Multiple sequence alignment - TraesCS5B01G317600

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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 TraesCS5B01G317600 chr5B 100.000 5754 0 0 1 5754 501482186 501476433 0.000000e+00 10626.0
1 TraesCS5B01G317600 chr5B 97.872 47 1 0 3943 3989 501478145 501478099 1.330000e-11 82.4
2 TraesCS5B01G317600 chr5B 97.872 47 1 0 4042 4088 501478244 501478198 1.330000e-11 82.4
3 TraesCS5B01G317600 chr5D 92.644 4024 187 55 1 3942 415302207 415298211 0.000000e+00 5690.0
4 TraesCS5B01G317600 chr5D 96.150 909 22 5 3992 4887 415298213 415297305 0.000000e+00 1472.0
5 TraesCS5B01G317600 chr5D 87.828 723 52 24 5059 5754 415296634 415295921 0.000000e+00 815.0
6 TraesCS5B01G317600 chr5D 91.892 111 6 2 4960 5067 415296949 415296839 9.990000e-33 152.0
7 TraesCS5B01G317600 chr5A 92.986 3479 133 37 528 3942 527922063 527918632 0.000000e+00 4970.0
8 TraesCS5B01G317600 chr5A 93.161 1082 46 11 3999 5067 527918626 527917560 0.000000e+00 1563.0
9 TraesCS5B01G317600 chr5A 94.815 270 10 4 5489 5754 527917096 527916827 8.920000e-113 418.0
10 TraesCS5B01G317600 chr5A 83.750 480 32 19 58 507 527922587 527922124 4.150000e-111 412.0
11 TraesCS5B01G317600 chr5A 89.394 132 12 2 5059 5190 527917394 527917265 1.280000e-36 165.0


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 TraesCS5B01G317600 chr5B 501476433 501482186 5753 True 10626.00 10626 100.0000 1 5754 1 chr5B.!!$R1 5753
1 TraesCS5B01G317600 chr5D 415295921 415302207 6286 True 2032.25 5690 92.1285 1 5754 4 chr5D.!!$R1 5753
2 TraesCS5B01G317600 chr5A 527916827 527922587 5760 True 1505.60 4970 90.8212 58 5754 5 chr5A.!!$R1 5696

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
745 832 0.033991 AGCTCCACCGAGAGAAGCTA 60.034 55.000 0.00 0.00 38.52 3.32 F
984 1100 0.238289 CGCTGATTTCTGTTGGCGTT 59.762 50.000 0.00 0.00 38.20 4.84 F
1184 1308 0.457443 GCCACCTACACCTACGGTAC 59.543 60.000 0.00 0.00 32.11 3.34 F
2369 2539 1.148723 ATGCATGGCCTCTGAGCTC 59.851 57.895 6.82 6.82 0.00 4.09 F
2640 2812 1.293924 AGCTCACTCGCATATTGCAC 58.706 50.000 0.00 0.00 45.36 4.57 F
3970 4142 0.111089 GCAAACTGAGCAGAACGACG 60.111 55.000 4.21 0.00 0.00 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2586 2758 0.250770 GGATATGGCCGTTTCTCCCC 60.251 60.000 14.18 0.0 0.00 4.81 R
2640 2812 1.291877 CGTTGCCTCCCAAAGACGAG 61.292 60.000 0.00 0.0 35.29 4.18 R
3138 3310 1.751924 GAGAGAGCAAGTACCCATCGT 59.248 52.381 0.00 0.0 0.00 3.73 R
3447 3619 0.035881 CTTCCTTGCAGTGCTCCTCA 59.964 55.000 17.60 0.0 0.00 3.86 R
3980 4152 0.109342 AGTGTTCCTCCTTGCCTGTG 59.891 55.000 0.00 0.0 0.00 3.66 R
5335 6091 0.327576 AGTGGGTGAGGATAAGGGGG 60.328 60.000 0.00 0.0 0.00 5.40 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
88 89 3.436359 TGGAACGGTCGGTTATTTTTAGC 59.564 43.478 0.00 0.00 39.50 3.09
114 126 1.852067 CGTTTTCCTTGTCCGGCAGG 61.852 60.000 0.00 1.57 39.46 4.85
295 320 1.237285 CCCTCTTGTTTCTGCACCCG 61.237 60.000 0.00 0.00 0.00 5.28
358 388 2.628829 GGAGGGGAGGAGGTAGCTAAAA 60.629 54.545 0.00 0.00 0.00 1.52
359 389 3.113043 GAGGGGAGGAGGTAGCTAAAAA 58.887 50.000 0.00 0.00 0.00 1.94
374 407 4.998672 AGCTAAAAATTACCTACGTGCACA 59.001 37.500 18.64 0.00 0.00 4.57
376 409 5.566395 GCTAAAAATTACCTACGTGCACAAC 59.434 40.000 18.64 0.00 0.00 3.32
393 426 1.209504 CAACAAGAGATAGCCCGGGAA 59.790 52.381 29.31 12.45 0.00 3.97
440 476 1.676014 CCGTTTCCCTCTCGCATTCTT 60.676 52.381 0.00 0.00 0.00 2.52
442 478 2.675317 CGTTTCCCTCTCGCATTCTTCT 60.675 50.000 0.00 0.00 0.00 2.85
447 483 2.159043 CCCTCTCGCATTCTTCTGCTAA 60.159 50.000 0.00 0.00 40.06 3.09
448 484 3.525537 CCTCTCGCATTCTTCTGCTAAA 58.474 45.455 0.00 0.00 40.06 1.85
449 485 3.555139 CCTCTCGCATTCTTCTGCTAAAG 59.445 47.826 0.00 0.00 40.06 1.85
450 486 2.932614 TCTCGCATTCTTCTGCTAAAGC 59.067 45.455 0.00 0.00 40.06 3.51
459 495 2.854214 CTGCTAAAGCGAGCGAGCG 61.854 63.158 12.46 0.00 45.99 5.03
462 498 2.572448 CTAAAGCGAGCGAGCGAGC 61.572 63.158 9.12 9.12 43.00 5.03
511 548 0.463833 GGATTCACCCACCGATGACC 60.464 60.000 0.00 0.00 0.00 4.02
512 549 0.463833 GATTCACCCACCGATGACCC 60.464 60.000 0.00 0.00 0.00 4.46
514 551 3.009115 CACCCACCGATGACCCCT 61.009 66.667 0.00 0.00 0.00 4.79
515 552 2.687566 ACCCACCGATGACCCCTC 60.688 66.667 0.00 0.00 0.00 4.30
517 554 2.365635 CCACCGATGACCCCTCCT 60.366 66.667 0.00 0.00 0.00 3.69
518 555 2.435693 CCACCGATGACCCCTCCTC 61.436 68.421 0.00 0.00 0.00 3.71
523 560 4.414956 ATGACCCCTCCTCCCGCA 62.415 66.667 0.00 0.00 0.00 5.69
524 561 3.721172 ATGACCCCTCCTCCCGCAT 62.721 63.158 0.00 0.00 0.00 4.73
526 563 3.090532 ACCCCTCCTCCCGCATTC 61.091 66.667 0.00 0.00 0.00 2.67
527 564 2.770048 CCCCTCCTCCCGCATTCT 60.770 66.667 0.00 0.00 0.00 2.40
564 640 4.769657 CGTGCGTACGTCCATGTA 57.230 55.556 18.32 0.00 44.99 2.29
656 732 1.202359 GGCAAGAAACAAAGGTCGCAA 60.202 47.619 0.00 0.00 0.00 4.85
723 810 2.867793 TACCGTACGCGCCTAGGTGA 62.868 60.000 26.74 1.83 36.49 4.02
743 830 0.739112 CAAGCTCCACCGAGAGAAGC 60.739 60.000 0.00 0.00 38.52 3.86
744 831 0.902516 AAGCTCCACCGAGAGAAGCT 60.903 55.000 0.00 0.00 38.52 3.74
745 832 0.033991 AGCTCCACCGAGAGAAGCTA 60.034 55.000 0.00 0.00 38.52 3.32
746 833 0.383949 GCTCCACCGAGAGAAGCTAG 59.616 60.000 0.00 0.00 38.52 3.42
747 834 1.028905 CTCCACCGAGAGAAGCTAGG 58.971 60.000 0.00 0.00 44.25 3.02
748 835 1.038130 TCCACCGAGAGAAGCTAGGC 61.038 60.000 0.00 0.00 42.63 3.93
886 1001 2.441348 TGCCCGGATAGCTCGACA 60.441 61.111 0.73 0.00 0.00 4.35
887 1002 2.016393 CTGCCCGGATAGCTCGACAA 62.016 60.000 0.73 0.00 0.00 3.18
980 1096 0.877071 AGCACGCTGATTTCTGTTGG 59.123 50.000 0.00 0.00 0.00 3.77
983 1099 1.868997 CGCTGATTTCTGTTGGCGT 59.131 52.632 0.00 0.00 38.20 5.68
984 1100 0.238289 CGCTGATTTCTGTTGGCGTT 59.762 50.000 0.00 0.00 38.20 4.84
985 1101 1.689959 GCTGATTTCTGTTGGCGTTG 58.310 50.000 0.00 0.00 0.00 4.10
986 1102 1.666888 GCTGATTTCTGTTGGCGTTGG 60.667 52.381 0.00 0.00 0.00 3.77
988 1104 0.598065 GATTTCTGTTGGCGTTGGCT 59.402 50.000 0.00 0.00 39.81 4.75
989 1105 0.598065 ATTTCTGTTGGCGTTGGCTC 59.402 50.000 0.00 0.00 39.81 4.70
990 1106 1.452145 TTTCTGTTGGCGTTGGCTCC 61.452 55.000 0.00 0.00 39.81 4.70
991 1107 2.594303 CTGTTGGCGTTGGCTCCA 60.594 61.111 0.00 0.00 39.81 3.86
1184 1308 0.457443 GCCACCTACACCTACGGTAC 59.543 60.000 0.00 0.00 32.11 3.34
1203 1348 1.406539 ACGCCCATTGCATCTCAATTC 59.593 47.619 0.00 0.00 42.48 2.17
1391 1536 5.587388 ACATCCAATCCAATGCTGTAAAG 57.413 39.130 0.00 0.00 0.00 1.85
1407 1556 6.922957 TGCTGTAAAGATGTTTGATGTTTTCC 59.077 34.615 0.00 0.00 0.00 3.13
1423 1572 3.755628 CCGCCTGCTTGCATGCTT 61.756 61.111 23.31 0.00 0.00 3.91
1516 1672 1.216178 GCACAGCATGGCCGAAATT 59.784 52.632 0.00 0.00 43.62 1.82
1521 1677 1.400142 CAGCATGGCCGAAATTTACGA 59.600 47.619 0.00 0.00 0.00 3.43
1522 1678 2.088423 AGCATGGCCGAAATTTACGAA 58.912 42.857 0.00 0.00 0.00 3.85
1525 1681 4.518970 AGCATGGCCGAAATTTACGAATAT 59.481 37.500 0.00 1.72 0.00 1.28
1587 1743 1.199624 GCTGTTGGTTTGCTTTGTCG 58.800 50.000 0.00 0.00 0.00 4.35
1607 1763 1.790387 CGCTTAACCTGTGCTCTGC 59.210 57.895 0.00 0.00 0.00 4.26
1790 1948 8.953368 AAAGTCATTCAGCAAAATTCTTTTCT 57.047 26.923 0.00 0.00 0.00 2.52
1902 2065 1.839994 CTGAGGGACAAAGGCCATCTA 59.160 52.381 5.01 0.00 37.14 1.98
1975 2138 1.740025 CTTTCTTCCACTGAATCGCCC 59.260 52.381 0.00 0.00 0.00 6.13
1994 2157 5.298276 TCGCCCAAACTGGAAATAACATATC 59.702 40.000 0.00 0.00 40.96 1.63
2032 2195 7.765695 ACTGGTTCATTACTGTTTTGATCAT 57.234 32.000 0.00 0.00 0.00 2.45
2090 2253 2.210116 GAGACTGCCTTGAACGAAACA 58.790 47.619 0.00 0.00 0.00 2.83
2102 2265 2.702592 ACGAAACAAGTTCCAGGTCA 57.297 45.000 0.00 0.00 31.99 4.02
2172 2335 2.421073 ACGACGATCGGTAGTCATTCAA 59.579 45.455 20.98 0.00 45.59 2.69
2202 2365 5.968848 TGCGAGAATTTGTTTGTGTTCTTAC 59.031 36.000 0.00 0.00 31.51 2.34
2206 2369 6.805713 AGAATTTGTTTGTGTTCTTACCCTG 58.194 36.000 0.00 0.00 0.00 4.45
2316 2479 6.831353 TGAAGTGAACACCTTAATTTCTTCCA 59.169 34.615 1.11 0.00 0.00 3.53
2369 2539 1.148723 ATGCATGGCCTCTGAGCTC 59.851 57.895 6.82 6.82 0.00 4.09
2446 2616 3.267860 GCGAGCGGAATGAGGCTG 61.268 66.667 0.00 0.00 40.16 4.85
2526 2696 4.746611 GCTCAGGTTTGTTGAATTTCAAGG 59.253 41.667 12.02 0.00 37.00 3.61
2535 2705 6.024552 TGTTGAATTTCAAGGCATACTTCC 57.975 37.500 12.02 0.00 37.00 3.46
2565 2737 1.294659 GCCCAAGCTCTGACGAACTG 61.295 60.000 0.00 0.00 35.50 3.16
2586 2758 3.207669 GGCTTCTGATGCAGCGGG 61.208 66.667 11.57 0.00 36.85 6.13
2640 2812 1.293924 AGCTCACTCGCATATTGCAC 58.706 50.000 0.00 0.00 45.36 4.57
2941 3113 7.881751 AGGTTTGGTTAGTCTTAGTAAATCACC 59.118 37.037 0.00 0.00 0.00 4.02
2944 3116 9.856162 TTTGGTTAGTCTTAGTAAATCACCTTT 57.144 29.630 0.00 0.00 0.00 3.11
3120 3292 5.368256 AAGTTGCAAGTGATGATCAACTC 57.632 39.130 7.73 0.00 44.35 3.01
3125 3297 7.175467 AGTTGCAAGTGATGATCAACTCAATTA 59.825 33.333 5.84 0.00 42.31 1.40
3206 3378 7.058023 TCTAGAAGTTTTACTTGTGCCTGTA 57.942 36.000 0.00 0.00 38.80 2.74
3282 3454 4.778534 ATCCCTACCACGTAATATGTCG 57.221 45.455 0.00 0.00 0.00 4.35
3447 3619 1.485480 CCAGATGTGCCAGATGTCTCT 59.515 52.381 0.00 0.00 0.00 3.10
3474 3646 2.554032 GCACTGCAAGGAAGTACAATGT 59.446 45.455 0.00 0.00 39.30 2.71
3486 3658 5.746721 GGAAGTACAATGTGTTGAAACCAAC 59.253 40.000 0.00 0.00 43.10 3.77
3488 3660 3.859411 ACAATGTGTTGAAACCAACGT 57.141 38.095 0.00 0.00 45.10 3.99
3683 3855 6.040391 TCTGACCCGTCTTTTGAAATTGAAAT 59.960 34.615 0.00 0.00 0.00 2.17
3741 3913 0.912486 GTGTGGTAAGCTCCAGGGAT 59.088 55.000 0.00 0.00 38.23 3.85
3765 3937 0.957395 TGCTAGCAAGGAGCAACAGC 60.957 55.000 16.84 0.00 46.71 4.40
3942 4114 1.227527 CACCGACAACAGCACAGGA 60.228 57.895 0.00 0.00 0.00 3.86
3943 4115 1.069765 ACCGACAACAGCACAGGAG 59.930 57.895 0.00 0.00 0.00 3.69
3944 4116 1.069765 CCGACAACAGCACAGGAGT 59.930 57.895 0.00 0.00 0.00 3.85
3955 4127 3.806941 ACAGGAGTGAAGCAGCAAA 57.193 47.368 0.00 0.00 0.00 3.68
3956 4128 1.312815 ACAGGAGTGAAGCAGCAAAC 58.687 50.000 0.00 0.00 0.00 2.93
3957 4129 1.133976 ACAGGAGTGAAGCAGCAAACT 60.134 47.619 0.00 0.00 0.00 2.66
3968 4140 3.686622 AGCAAACTGAGCAGAACGA 57.313 47.368 4.21 0.00 0.00 3.85
3969 4141 1.221414 AGCAAACTGAGCAGAACGAC 58.779 50.000 4.21 0.00 0.00 4.34
3970 4142 0.111089 GCAAACTGAGCAGAACGACG 60.111 55.000 4.21 0.00 0.00 5.12
3971 4143 0.111089 CAAACTGAGCAGAACGACGC 60.111 55.000 4.21 0.00 0.00 5.19
3972 4144 0.529773 AAACTGAGCAGAACGACGCA 60.530 50.000 4.21 0.00 0.00 5.24
3973 4145 0.319900 AACTGAGCAGAACGACGCAT 60.320 50.000 4.21 0.00 0.00 4.73
3974 4146 0.734253 ACTGAGCAGAACGACGCATC 60.734 55.000 4.21 0.00 0.00 3.91
3975 4147 1.416813 CTGAGCAGAACGACGCATCC 61.417 60.000 0.00 0.00 0.00 3.51
3976 4148 2.125512 AGCAGAACGACGCATCCC 60.126 61.111 0.00 0.00 0.00 3.85
3977 4149 2.434185 GCAGAACGACGCATCCCA 60.434 61.111 0.00 0.00 0.00 4.37
3978 4150 2.456119 GCAGAACGACGCATCCCAG 61.456 63.158 0.00 0.00 0.00 4.45
3979 4151 2.125512 AGAACGACGCATCCCAGC 60.126 61.111 0.00 0.00 0.00 4.85
3980 4152 3.195698 GAACGACGCATCCCAGCC 61.196 66.667 0.00 0.00 0.00 4.85
3981 4153 3.950794 GAACGACGCATCCCAGCCA 62.951 63.158 0.00 0.00 0.00 4.75
3982 4154 4.760047 ACGACGCATCCCAGCCAC 62.760 66.667 0.00 0.00 0.00 5.01
3983 4155 4.758251 CGACGCATCCCAGCCACA 62.758 66.667 0.00 0.00 0.00 4.17
3984 4156 2.821366 GACGCATCCCAGCCACAG 60.821 66.667 0.00 0.00 0.00 3.66
3985 4157 4.415150 ACGCATCCCAGCCACAGG 62.415 66.667 0.00 0.00 0.00 4.00
3997 4169 1.455849 CCACAGGCAAGGAGGAACA 59.544 57.895 0.00 0.00 0.00 3.18
4068 4240 1.221414 AGCAAACTGAGCAGAACGAC 58.779 50.000 4.21 0.00 0.00 4.34
4536 4708 3.118445 GCTGAAAAGGAGAGCCTCTACAT 60.118 47.826 6.74 0.00 46.28 2.29
4815 4988 4.402793 GCATGGAGGTAGACGGATACATAT 59.597 45.833 0.00 0.00 0.00 1.78
4865 5043 2.054453 GGCTCCAGATTTGGCCCAC 61.054 63.158 0.00 0.00 44.63 4.61
4892 5076 2.368439 TGCTGATTTATGCAGGTGACC 58.632 47.619 0.00 0.00 34.84 4.02
4900 5084 7.222872 TGATTTATGCAGGTGACCAAATTTTT 58.777 30.769 3.63 0.00 0.00 1.94
4938 5122 4.036262 GGGCTTTTGAAAATTGAACCAACC 59.964 41.667 0.00 0.00 0.00 3.77
5003 5473 9.197694 GTATGATGTATTTCCTGATCAGTGTAC 57.802 37.037 21.11 16.23 0.00 2.90
5016 5486 5.295045 TGATCAGTGTACACATCATTGCATC 59.705 40.000 27.06 17.80 0.00 3.91
5040 5510 2.435372 TTGTGCCAACAGAAGGACTT 57.565 45.000 0.00 0.00 37.67 3.01
5050 5520 1.345741 CAGAAGGACTTCACTGGCTCA 59.654 52.381 13.94 0.00 41.84 4.26
5101 5792 3.802866 TGAAACCAATTTGGCAGTTTCC 58.197 40.909 20.04 8.38 44.71 3.13
5104 5795 1.070601 ACCAATTTGGCAGTTTCCAGC 59.929 47.619 15.49 0.00 42.67 4.85
5105 5796 1.070445 CCAATTTGGCAGTTTCCAGCA 59.930 47.619 1.71 0.00 37.44 4.41
5116 5807 3.571401 CAGTTTCCAGCATCTGTTCCTTT 59.429 43.478 0.00 0.00 0.00 3.11
5134 5825 6.258230 TCCTTTACATTGCTTTCACTCATG 57.742 37.500 0.00 0.00 0.00 3.07
5141 5832 7.647907 ACATTGCTTTCACTCATGAATTTTC 57.352 32.000 0.00 0.00 44.36 2.29
5147 5838 7.094848 TGCTTTCACTCATGAATTTTCGACATA 60.095 33.333 0.00 0.00 44.36 2.29
5163 5855 7.993821 TTCGACATAGACATTTTCTCTCATC 57.006 36.000 0.00 0.00 35.55 2.92
5164 5856 6.202226 TCGACATAGACATTTTCTCTCATCG 58.798 40.000 0.00 0.00 35.55 3.84
5166 5858 6.227298 ACATAGACATTTTCTCTCATCGGT 57.773 37.500 0.00 0.00 35.55 4.69
5168 5860 6.758886 ACATAGACATTTTCTCTCATCGGTTC 59.241 38.462 0.00 0.00 35.55 3.62
5172 5864 2.386661 TTTCTCTCATCGGTTCCAGC 57.613 50.000 0.00 0.00 0.00 4.85
5179 5871 0.950836 CATCGGTTCCAGCACAAACA 59.049 50.000 0.00 0.00 0.00 2.83
5185 5877 2.228822 GGTTCCAGCACAAACATAGTGG 59.771 50.000 0.00 0.00 37.46 4.00
5189 5941 4.513442 TCCAGCACAAACATAGTGGATAC 58.487 43.478 0.00 0.00 37.46 2.24
5229 5981 5.835113 AGAATGCCAAGCGTGTAAAATAT 57.165 34.783 0.00 0.00 0.00 1.28
5230 5982 6.935741 AGAATGCCAAGCGTGTAAAATATA 57.064 33.333 0.00 0.00 0.00 0.86
5231 5983 6.959361 AGAATGCCAAGCGTGTAAAATATAG 58.041 36.000 0.00 0.00 0.00 1.31
5232 5984 5.689383 ATGCCAAGCGTGTAAAATATAGG 57.311 39.130 0.00 0.00 0.00 2.57
5233 5985 4.519213 TGCCAAGCGTGTAAAATATAGGT 58.481 39.130 0.00 0.00 0.00 3.08
5234 5986 4.573201 TGCCAAGCGTGTAAAATATAGGTC 59.427 41.667 0.00 0.00 0.00 3.85
5268 6020 3.971245 ACTCAGATTTCAGGTCCTGTC 57.029 47.619 18.65 9.16 32.61 3.51
5284 6036 5.705441 GGTCCTGTCATACAAATTGAGTTCA 59.295 40.000 0.00 0.00 0.00 3.18
5285 6037 6.206634 GGTCCTGTCATACAAATTGAGTTCAA 59.793 38.462 0.00 0.00 40.51 2.69
5311 6063 6.530019 AATCACATGTAAAAAGGGATGTCC 57.470 37.500 0.00 0.00 0.00 4.02
5335 6091 3.555966 CCATTAATCCCACCTCTTCACC 58.444 50.000 0.00 0.00 0.00 4.02
5384 6140 6.985225 TGGAAATCCAGGATAAGGAGAAAAT 58.015 36.000 1.02 0.00 42.01 1.82
5404 6160 7.809806 AGAAAATAGAGGTGAAATTTGAAAGCG 59.190 33.333 0.00 0.00 0.00 4.68
5409 6165 3.632145 AGGTGAAATTTGAAAGCGTGAGT 59.368 39.130 0.00 0.00 0.00 3.41
5411 6167 4.207019 GGTGAAATTTGAAAGCGTGAGTTG 59.793 41.667 0.00 0.00 0.00 3.16
5423 6180 2.726241 GCGTGAGTTGGAATTTTTCAGC 59.274 45.455 0.00 0.00 0.00 4.26
5475 6232 3.731089 ACCTTCCACGAATCGTAAACAA 58.269 40.909 8.35 0.00 38.32 2.83
5481 6238 4.152759 TCCACGAATCGTAAACAATCAACC 59.847 41.667 8.35 0.00 38.32 3.77
5482 6239 4.083749 CCACGAATCGTAAACAATCAACCA 60.084 41.667 8.35 0.00 38.32 3.67
5483 6240 4.843984 CACGAATCGTAAACAATCAACCAC 59.156 41.667 8.35 0.00 38.32 4.16
5484 6241 4.512198 ACGAATCGTAAACAATCAACCACA 59.488 37.500 6.47 0.00 38.73 4.17
5485 6242 5.180492 ACGAATCGTAAACAATCAACCACAT 59.820 36.000 6.47 0.00 38.73 3.21
5550 6337 2.747855 CTGGCAAACCTCCGGCTC 60.748 66.667 0.00 0.00 36.63 4.70
5580 6369 3.281240 GTGTAGAACGGCGGAGGA 58.719 61.111 13.24 0.00 0.00 3.71
5706 6527 1.912371 GAGCGGAACCAGCCTTTTCG 61.912 60.000 0.00 0.00 34.64 3.46
5720 6541 2.543653 CCTTTTCGTGTGGGCTTCTTTG 60.544 50.000 0.00 0.00 0.00 2.77
5727 6548 1.830477 TGTGGGCTTCTTTGCAGTTTT 59.170 42.857 0.00 0.00 34.04 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 0.107993 CCTTGCTGCTGCTAGTGCTA 60.108 55.000 21.48 0.00 39.73 3.49
18 19 1.376942 CCTTGCTGCTGCTAGTGCT 60.377 57.895 21.48 0.00 39.73 4.40
19 20 1.673665 ACCTTGCTGCTGCTAGTGC 60.674 57.895 21.48 1.02 39.73 4.40
20 21 1.919956 GCACCTTGCTGCTGCTAGTG 61.920 60.000 21.48 20.95 40.96 2.74
21 22 1.673665 GCACCTTGCTGCTGCTAGT 60.674 57.895 21.48 11.70 40.96 2.57
23 24 2.743538 CGCACCTTGCTGCTGCTA 60.744 61.111 17.00 8.35 42.25 3.49
88 89 4.398598 CAAGGAAAACGCGGCCGG 62.399 66.667 29.38 19.49 39.22 6.13
114 126 1.618837 TCTATAGCGTTGATCCCCTGC 59.381 52.381 0.00 0.00 0.00 4.85
183 198 0.811616 GTCCGCCATGTGAAGCTAGG 60.812 60.000 0.00 0.00 0.00 3.02
184 199 0.108186 TGTCCGCCATGTGAAGCTAG 60.108 55.000 0.00 0.00 0.00 3.42
185 200 0.391130 GTGTCCGCCATGTGAAGCTA 60.391 55.000 0.00 0.00 0.00 3.32
186 201 1.672356 GTGTCCGCCATGTGAAGCT 60.672 57.895 0.00 0.00 0.00 3.74
187 202 2.870372 GTGTCCGCCATGTGAAGC 59.130 61.111 0.00 0.00 0.00 3.86
188 203 3.168271 CGTGTCCGCCATGTGAAG 58.832 61.111 0.00 0.00 0.00 3.02
266 291 3.523972 AGAAACAAGAGGGGGTAGATTCC 59.476 47.826 0.00 0.00 0.00 3.01
272 297 1.073284 GTGCAGAAACAAGAGGGGGTA 59.927 52.381 0.00 0.00 0.00 3.69
295 320 0.983905 GAAGGAGGAGGGAAGGGGAC 60.984 65.000 0.00 0.00 0.00 4.46
358 388 4.382291 TCTTGTTGTGCACGTAGGTAATT 58.618 39.130 13.13 0.00 0.00 1.40
359 389 3.994392 CTCTTGTTGTGCACGTAGGTAAT 59.006 43.478 13.13 0.00 0.00 1.89
374 407 1.209747 GTTCCCGGGCTATCTCTTGTT 59.790 52.381 18.49 0.00 0.00 2.83
376 409 0.830648 TGTTCCCGGGCTATCTCTTG 59.169 55.000 18.49 0.00 0.00 3.02
440 476 1.517257 GCTCGCTCGCTTTAGCAGA 60.517 57.895 2.29 0.08 42.91 4.26
442 478 2.880879 CGCTCGCTCGCTTTAGCA 60.881 61.111 2.29 0.00 42.91 3.49
459 495 4.882396 GAGGAAGGCCGCTCGCTC 62.882 72.222 0.00 4.12 39.96 5.03
507 544 3.943137 AATGCGGGAGGAGGGGTCA 62.943 63.158 0.00 0.00 0.00 4.02
508 545 3.090532 AATGCGGGAGGAGGGGTC 61.091 66.667 0.00 0.00 0.00 4.46
509 546 3.090532 GAATGCGGGAGGAGGGGT 61.091 66.667 0.00 0.00 0.00 4.95
511 548 0.034089 AAAAGAATGCGGGAGGAGGG 60.034 55.000 0.00 0.00 0.00 4.30
512 549 1.839424 AAAAAGAATGCGGGAGGAGG 58.161 50.000 0.00 0.00 0.00 4.30
548 624 1.916000 GACTTACATGGACGTACGCAC 59.084 52.381 16.72 9.10 0.00 5.34
554 630 2.028385 GGACCAAGACTTACATGGACGT 60.028 50.000 0.00 0.00 39.44 4.34
556 632 2.028385 ACGGACCAAGACTTACATGGAC 60.028 50.000 0.00 0.00 39.44 4.02
557 633 2.253610 ACGGACCAAGACTTACATGGA 58.746 47.619 0.00 0.00 39.44 3.41
559 635 2.666508 CGAACGGACCAAGACTTACATG 59.333 50.000 0.00 0.00 0.00 3.21
560 636 2.298163 ACGAACGGACCAAGACTTACAT 59.702 45.455 0.00 0.00 0.00 2.29
561 637 1.682854 ACGAACGGACCAAGACTTACA 59.317 47.619 0.00 0.00 0.00 2.41
562 638 2.323059 GACGAACGGACCAAGACTTAC 58.677 52.381 0.00 0.00 0.00 2.34
563 639 1.069022 CGACGAACGGACCAAGACTTA 60.069 52.381 0.00 0.00 38.46 2.24
564 640 0.318445 CGACGAACGGACCAAGACTT 60.318 55.000 0.00 0.00 38.46 3.01
595 671 1.135774 GCAAAATCCGGACGTTTCCTC 60.136 52.381 6.12 0.00 40.23 3.71
613 689 2.344878 TTTGGATGGACGTGTGGGCA 62.345 55.000 0.00 0.00 0.00 5.36
656 732 2.824041 GCGGTGCCGAATGGATGT 60.824 61.111 15.45 0.00 42.83 3.06
714 798 0.391793 GTGGAGCTTGTCACCTAGGC 60.392 60.000 9.30 0.00 0.00 3.93
723 810 0.605589 CTTCTCTCGGTGGAGCTTGT 59.394 55.000 0.00 0.00 40.26 3.16
876 991 0.456221 CCCGTGTCTTGTCGAGCTAT 59.544 55.000 0.00 0.00 0.00 2.97
886 1001 3.451665 ACGTAGTGCCCGTGTCTT 58.548 55.556 0.00 0.00 42.51 3.01
980 1096 4.785453 CCTCCCTGGAGCCAACGC 62.785 72.222 7.73 0.00 40.69 4.84
988 1104 2.444706 CGCCATCTCCTCCCTGGA 60.445 66.667 0.00 0.00 43.86 3.86
989 1105 3.554342 CCGCCATCTCCTCCCTGG 61.554 72.222 0.00 0.00 37.10 4.45
990 1106 3.554342 CCCGCCATCTCCTCCCTG 61.554 72.222 0.00 0.00 0.00 4.45
1086 1210 2.034532 TCCTACTCCGTGCCGTCA 59.965 61.111 0.00 0.00 0.00 4.35
1184 1308 1.406180 TGAATTGAGATGCAATGGGCG 59.594 47.619 0.00 0.00 46.25 6.13
1185 1309 3.321111 AGATGAATTGAGATGCAATGGGC 59.679 43.478 0.00 0.00 46.25 5.36
1186 1310 4.796290 GCAGATGAATTGAGATGCAATGGG 60.796 45.833 0.00 0.00 46.25 4.00
1187 1311 4.299155 GCAGATGAATTGAGATGCAATGG 58.701 43.478 0.00 0.00 46.25 3.16
1188 1312 4.202111 TGGCAGATGAATTGAGATGCAATG 60.202 41.667 6.49 0.00 46.25 2.82
1190 1314 3.358118 TGGCAGATGAATTGAGATGCAA 58.642 40.909 6.49 0.00 41.53 4.08
1224 1369 1.922570 ACGGTCGATTCGGAAATGAG 58.077 50.000 6.18 0.00 0.00 2.90
1391 1536 3.244976 CAGGCGGAAAACATCAAACATC 58.755 45.455 0.00 0.00 0.00 3.06
1516 1672 6.904463 TGCACCTGGTCTATATATTCGTAA 57.096 37.500 0.00 0.00 0.00 3.18
1521 1677 5.720041 ACGGTATGCACCTGGTCTATATATT 59.280 40.000 0.00 0.00 43.33 1.28
1522 1678 5.127194 CACGGTATGCACCTGGTCTATATAT 59.873 44.000 0.00 0.00 43.33 0.86
1525 1681 2.626266 CACGGTATGCACCTGGTCTATA 59.374 50.000 0.00 0.00 43.33 1.31
1587 1743 1.376037 AGAGCACAGGTTAAGCGCC 60.376 57.895 2.29 0.00 0.00 6.53
1607 1763 2.426522 TGCTGAATTGAAGACCCGAAG 58.573 47.619 0.00 0.00 0.00 3.79
1691 1847 1.679305 GGTGTCGGAGCTGAGGAGA 60.679 63.158 0.00 0.00 0.00 3.71
1790 1948 6.377080 ACCATGAGTAGGATGAACTCTGATA 58.623 40.000 0.00 0.00 43.13 2.15
1950 2113 4.452455 GCGATTCAGTGGAAGAAAGAAAGA 59.548 41.667 0.00 0.00 36.25 2.52
1951 2114 4.378874 GGCGATTCAGTGGAAGAAAGAAAG 60.379 45.833 0.00 0.00 36.25 2.62
1952 2115 3.502211 GGCGATTCAGTGGAAGAAAGAAA 59.498 43.478 0.00 0.00 36.25 2.52
1953 2116 3.074412 GGCGATTCAGTGGAAGAAAGAA 58.926 45.455 0.00 0.00 36.25 2.52
1975 2138 6.130298 TGCGGATATGTTATTTCCAGTTTG 57.870 37.500 0.00 0.00 31.57 2.93
2090 2253 2.818751 TTTGGTGTGACCTGGAACTT 57.181 45.000 0.00 0.00 39.58 2.66
2102 2265 1.705186 ACCAGCCTGAGTATTTGGTGT 59.295 47.619 0.00 0.00 40.47 4.16
2172 2335 4.977963 CACAAACAAATTCTCGCAGAACAT 59.022 37.500 1.44 0.00 37.00 2.71
2202 2365 3.019964 TGCAGTTTACACAGCAGGG 57.980 52.632 0.00 0.00 40.28 4.45
2206 2369 0.512952 CCGTCTGCAGTTTACACAGC 59.487 55.000 14.67 0.00 35.99 4.40
2316 2479 8.027771 AGTATCGTCGAAAGAATCTAAAACACT 58.972 33.333 0.00 0.00 45.01 3.55
2369 2539 0.321122 AAGTTCTGCGCAGAAGGAGG 60.321 55.000 44.21 18.18 46.93 4.30
2437 2607 1.210204 TGCCCTCCTTCAGCCTCATT 61.210 55.000 0.00 0.00 0.00 2.57
2446 2616 3.845781 TTGATATGACTGCCCTCCTTC 57.154 47.619 0.00 0.00 0.00 3.46
2565 2737 1.509923 GCTGCATCAGAAGCCAACC 59.490 57.895 0.00 0.00 40.87 3.77
2586 2758 0.250770 GGATATGGCCGTTTCTCCCC 60.251 60.000 14.18 0.00 0.00 4.81
2640 2812 1.291877 CGTTGCCTCCCAAAGACGAG 61.292 60.000 0.00 0.00 35.29 4.18
2756 2928 4.236935 GACATTTACTTGTGCATTGGTGG 58.763 43.478 0.00 0.00 0.00 4.61
2873 3045 2.027745 TCCTTCAGAACCTCAGCATGAC 60.028 50.000 0.00 0.00 42.56 3.06
3117 3289 8.607459 CATCGTCTTGCTTTAAGATAATTGAGT 58.393 33.333 0.00 0.00 46.50 3.41
3120 3292 7.134815 CCCATCGTCTTGCTTTAAGATAATTG 58.865 38.462 0.00 0.00 46.50 2.32
3125 3297 4.222124 ACCCATCGTCTTGCTTTAAGAT 57.778 40.909 0.00 0.00 46.50 2.40
3138 3310 1.751924 GAGAGAGCAAGTACCCATCGT 59.248 52.381 0.00 0.00 0.00 3.73
3180 3352 6.428159 ACAGGCACAAGTAAAACTTCTAGATG 59.572 38.462 4.14 4.14 36.03 2.90
3186 3358 7.806487 GGTATTTACAGGCACAAGTAAAACTTC 59.194 37.037 0.00 0.00 41.63 3.01
3187 3359 7.285858 TGGTATTTACAGGCACAAGTAAAACTT 59.714 33.333 0.00 0.00 41.63 2.66
3188 3360 6.773685 TGGTATTTACAGGCACAAGTAAAACT 59.226 34.615 0.00 0.00 41.63 2.66
3189 3361 6.972722 TGGTATTTACAGGCACAAGTAAAAC 58.027 36.000 0.00 0.00 41.63 2.43
3206 3378 3.812611 AGGTTACCCGGTTTGGTATTT 57.187 42.857 0.00 0.00 40.49 1.40
3228 3400 2.433604 ACTATGTGCATCCTGTCAGAGG 59.566 50.000 0.00 0.00 44.45 3.69
3282 3454 4.456911 TCTGAACATGAAAGTGCATCTTCC 59.543 41.667 0.00 0.00 35.02 3.46
3363 3535 3.675619 ATGGTTACTGGGTCGGCGC 62.676 63.158 0.00 0.00 0.00 6.53
3447 3619 0.035881 CTTCCTTGCAGTGCTCCTCA 59.964 55.000 17.60 0.00 0.00 3.86
3486 3658 2.863137 GCTTATCCTTTCTCTGAGCACG 59.137 50.000 0.00 0.00 0.00 5.34
3488 3660 2.840038 TGGCTTATCCTTTCTCTGAGCA 59.160 45.455 0.00 0.00 35.26 4.26
3643 3815 4.002982 GGGTCAGAATCGCATGCATATAA 58.997 43.478 19.57 0.00 0.00 0.98
3683 3855 5.925506 TGGTTCCTCGTCAATGTTAGATA 57.074 39.130 0.00 0.00 0.00 1.98
3741 3913 1.266178 TGCTCCTTGCTAGCACAGTA 58.734 50.000 19.17 10.41 44.78 2.74
3765 3937 1.000506 ACCATGAAGCTTGCTTTGCAG 59.999 47.619 2.10 2.78 40.61 4.41
3942 4114 0.950116 GCTCAGTTTGCTGCTTCACT 59.050 50.000 0.00 0.00 42.29 3.41
3943 4115 0.664761 TGCTCAGTTTGCTGCTTCAC 59.335 50.000 0.00 0.00 42.29 3.18
3944 4116 0.949397 CTGCTCAGTTTGCTGCTTCA 59.051 50.000 0.00 0.00 42.29 3.02
3945 4117 1.233019 TCTGCTCAGTTTGCTGCTTC 58.767 50.000 0.00 0.00 42.29 3.86
3946 4118 1.336125 GTTCTGCTCAGTTTGCTGCTT 59.664 47.619 0.00 0.00 42.29 3.91
3947 4119 0.950116 GTTCTGCTCAGTTTGCTGCT 59.050 50.000 0.00 0.00 42.29 4.24
3948 4120 0.385223 CGTTCTGCTCAGTTTGCTGC 60.385 55.000 0.00 0.00 42.29 5.25
3949 4121 1.070309 GTCGTTCTGCTCAGTTTGCTG 60.070 52.381 0.00 0.00 43.87 4.41
3950 4122 1.221414 GTCGTTCTGCTCAGTTTGCT 58.779 50.000 0.00 0.00 0.00 3.91
3951 4123 0.111089 CGTCGTTCTGCTCAGTTTGC 60.111 55.000 0.00 0.00 0.00 3.68
3952 4124 0.111089 GCGTCGTTCTGCTCAGTTTG 60.111 55.000 0.00 0.00 0.00 2.93
3953 4125 0.529773 TGCGTCGTTCTGCTCAGTTT 60.530 50.000 0.00 0.00 0.00 2.66
3954 4126 0.319900 ATGCGTCGTTCTGCTCAGTT 60.320 50.000 0.00 0.00 0.00 3.16
3955 4127 0.734253 GATGCGTCGTTCTGCTCAGT 60.734 55.000 0.00 0.00 0.00 3.41
3956 4128 1.416813 GGATGCGTCGTTCTGCTCAG 61.417 60.000 0.00 0.00 0.00 3.35
3957 4129 1.446099 GGATGCGTCGTTCTGCTCA 60.446 57.895 0.00 0.00 0.00 4.26
3958 4130 2.167861 GGGATGCGTCGTTCTGCTC 61.168 63.158 0.00 0.00 0.00 4.26
3959 4131 2.125512 GGGATGCGTCGTTCTGCT 60.126 61.111 0.00 0.00 0.00 4.24
3960 4132 2.434185 TGGGATGCGTCGTTCTGC 60.434 61.111 0.00 0.00 0.00 4.26
3961 4133 2.456119 GCTGGGATGCGTCGTTCTG 61.456 63.158 0.00 0.00 0.00 3.02
3962 4134 2.125512 GCTGGGATGCGTCGTTCT 60.126 61.111 0.00 0.00 0.00 3.01
3963 4135 3.195698 GGCTGGGATGCGTCGTTC 61.196 66.667 0.00 0.00 0.00 3.95
3964 4136 4.015406 TGGCTGGGATGCGTCGTT 62.015 61.111 0.00 0.00 0.00 3.85
3965 4137 4.760047 GTGGCTGGGATGCGTCGT 62.760 66.667 0.00 0.00 0.00 4.34
3966 4138 4.758251 TGTGGCTGGGATGCGTCG 62.758 66.667 0.00 0.00 0.00 5.12
3967 4139 2.821366 CTGTGGCTGGGATGCGTC 60.821 66.667 0.00 0.00 0.00 5.19
3968 4140 4.415150 CCTGTGGCTGGGATGCGT 62.415 66.667 0.00 0.00 0.00 5.24
3979 4151 0.890996 GTGTTCCTCCTTGCCTGTGG 60.891 60.000 0.00 0.00 0.00 4.17
3980 4152 0.109342 AGTGTTCCTCCTTGCCTGTG 59.891 55.000 0.00 0.00 0.00 3.66
3981 4153 0.109342 CAGTGTTCCTCCTTGCCTGT 59.891 55.000 0.00 0.00 0.00 4.00
3982 4154 0.397941 TCAGTGTTCCTCCTTGCCTG 59.602 55.000 0.00 0.00 0.00 4.85
3983 4155 1.072965 CTTCAGTGTTCCTCCTTGCCT 59.927 52.381 0.00 0.00 0.00 4.75
3984 4156 1.072331 TCTTCAGTGTTCCTCCTTGCC 59.928 52.381 0.00 0.00 0.00 4.52
3985 4157 2.550830 TCTTCAGTGTTCCTCCTTGC 57.449 50.000 0.00 0.00 0.00 4.01
3986 4158 4.342862 TCTTCTTCAGTGTTCCTCCTTG 57.657 45.455 0.00 0.00 0.00 3.61
3987 4159 5.104318 ACTTTCTTCTTCAGTGTTCCTCCTT 60.104 40.000 0.00 0.00 0.00 3.36
3988 4160 4.410555 ACTTTCTTCTTCAGTGTTCCTCCT 59.589 41.667 0.00 0.00 0.00 3.69
3989 4161 4.513318 CACTTTCTTCTTCAGTGTTCCTCC 59.487 45.833 0.00 0.00 34.39 4.30
3990 4162 4.024472 GCACTTTCTTCTTCAGTGTTCCTC 60.024 45.833 0.00 0.00 40.17 3.71
3991 4163 3.879892 GCACTTTCTTCTTCAGTGTTCCT 59.120 43.478 0.00 0.00 40.17 3.36
3992 4164 3.879892 AGCACTTTCTTCTTCAGTGTTCC 59.120 43.478 0.00 0.00 40.17 3.62
3993 4165 4.787882 GCAGCACTTTCTTCTTCAGTGTTC 60.788 45.833 0.00 0.00 40.17 3.18
3997 4169 2.225467 GGCAGCACTTTCTTCTTCAGT 58.775 47.619 0.00 0.00 0.00 3.41
4068 4240 3.626996 TTCCTGTGGCTGGGATGCG 62.627 63.158 0.00 0.00 0.00 4.73
4296 4468 4.665451 TGGAAGAATGCTTGATGAAGGAA 58.335 39.130 0.00 0.00 32.62 3.36
4385 4557 9.905713 TGATTGGTTTTATAGATAAGCTGAAGT 57.094 29.630 0.00 0.00 0.00 3.01
4536 4708 2.355986 CGGTCGATCCCCCACTTGA 61.356 63.158 0.00 0.00 0.00 3.02
4642 4814 4.346734 CAGATGTTGGACCATTTTCGAG 57.653 45.455 0.00 0.00 0.00 4.04
4669 4841 0.252881 TCTCCTTGATGGCCTGTCCT 60.253 55.000 3.32 0.00 35.26 3.85
4865 5043 3.802139 CCTGCATAAATCAGCAAAGCATG 59.198 43.478 0.00 0.00 40.73 4.06
4921 5105 5.667539 TGTCTGGTTGGTTCAATTTTCAA 57.332 34.783 0.00 0.00 0.00 2.69
4924 5108 5.427378 CCTTTGTCTGGTTGGTTCAATTTT 58.573 37.500 0.00 0.00 0.00 1.82
4927 5111 2.965147 CCCTTTGTCTGGTTGGTTCAAT 59.035 45.455 0.00 0.00 0.00 2.57
4928 5112 2.024846 TCCCTTTGTCTGGTTGGTTCAA 60.025 45.455 0.00 0.00 0.00 2.69
4938 5122 1.471119 AGCATGCATCCCTTTGTCTG 58.529 50.000 21.98 0.00 0.00 3.51
5003 5473 6.090783 GGCACAATATAGATGCAATGATGTG 58.909 40.000 0.00 1.69 41.27 3.21
5016 5486 6.037610 GAAGTCCTTCTGTTGGCACAATATAG 59.962 42.308 0.00 0.00 39.10 1.31
5101 5792 4.157289 AGCAATGTAAAGGAACAGATGCTG 59.843 41.667 15.15 0.00 46.35 4.41
5104 5795 6.583806 GTGAAAGCAATGTAAAGGAACAGATG 59.416 38.462 0.00 0.00 31.70 2.90
5105 5796 6.491403 AGTGAAAGCAATGTAAAGGAACAGAT 59.509 34.615 0.00 0.00 31.70 2.90
5116 5807 7.538334 CGAAAATTCATGAGTGAAAGCAATGTA 59.462 33.333 0.00 0.00 46.67 2.29
5134 5825 9.695884 GAGAGAAAATGTCTATGTCGAAAATTC 57.304 33.333 0.00 0.00 36.41 2.17
5141 5832 5.400782 CCGATGAGAGAAAATGTCTATGTCG 59.599 44.000 0.00 0.00 36.41 4.35
5147 5838 4.020218 TGGAACCGATGAGAGAAAATGTCT 60.020 41.667 0.00 0.00 40.25 3.41
5163 5855 2.095768 CACTATGTTTGTGCTGGAACCG 60.096 50.000 0.00 0.00 0.00 4.44
5164 5856 2.228822 CCACTATGTTTGTGCTGGAACC 59.771 50.000 0.00 0.00 34.38 3.62
5166 5858 3.500448 TCCACTATGTTTGTGCTGGAA 57.500 42.857 0.00 0.00 34.38 3.53
5168 5860 3.627577 GGTATCCACTATGTTTGTGCTGG 59.372 47.826 0.00 0.00 34.38 4.85
5172 5864 8.731275 TTTCTATGGTATCCACTATGTTTGTG 57.269 34.615 0.00 0.00 35.80 3.33
5179 5871 7.805083 ATGCTCTTTCTATGGTATCCACTAT 57.195 36.000 0.00 0.00 35.80 2.12
5251 6003 5.089970 TGTATGACAGGACCTGAAATCTG 57.910 43.478 28.56 0.24 35.18 2.90
5285 6037 7.877612 GGACATCCCTTTTTACATGTGATTTTT 59.122 33.333 9.11 0.00 29.43 1.94
5307 6059 1.064017 GGTGGGATTAATGGCAGGACA 60.064 52.381 0.00 0.00 0.00 4.02
5311 6063 3.217626 GAAGAGGTGGGATTAATGGCAG 58.782 50.000 0.00 0.00 0.00 4.85
5335 6091 0.327576 AGTGGGTGAGGATAAGGGGG 60.328 60.000 0.00 0.00 0.00 5.40
5376 6132 9.631452 CTTTCAAATTTCACCTCTATTTTCTCC 57.369 33.333 0.00 0.00 0.00 3.71
5378 6134 7.809806 CGCTTTCAAATTTCACCTCTATTTTCT 59.190 33.333 0.00 0.00 0.00 2.52
5382 6138 6.206634 TCACGCTTTCAAATTTCACCTCTATT 59.793 34.615 0.00 0.00 0.00 1.73
5384 6140 5.060506 TCACGCTTTCAAATTTCACCTCTA 58.939 37.500 0.00 0.00 0.00 2.43
5404 6160 4.037923 TCCAGCTGAAAAATTCCAACTCAC 59.962 41.667 17.39 0.00 0.00 3.51
5409 6165 3.843422 TCCTCCAGCTGAAAAATTCCAA 58.157 40.909 17.39 0.00 0.00 3.53
5411 6167 3.367806 GCTTCCTCCAGCTGAAAAATTCC 60.368 47.826 17.39 0.00 36.79 3.01
5423 6180 2.235650 TGATGAGTTCAGCTTCCTCCAG 59.764 50.000 0.00 0.00 32.67 3.86
5475 6232 8.463930 TGAACTTCTTTTCTAATGTGGTTGAT 57.536 30.769 0.00 0.00 0.00 2.57
5481 6238 7.962918 CGGGTTATGAACTTCTTTTCTAATGTG 59.037 37.037 0.00 0.00 0.00 3.21
5482 6239 7.881232 TCGGGTTATGAACTTCTTTTCTAATGT 59.119 33.333 0.00 0.00 0.00 2.71
5483 6240 8.263940 TCGGGTTATGAACTTCTTTTCTAATG 57.736 34.615 0.00 0.00 0.00 1.90
5484 6241 8.857694 TTCGGGTTATGAACTTCTTTTCTAAT 57.142 30.769 0.00 0.00 0.00 1.73
5485 6242 8.857694 ATTCGGGTTATGAACTTCTTTTCTAA 57.142 30.769 0.00 0.00 0.00 2.10
5695 6516 2.919494 GCCCACACGAAAAGGCTGG 61.919 63.158 0.00 0.00 42.34 4.85
5699 6520 1.318576 AAGAAGCCCACACGAAAAGG 58.681 50.000 0.00 0.00 0.00 3.11
5706 6527 0.746659 AACTGCAAAGAAGCCCACAC 59.253 50.000 0.00 0.00 0.00 3.82
5720 6541 4.270008 TCTTCTAGGCCCAATAAAACTGC 58.730 43.478 0.00 0.00 0.00 4.40
5727 6548 3.523564 AGCTGTTTCTTCTAGGCCCAATA 59.476 43.478 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.