Multiple sequence alignment - TraesCS6D01G062600

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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 TraesCS6D01G062600 chr6D 100.000 5151 0 0 1 5151 29193745 29198895 0.000000e+00 9513.0
1 TraesCS6D01G062600 chr6D 97.967 787 16 0 1 787 46455880 46455094 0.000000e+00 1365.0
2 TraesCS6D01G062600 chr6D 85.393 89 10 3 495 582 334808287 334808201 7.100000e-14 89.8
3 TraesCS6D01G062600 chr6D 100.000 28 0 0 5049 5076 29198740 29198767 9.000000e-03 52.8
4 TraesCS6D01G062600 chr6D 100.000 28 0 0 4996 5023 29198793 29198820 9.000000e-03 52.8
5 TraesCS6D01G062600 chr6A 94.598 1814 71 10 2161 3953 33223044 33221237 0.000000e+00 2782.0
6 TraesCS6D01G062600 chr6A 93.539 1331 63 9 786 2099 33224686 33223362 0.000000e+00 1960.0
7 TraesCS6D01G062600 chr6A 83.610 1507 183 18 1029 2502 46296443 46294968 0.000000e+00 1356.0
8 TraesCS6D01G062600 chr6A 85.749 1249 150 9 1089 2317 45667538 45668778 0.000000e+00 1295.0
9 TraesCS6D01G062600 chr6A 85.847 1187 120 24 3104 4263 45669675 45670840 0.000000e+00 1218.0
10 TraesCS6D01G062600 chr6A 93.490 553 28 6 4020 4566 33221227 33220677 0.000000e+00 815.0
11 TraesCS6D01G062600 chr6A 86.936 643 66 9 3110 3747 46294374 46293745 0.000000e+00 706.0
12 TraesCS6D01G062600 chr6A 81.856 485 53 17 3789 4263 46293734 46293275 4.870000e-100 375.0
13 TraesCS6D01G062600 chr6A 89.610 77 8 0 4461 4537 47538273 47538197 1.180000e-16 99.0
14 TraesCS6D01G062600 chr6A 92.157 51 3 1 4119 4168 45005347 45005297 2.570000e-08 71.3
15 TraesCS6D01G062600 chr6B 93.435 1843 101 11 988 2827 60107976 60106151 0.000000e+00 2715.0
16 TraesCS6D01G062600 chr6B 88.449 1567 125 26 3474 5013 60105412 60103875 0.000000e+00 1840.0
17 TraesCS6D01G062600 chr6B 84.648 1635 195 34 905 2502 79555934 79554319 0.000000e+00 1578.0
18 TraesCS6D01G062600 chr6B 84.587 1635 195 35 905 2502 79438441 79436827 0.000000e+00 1570.0
19 TraesCS6D01G062600 chr6B 84.611 1605 197 30 867 2443 78590893 78592475 0.000000e+00 1550.0
20 TraesCS6D01G062600 chr6B 83.125 1677 219 39 867 2502 79642301 79640648 0.000000e+00 1471.0
21 TraesCS6D01G062600 chr6B 86.885 1159 112 22 3120 4258 79640043 79638905 0.000000e+00 1262.0
22 TraesCS6D01G062600 chr6B 86.885 1159 111 23 3120 4258 79436222 79435085 0.000000e+00 1260.0
23 TraesCS6D01G062600 chr6B 86.713 1159 113 23 3120 4258 79553713 79552576 0.000000e+00 1249.0
24 TraesCS6D01G062600 chr6B 93.564 606 34 5 2873 3476 60106137 60105535 0.000000e+00 898.0
25 TraesCS6D01G062600 chr6B 90.047 643 33 13 147 786 45560560 45559946 0.000000e+00 804.0
26 TraesCS6D01G062600 chr6B 88.499 513 42 9 3104 3613 78593137 78593635 5.710000e-169 604.0
27 TraesCS6D01G062600 chr6B 100.000 33 0 0 5119 5151 60102505 60102473 1.550000e-05 62.1
28 TraesCS6D01G062600 chr6B 100.000 30 0 0 5076 5105 60103512 60103541 7.210000e-04 56.5
29 TraesCS6D01G062600 chrUn 85.288 1475 177 23 867 2317 112304658 112303200 0.000000e+00 1485.0
30 TraesCS6D01G062600 chrUn 85.918 1335 156 12 942 2262 27743479 27744795 0.000000e+00 1395.0
31 TraesCS6D01G062600 chrUn 87.054 981 93 18 3104 4072 27745607 27746565 0.000000e+00 1077.0
32 TraesCS6D01G062600 chrUn 85.384 951 105 20 3337 4262 112296002 112295061 0.000000e+00 955.0
33 TraesCS6D01G062600 chrUn 91.977 349 20 2 437 781 252525814 252525470 2.790000e-132 483.0
34 TraesCS6D01G062600 chrUn 91.983 237 11 3 3110 3345 112302438 112302209 4.970000e-85 326.0
35 TraesCS6D01G062600 chrUn 92.157 51 3 1 4119 4168 112681897 112681947 2.570000e-08 71.3
36 TraesCS6D01G062600 chr7D 97.823 781 16 1 1 781 104912049 104911270 0.000000e+00 1347.0
37 TraesCS6D01G062600 chr7D 96.935 783 19 4 1 781 586805591 586806370 0.000000e+00 1308.0
38 TraesCS6D01G062600 chr5D 94.514 802 28 8 1 802 221095598 221094813 0.000000e+00 1223.0
39 TraesCS6D01G062600 chr7B 90.110 637 33 12 147 781 283639806 283639198 0.000000e+00 800.0
40 TraesCS6D01G062600 chr5A 90.094 636 32 13 147 781 59141695 59142300 0.000000e+00 797.0
41 TraesCS6D01G062600 chr2A 89.855 483 20 11 147 629 173356935 173356482 1.230000e-165 593.0
42 TraesCS6D01G062600 chr2A 90.957 188 12 5 613 798 173356332 173356148 1.110000e-61 248.0
43 TraesCS6D01G062600 chr2A 96.875 32 0 1 1 31 173357199 173357168 9.000000e-03 52.8
44 TraesCS6D01G062600 chr2B 96.774 31 1 0 2994 3024 777194777 777194747 9.000000e-03 52.8


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 TraesCS6D01G062600 chr6D 29193745 29198895 5150 False 3206.200000 9513 100.000000 1 5151 3 chr6D.!!$F1 5150
1 TraesCS6D01G062600 chr6D 46455094 46455880 786 True 1365.000000 1365 97.967000 1 787 1 chr6D.!!$R1 786
2 TraesCS6D01G062600 chr6A 33220677 33224686 4009 True 1852.333333 2782 93.875667 786 4566 3 chr6A.!!$R3 3780
3 TraesCS6D01G062600 chr6A 45667538 45670840 3302 False 1256.500000 1295 85.798000 1089 4263 2 chr6A.!!$F1 3174
4 TraesCS6D01G062600 chr6A 46293275 46296443 3168 True 812.333333 1356 84.134000 1029 4263 3 chr6A.!!$R4 3234
5 TraesCS6D01G062600 chr6B 79435085 79438441 3356 True 1415.000000 1570 85.736000 905 4258 2 chr6B.!!$R3 3353
6 TraesCS6D01G062600 chr6B 79552576 79555934 3358 True 1413.500000 1578 85.680500 905 4258 2 chr6B.!!$R4 3353
7 TraesCS6D01G062600 chr6B 60102473 60107976 5503 True 1378.775000 2715 93.862000 988 5151 4 chr6B.!!$R2 4163
8 TraesCS6D01G062600 chr6B 79638905 79642301 3396 True 1366.500000 1471 85.005000 867 4258 2 chr6B.!!$R5 3391
9 TraesCS6D01G062600 chr6B 78590893 78593635 2742 False 1077.000000 1550 86.555000 867 3613 2 chr6B.!!$F2 2746
10 TraesCS6D01G062600 chr6B 45559946 45560560 614 True 804.000000 804 90.047000 147 786 1 chr6B.!!$R1 639
11 TraesCS6D01G062600 chrUn 27743479 27746565 3086 False 1236.000000 1395 86.486000 942 4072 2 chrUn.!!$F2 3130
12 TraesCS6D01G062600 chrUn 112295061 112296002 941 True 955.000000 955 85.384000 3337 4262 1 chrUn.!!$R1 925
13 TraesCS6D01G062600 chrUn 112302209 112304658 2449 True 905.500000 1485 88.635500 867 3345 2 chrUn.!!$R3 2478
14 TraesCS6D01G062600 chr7D 104911270 104912049 779 True 1347.000000 1347 97.823000 1 781 1 chr7D.!!$R1 780
15 TraesCS6D01G062600 chr7D 586805591 586806370 779 False 1308.000000 1308 96.935000 1 781 1 chr7D.!!$F1 780
16 TraesCS6D01G062600 chr5D 221094813 221095598 785 True 1223.000000 1223 94.514000 1 802 1 chr5D.!!$R1 801
17 TraesCS6D01G062600 chr7B 283639198 283639806 608 True 800.000000 800 90.110000 147 781 1 chr7B.!!$R1 634
18 TraesCS6D01G062600 chr5A 59141695 59142300 605 False 797.000000 797 90.094000 147 781 1 chr5A.!!$F1 634
19 TraesCS6D01G062600 chr2A 173356148 173357199 1051 True 297.933333 593 92.562333 1 798 3 chr2A.!!$R1 797

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
91 128 0.111061 TCCTGCATGCAAAGGTCTGT 59.889 50.000 22.88 0.0 34.94 3.41 F
1258 1595 0.119358 AGGTCTGCCCTTCCTACCTT 59.881 55.000 0.00 0.0 42.73 3.50 F
1260 1597 0.542333 GTCTGCCCTTCCTACCTTCC 59.458 60.000 0.00 0.0 0.00 3.46 F
1712 2079 0.991920 TCCCTTTACTGGAGGCTTGG 59.008 55.000 0.00 0.0 32.74 3.61 F
1873 2240 1.203287 TCCAGACAGACTTCAGCATCG 59.797 52.381 0.00 0.0 0.00 3.84 F
2099 2466 2.306384 CCGGAGCCTACCCCCTTTT 61.306 63.158 0.00 0.0 0.00 2.27 F
2962 3825 3.111853 TGGCGTGGAATGAGCTTATAG 57.888 47.619 0.00 0.0 0.00 1.31 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1560 1927 0.949105 ACGAGTAAACGCAGGCAAGG 60.949 55.000 0.00 0.0 36.70 3.61 R
2117 2484 0.393077 ACCTGCAGCGTAGACACTTT 59.607 50.000 8.66 0.0 0.00 2.66 R
3200 4308 4.351874 AAGCAAACTGCCTTACACTAGA 57.648 40.909 0.00 0.0 46.52 2.43 R
3684 4937 2.495669 ACAAACCCAAACAGTCAGGTTG 59.504 45.455 3.27 0.0 44.75 3.77 R
3758 5021 0.758734 TGGTCATCCCAGCTTATCGG 59.241 55.000 0.00 0.0 38.72 4.18 R
4002 5293 3.057596 TCACTTGGGATCGTTCAAATTGC 60.058 43.478 0.00 0.0 0.00 3.56 R
4377 5680 0.038166 AAGTGACCGACATGGCCAAT 59.962 50.000 10.96 0.0 43.94 3.16 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
91 128 0.111061 TCCTGCATGCAAAGGTCTGT 59.889 50.000 22.88 0.00 34.94 3.41
117 154 3.541071 TCACGAGAACGAACGACAATA 57.459 42.857 0.14 0.00 42.66 1.90
533 658 3.190744 CAGCACGTAGTAAGACAAGAGGA 59.809 47.826 0.00 0.00 41.61 3.71
574 707 6.258354 TCCTAGTAAATGAGTTGGTCAGGTA 58.742 40.000 0.00 0.00 39.07 3.08
754 1053 2.055633 TGGATTCCAGCCTCGCGTA 61.056 57.895 5.77 0.00 0.00 4.42
805 1104 7.095982 CGTACATATTATGCACAACAATCCGTA 60.096 37.037 3.52 0.00 0.00 4.02
909 1213 0.685097 TTCTTCGCTGTAACTGGGCT 59.315 50.000 0.00 0.00 0.00 5.19
980 1286 4.386951 CCACCACATCCCGCACGA 62.387 66.667 0.00 0.00 0.00 4.35
981 1287 2.815211 CACCACATCCCGCACGAG 60.815 66.667 0.00 0.00 0.00 4.18
983 1289 4.758251 CCACATCCCGCACGAGCA 62.758 66.667 5.50 0.00 42.27 4.26
985 1291 3.695606 ACATCCCGCACGAGCAGT 61.696 61.111 5.50 0.00 42.27 4.40
1224 1554 1.923909 CCCTCCCCTCCTCGGTTTT 60.924 63.158 0.00 0.00 0.00 2.43
1258 1595 0.119358 AGGTCTGCCCTTCCTACCTT 59.881 55.000 0.00 0.00 42.73 3.50
1260 1597 0.542333 GTCTGCCCTTCCTACCTTCC 59.458 60.000 0.00 0.00 0.00 3.46
1377 1720 4.618920 ACTCGTCTCCAACAAACCTAAT 57.381 40.909 0.00 0.00 0.00 1.73
1502 1869 1.769098 CTTCGTGCTGATGATGCCCG 61.769 60.000 0.00 0.00 32.93 6.13
1560 1927 1.160329 ACAAGCAACACAGACGAGCC 61.160 55.000 0.00 0.00 0.00 4.70
1712 2079 0.991920 TCCCTTTACTGGAGGCTTGG 59.008 55.000 0.00 0.00 32.74 3.61
1865 2232 3.579151 GGTTTACTCCTCCAGACAGACTT 59.421 47.826 0.00 0.00 0.00 3.01
1873 2240 1.203287 TCCAGACAGACTTCAGCATCG 59.797 52.381 0.00 0.00 0.00 3.84
1896 2263 5.348997 CGAGTTATGGAAGAGGAAAACTGAC 59.651 44.000 0.00 0.00 0.00 3.51
1948 2315 4.170468 AGAACCATTGAACTGGACAAGT 57.830 40.909 0.00 0.00 42.60 3.16
2082 2449 5.863935 GTCATTGCAGTTCAATAAACTTCCC 59.136 40.000 0.00 0.00 46.26 3.97
2099 2466 2.306384 CCGGAGCCTACCCCCTTTT 61.306 63.158 0.00 0.00 0.00 2.27
2156 2523 5.532406 CAGGTAAAGCATGCCTTACACATAT 59.468 40.000 30.59 14.37 42.17 1.78
2593 3421 8.701908 AATCTTGTTGTCATATGCCTATTCAT 57.298 30.769 0.00 0.00 0.00 2.57
2672 3529 3.927142 GTGGGAAGTTGAAGATGACTACG 59.073 47.826 0.00 0.00 0.00 3.51
2676 3533 4.859798 GGAAGTTGAAGATGACTACGTGAG 59.140 45.833 0.00 0.00 0.00 3.51
2837 3695 9.807921 TCATTTACCATTTTTAGAAGAGTCCTT 57.192 29.630 0.00 0.00 34.81 3.36
2853 3711 4.083565 AGTCCTTCTGAGAGTACCAAGTC 58.916 47.826 0.00 0.00 0.00 3.01
2859 3717 5.825593 TCTGAGAGTACCAAGTCCATTTT 57.174 39.130 0.00 0.00 0.00 1.82
2863 3721 5.929992 TGAGAGTACCAAGTCCATTTTTACG 59.070 40.000 0.00 0.00 0.00 3.18
2866 3724 6.870439 AGAGTACCAAGTCCATTTTTACGTAC 59.130 38.462 0.00 0.00 0.00 3.67
2869 3727 5.240121 ACCAAGTCCATTTTTACGTACGAT 58.760 37.500 24.41 8.93 0.00 3.73
2870 3728 5.702209 ACCAAGTCCATTTTTACGTACGATT 59.298 36.000 24.41 2.35 0.00 3.34
2871 3729 6.205270 ACCAAGTCCATTTTTACGTACGATTT 59.795 34.615 24.41 1.48 0.00 2.17
2962 3825 3.111853 TGGCGTGGAATGAGCTTATAG 57.888 47.619 0.00 0.00 0.00 1.31
3032 3895 9.071276 ACATGTTCTTCATTTCTACAACATTCT 57.929 29.630 0.00 0.00 33.26 2.40
3099 3996 7.817418 TGGTGTAGTTTTGCTTATCTTTTCT 57.183 32.000 0.00 0.00 0.00 2.52
3196 4304 9.585099 TCAATTTATTGCAGTTTTATGGATGAC 57.415 29.630 0.00 0.00 37.68 3.06
3350 4469 4.100344 TCAATGCTTTGCCGGTAGTCTATA 59.900 41.667 1.90 0.00 32.61 1.31
3363 4482 6.761714 CCGGTAGTCTATATTCTGCACTTTTT 59.238 38.462 0.00 0.00 0.00 1.94
3500 4751 8.475331 AATGTTATCAGTAAAACTAGTGGTCG 57.525 34.615 0.00 0.00 0.00 4.79
3504 4755 5.779529 TCAGTAAAACTAGTGGTCGAAGT 57.220 39.130 0.00 0.00 0.00 3.01
3508 4759 8.025445 TCAGTAAAACTAGTGGTCGAAGTATTC 58.975 37.037 0.00 0.00 43.09 1.75
3940 5230 3.159472 TCCTGTAGCGGTTCTCTGTTTA 58.841 45.455 0.00 0.00 0.00 2.01
4013 5304 1.462214 GCATTTGGCGCAATTTGAACG 60.462 47.619 10.83 0.00 0.00 3.95
4193 5490 3.029320 TGCAGAAATTGATTGTGTGCC 57.971 42.857 0.00 0.00 34.85 5.01
4322 5625 0.761932 CGTTTGCAAACTTACGTGCG 59.238 50.000 33.03 17.91 43.93 5.34
4371 5674 6.372659 ACACAGTGACTTGCTTGGATTAATAG 59.627 38.462 7.81 0.00 0.00 1.73
4377 5680 9.595823 GTGACTTGCTTGGATTAATAGTTAGTA 57.404 33.333 0.00 0.00 0.00 1.82
4389 5692 7.956420 TTAATAGTTAGTATTGGCCATGTCG 57.044 36.000 6.09 0.00 33.16 4.35
4401 5706 2.047274 ATGTCGGTCACTTGCGGG 60.047 61.111 0.00 0.00 0.00 6.13
4417 5722 0.523968 CGGGTCATTTGCTTGATGCG 60.524 55.000 0.00 0.00 46.63 4.73
4422 5727 1.469703 TCATTTGCTTGATGCGTCTGG 59.530 47.619 7.58 1.11 46.63 3.86
4458 5763 2.289072 GGCAAGCTCAACTGTCAGTCTA 60.289 50.000 5.82 0.00 0.00 2.59
4539 5849 9.424319 CATGGTGCTATCGTATTAGATTAACTT 57.576 33.333 0.00 0.00 32.39 2.66
4568 5880 1.303317 ATCACCAAGGTGGCCGAAC 60.303 57.895 18.51 0.00 42.67 3.95
4573 5885 3.503839 AAGGTGGCCGAACCCCAA 61.504 61.111 8.63 0.00 41.54 4.12
4578 5890 0.320334 GTGGCCGAACCCCAATTTTG 60.320 55.000 0.00 0.00 37.83 2.44
4596 5908 2.859165 TGTTACCAGAAAGCCCTCTG 57.141 50.000 5.80 5.80 42.19 3.35
4597 5909 1.271379 TGTTACCAGAAAGCCCTCTGC 60.271 52.381 7.06 0.00 41.36 4.26
4598 5910 1.064003 TTACCAGAAAGCCCTCTGCA 58.936 50.000 7.06 0.00 44.83 4.41
4599 5911 1.064003 TACCAGAAAGCCCTCTGCAA 58.936 50.000 7.06 0.00 44.83 4.08
4600 5912 0.407139 ACCAGAAAGCCCTCTGCAAT 59.593 50.000 7.06 0.00 44.83 3.56
4601 5913 1.101331 CCAGAAAGCCCTCTGCAATC 58.899 55.000 7.06 0.00 44.83 2.67
4602 5914 1.340795 CCAGAAAGCCCTCTGCAATCT 60.341 52.381 7.06 0.00 44.83 2.40
4603 5915 2.092753 CCAGAAAGCCCTCTGCAATCTA 60.093 50.000 7.06 0.00 44.83 1.98
4604 5916 3.434739 CCAGAAAGCCCTCTGCAATCTAT 60.435 47.826 7.06 0.00 44.83 1.98
4605 5917 4.205587 CAGAAAGCCCTCTGCAATCTATT 58.794 43.478 0.03 0.00 44.83 1.73
4606 5918 5.371526 CAGAAAGCCCTCTGCAATCTATTA 58.628 41.667 0.03 0.00 44.83 0.98
4607 5919 6.002704 CAGAAAGCCCTCTGCAATCTATTAT 58.997 40.000 0.03 0.00 44.83 1.28
4608 5920 6.002704 AGAAAGCCCTCTGCAATCTATTATG 58.997 40.000 0.00 0.00 44.83 1.90
4609 5921 3.683802 AGCCCTCTGCAATCTATTATGC 58.316 45.455 0.00 0.00 44.83 3.14
4677 5989 3.533146 TGGAAGTATTTACCCCCACTGA 58.467 45.455 0.00 0.00 0.00 3.41
4678 5990 3.521937 TGGAAGTATTTACCCCCACTGAG 59.478 47.826 0.00 0.00 0.00 3.35
4683 5995 5.567430 AGTATTTACCCCCACTGAGTTTTC 58.433 41.667 0.00 0.00 0.00 2.29
4702 6014 2.398588 TCCATCCGCATCTCTTTAGGT 58.601 47.619 0.00 0.00 0.00 3.08
4709 6021 4.222145 TCCGCATCTCTTTAGGTAAACAGT 59.778 41.667 0.00 0.00 0.00 3.55
4712 6024 6.097356 CGCATCTCTTTAGGTAAACAGTGTA 58.903 40.000 0.00 0.00 0.00 2.90
4713 6025 6.253727 CGCATCTCTTTAGGTAAACAGTGTAG 59.746 42.308 0.00 0.00 0.00 2.74
4714 6026 7.097834 GCATCTCTTTAGGTAAACAGTGTAGT 58.902 38.462 0.00 0.00 0.00 2.73
4715 6027 8.248945 GCATCTCTTTAGGTAAACAGTGTAGTA 58.751 37.037 0.00 0.00 0.00 1.82
4716 6028 9.790389 CATCTCTTTAGGTAAACAGTGTAGTAG 57.210 37.037 0.00 0.00 0.00 2.57
4717 6029 8.930846 TCTCTTTAGGTAAACAGTGTAGTAGT 57.069 34.615 0.00 0.00 0.00 2.73
4724 6036 8.469309 AGGTAAACAGTGTAGTAGTAAACAGA 57.531 34.615 0.00 0.00 0.00 3.41
4725 6037 8.355913 AGGTAAACAGTGTAGTAGTAAACAGAC 58.644 37.037 0.00 0.00 0.00 3.51
4739 6051 6.177610 AGTAAACAGACAACAACCTTCAGAA 58.822 36.000 0.00 0.00 0.00 3.02
4746 6058 4.460263 ACAACAACCTTCAGAACTGCATA 58.540 39.130 0.00 0.00 0.00 3.14
4747 6059 4.275936 ACAACAACCTTCAGAACTGCATAC 59.724 41.667 0.00 0.00 0.00 2.39
4763 6075 2.540101 GCATACAAGTCGCACTGTATCC 59.460 50.000 0.00 0.00 0.00 2.59
4772 6084 3.621268 GTCGCACTGTATCCTAATTGCAA 59.379 43.478 0.00 0.00 0.00 4.08
4797 6109 8.728088 ATTTGTTTTCTAAGTATTTCTGTGCG 57.272 30.769 0.00 0.00 0.00 5.34
4798 6110 6.854496 TGTTTTCTAAGTATTTCTGTGCGT 57.146 33.333 0.00 0.00 0.00 5.24
4799 6111 6.655062 TGTTTTCTAAGTATTTCTGTGCGTG 58.345 36.000 0.00 0.00 0.00 5.34
4809 6121 1.208358 CTGTGCGTGCATTGGAGTG 59.792 57.895 0.00 0.00 0.00 3.51
4825 6137 4.401022 TGGAGTGCAAATCTCTGTGAAAT 58.599 39.130 3.15 0.00 33.06 2.17
4826 6138 4.828939 TGGAGTGCAAATCTCTGTGAAATT 59.171 37.500 3.15 0.00 33.06 1.82
4834 6146 6.583806 GCAAATCTCTGTGAAATTGAAACGAT 59.416 34.615 10.75 0.00 31.35 3.73
4855 6167 1.628846 GAGTTCTTTCCTGTGGGCCTA 59.371 52.381 4.53 0.00 0.00 3.93
4856 6168 2.039879 GAGTTCTTTCCTGTGGGCCTAA 59.960 50.000 4.53 0.00 0.00 2.69
4874 6186 3.636764 CCTAACCTTTGCTCAACCAGTTT 59.363 43.478 0.00 0.00 0.00 2.66
4887 6199 4.282449 TCAACCAGTTTACGATCTTCAGGA 59.718 41.667 0.00 0.00 0.00 3.86
4888 6200 4.457834 ACCAGTTTACGATCTTCAGGAG 57.542 45.455 0.00 0.00 0.00 3.69
4890 6202 3.195825 CCAGTTTACGATCTTCAGGAGGT 59.804 47.826 0.00 0.00 0.00 3.85
4891 6203 4.425520 CAGTTTACGATCTTCAGGAGGTC 58.574 47.826 0.00 0.00 31.78 3.85
4915 6227 3.350833 CTCCCTTTGATGTTCTTCAGGG 58.649 50.000 0.00 0.00 34.09 4.45
4933 6245 1.443802 GGAGTTGGCTCTGCACTTAC 58.556 55.000 0.00 0.00 41.38 2.34
4970 6282 3.448660 GCATATCACCTTCCAGGCTTTTT 59.551 43.478 0.00 0.00 39.63 1.94
4971 6283 4.644685 GCATATCACCTTCCAGGCTTTTTA 59.355 41.667 0.00 0.00 39.63 1.52
4972 6284 5.302823 GCATATCACCTTCCAGGCTTTTTAT 59.697 40.000 0.00 0.00 39.63 1.40
4973 6285 6.515696 GCATATCACCTTCCAGGCTTTTTATC 60.516 42.308 0.00 0.00 39.63 1.75
5010 6322 3.119352 GGAGCCCTGTTAAATCTTTGCAG 60.119 47.826 0.00 0.00 0.00 4.41
5018 6601 7.401080 CCTGTTAAATCTTTGCAGTGTTTTTG 58.599 34.615 0.00 0.00 0.00 2.44
5019 6602 6.770076 TGTTAAATCTTTGCAGTGTTTTTGC 58.230 32.000 0.00 0.00 41.86 3.68
5050 6633 6.781138 CAGTGTAAAAACTGTATGTGTGTGT 58.219 36.000 0.00 0.00 42.21 3.72
5051 6634 7.247728 CAGTGTAAAAACTGTATGTGTGTGTT 58.752 34.615 0.00 0.00 42.21 3.32
5053 6636 8.948145 AGTGTAAAAACTGTATGTGTGTGTTAA 58.052 29.630 0.00 0.00 0.00 2.01
5060 6643 9.515020 AAACTGTATGTGTGTGTTAAATCTTTG 57.485 29.630 0.00 0.00 0.00 2.77
5061 6644 7.138736 ACTGTATGTGTGTGTTAAATCTTTGC 58.861 34.615 0.00 0.00 0.00 3.68
5063 6646 7.138081 TGTATGTGTGTGTTAAATCTTTGCAG 58.862 34.615 0.00 0.00 0.00 4.41
5064 6647 5.574891 TGTGTGTGTTAAATCTTTGCAGT 57.425 34.783 0.00 0.00 0.00 4.40
5065 6648 5.339177 TGTGTGTGTTAAATCTTTGCAGTG 58.661 37.500 0.00 0.00 0.00 3.66
5067 6650 5.804979 GTGTGTGTTAAATCTTTGCAGTGTT 59.195 36.000 0.00 0.00 0.00 3.32
5069 6652 6.870965 TGTGTGTTAAATCTTTGCAGTGTTTT 59.129 30.769 0.00 0.00 0.00 2.43
5070 6653 7.386299 TGTGTGTTAAATCTTTGCAGTGTTTTT 59.614 29.630 0.00 0.00 0.00 1.94
5071 6654 7.687757 GTGTGTTAAATCTTTGCAGTGTTTTTG 59.312 33.333 0.00 0.00 0.00 2.44
5073 6656 4.519191 AAATCTTTGCAGTGTTTTTGCG 57.481 36.364 0.00 0.00 44.40 4.85
5074 6657 2.645730 TCTTTGCAGTGTTTTTGCGT 57.354 40.000 0.00 0.00 44.40 5.24
5075 6658 3.766676 TCTTTGCAGTGTTTTTGCGTA 57.233 38.095 0.00 0.00 44.40 4.42
5076 6659 4.098055 TCTTTGCAGTGTTTTTGCGTAA 57.902 36.364 0.00 0.00 44.40 3.18
5077 6660 3.854809 TCTTTGCAGTGTTTTTGCGTAAC 59.145 39.130 0.00 0.00 44.40 2.50
5078 6661 1.816370 TGCAGTGTTTTTGCGTAACG 58.184 45.000 0.00 0.00 44.40 3.18
5079 6662 1.117234 GCAGTGTTTTTGCGTAACGG 58.883 50.000 0.00 0.00 0.00 4.44
5080 6663 1.117234 CAGTGTTTTTGCGTAACGGC 58.883 50.000 0.00 0.00 0.00 5.68
5081 6664 0.029700 AGTGTTTTTGCGTAACGGCC 59.970 50.000 0.00 0.00 0.00 6.13
5082 6665 0.029700 GTGTTTTTGCGTAACGGCCT 59.970 50.000 0.00 0.00 0.00 5.19
5083 6666 0.029567 TGTTTTTGCGTAACGGCCTG 59.970 50.000 0.00 0.00 0.00 4.85
5084 6667 0.029700 GTTTTTGCGTAACGGCCTGT 59.970 50.000 0.00 0.00 0.00 4.00
5085 6668 0.739561 TTTTTGCGTAACGGCCTGTT 59.260 45.000 15.51 15.51 44.78 3.16
5086 6669 0.739561 TTTTGCGTAACGGCCTGTTT 59.260 45.000 16.22 2.71 42.09 2.83
5089 6672 0.604243 TGCGTAACGGCCTGTTTGAT 60.604 50.000 16.22 0.00 42.09 2.57
5090 6673 0.519961 GCGTAACGGCCTGTTTGATT 59.480 50.000 16.22 0.00 42.09 2.57
5093 6676 2.413634 CGTAACGGCCTGTTTGATTTCC 60.414 50.000 16.22 0.00 42.09 3.13
5094 6677 1.995376 AACGGCCTGTTTGATTTCCT 58.005 45.000 0.00 0.00 37.59 3.36
5095 6678 1.995376 ACGGCCTGTTTGATTTCCTT 58.005 45.000 0.00 0.00 0.00 3.36
5098 7014 3.244770 ACGGCCTGTTTGATTTCCTTAGA 60.245 43.478 0.00 0.00 0.00 2.10
5100 7016 4.142600 CGGCCTGTTTGATTTCCTTAGAAG 60.143 45.833 0.00 0.00 32.35 2.85
5105 7021 7.067981 GCCTGTTTGATTTCCTTAGAAGATCAT 59.932 37.037 0.00 0.00 33.49 2.45
5113 7029 3.070734 TCCTTAGAAGATCATGGCTCAGC 59.929 47.826 0.00 0.00 0.00 4.26
5114 7030 3.181457 CCTTAGAAGATCATGGCTCAGCA 60.181 47.826 0.00 0.00 0.00 4.41
5115 7031 2.328819 AGAAGATCATGGCTCAGCAC 57.671 50.000 0.00 0.00 0.00 4.40
5116 7032 1.838715 AGAAGATCATGGCTCAGCACT 59.161 47.619 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 128 2.743664 TCGTTCGTTCTCGTGATAGGAA 59.256 45.455 0.00 0.00 38.33 3.36
117 154 5.894393 ACTACTACTCTCCATGCACATACTT 59.106 40.000 0.00 0.00 0.00 2.24
533 658 6.500589 ACTAGGATTAATGCACCACACTAT 57.499 37.500 9.81 0.00 0.00 2.12
717 1016 3.913799 TCCACACCCTCTATTTCTTTGGA 59.086 43.478 0.00 0.00 0.00 3.53
754 1053 4.833478 ATTCTTGAGTAGACATGGTGCT 57.167 40.909 0.00 0.00 30.90 4.40
818 1117 3.828451 AGTTACGGCTTGTAGTGTTCCTA 59.172 43.478 0.00 0.00 33.75 2.94
819 1118 2.631545 AGTTACGGCTTGTAGTGTTCCT 59.368 45.455 0.00 0.00 33.75 3.36
909 1213 2.234661 AGTGAATCGCTGAAGTGGATCA 59.765 45.455 0.00 0.00 0.00 2.92
979 1285 2.267324 GCCCTCCTCACACTGCTC 59.733 66.667 0.00 0.00 0.00 4.26
980 1286 3.699894 CGCCCTCCTCACACTGCT 61.700 66.667 0.00 0.00 0.00 4.24
981 1287 3.655810 CTCGCCCTCCTCACACTGC 62.656 68.421 0.00 0.00 0.00 4.40
983 1289 1.000993 ATCTCGCCCTCCTCACACT 59.999 57.895 0.00 0.00 0.00 3.55
985 1291 2.725312 GCATCTCGCCCTCCTCACA 61.725 63.158 0.00 0.00 32.94 3.58
986 1292 2.107953 GCATCTCGCCCTCCTCAC 59.892 66.667 0.00 0.00 32.94 3.51
1057 1387 2.254651 GAGCAGGTCGTCGTCGTT 59.745 61.111 1.33 0.00 38.33 3.85
1224 1554 3.498397 GCAGACCTTCATTTCTGACGAAA 59.502 43.478 2.77 0.00 41.65 3.46
1311 1648 4.668118 TTGAACCGGTCGCCGTCC 62.668 66.667 8.04 0.00 46.80 4.79
1354 1697 5.733620 TTAGGTTTGTTGGAGACGAGTAT 57.266 39.130 0.00 0.00 0.00 2.12
1560 1927 0.949105 ACGAGTAAACGCAGGCAAGG 60.949 55.000 0.00 0.00 36.70 3.61
1712 2079 5.184287 TCAAGAATTCCGGTAAAATTCCCAC 59.816 40.000 18.58 1.09 41.82 4.61
1865 2232 3.068732 CCTCTTCCATAACTCGATGCTGA 59.931 47.826 0.00 0.00 0.00 4.26
1873 2240 6.370166 CAGTCAGTTTTCCTCTTCCATAACTC 59.630 42.308 0.00 0.00 0.00 3.01
1896 2263 2.094906 CCATGAAGCAACACCATCACAG 60.095 50.000 0.00 0.00 0.00 3.66
2082 2449 1.689412 AAAAAGGGGGTAGGCTCCG 59.311 57.895 0.00 0.00 35.58 4.63
2115 2482 1.337260 CCTGCAGCGTAGACACTTTCT 60.337 52.381 8.66 0.00 38.51 2.52
2117 2484 0.393077 ACCTGCAGCGTAGACACTTT 59.607 50.000 8.66 0.00 0.00 2.66
2252 2956 8.114290 GCAGCAAAAGAAACAATTGATATGATG 58.886 33.333 13.59 10.35 0.00 3.07
2253 2957 8.038944 AGCAGCAAAAGAAACAATTGATATGAT 58.961 29.630 13.59 0.00 0.00 2.45
2386 3100 9.594038 GCAGAACACATATAAAATAATACACCG 57.406 33.333 0.00 0.00 0.00 4.94
2394 3108 6.262944 CCTGGCTGCAGAACACATATAAAATA 59.737 38.462 20.43 0.00 0.00 1.40
2672 3529 7.707035 ACCTATTGAGTTCACGATATTTCTCAC 59.293 37.037 0.00 0.00 32.80 3.51
2676 3533 8.867112 TGTACCTATTGAGTTCACGATATTTC 57.133 34.615 0.00 0.00 0.00 2.17
2775 3633 9.708222 CTTAAATTCCAGAAGTTCATCATTACG 57.292 33.333 5.50 0.00 30.75 3.18
2837 3695 5.825593 AAAATGGACTTGGTACTCTCAGA 57.174 39.130 0.00 0.00 0.00 3.27
2962 3825 7.036829 GGTCAGAAGAGTAAGTTATCCAGAAC 58.963 42.308 0.00 0.00 0.00 3.01
3196 4304 6.109359 AGCAAACTGCCTTACACTAGAATAG 58.891 40.000 0.00 0.00 46.52 1.73
3200 4308 4.351874 AAGCAAACTGCCTTACACTAGA 57.648 40.909 0.00 0.00 46.52 2.43
3201 4309 6.554334 TTTAAGCAAACTGCCTTACACTAG 57.446 37.500 0.00 0.00 46.52 2.57
3350 4469 7.333528 TCTAAAGTGACAAAAAGTGCAGAAT 57.666 32.000 0.00 0.00 0.00 2.40
3363 4482 8.506168 AAAAGTCTTGAACATCTAAAGTGACA 57.494 30.769 0.00 0.00 0.00 3.58
3394 4513 6.372659 AGTCATGCCATTTCGACCATATATTC 59.627 38.462 0.00 0.00 0.00 1.75
3397 4516 5.227569 AGTCATGCCATTTCGACCATATA 57.772 39.130 0.00 0.00 0.00 0.86
3500 4751 8.188139 TCTTCACAACAACAAAAGGAATACTTC 58.812 33.333 0.00 0.00 38.85 3.01
3504 4755 8.744652 TCTTTCTTCACAACAACAAAAGGAATA 58.255 29.630 0.00 0.00 0.00 1.75
3508 4759 6.389906 ACTCTTTCTTCACAACAACAAAAGG 58.610 36.000 0.00 0.00 0.00 3.11
3684 4937 2.495669 ACAAACCCAAACAGTCAGGTTG 59.504 45.455 3.27 0.00 44.75 3.77
3687 4940 3.067601 GGTAACAAACCCAAACAGTCAGG 59.932 47.826 0.00 0.00 43.16 3.86
3758 5021 0.758734 TGGTCATCCCAGCTTATCGG 59.241 55.000 0.00 0.00 38.72 4.18
3940 5230 5.446143 TCAGCGAACAAAACCAACAATAT 57.554 34.783 0.00 0.00 0.00 1.28
4002 5293 3.057596 TCACTTGGGATCGTTCAAATTGC 60.058 43.478 0.00 0.00 0.00 3.56
4003 5294 4.764679 TCACTTGGGATCGTTCAAATTG 57.235 40.909 0.00 0.00 0.00 2.32
4004 5295 4.827284 ACTTCACTTGGGATCGTTCAAATT 59.173 37.500 0.00 0.00 0.00 1.82
4009 5300 4.389077 CACTAACTTCACTTGGGATCGTTC 59.611 45.833 0.00 0.00 0.00 3.95
4010 5301 4.202326 ACACTAACTTCACTTGGGATCGTT 60.202 41.667 0.00 0.00 0.00 3.85
4013 5304 6.935208 AGTAAACACTAACTTCACTTGGGATC 59.065 38.462 0.00 0.00 0.00 3.36
4193 5490 4.435121 GCATACAAAACGGAAGAACCTACG 60.435 45.833 0.00 0.00 36.31 3.51
4371 5674 2.870411 GACCGACATGGCCAATACTAAC 59.130 50.000 10.96 0.00 43.94 2.34
4377 5680 0.038166 AAGTGACCGACATGGCCAAT 59.962 50.000 10.96 0.00 43.94 3.16
4389 5692 0.240945 CAAATGACCCGCAAGTGACC 59.759 55.000 0.00 0.00 0.00 4.02
4401 5706 2.512885 CAGACGCATCAAGCAAATGAC 58.487 47.619 0.00 0.00 46.13 3.06
4417 5722 0.390340 TGATCGTGCTTGCTCCAGAC 60.390 55.000 0.00 0.00 0.00 3.51
4422 5727 1.300971 TTGCCTGATCGTGCTTGCTC 61.301 55.000 7.66 0.00 0.00 4.26
4458 5763 3.350219 AACTCAACCTGACACAACACT 57.650 42.857 0.00 0.00 0.00 3.55
4555 5867 3.801068 TTGGGGTTCGGCCACCTTG 62.801 63.158 11.83 0.00 40.99 3.61
4562 5874 2.610976 GGTAACAAAATTGGGGTTCGGC 60.611 50.000 0.00 0.00 0.00 5.54
4573 5885 7.016822 GCAGAGGGCTTTCTGGTAACAAAAT 62.017 44.000 17.11 0.00 43.80 1.82
4578 5890 1.271379 TGCAGAGGGCTTTCTGGTAAC 60.271 52.381 17.11 5.36 43.80 2.50
4601 5913 9.850628 CCACTGAAATAATTCATGGCATAATAG 57.149 33.333 0.00 0.00 44.29 1.73
4602 5914 9.585369 TCCACTGAAATAATTCATGGCATAATA 57.415 29.630 0.00 0.00 44.29 0.98
4603 5915 8.481492 TCCACTGAAATAATTCATGGCATAAT 57.519 30.769 0.00 0.00 44.29 1.28
4604 5916 7.560991 ACTCCACTGAAATAATTCATGGCATAA 59.439 33.333 0.00 0.00 44.29 1.90
4605 5917 7.062322 ACTCCACTGAAATAATTCATGGCATA 58.938 34.615 0.00 0.00 44.29 3.14
4606 5918 5.895534 ACTCCACTGAAATAATTCATGGCAT 59.104 36.000 13.15 0.00 44.29 4.40
4607 5919 5.263599 ACTCCACTGAAATAATTCATGGCA 58.736 37.500 13.15 0.00 44.29 4.92
4608 5920 5.841957 ACTCCACTGAAATAATTCATGGC 57.158 39.130 13.15 0.00 44.29 4.40
4609 5921 8.279970 TGTAACTCCACTGAAATAATTCATGG 57.720 34.615 12.31 12.31 44.29 3.66
4639 5951 3.306472 TCCAAGCAACCTACAACCTTT 57.694 42.857 0.00 0.00 0.00 3.11
4677 5989 3.356529 AAGAGATGCGGATGGAAAACT 57.643 42.857 0.00 0.00 0.00 2.66
4678 5990 4.035675 CCTAAAGAGATGCGGATGGAAAAC 59.964 45.833 0.00 0.00 0.00 2.43
4683 5995 2.918712 ACCTAAAGAGATGCGGATGG 57.081 50.000 0.00 0.00 0.00 3.51
4702 6014 9.520204 GTTGTCTGTTTACTACTACACTGTTTA 57.480 33.333 0.00 0.00 0.00 2.01
4709 6021 7.116075 AGGTTGTTGTCTGTTTACTACTACA 57.884 36.000 0.00 0.00 34.50 2.74
4712 6024 6.646267 TGAAGGTTGTTGTCTGTTTACTACT 58.354 36.000 0.00 0.00 0.00 2.57
4713 6025 6.759827 TCTGAAGGTTGTTGTCTGTTTACTAC 59.240 38.462 0.00 0.00 0.00 2.73
4714 6026 6.880484 TCTGAAGGTTGTTGTCTGTTTACTA 58.120 36.000 0.00 0.00 0.00 1.82
4715 6027 5.741011 TCTGAAGGTTGTTGTCTGTTTACT 58.259 37.500 0.00 0.00 0.00 2.24
4716 6028 6.093633 AGTTCTGAAGGTTGTTGTCTGTTTAC 59.906 38.462 0.00 0.00 0.00 2.01
4717 6029 6.093495 CAGTTCTGAAGGTTGTTGTCTGTTTA 59.907 38.462 0.00 0.00 0.00 2.01
4719 6031 4.396166 CAGTTCTGAAGGTTGTTGTCTGTT 59.604 41.667 0.00 0.00 0.00 3.16
4720 6032 3.941483 CAGTTCTGAAGGTTGTTGTCTGT 59.059 43.478 0.00 0.00 0.00 3.41
4721 6033 3.242870 GCAGTTCTGAAGGTTGTTGTCTG 60.243 47.826 3.84 0.00 0.00 3.51
4722 6034 2.945668 GCAGTTCTGAAGGTTGTTGTCT 59.054 45.455 3.84 0.00 0.00 3.41
4723 6035 2.682856 TGCAGTTCTGAAGGTTGTTGTC 59.317 45.455 3.84 0.00 0.00 3.18
4724 6036 2.722094 TGCAGTTCTGAAGGTTGTTGT 58.278 42.857 3.84 0.00 0.00 3.32
4725 6037 3.996150 ATGCAGTTCTGAAGGTTGTTG 57.004 42.857 3.84 0.00 0.00 3.33
4739 6051 1.270305 ACAGTGCGACTTGTATGCAGT 60.270 47.619 0.00 2.20 42.71 4.40
4746 6058 4.737855 ATTAGGATACAGTGCGACTTGT 57.262 40.909 0.00 0.00 41.41 3.16
4747 6059 4.260375 GCAATTAGGATACAGTGCGACTTG 60.260 45.833 0.00 0.00 41.41 3.16
4772 6084 8.349983 ACGCACAGAAATACTTAGAAAACAAAT 58.650 29.630 0.00 0.00 0.00 2.32
4784 6096 2.162208 CCAATGCACGCACAGAAATACT 59.838 45.455 0.00 0.00 0.00 2.12
4785 6097 2.161410 TCCAATGCACGCACAGAAATAC 59.839 45.455 0.00 0.00 0.00 1.89
4787 6099 1.200716 CTCCAATGCACGCACAGAAAT 59.799 47.619 0.00 0.00 0.00 2.17
4789 6101 0.534877 ACTCCAATGCACGCACAGAA 60.535 50.000 0.00 0.00 0.00 3.02
4791 6103 1.208358 CACTCCAATGCACGCACAG 59.792 57.895 0.00 0.00 0.00 3.66
4792 6104 2.906939 GCACTCCAATGCACGCACA 61.907 57.895 0.00 0.00 45.39 4.57
4793 6105 2.126734 GCACTCCAATGCACGCAC 60.127 61.111 0.00 0.00 45.39 5.34
4799 6111 2.490903 ACAGAGATTTGCACTCCAATGC 59.509 45.455 0.00 0.00 46.32 3.56
4809 6121 5.914635 TCGTTTCAATTTCACAGAGATTTGC 59.085 36.000 0.00 0.00 0.00 3.68
4818 6130 6.618287 AGAACTCATCGTTTCAATTTCACA 57.382 33.333 0.00 0.00 35.56 3.58
4825 6137 5.007626 CACAGGAAAGAACTCATCGTTTCAA 59.992 40.000 0.00 0.00 35.56 2.69
4826 6138 4.511454 CACAGGAAAGAACTCATCGTTTCA 59.489 41.667 0.00 0.00 35.56 2.69
4834 6146 0.110486 GGCCCACAGGAAAGAACTCA 59.890 55.000 0.00 0.00 33.47 3.41
4855 6167 3.066203 CGTAAACTGGTTGAGCAAAGGTT 59.934 43.478 0.00 0.00 0.00 3.50
4856 6168 2.616842 CGTAAACTGGTTGAGCAAAGGT 59.383 45.455 0.00 0.00 0.00 3.50
4874 6186 1.676746 CCGACCTCCTGAAGATCGTA 58.323 55.000 0.00 0.00 0.00 3.43
4887 6199 1.201429 ACATCAAAGGGAGCCGACCT 61.201 55.000 0.00 0.00 40.96 3.85
4888 6200 0.322546 AACATCAAAGGGAGCCGACC 60.323 55.000 0.00 0.00 0.00 4.79
4890 6202 0.984230 AGAACATCAAAGGGAGCCGA 59.016 50.000 0.00 0.00 0.00 5.54
4891 6203 1.740025 GAAGAACATCAAAGGGAGCCG 59.260 52.381 0.00 0.00 0.00 5.52
4893 6205 2.751806 CCTGAAGAACATCAAAGGGAGC 59.248 50.000 0.00 0.00 0.00 4.70
4915 6227 2.464157 AGTAAGTGCAGAGCCAACTC 57.536 50.000 0.00 0.00 43.82 3.01
4970 6282 5.221925 GGGCTCCTGATAATGGTGAAAGATA 60.222 44.000 0.00 0.00 0.00 1.98
4971 6283 4.446889 GGGCTCCTGATAATGGTGAAAGAT 60.447 45.833 0.00 0.00 0.00 2.40
4972 6284 3.117888 GGGCTCCTGATAATGGTGAAAGA 60.118 47.826 0.00 0.00 0.00 2.52
4973 6285 3.117738 AGGGCTCCTGATAATGGTGAAAG 60.118 47.826 0.00 0.00 29.57 2.62
5018 6601 3.488489 CAGTTTTTACACTGCCATACGC 58.512 45.455 0.00 0.00 37.96 4.42
5028 6611 9.557338 TTTAACACACACATACAGTTTTTACAC 57.443 29.630 0.00 0.00 0.00 2.90
5050 6633 5.578727 ACGCAAAAACACTGCAAAGATTTAA 59.421 32.000 0.00 0.00 39.91 1.52
5051 6634 5.105752 ACGCAAAAACACTGCAAAGATTTA 58.894 33.333 0.00 0.00 39.91 1.40
5053 6636 3.520569 ACGCAAAAACACTGCAAAGATT 58.479 36.364 0.00 0.00 39.91 2.40
5059 6642 1.532090 CCGTTACGCAAAAACACTGCA 60.532 47.619 0.00 0.00 39.91 4.41
5060 6643 1.117234 CCGTTACGCAAAAACACTGC 58.883 50.000 0.00 0.00 36.41 4.40
5061 6644 1.117234 GCCGTTACGCAAAAACACTG 58.883 50.000 0.00 0.00 0.00 3.66
5063 6646 0.029700 AGGCCGTTACGCAAAAACAC 59.970 50.000 0.00 0.00 0.00 3.32
5064 6647 0.029567 CAGGCCGTTACGCAAAAACA 59.970 50.000 0.00 0.00 0.00 2.83
5065 6648 0.029700 ACAGGCCGTTACGCAAAAAC 59.970 50.000 0.00 0.00 0.00 2.43
5067 6650 0.739561 AAACAGGCCGTTACGCAAAA 59.260 45.000 12.33 0.00 36.59 2.44
5069 6652 0.814410 TCAAACAGGCCGTTACGCAA 60.814 50.000 12.33 0.00 36.59 4.85
5070 6653 0.604243 ATCAAACAGGCCGTTACGCA 60.604 50.000 12.33 0.13 36.59 5.24
5071 6654 0.519961 AATCAAACAGGCCGTTACGC 59.480 50.000 12.33 0.00 36.59 4.42
5073 6656 2.817844 AGGAAATCAAACAGGCCGTTAC 59.182 45.455 12.33 2.91 36.59 2.50
5074 6657 3.149005 AGGAAATCAAACAGGCCGTTA 57.851 42.857 12.33 0.48 36.59 3.18
5075 6658 1.995376 AGGAAATCAAACAGGCCGTT 58.005 45.000 7.08 7.08 40.50 4.44
5076 6659 1.995376 AAGGAAATCAAACAGGCCGT 58.005 45.000 0.00 0.00 0.00 5.68
5077 6660 3.343617 TCTAAGGAAATCAAACAGGCCG 58.656 45.455 0.00 0.00 0.00 6.13
5078 6661 5.010282 TCTTCTAAGGAAATCAAACAGGCC 58.990 41.667 0.00 0.00 0.00 5.19
5079 6662 6.375455 TGATCTTCTAAGGAAATCAAACAGGC 59.625 38.462 0.00 0.00 0.00 4.85
5080 6663 7.928307 TGATCTTCTAAGGAAATCAAACAGG 57.072 36.000 0.00 0.00 0.00 4.00
5081 6664 8.404000 CCATGATCTTCTAAGGAAATCAAACAG 58.596 37.037 0.00 0.00 30.76 3.16
5082 6665 7.148018 GCCATGATCTTCTAAGGAAATCAAACA 60.148 37.037 0.00 0.00 30.76 2.83
5083 6666 7.067981 AGCCATGATCTTCTAAGGAAATCAAAC 59.932 37.037 0.00 0.00 30.76 2.93
5084 6667 7.121382 AGCCATGATCTTCTAAGGAAATCAAA 58.879 34.615 0.00 0.00 30.76 2.69
5085 6668 6.666678 AGCCATGATCTTCTAAGGAAATCAA 58.333 36.000 0.00 0.00 30.76 2.57
5086 6669 6.126681 TGAGCCATGATCTTCTAAGGAAATCA 60.127 38.462 0.00 0.00 0.00 2.57
5089 6672 5.678583 CTGAGCCATGATCTTCTAAGGAAA 58.321 41.667 0.00 0.00 0.00 3.13
5090 6673 4.444022 GCTGAGCCATGATCTTCTAAGGAA 60.444 45.833 0.00 0.00 0.00 3.36
5093 6676 3.808726 GTGCTGAGCCATGATCTTCTAAG 59.191 47.826 0.23 0.00 0.00 2.18
5094 6677 3.453717 AGTGCTGAGCCATGATCTTCTAA 59.546 43.478 0.23 0.00 0.00 2.10
5095 6678 3.036819 AGTGCTGAGCCATGATCTTCTA 58.963 45.455 0.23 0.00 0.00 2.10
5098 7014 2.803030 AAGTGCTGAGCCATGATCTT 57.197 45.000 0.23 0.00 0.00 2.40
5100 7016 3.501445 GGATTAAGTGCTGAGCCATGATC 59.499 47.826 0.23 0.00 0.00 2.92
5105 7021 1.210478 GGAGGATTAAGTGCTGAGCCA 59.790 52.381 0.23 0.00 0.00 4.75
5113 7029 2.673368 GCTTGACACGGAGGATTAAGTG 59.327 50.000 0.00 0.00 40.17 3.16
5114 7030 2.354805 GGCTTGACACGGAGGATTAAGT 60.355 50.000 0.00 0.00 0.00 2.24
5115 7031 2.280628 GGCTTGACACGGAGGATTAAG 58.719 52.381 0.00 0.00 0.00 1.85
5116 7032 1.404986 CGGCTTGACACGGAGGATTAA 60.405 52.381 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.