0.958382 TTGCCGCGCCTGTCTATTTT 60.958 50.000 0.00 0.00 0.00 1.82
3430 10788 0.108089 TGCCGCGCCTGTCTATTTTA 60.108 50.000 0.00 0.00 0.00 1.52
3431 10789 0.582005 GCCGCGCCTGTCTATTTTAG 59.418 55.000 0.00 0.00 0.00 1.85
3432 10790 1.805120 GCCGCGCCTGTCTATTTTAGA 60.805 52.381 0.00 0.00 0.00 2.10
3433 10791 2.546778 CCGCGCCTGTCTATTTTAGAA 58.453 47.619 0.00 0.00 36.40 2.10
3434 10792 2.933906 CCGCGCCTGTCTATTTTAGAAA 59.066 45.455 0.00 0.00 36.40 2.52
3435 10793 3.560068 CCGCGCCTGTCTATTTTAGAAAT 59.440 43.478 0.00 0.00 36.40 2.17
3436 10794 4.748102 CCGCGCCTGTCTATTTTAGAAATA 59.252 41.667 0.00 0.00 36.40 1.40
3437 10795 5.235616 CCGCGCCTGTCTATTTTAGAAATAA 59.764 40.000 0.00 0.00 36.40 1.40
3438 10796 6.073222 CCGCGCCTGTCTATTTTAGAAATAAT 60.073 38.462 0.00 0.00 36.40 1.28
3439 10797 7.117236 CCGCGCCTGTCTATTTTAGAAATAATA 59.883 37.037 0.00 0.00 36.40 0.98
3440 10798 8.492748 CGCGCCTGTCTATTTTAGAAATAATAA 58.507 33.333 0.00 0.00 36.40 1.40
3486 10844 8.715191 TTGAACAGTTCAAATTTACAATGCTT 57.285 26.923 23.82 0.00 45.94 3.91
3487 10845 9.809096 TTGAACAGTTCAAATTTACAATGCTTA 57.191 25.926 23.82 0.00 45.94 3.09
3488 10846 9.243637 TGAACAGTTCAAATTTACAATGCTTAC 57.756 29.630 13.90 0.00 36.59 2.34
3489 10847 7.851822 ACAGTTCAAATTTACAATGCTTACG 57.148 32.000 0.00 0.00 0.00 3.18
3490 10848 6.362283 ACAGTTCAAATTTACAATGCTTACGC 59.638 34.615 0.00 0.00 0.00 4.42
3491 10849 5.861787 AGTTCAAATTTACAATGCTTACGCC 59.138 36.000 0.00 0.00 34.43 5.68
3492 10850 5.378292 TCAAATTTACAATGCTTACGCCA 57.622 34.783 0.00 0.00 34.43 5.69
3493 10851 5.157781 TCAAATTTACAATGCTTACGCCAC 58.842 37.500 0.00 0.00 34.43 5.01
3494 10852 4.775058 AATTTACAATGCTTACGCCACA 57.225 36.364 0.00 0.00 34.43 4.17
3495 10853 4.981806 ATTTACAATGCTTACGCCACAT 57.018 36.364 0.00 0.00 34.43 3.21
3496 10854 3.755965 TTACAATGCTTACGCCACATG 57.244 42.857 0.00 0.00 34.43 3.21
3497 10855 1.819928 ACAATGCTTACGCCACATGA 58.180 45.000 0.00 0.00 34.43 3.07
3498 10856 1.468520 ACAATGCTTACGCCACATGAC 59.531 47.619 0.00 0.00 34.43 3.06
3499 10857 1.739466 CAATGCTTACGCCACATGACT 59.261 47.619 0.00 0.00 34.43 3.41
3500 10858 1.372582 ATGCTTACGCCACATGACTG 58.627 50.000 0.00 0.00 34.43 3.51
3501 10859 1.298157 TGCTTACGCCACATGACTGC 61.298 55.000 0.00 0.00 34.43 4.40
3502 10860 1.021390 GCTTACGCCACATGACTGCT 61.021 55.000 0.00 0.00 0.00 4.24
3503 10861 1.442769 CTTACGCCACATGACTGCTT 58.557 50.000 0.00 0.00 0.00 3.91
3504 10862 1.129251 CTTACGCCACATGACTGCTTG 59.871 52.381 0.00 0.00 0.00 4.01
3505 10863 0.320050 TACGCCACATGACTGCTTGA 59.680 50.000 0.00 0.00 0.00 3.02
3506 10864 0.534877 ACGCCACATGACTGCTTGAA 60.535 50.000 0.00 0.00 0.00 2.69
3507 10865 0.806868 CGCCACATGACTGCTTGAAT 59.193 50.000 0.00 0.00 0.00 2.57
3508 10866 2.009051 CGCCACATGACTGCTTGAATA 58.991 47.619 0.00 0.00 0.00 1.75
3509 10867 2.223112 CGCCACATGACTGCTTGAATAC 60.223 50.000 0.00 0.00 0.00 1.89
3510 10868 3.012518 GCCACATGACTGCTTGAATACT 58.987 45.455 0.00 0.00 0.00 2.12
3511 10869 3.441572 GCCACATGACTGCTTGAATACTT 59.558 43.478 0.00 0.00 0.00 2.24
3512 10870 4.635765 GCCACATGACTGCTTGAATACTTA 59.364 41.667 0.00 0.00 0.00 2.24
3513 10871 5.123820 GCCACATGACTGCTTGAATACTTAA 59.876 40.000 0.00 0.00 0.00 1.85
3514 10872 6.546395 CCACATGACTGCTTGAATACTTAAC 58.454 40.000 0.00 0.00 0.00 2.01
3515 10873 6.149308 CCACATGACTGCTTGAATACTTAACA 59.851 38.462 0.00 0.00 0.00 2.41
3516 10874 7.148188 CCACATGACTGCTTGAATACTTAACAT 60.148 37.037 0.00 0.00 0.00 2.71
3517 10875 8.239314 CACATGACTGCTTGAATACTTAACATT 58.761 33.333 0.00 0.00 0.00 2.71
3518 10876 8.239314 ACATGACTGCTTGAATACTTAACATTG 58.761 33.333 0.00 0.00 0.00 2.82
3519 10877 7.144722 TGACTGCTTGAATACTTAACATTGG 57.855 36.000 0.00 0.00 0.00 3.16
3520 10878 6.714810 TGACTGCTTGAATACTTAACATTGGT 59.285 34.615 0.00 0.00 0.00 3.67
3521 10879 7.230510 TGACTGCTTGAATACTTAACATTGGTT 59.769 33.333 0.00 0.00 41.06 3.67
3522 10880 8.630054 ACTGCTTGAATACTTAACATTGGTTA 57.370 30.769 0.00 0.00 38.45 2.85
3523 10881 9.243105 ACTGCTTGAATACTTAACATTGGTTAT 57.757 29.630 0.00 0.00 39.15 1.89
3524 10882 9.507280 CTGCTTGAATACTTAACATTGGTTATG 57.493 33.333 0.00 0.00 39.15 1.90
3525 10883 7.973388 TGCTTGAATACTTAACATTGGTTATGC 59.027 33.333 0.00 0.00 39.15 3.14
3526 10884 8.190784 GCTTGAATACTTAACATTGGTTATGCT 58.809 33.333 0.00 0.00 39.15 3.79
3527 10885 9.722056 CTTGAATACTTAACATTGGTTATGCTC 57.278 33.333 0.00 0.00 39.15 4.26
3528 10886 9.461312 TTGAATACTTAACATTGGTTATGCTCT 57.539 29.630 0.00 0.00 39.15 4.09
3532 10890 9.899661 ATACTTAACATTGGTTATGCTCTAACA 57.100 29.630 10.55 0.00 39.15 2.41
3533 10891 8.040716 ACTTAACATTGGTTATGCTCTAACAC 57.959 34.615 10.55 3.27 39.15 3.32
3534 10892 7.663905 ACTTAACATTGGTTATGCTCTAACACA 59.336 33.333 10.55 5.16 39.15 3.72
3535 10893 6.892658 AACATTGGTTATGCTCTAACACAA 57.107 33.333 10.55 11.26 37.81 3.33
3536 10894 6.892658 ACATTGGTTATGCTCTAACACAAA 57.107 33.333 10.55 4.30 37.81 2.83
3537 10895 7.466746 ACATTGGTTATGCTCTAACACAAAT 57.533 32.000 10.55 5.84 37.81 2.32
3538 10896 8.574251 ACATTGGTTATGCTCTAACACAAATA 57.426 30.769 10.55 0.00 37.81 1.40
3539 10897 9.189156 ACATTGGTTATGCTCTAACACAAATAT 57.811 29.630 10.55 0.00 37.81 1.28
3548 10906 8.378172 TGCTCTAACACAAATATATTACCAGC 57.622 34.615 0.00 0.07 0.00 4.85
3549 10907 7.990314 TGCTCTAACACAAATATATTACCAGCA 59.010 33.333 0.00 2.42 0.00 4.41
3550 10908 8.836413 GCTCTAACACAAATATATTACCAGCAA 58.164 33.333 0.00 0.00 0.00 3.91
3556 10914 9.855021 ACACAAATATATTACCAGCAAAAAGAC 57.145 29.630 0.00 0.00 0.00 3.01
3557 10915 9.853555 CACAAATATATTACCAGCAAAAAGACA 57.146 29.630 0.00 0.00 0.00 3.41
3564 10922 6.701145 TTACCAGCAAAAAGACAATACACA 57.299 33.333 0.00 0.00 0.00 3.72
3565 10923 5.186996 ACCAGCAAAAAGACAATACACAG 57.813 39.130 0.00 0.00 0.00 3.66
3566 10924 4.644685 ACCAGCAAAAAGACAATACACAGT 59.355 37.500 0.00 0.00 0.00 3.55
3567 10925 5.127031 ACCAGCAAAAAGACAATACACAGTT 59.873 36.000 0.00 0.00 0.00 3.16
3568 10926 5.687285 CCAGCAAAAAGACAATACACAGTTC 59.313 40.000 0.00 0.00 0.00 3.01
3569 10927 5.687285 CAGCAAAAAGACAATACACAGTTCC 59.313 40.000 0.00 0.00 0.00 3.62
3570 10928 5.359576 AGCAAAAAGACAATACACAGTTCCA 59.640 36.000 0.00 0.00 0.00 3.53
3571 10929 6.039616 GCAAAAAGACAATACACAGTTCCAA 58.960 36.000 0.00 0.00 0.00 3.53
3572 10930 6.533367 GCAAAAAGACAATACACAGTTCCAAA 59.467 34.615 0.00 0.00 0.00 3.28
3573 10931 7.254084 GCAAAAAGACAATACACAGTTCCAAAG 60.254 37.037 0.00 0.00 0.00 2.77
3574 10932 7.404671 AAAAGACAATACACAGTTCCAAAGT 57.595 32.000 0.00 0.00 0.00 2.66
3575 10933 8.514330 AAAAGACAATACACAGTTCCAAAGTA 57.486 30.769 0.00 0.00 0.00 2.24
3576 10934 7.730364 AAGACAATACACAGTTCCAAAGTAG 57.270 36.000 0.00 0.00 0.00 2.57
3577 10935 7.062749 AGACAATACACAGTTCCAAAGTAGA 57.937 36.000 0.00 0.00 0.00 2.59
3578 10936 6.929606 AGACAATACACAGTTCCAAAGTAGAC 59.070 38.462 0.00 0.00 0.00 2.59
3579 10937 6.588204 ACAATACACAGTTCCAAAGTAGACA 58.412 36.000 0.00 0.00 0.00 3.41
3580 10938 7.224297 ACAATACACAGTTCCAAAGTAGACAT 58.776 34.615 0.00 0.00 0.00 3.06
3581 10939 7.719633 ACAATACACAGTTCCAAAGTAGACATT 59.280 33.333 0.00 0.00 0.00 2.71
3582 10940 7.907214 ATACACAGTTCCAAAGTAGACATTC 57.093 36.000 0.00 0.00 0.00 2.67
3583 10941 5.680619 ACACAGTTCCAAAGTAGACATTCA 58.319 37.500 0.00 0.00 0.00 2.57
3584 10942 6.299141 ACACAGTTCCAAAGTAGACATTCAT 58.701 36.000 0.00 0.00 0.00 2.57
3585 10943 6.772716 ACACAGTTCCAAAGTAGACATTCATT 59.227 34.615 0.00 0.00 0.00 2.57
3586 10944 7.936847 ACACAGTTCCAAAGTAGACATTCATTA 59.063 33.333 0.00 0.00 0.00 1.90
3587 10945 8.783093 CACAGTTCCAAAGTAGACATTCATTAA 58.217 33.333 0.00 0.00 0.00 1.40
3588 10946 9.520515 ACAGTTCCAAAGTAGACATTCATTAAT 57.479 29.630 0.00 0.00 0.00 1.40
3589 10947 9.778993 CAGTTCCAAAGTAGACATTCATTAATG 57.221 33.333 9.29 9.29 46.66 1.90
3590 10948 8.462016 AGTTCCAAAGTAGACATTCATTAATGC 58.538 33.333 10.76 0.00 45.41 3.56
3591 10949 7.936496 TCCAAAGTAGACATTCATTAATGCA 57.064 32.000 10.76 0.00 45.41 3.96
3592 10950 8.523915 TCCAAAGTAGACATTCATTAATGCAT 57.476 30.769 10.76 2.40 45.41 3.96
3593 10951 8.970020 TCCAAAGTAGACATTCATTAATGCATT 58.030 29.630 17.56 17.56 45.41 3.56
3594 10952 9.590451 CCAAAGTAGACATTCATTAATGCATTT 57.410 29.630 18.75 0.00 45.41 2.32
3597 10955 9.793252 AAGTAGACATTCATTAATGCATTTGTC 57.207 29.630 23.14 23.14 45.41 3.18
3598 10956 9.182214 AGTAGACATTCATTAATGCATTTGTCT 57.818 29.630 30.34 30.34 45.41 3.41
3599 10957 9.229784 GTAGACATTCATTAATGCATTTGTCTG 57.770 33.333 32.80 22.08 45.41 3.51
3600 10958 6.755141 AGACATTCATTAATGCATTTGTCTGC 59.245 34.615 28.61 12.39 45.41 4.26
3601 10959 5.517411 ACATTCATTAATGCATTTGTCTGCG 59.483 36.000 18.75 4.98 45.41 5.18
3602 10960 4.700268 TCATTAATGCATTTGTCTGCGT 57.300 36.364 18.75 0.00 45.30 5.24
3604 10962 6.188400 TCATTAATGCATTTGTCTGCGTTA 57.812 33.333 18.75 6.62 46.69 3.18
3606 10964 2.549633 ATGCATTTGTCTGCGTTAGC 57.450 45.000 0.00 0.00 45.30 3.09
3618 10976 0.517316 GCGTTAGCACTTGAACAGGG 59.483 55.000 0.00 0.00 44.35 4.45
3619 10977 1.876416 GCGTTAGCACTTGAACAGGGA 60.876 52.381 0.00 0.00 44.35 4.20
3620 10978 2.069273 CGTTAGCACTTGAACAGGGAG 58.931 52.381 0.00 0.00 0.00 4.30
3621 10979 2.427506 GTTAGCACTTGAACAGGGAGG 58.572 52.381 0.00 0.00 0.00 4.30
3622 10980 2.024176 TAGCACTTGAACAGGGAGGA 57.976 50.000 0.00 0.00 0.00 3.71
3623 10981 0.689623 AGCACTTGAACAGGGAGGAG 59.310 55.000 0.00 0.00 0.00 3.69
3624 10982 0.398318 GCACTTGAACAGGGAGGAGT 59.602 55.000 0.00 0.00 0.00 3.85
3625 10983 1.623811 GCACTTGAACAGGGAGGAGTA 59.376 52.381 0.00 0.00 0.00 2.59
3626 10984 2.237392 GCACTTGAACAGGGAGGAGTAT 59.763 50.000 0.00 0.00 0.00 2.12
3627 10985 3.866651 CACTTGAACAGGGAGGAGTATG 58.133 50.000 0.00 0.00 0.00 2.39
3628 10986 2.237392 ACTTGAACAGGGAGGAGTATGC 59.763 50.000 0.00 0.00 0.00 3.14
3629 10987 1.951209 TGAACAGGGAGGAGTATGCA 58.049 50.000 0.00 0.00 0.00 3.96
3630 10988 1.555075 TGAACAGGGAGGAGTATGCAC 59.445 52.381 0.00 0.00 0.00 4.57
3631 10989 1.555075 GAACAGGGAGGAGTATGCACA 59.445 52.381 0.00 0.00 0.00 4.57
3632 10990 1.656587 ACAGGGAGGAGTATGCACAA 58.343 50.000 0.00 0.00 0.00 3.33
3633 10991 1.985159 ACAGGGAGGAGTATGCACAAA 59.015 47.619 0.00 0.00 0.00 2.83
3634 10992 2.290323 ACAGGGAGGAGTATGCACAAAC 60.290 50.000 0.00 0.00 0.00 2.93
3635 10993 1.985159 AGGGAGGAGTATGCACAAACA 59.015 47.619 0.00 0.00 0.00 2.83
3636 10994 2.084546 GGGAGGAGTATGCACAAACAC 58.915 52.381 0.00 0.00 0.00 3.32
3637 10995 2.552155 GGGAGGAGTATGCACAAACACA 60.552 50.000 0.00 0.00 0.00 3.72
3638 10996 3.347216 GGAGGAGTATGCACAAACACAT 58.653 45.455 0.00 0.00 0.00 3.21
3639 10997 3.127548 GGAGGAGTATGCACAAACACATG 59.872 47.826 0.00 0.00 0.00 3.21
3640 10998 2.489329 AGGAGTATGCACAAACACATGC 59.511 45.455 0.00 0.00 42.40 4.06
3641 10999 2.415893 GGAGTATGCACAAACACATGCC 60.416 50.000 0.00 0.00 41.33 4.40
3642 11000 1.545582 AGTATGCACAAACACATGCCC 59.454 47.619 0.00 0.00 41.33 5.36
3643 11001 1.545582 GTATGCACAAACACATGCCCT 59.454 47.619 0.00 0.00 41.33 5.19
3644 11002 0.604578 ATGCACAAACACATGCCCTC 59.395 50.000 0.00 0.00 41.33 4.30
3645 11003 1.081242 GCACAAACACATGCCCTCG 60.081 57.895 0.00 0.00 35.73 4.63
3646 11004 1.081242 CACAAACACATGCCCTCGC 60.081 57.895 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 9.330063 CTATTCCTATGTTACTTCATTTGCTGA 57.670 33.333 0.00 0.00 0.00 4.26
65 66 3.748048 TCACTGAGAGCCTTCATTTTTCG 59.252 43.478 0.00 0.00 0.00 3.46
103 104 3.496160 GGGCCACCAAACGATCACTATAT 60.496 47.826 4.39 0.00 36.50 0.86
205 208 5.237344 TCTTTTCTTTTCTTCTGAGCCTTCG 59.763 40.000 0.00 0.00 0.00 3.79
228 231 3.160777 AGTACGGATTCACGGTCAATC 57.839 47.619 0.00 0.00 38.39 2.67
230 233 3.389925 AAAGTACGGATTCACGGTCAA 57.610 42.857 0.00 0.00 38.39 3.18
231 234 3.389925 AAAAGTACGGATTCACGGTCA 57.610 42.857 0.00 0.00 38.39 4.02
232 235 3.305361 GCTAAAAGTACGGATTCACGGTC 59.695 47.826 0.00 0.00 38.39 4.79
233 236 3.256558 GCTAAAAGTACGGATTCACGGT 58.743 45.455 0.00 0.00 38.39 4.83
234 237 2.606272 GGCTAAAAGTACGGATTCACGG 59.394 50.000 0.00 0.00 38.39 4.94
238 241 2.569059 GGGGGCTAAAAGTACGGATTC 58.431 52.381 0.00 0.00 0.00 2.52
266 269 6.038936 GTCACCTAAAGTTGCCTTTTAACTCA 59.961 38.462 0.00 0.00 41.18 3.41
274 277 2.863809 CCTGTCACCTAAAGTTGCCTT 58.136 47.619 0.00 0.00 0.00 4.35
276 279 0.881796 GCCTGTCACCTAAAGTTGCC 59.118 55.000 0.00 0.00 0.00 4.52
284 344 3.000819 CCACGGGCCTGTCACCTA 61.001 66.667 16.42 0.00 0.00 3.08
438 513 2.216750 TTAGTACCACACCGCTCGCC 62.217 60.000 0.00 0.00 0.00 5.54
479 554 2.660612 CGGTCGGGCGTGTACAAAC 61.661 63.158 0.00 0.00 0.00 2.93
480 555 2.356075 CGGTCGGGCGTGTACAAA 60.356 61.111 0.00 0.00 0.00 2.83
481 556 3.271706 CTCGGTCGGGCGTGTACAA 62.272 63.158 0.00 0.00 0.00 2.41
482 557 3.740397 CTCGGTCGGGCGTGTACA 61.740 66.667 0.00 0.00 0.00 2.90
581 1871 4.441495 GGACAAGGCACAGTTTAGCTTTTT 60.441 41.667 0.00 0.00 0.00 1.94
583 1873 2.623416 GGACAAGGCACAGTTTAGCTTT 59.377 45.455 0.00 0.00 0.00 3.51
667 3510 4.469883 ATGCATGAGGTCGGCATC 57.530 55.556 0.00 0.00 44.41 3.91
733 5746 9.953565 TCTTGTTACAACAGGCTAGTATAAAAT 57.046 29.630 0.00 0.00 40.50 1.82
977 6046 2.223456 CGTGTGTGGTGATTTTGCTGAA 60.223 45.455 0.00 0.00 0.00 3.02
997 6066 5.262714 TGTTGCGTATATAATGACATGCG 57.737 39.130 0.00 0.00 34.01 4.73
1000 6069 8.708742 GTGTACATGTTGCGTATATAATGACAT 58.291 33.333 2.30 0.00 0.00 3.06
1003 6080 6.129035 GCGTGTACATGTTGCGTATATAATGA 60.129 38.462 16.28 0.00 0.00 2.57
1036 6381 0.811915 CGTAGTGACCTGGACTGGAG 59.188 60.000 0.00 0.00 0.00 3.86
1061 6416 5.678583 CTCCTCTTGATATTGTGTGGATGT 58.321 41.667 0.00 0.00 0.00 3.06
1066 6421 2.286294 GCGCTCCTCTTGATATTGTGTG 59.714 50.000 0.00 0.00 0.00 3.82
1086 6444 4.937431 GCCATGGCCGGACCTAGC 62.937 72.222 27.24 0.00 40.22 3.42
1236 6621 2.505819 GAGGTAGGGATTGAAGAAGGCA 59.494 50.000 0.00 0.00 0.00 4.75
1241 6626 3.776731 TCTGGAGGTAGGGATTGAAGA 57.223 47.619 0.00 0.00 0.00 2.87
1371 6762 2.659016 CTGTCCTTGCCGAGCTCA 59.341 61.111 15.40 0.00 0.00 4.26
1678 7069 0.890996 CTCCAGACGCTTTTGCCCTT 60.891 55.000 0.00 0.00 43.93 3.95
1845 7236 2.975536 CCAGGCGGTCCGTAAAGA 59.024 61.111 13.94 0.00 37.47 2.52
1860 7251 2.345991 GTAGACTTGCCGGTGCCA 59.654 61.111 1.90 0.00 36.33 4.92
2151 7542 2.416836 CCCGTCGATGAAGTTAAGCAGA 60.417 50.000 6.11 0.00 0.00 4.26
2592 9679 0.593128 CCTCGGGTGCTTTGTCTTTG 59.407 55.000 0.00 0.00 0.00 2.77
2595 9682 2.032681 GCCTCGGGTGCTTTGTCT 59.967 61.111 0.00 0.00 0.00 3.41
2830 10080 2.614829 AGCGTGTGGTTCTTGTTACT 57.385 45.000 0.00 0.00 0.00 2.24
2841 10099 1.876799 TGGTGTATGAAAAGCGTGTGG 59.123 47.619 0.00 0.00 0.00 4.17
2842 10100 3.617540 TTGGTGTATGAAAAGCGTGTG 57.382 42.857 0.00 0.00 0.00 3.82
2852 10110 5.381757 ACTTGTTAGCCTTTTGGTGTATGA 58.618 37.500 0.00 0.00 42.99 2.15
2854 10112 6.724893 AAACTTGTTAGCCTTTTGGTGTAT 57.275 33.333 0.00 0.00 42.99 2.29
3081 10394 1.915141 ACATTTGGTCAGGGCTGAAG 58.085 50.000 0.00 0.00 41.85 3.02
3319 10668 4.408596 ACCATTTTTCACCACCTTCAACAT 59.591 37.500 0.00 0.00 0.00 2.71
3392 10750 4.473520 CGCGGGCCTTCATGGTCT 62.474 66.667 0.84 0.00 41.10 3.85
3393 10751 4.778143 ACGCGGGCCTTCATGGTC 62.778 66.667 12.47 0.00 40.45 4.02
3394 10752 4.344865 AACGCGGGCCTTCATGGT 62.345 61.111 12.47 0.00 38.35 3.55
3395 10753 3.814268 CAACGCGGGCCTTCATGG 61.814 66.667 12.47 0.00 39.35 3.66
3396 10754 4.481112 GCAACGCGGGCCTTCATG 62.481 66.667 12.47 0.00 0.00 3.07
3409 10767 1.644786 AAATAGACAGGCGCGGCAAC 61.645 55.000 34.94 23.08 0.00 4.17
3410 10768 0.958382 AAAATAGACAGGCGCGGCAA 60.958 50.000 34.94 14.33 0.00 4.52
3411 10769 0.108089 TAAAATAGACAGGCGCGGCA 60.108 50.000 34.94 14.33 0.00 5.69
3412 10770 0.582005 CTAAAATAGACAGGCGCGGC 59.418 55.000 27.06 27.06 0.00 6.53
3413 10771 2.218953 TCTAAAATAGACAGGCGCGG 57.781 50.000 8.83 0.00 0.00 6.46
3414 10772 4.795970 ATTTCTAAAATAGACAGGCGCG 57.204 40.909 0.00 0.00 33.84 6.86
3462 10820 9.243637 GTAAGCATTGTAAATTTGAACTGTTCA 57.756 29.630 18.69 18.69 38.04 3.18
3463 10821 8.417176 CGTAAGCATTGTAAATTTGAACTGTTC 58.583 33.333 13.49 13.49 0.00 3.18
3464 10822 8.280909 CGTAAGCATTGTAAATTTGAACTGTT 57.719 30.769 0.00 0.00 0.00 3.16
3465 10823 7.851822 CGTAAGCATTGTAAATTTGAACTGT 57.148 32.000 0.00 0.00 0.00 3.55
3484 10842 1.129251 CAAGCAGTCATGTGGCGTAAG 59.871 52.381 0.00 0.00 43.44 2.34
3485 10843 1.155889 CAAGCAGTCATGTGGCGTAA 58.844 50.000 0.00 0.00 0.00 3.18
3486 10844 0.320050 TCAAGCAGTCATGTGGCGTA 59.680 50.000 0.00 0.00 0.00 4.42
3487 10845 0.534877 TTCAAGCAGTCATGTGGCGT 60.535 50.000 0.00 0.00 0.00 5.68
3488 10846 0.806868 ATTCAAGCAGTCATGTGGCG 59.193 50.000 0.00 0.00 0.00 5.69
3489 10847 3.012518 AGTATTCAAGCAGTCATGTGGC 58.987 45.455 0.00 0.00 0.00 5.01
3490 10848 6.149308 TGTTAAGTATTCAAGCAGTCATGTGG 59.851 38.462 0.00 0.00 0.00 4.17
3491 10849 7.132694 TGTTAAGTATTCAAGCAGTCATGTG 57.867 36.000 0.00 0.00 0.00 3.21
3492 10850 7.928307 ATGTTAAGTATTCAAGCAGTCATGT 57.072 32.000 0.00 0.00 0.00 3.21
3493 10851 7.699391 CCAATGTTAAGTATTCAAGCAGTCATG 59.301 37.037 0.00 0.00 0.00 3.07
3494 10852 7.394359 ACCAATGTTAAGTATTCAAGCAGTCAT 59.606 33.333 0.00 0.00 0.00 3.06
3495 10853 6.714810 ACCAATGTTAAGTATTCAAGCAGTCA 59.285 34.615 0.00 0.00 0.00 3.41
3496 10854 7.145932 ACCAATGTTAAGTATTCAAGCAGTC 57.854 36.000 0.00 0.00 0.00 3.51
3497 10855 7.524717 AACCAATGTTAAGTATTCAAGCAGT 57.475 32.000 0.00 0.00 31.36 4.40
3498 10856 9.507280 CATAACCAATGTTAAGTATTCAAGCAG 57.493 33.333 0.00 0.00 40.21 4.24
3499 10857 7.973388 GCATAACCAATGTTAAGTATTCAAGCA 59.027 33.333 0.00 0.00 40.21 3.91
3500 10858 8.190784 AGCATAACCAATGTTAAGTATTCAAGC 58.809 33.333 0.00 0.00 40.21 4.01
3501 10859 9.722056 GAGCATAACCAATGTTAAGTATTCAAG 57.278 33.333 0.00 0.00 40.21 3.02
3502 10860 9.461312 AGAGCATAACCAATGTTAAGTATTCAA 57.539 29.630 0.00 0.00 40.21 2.69
3506 10864 9.899661 TGTTAGAGCATAACCAATGTTAAGTAT 57.100 29.630 8.78 0.00 40.21 2.12
3507 10865 9.158233 GTGTTAGAGCATAACCAATGTTAAGTA 57.842 33.333 8.78 0.00 40.21 2.24
3508 10866 7.663905 TGTGTTAGAGCATAACCAATGTTAAGT 59.336 33.333 8.78 0.00 40.21 2.24
3509 10867 8.039603 TGTGTTAGAGCATAACCAATGTTAAG 57.960 34.615 8.78 0.00 40.21 1.85
3510 10868 7.987750 TGTGTTAGAGCATAACCAATGTTAA 57.012 32.000 8.78 0.00 40.21 2.01
3511 10869 7.987750 TTGTGTTAGAGCATAACCAATGTTA 57.012 32.000 8.78 0.00 41.03 2.41
3512 10870 6.892658 TTGTGTTAGAGCATAACCAATGTT 57.107 33.333 8.78 0.00 37.93 2.71
3513 10871 6.892658 TTTGTGTTAGAGCATAACCAATGT 57.107 33.333 8.78 0.00 37.93 2.71
3522 10880 9.003658 GCTGGTAATATATTTGTGTTAGAGCAT 57.996 33.333 2.68 0.00 0.00 3.79
3523 10881 7.990314 TGCTGGTAATATATTTGTGTTAGAGCA 59.010 33.333 2.68 0.00 0.00 4.26
3524 10882 8.378172 TGCTGGTAATATATTTGTGTTAGAGC 57.622 34.615 2.68 0.00 0.00 4.09
3530 10888 9.855021 GTCTTTTTGCTGGTAATATATTTGTGT 57.145 29.630 2.68 0.00 0.00 3.72
3531 10889 9.853555 TGTCTTTTTGCTGGTAATATATTTGTG 57.146 29.630 2.68 0.00 0.00 3.33
3538 10896 9.019656 TGTGTATTGTCTTTTTGCTGGTAATAT 57.980 29.630 0.00 0.00 0.00 1.28
3539 10897 8.397575 TGTGTATTGTCTTTTTGCTGGTAATA 57.602 30.769 0.00 0.00 0.00 0.98
3540 10898 7.014230 ACTGTGTATTGTCTTTTTGCTGGTAAT 59.986 33.333 0.00 0.00 0.00 1.89
3541 10899 6.320164 ACTGTGTATTGTCTTTTTGCTGGTAA 59.680 34.615 0.00 0.00 0.00 2.85
3542 10900 5.825679 ACTGTGTATTGTCTTTTTGCTGGTA 59.174 36.000 0.00 0.00 0.00 3.25
3543 10901 4.644685 ACTGTGTATTGTCTTTTTGCTGGT 59.355 37.500 0.00 0.00 0.00 4.00
3544 10902 5.186996 ACTGTGTATTGTCTTTTTGCTGG 57.813 39.130 0.00 0.00 0.00 4.85
3545 10903 5.687285 GGAACTGTGTATTGTCTTTTTGCTG 59.313 40.000 0.00 0.00 0.00 4.41
3546 10904 5.359576 TGGAACTGTGTATTGTCTTTTTGCT 59.640 36.000 0.00 0.00 0.00 3.91
3547 10905 5.587289 TGGAACTGTGTATTGTCTTTTTGC 58.413 37.500 0.00 0.00 0.00 3.68
3548 10906 7.759433 ACTTTGGAACTGTGTATTGTCTTTTTG 59.241 33.333 0.00 0.00 0.00 2.44
3549 10907 7.836842 ACTTTGGAACTGTGTATTGTCTTTTT 58.163 30.769 0.00 0.00 0.00 1.94
3550 10908 7.404671 ACTTTGGAACTGTGTATTGTCTTTT 57.595 32.000 0.00 0.00 0.00 2.27
3551 10909 7.990886 TCTACTTTGGAACTGTGTATTGTCTTT 59.009 33.333 0.00 0.00 0.00 2.52
3552 10910 7.441458 GTCTACTTTGGAACTGTGTATTGTCTT 59.559 37.037 0.00 0.00 0.00 3.01
3553 10911 6.929606 GTCTACTTTGGAACTGTGTATTGTCT 59.070 38.462 0.00 0.00 0.00 3.41
3554 10912 6.704493 TGTCTACTTTGGAACTGTGTATTGTC 59.296 38.462 0.00 0.00 0.00 3.18
3555 10913 6.588204 TGTCTACTTTGGAACTGTGTATTGT 58.412 36.000 0.00 0.00 0.00 2.71
3556 10914 7.672983 ATGTCTACTTTGGAACTGTGTATTG 57.327 36.000 0.00 0.00 0.00 1.90
3557 10915 7.936847 TGAATGTCTACTTTGGAACTGTGTATT 59.063 33.333 0.00 0.00 0.00 1.89
3558 10916 7.450074 TGAATGTCTACTTTGGAACTGTGTAT 58.550 34.615 0.00 0.00 0.00 2.29
3559 10917 6.822442 TGAATGTCTACTTTGGAACTGTGTA 58.178 36.000 0.00 0.00 0.00 2.90
3560 10918 5.680619 TGAATGTCTACTTTGGAACTGTGT 58.319 37.500 0.00 0.00 0.00 3.72
3561 10919 6.808008 ATGAATGTCTACTTTGGAACTGTG 57.192 37.500 0.00 0.00 0.00 3.66
3562 10920 8.918202 TTAATGAATGTCTACTTTGGAACTGT 57.082 30.769 0.00 0.00 0.00 3.55
3563 10921 9.778993 CATTAATGAATGTCTACTTTGGAACTG 57.221 33.333 10.04 0.00 38.13 3.16
3564 10922 8.462016 GCATTAATGAATGTCTACTTTGGAACT 58.538 33.333 19.73 0.00 43.82 3.01
3565 10923 8.243426 TGCATTAATGAATGTCTACTTTGGAAC 58.757 33.333 19.73 0.00 43.82 3.62
3566 10924 8.347004 TGCATTAATGAATGTCTACTTTGGAA 57.653 30.769 19.73 0.00 43.82 3.53
3567 10925 7.936496 TGCATTAATGAATGTCTACTTTGGA 57.064 32.000 19.73 0.00 43.82 3.53
3568 10926 9.590451 AAATGCATTAATGAATGTCTACTTTGG 57.410 29.630 19.73 0.00 43.82 3.28
3571 10929 9.793252 GACAAATGCATTAATGAATGTCTACTT 57.207 29.630 23.24 1.50 43.82 2.24
3572 10930 9.182214 AGACAAATGCATTAATGAATGTCTACT 57.818 29.630 28.32 13.81 43.82 2.57
3573 10931 9.229784 CAGACAAATGCATTAATGAATGTCTAC 57.770 33.333 28.65 12.51 43.82 2.59
3574 10932 7.916977 GCAGACAAATGCATTAATGAATGTCTA 59.083 33.333 28.65 3.23 45.77 2.59
3575 10933 6.755141 GCAGACAAATGCATTAATGAATGTCT 59.245 34.615 25.81 25.81 45.77 3.41
3576 10934 6.291427 CGCAGACAAATGCATTAATGAATGTC 60.291 38.462 23.14 23.14 46.87 3.06
3577 10935 5.517411 CGCAGACAAATGCATTAATGAATGT 59.483 36.000 19.73 12.03 46.87 2.71
3578 10936 5.517411 ACGCAGACAAATGCATTAATGAATG 59.483 36.000 19.73 8.65 46.87 2.67
3579 10937 5.653507 ACGCAGACAAATGCATTAATGAAT 58.346 33.333 19.73 11.61 46.87 2.57
3580 10938 5.058149 ACGCAGACAAATGCATTAATGAA 57.942 34.783 19.73 9.40 46.87 2.57
3581 10939 4.700268 ACGCAGACAAATGCATTAATGA 57.300 36.364 19.73 4.96 46.87 2.57
3582 10940 5.052172 GCTAACGCAGACAAATGCATTAATG 60.052 40.000 13.39 10.94 46.87 1.90
3583 10941 5.036737 GCTAACGCAGACAAATGCATTAAT 58.963 37.500 13.39 3.47 46.87 1.40
3584 10942 4.083057 TGCTAACGCAGACAAATGCATTAA 60.083 37.500 13.39 0.00 46.87 1.40
3585 10943 3.438434 TGCTAACGCAGACAAATGCATTA 59.562 39.130 13.39 0.00 46.87 1.90
3586 10944 2.228582 TGCTAACGCAGACAAATGCATT 59.771 40.909 5.99 5.99 46.87 3.56
3587 10945 1.811965 TGCTAACGCAGACAAATGCAT 59.188 42.857 0.00 0.00 46.87 3.96
3588 10946 1.233919 TGCTAACGCAGACAAATGCA 58.766 45.000 0.00 0.00 46.87 3.96
3598 10956 1.225855 CCTGTTCAAGTGCTAACGCA 58.774 50.000 0.00 0.00 45.60 5.24
3599 10957 0.517316 CCCTGTTCAAGTGCTAACGC 59.483 55.000 0.00 0.00 0.00 4.84
3600 10958 2.069273 CTCCCTGTTCAAGTGCTAACG 58.931 52.381 0.00 0.00 0.00 3.18
3601 10959 2.038557 TCCTCCCTGTTCAAGTGCTAAC 59.961 50.000 0.00 0.00 0.00 2.34
3602 10960 2.303022 CTCCTCCCTGTTCAAGTGCTAA 59.697 50.000 0.00 0.00 0.00 3.09
3603 10961 1.902508 CTCCTCCCTGTTCAAGTGCTA 59.097 52.381 0.00 0.00 0.00 3.49
3604 10962 0.689623 CTCCTCCCTGTTCAAGTGCT 59.310 55.000 0.00 0.00 0.00 4.40
3605 10963 0.398318 ACTCCTCCCTGTTCAAGTGC 59.602 55.000 0.00 0.00 0.00 4.40
3606 10964 3.866651 CATACTCCTCCCTGTTCAAGTG 58.133 50.000 0.00 0.00 0.00 3.16
3607 10965 2.237392 GCATACTCCTCCCTGTTCAAGT 59.763 50.000 0.00 0.00 0.00 3.16
3608 10966 2.237143 TGCATACTCCTCCCTGTTCAAG 59.763 50.000 0.00 0.00 0.00 3.02
3609 10967 2.027192 GTGCATACTCCTCCCTGTTCAA 60.027 50.000 0.00 0.00 0.00 2.69
3610 10968 1.555075 GTGCATACTCCTCCCTGTTCA 59.445 52.381 0.00 0.00 0.00 3.18
3611 10969 1.555075 TGTGCATACTCCTCCCTGTTC 59.445 52.381 0.00 0.00 0.00 3.18
3612 10970 1.656587 TGTGCATACTCCTCCCTGTT 58.343 50.000 0.00 0.00 0.00 3.16
3613 10971 1.656587 TTGTGCATACTCCTCCCTGT 58.343 50.000 0.00 0.00 0.00 4.00
3614 10972 2.290260 TGTTTGTGCATACTCCTCCCTG 60.290 50.000 0.00 0.00 0.00 4.45
3615 10973 1.985159 TGTTTGTGCATACTCCTCCCT 59.015 47.619 0.00 0.00 0.00 4.20
3616 10974 2.084546 GTGTTTGTGCATACTCCTCCC 58.915 52.381 0.00 0.00 0.00 4.30
3617 10975 2.778299 TGTGTTTGTGCATACTCCTCC 58.222 47.619 0.00 0.00 0.00 4.30
3618 10976 3.426695 GCATGTGTTTGTGCATACTCCTC 60.427 47.826 0.00 0.00 40.94 3.71
3619 10977 2.489329 GCATGTGTTTGTGCATACTCCT 59.511 45.455 0.00 0.00 40.94 3.69
3620 10978 2.415893 GGCATGTGTTTGTGCATACTCC 60.416 50.000 0.00 0.00 43.00 3.85
3621 10979 2.415893 GGGCATGTGTTTGTGCATACTC 60.416 50.000 0.00 0.00 43.00 2.59
3622 10980 1.545582 GGGCATGTGTTTGTGCATACT 59.454 47.619 0.00 0.00 43.00 2.12
3623 10981 1.545582 AGGGCATGTGTTTGTGCATAC 59.454 47.619 0.00 0.00 43.00 2.39
3624 10982 1.818060 GAGGGCATGTGTTTGTGCATA 59.182 47.619 0.00 0.00 43.00 3.14
3625 10983 0.604578 GAGGGCATGTGTTTGTGCAT 59.395 50.000 0.00 0.00 43.00 3.96
3626 10984 1.794151 CGAGGGCATGTGTTTGTGCA 61.794 55.000 0.00 0.00 43.00 4.57
3627 10985 1.081242 CGAGGGCATGTGTTTGTGC 60.081 57.895 0.00 0.00 40.55 4.57
3628 10986 1.081242 GCGAGGGCATGTGTTTGTG 60.081 57.895 0.00 0.00 39.62 3.33
3629 10987 3.354678 GCGAGGGCATGTGTTTGT 58.645 55.556 0.00 0.00 39.62 2.83


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

AutoCloner maintained by Alex Coulton.