Multiple sequence alignment - TraesCS4B01G276300

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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 TraesCS4B01G276300 chr4B 100.000 3336 0 0 1001 4336 556059439 556062774 0.000000e+00 6161
1 TraesCS4B01G276300 chr4B 100.000 906 0 0 1 906 556058439 556059344 0.000000e+00 1674
2 TraesCS4B01G276300 chr4D 93.694 2569 110 24 1001 3541 445483662 445486206 0.000000e+00 3799
3 TraesCS4B01G276300 chr4D 87.136 653 48 23 3703 4336 445494958 445495593 0.000000e+00 708
4 TraesCS4B01G276300 chr4D 93.333 225 8 3 575 792 445483085 445483309 4.180000e-85 326
5 TraesCS4B01G276300 chr4A 93.424 2570 117 16 1001 3541 21636485 21633939 0.000000e+00 3762
6 TraesCS4B01G276300 chr4A 84.292 713 51 36 3543 4212 21633799 21633105 1.310000e-179 640
7 TraesCS4B01G276300 chr4A 88.166 338 16 8 575 906 21636829 21636510 8.800000e-102 381
8 TraesCS4B01G276300 chr4A 85.430 151 17 5 396 546 595394121 595394266 7.510000e-33 152
9 TraesCS4B01G276300 chr4A 85.417 144 19 2 396 539 64816893 64817034 9.720000e-32 148
10 TraesCS4B01G276300 chr4A 96.512 86 3 0 4251 4336 21633106 21633021 4.520000e-30 143
11 TraesCS4B01G276300 chr7B 98.315 534 5 3 3 535 608178165 608177635 0.000000e+00 933
12 TraesCS4B01G276300 chr7B 97.407 540 7 5 3 535 600920057 600919518 0.000000e+00 913
13 TraesCS4B01G276300 chr3A 98.315 534 6 2 3 535 452374633 452374102 0.000000e+00 933
14 TraesCS4B01G276300 chr3A 91.837 147 9 3 401 547 662203800 662203657 7.350000e-48 202
15 TraesCS4B01G276300 chr3A 86.364 132 16 2 421 551 95543358 95543228 4.520000e-30 143
16 TraesCS4B01G276300 chr3A 84.247 146 21 2 402 547 737863618 737863761 1.630000e-29 141
17 TraesCS4B01G276300 chr5B 94.689 546 15 5 3 547 119155303 119155835 0.000000e+00 835
18 TraesCS4B01G276300 chr5B 90.411 146 12 1 393 536 239390964 239391109 1.590000e-44 191
19 TraesCS4B01G276300 chr1B 97.506 441 5 2 1 439 635833310 635833746 0.000000e+00 749
20 TraesCS4B01G276300 chr1B 97.847 418 8 1 128 544 382696365 382695948 0.000000e+00 721
21 TraesCS4B01G276300 chr1B 98.378 370 3 2 3 371 382696743 382696376 0.000000e+00 647
22 TraesCS4B01G276300 chr1B 89.313 524 41 10 24 537 594437384 594436866 1.020000e-180 643
23 TraesCS4B01G276300 chr3B 89.806 412 26 8 24 435 44207065 44206670 8.310000e-142 514
24 TraesCS4B01G276300 chrUn 99.187 123 1 0 1 123 289121176 289121054 5.640000e-54 222
25 TraesCS4B01G276300 chr6A 90.278 144 13 1 401 543 541101651 541101508 2.060000e-43 187
26 TraesCS4B01G276300 chr5D 89.116 147 14 2 393 537 170384161 170384015 9.580000e-42 182
27 TraesCS4B01G276300 chr2B 88.591 149 13 3 393 539 127182338 127182484 1.240000e-40 178
28 TraesCS4B01G276300 chr2B 81.935 155 21 3 393 545 622910854 622911003 1.640000e-24 124


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 TraesCS4B01G276300 chr4B 556058439 556062774 4335 False 3917.5 6161 100.0000 1 4336 2 chr4B.!!$F1 4335
1 TraesCS4B01G276300 chr4D 445483085 445486206 3121 False 2062.5 3799 93.5135 575 3541 2 chr4D.!!$F2 2966
2 TraesCS4B01G276300 chr4D 445494958 445495593 635 False 708.0 708 87.1360 3703 4336 1 chr4D.!!$F1 633
3 TraesCS4B01G276300 chr4A 21633021 21636829 3808 True 1231.5 3762 90.5985 575 4336 4 chr4A.!!$R1 3761
4 TraesCS4B01G276300 chr7B 608177635 608178165 530 True 933.0 933 98.3150 3 535 1 chr7B.!!$R2 532
5 TraesCS4B01G276300 chr7B 600919518 600920057 539 True 913.0 913 97.4070 3 535 1 chr7B.!!$R1 532
6 TraesCS4B01G276300 chr3A 452374102 452374633 531 True 933.0 933 98.3150 3 535 1 chr3A.!!$R2 532
7 TraesCS4B01G276300 chr5B 119155303 119155835 532 False 835.0 835 94.6890 3 547 1 chr5B.!!$F1 544
8 TraesCS4B01G276300 chr1B 382695948 382696743 795 True 684.0 721 98.1125 3 544 2 chr1B.!!$R2 541
9 TraesCS4B01G276300 chr1B 594436866 594437384 518 True 643.0 643 89.3130 24 537 1 chr1B.!!$R1 513

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
559 834 0.244178 TAAAAATTTCACGCCGGCCC 59.756 50.0 23.46 0.0 0.00 5.80 F
576 851 0.255890 CCCAAGATCCAACGACCCAT 59.744 55.0 0.00 0.0 0.00 4.00 F
1972 2489 0.458543 ACCAGAAGCGCAGTGTATCG 60.459 55.0 11.47 0.0 0.00 2.92 F
2911 3433 0.396435 CCAGTGGCACCTTGTGTAGA 59.604 55.0 15.27 0.0 35.75 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1515 2020 1.006337 GCCAGGCAAATGAAACGCA 60.006 52.632 6.55 0.00 0.00 5.24 R
2492 3011 1.353394 ATTACCCTACCCCTGCCTGC 61.353 60.000 0.00 0.00 0.00 4.85 R
2931 3453 0.332632 ACCCTCCACATGTTCCATGG 59.667 55.000 4.97 4.97 34.58 3.66 R
4299 5016 0.250234 TTCTGGTGGAAGAGCATCCG 59.750 55.000 0.00 0.00 42.76 4.18 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
148 162 1.280998 GGGAGAAGAATGGGAAACGGA 59.719 52.381 0.00 0.00 0.00 4.69
538 813 5.235516 GCACGGGCATTTGTACTAGTATAT 58.764 41.667 3.77 0.00 40.72 0.86
555 830 8.545420 ACTAGTATATGTAAAAATTTCACGCCG 58.455 33.333 0.00 0.00 0.00 6.46
556 831 6.721321 AGTATATGTAAAAATTTCACGCCGG 58.279 36.000 0.00 0.00 0.00 6.13
557 832 2.053282 TGTAAAAATTTCACGCCGGC 57.947 45.000 19.07 19.07 0.00 6.13
558 833 1.336056 TGTAAAAATTTCACGCCGGCC 60.336 47.619 23.46 2.84 0.00 6.13
559 834 0.244178 TAAAAATTTCACGCCGGCCC 59.756 50.000 23.46 0.00 0.00 5.80
560 835 1.749334 AAAAATTTCACGCCGGCCCA 61.749 50.000 23.46 0.63 0.00 5.36
561 836 1.749334 AAAATTTCACGCCGGCCCAA 61.749 50.000 23.46 8.18 0.00 4.12
562 837 2.153547 AAATTTCACGCCGGCCCAAG 62.154 55.000 23.46 9.53 0.00 3.61
563 838 3.561120 ATTTCACGCCGGCCCAAGA 62.561 57.895 23.46 10.90 0.00 3.02
564 839 2.837031 ATTTCACGCCGGCCCAAGAT 62.837 55.000 23.46 7.17 0.00 2.40
565 840 3.969250 TTCACGCCGGCCCAAGATC 62.969 63.158 23.46 0.00 0.00 2.75
568 843 4.794648 CGCCGGCCCAAGATCCAA 62.795 66.667 23.46 0.00 0.00 3.53
569 844 3.140814 GCCGGCCCAAGATCCAAC 61.141 66.667 18.11 0.00 0.00 3.77
570 845 2.824041 CCGGCCCAAGATCCAACG 60.824 66.667 0.00 0.00 0.00 4.10
571 846 2.267642 CGGCCCAAGATCCAACGA 59.732 61.111 0.00 0.00 0.00 3.85
572 847 2.106683 CGGCCCAAGATCCAACGAC 61.107 63.158 0.00 0.00 0.00 4.34
573 848 1.749258 GGCCCAAGATCCAACGACC 60.749 63.158 0.00 0.00 0.00 4.79
574 849 1.749258 GCCCAAGATCCAACGACCC 60.749 63.158 0.00 0.00 0.00 4.46
575 850 1.682849 CCCAAGATCCAACGACCCA 59.317 57.895 0.00 0.00 0.00 4.51
576 851 0.255890 CCCAAGATCCAACGACCCAT 59.744 55.000 0.00 0.00 0.00 4.00
582 857 2.869503 ATCCAACGACCCATCACCGC 62.870 60.000 0.00 0.00 0.00 5.68
610 885 1.001974 CACAGACCCAAGATCCAACGA 59.998 52.381 0.00 0.00 0.00 3.85
640 922 2.047274 CAGGCCCCAGTACACGTG 60.047 66.667 15.48 15.48 0.00 4.49
719 1002 1.853319 CGTCCGCTATCAAATCCGC 59.147 57.895 0.00 0.00 0.00 5.54
794 1080 2.156098 AGTTGCTGCCTCCCCTTCA 61.156 57.895 0.00 0.00 0.00 3.02
1094 1598 2.125512 GGTGAGTCGCGGAATGCT 60.126 61.111 6.13 0.00 43.27 3.79
1112 1616 1.923227 CTGCTCCGTGCTCGTGAGTA 61.923 60.000 20.13 16.83 43.37 2.59
1113 1617 1.313091 TGCTCCGTGCTCGTGAGTAT 61.313 55.000 20.13 0.00 43.37 2.12
1114 1618 0.867753 GCTCCGTGCTCGTGAGTATG 60.868 60.000 20.13 0.00 37.02 2.39
1116 1620 1.669265 CTCCGTGCTCGTGAGTATGTA 59.331 52.381 7.47 0.00 33.26 2.29
1118 1622 1.400846 CCGTGCTCGTGAGTATGTAGT 59.599 52.381 7.47 0.00 35.01 2.73
1119 1623 2.159421 CCGTGCTCGTGAGTATGTAGTT 60.159 50.000 7.47 0.00 35.01 2.24
1120 1624 3.099362 CGTGCTCGTGAGTATGTAGTTC 58.901 50.000 0.00 0.00 0.00 3.01
1122 1626 2.426024 TGCTCGTGAGTATGTAGTTCCC 59.574 50.000 0.00 0.00 0.00 3.97
1123 1627 2.426024 GCTCGTGAGTATGTAGTTCCCA 59.574 50.000 0.00 0.00 0.00 4.37
1124 1628 3.489398 GCTCGTGAGTATGTAGTTCCCAG 60.489 52.174 0.00 0.00 0.00 4.45
1125 1629 3.021695 TCGTGAGTATGTAGTTCCCAGG 58.978 50.000 0.00 0.00 0.00 4.45
1126 1630 3.021695 CGTGAGTATGTAGTTCCCAGGA 58.978 50.000 0.00 0.00 0.00 3.86
1129 1633 5.395324 CGTGAGTATGTAGTTCCCAGGATTT 60.395 44.000 0.00 0.00 0.00 2.17
1131 1635 5.964477 TGAGTATGTAGTTCCCAGGATTTCT 59.036 40.000 0.00 0.00 0.00 2.52
1134 1638 4.993705 TGTAGTTCCCAGGATTTCTGTT 57.006 40.909 0.00 0.00 41.83 3.16
1135 1639 6.636454 ATGTAGTTCCCAGGATTTCTGTTA 57.364 37.500 0.00 0.00 41.83 2.41
1136 1640 6.049955 TGTAGTTCCCAGGATTTCTGTTAG 57.950 41.667 0.00 0.00 41.83 2.34
1144 1648 3.081804 AGGATTTCTGTTAGGCGGTTTG 58.918 45.455 0.00 0.00 0.00 2.93
1156 1660 1.202143 GGCGGTTTGGTTTGATCGATC 60.202 52.381 18.72 18.72 0.00 3.69
1225 1730 2.493501 GTTAGGGACGGCGGAGAC 59.506 66.667 13.24 0.00 0.00 3.36
1359 1864 6.629128 AGATCCACGATTCTGCTAATATCTG 58.371 40.000 0.00 0.00 0.00 2.90
1364 1869 6.475076 CCACGATTCTGCTAATATCTGCTATC 59.525 42.308 0.00 0.00 0.00 2.08
1475 1980 2.009774 GCCGCTAGTGTTGTGATCAAT 58.990 47.619 0.00 0.00 35.92 2.57
1476 1981 3.194861 GCCGCTAGTGTTGTGATCAATA 58.805 45.455 0.00 0.00 35.92 1.90
1477 1982 3.246226 GCCGCTAGTGTTGTGATCAATAG 59.754 47.826 0.00 0.00 36.81 1.73
1478 1983 4.433615 CCGCTAGTGTTGTGATCAATAGT 58.566 43.478 0.00 0.00 36.35 2.12
1479 1984 4.268644 CCGCTAGTGTTGTGATCAATAGTG 59.731 45.833 0.00 6.88 40.91 2.74
1480 1985 4.259970 CGCTAGTGTTGTGATCAATAGTGC 60.260 45.833 0.00 0.00 37.24 4.40
1481 1986 4.872691 GCTAGTGTTGTGATCAATAGTGCT 59.127 41.667 0.00 0.00 36.35 4.40
1482 1987 5.220548 GCTAGTGTTGTGATCAATAGTGCTG 60.221 44.000 0.00 0.00 36.35 4.41
1483 1988 4.645535 AGTGTTGTGATCAATAGTGCTGT 58.354 39.130 0.00 0.00 35.92 4.40
1484 1989 4.453478 AGTGTTGTGATCAATAGTGCTGTG 59.547 41.667 0.00 0.00 35.92 3.66
1485 1990 4.452114 GTGTTGTGATCAATAGTGCTGTGA 59.548 41.667 0.00 0.00 35.92 3.58
1486 1991 5.122869 GTGTTGTGATCAATAGTGCTGTGAT 59.877 40.000 0.00 0.00 35.92 3.06
1487 1992 5.352293 TGTTGTGATCAATAGTGCTGTGATC 59.648 40.000 0.00 15.14 45.19 2.92
1567 2072 1.816835 TCGATCTGCCACTTACGACTT 59.183 47.619 0.00 0.00 0.00 3.01
1879 2396 1.075151 ATCTCCTCCTTCCCGTCCC 60.075 63.158 0.00 0.00 0.00 4.46
1909 2426 2.343475 CTGGCCCGGCATACTCCAAT 62.343 60.000 12.58 0.00 0.00 3.16
1948 2465 2.356125 GCTGCCTATTCCCAAGTTCTCA 60.356 50.000 0.00 0.00 0.00 3.27
1972 2489 0.458543 ACCAGAAGCGCAGTGTATCG 60.459 55.000 11.47 0.00 0.00 2.92
2063 2580 2.046507 CCACTGCTGGCTCAGGAC 60.047 66.667 11.00 0.00 38.36 3.85
2074 2591 1.447945 GCTCAGGACTTGGCTTCTTC 58.552 55.000 0.00 0.00 0.00 2.87
2380 2899 2.700897 AGAGTCACCTTGTAGCTTGTGT 59.299 45.455 0.00 0.00 0.00 3.72
2466 2985 2.736144 TTAGTGGTTGGTAGTCTGCG 57.264 50.000 0.00 0.00 0.00 5.18
2584 3103 8.597167 TGTTCCCATCTTATATTCTGTAGGATG 58.403 37.037 0.00 0.00 36.17 3.51
2780 3302 3.969287 TTCTCCCTCATCTGTCAACTG 57.031 47.619 0.00 0.00 0.00 3.16
2793 3315 5.610398 TCTGTCAACTGACTTTTATCTGCA 58.390 37.500 10.99 0.00 44.99 4.41
2796 3318 5.764686 TGTCAACTGACTTTTATCTGCACAT 59.235 36.000 10.99 0.00 44.99 3.21
2903 3425 1.136329 AGTTCCATCCAGTGGCACCT 61.136 55.000 15.27 0.00 44.19 4.00
2911 3433 0.396435 CCAGTGGCACCTTGTGTAGA 59.604 55.000 15.27 0.00 35.75 2.59
2916 3438 1.555075 TGGCACCTTGTGTAGATCCTC 59.445 52.381 0.00 0.00 35.75 3.71
2919 3441 2.353803 GCACCTTGTGTAGATCCTCGTT 60.354 50.000 0.00 0.00 35.75 3.85
2921 3443 3.056821 CACCTTGTGTAGATCCTCGTTCA 60.057 47.826 0.00 0.00 0.00 3.18
2931 3453 4.437239 AGATCCTCGTTCATGTTCATGTC 58.563 43.478 11.73 6.66 0.00 3.06
2949 3471 0.625316 TCCATGGAACATGTGGAGGG 59.375 55.000 13.46 0.00 41.97 4.30
2952 3474 5.112653 TCCATGGAACATGTGGAGGGTTT 62.113 47.826 13.46 0.00 41.97 3.27
2984 3506 3.768215 TGGCATGTTTGATAAAGGATGCA 59.232 39.130 14.91 0.00 38.38 3.96
3034 3556 6.458615 GCGGACAAACCATAATACGGTAATTT 60.459 38.462 0.00 0.00 34.99 1.82
3036 3558 7.969508 CGGACAAACCATAATACGGTAATTTTT 59.030 33.333 0.00 0.00 34.99 1.94
3088 3610 7.776969 ACATCTGTTGATTTCTGTGGCTAATAT 59.223 33.333 0.00 0.00 0.00 1.28
3100 3622 9.905713 TTCTGTGGCTAATATTAAAGTGATTCT 57.094 29.630 0.00 0.00 0.00 2.40
3151 3673 2.192187 TGCACTTCATGGCGCACAA 61.192 52.632 10.83 0.00 0.00 3.33
3328 3851 3.264193 TCCACCTTCTATGCAGATGTTGT 59.736 43.478 0.00 0.00 0.00 3.32
3403 3926 4.946784 ATGTCGGTGTTAAATTCTCTGC 57.053 40.909 0.00 0.00 0.00 4.26
3481 4017 7.455641 TTGTTGTTAACTTCTTTGACCTGAA 57.544 32.000 7.22 0.00 0.00 3.02
3541 4077 1.174712 GCCTGGTGTGATGCTTGTGT 61.175 55.000 0.00 0.00 0.00 3.72
3545 4219 2.221169 TGGTGTGATGCTTGTGTTCTC 58.779 47.619 0.00 0.00 0.00 2.87
3563 4237 3.767711 TCTCTGACTGAGACTTAAGGCA 58.232 45.455 11.83 3.05 46.03 4.75
3564 4238 4.348486 TCTCTGACTGAGACTTAAGGCAT 58.652 43.478 11.83 0.00 46.03 4.40
3565 4239 4.774726 TCTCTGACTGAGACTTAAGGCATT 59.225 41.667 11.83 0.00 46.03 3.56
3566 4240 5.952347 TCTCTGACTGAGACTTAAGGCATTA 59.048 40.000 11.83 0.00 46.03 1.90
3567 4241 6.437477 TCTCTGACTGAGACTTAAGGCATTAA 59.563 38.462 11.83 3.23 46.03 1.40
3568 4242 6.756074 CTCTGACTGAGACTTAAGGCATTAAG 59.244 42.308 25.08 25.08 45.39 1.85
3591 4266 6.653989 AGCATACTATTAGTCAGCTGGTTTT 58.346 36.000 15.13 0.00 37.17 2.43
3596 4271 6.485171 ACTATTAGTCAGCTGGTTTTGGATT 58.515 36.000 15.13 0.00 0.00 3.01
3626 4301 7.915930 AGCATATCTCTATTATCAGGTGCTTT 58.084 34.615 0.00 0.00 35.89 3.51
3628 4303 7.413877 GCATATCTCTATTATCAGGTGCTTTGC 60.414 40.741 0.00 0.00 0.00 3.68
3634 4309 0.322816 ATCAGGTGCTTTGCGATGGT 60.323 50.000 0.00 0.00 0.00 3.55
3637 4316 1.745087 CAGGTGCTTTGCGATGGTATT 59.255 47.619 0.00 0.00 0.00 1.89
3638 4317 1.745087 AGGTGCTTTGCGATGGTATTG 59.255 47.619 0.00 0.00 0.00 1.90
3644 4323 5.804979 GTGCTTTGCGATGGTATTGTTATTT 59.195 36.000 0.00 0.00 0.00 1.40
3646 4325 6.870965 TGCTTTGCGATGGTATTGTTATTTTT 59.129 30.769 0.00 0.00 0.00 1.94
3672 4351 5.470845 AAAAAGAGAAACAGAGACGTGTG 57.529 39.130 0.00 0.00 0.00 3.82
3673 4352 3.802948 AAGAGAAACAGAGACGTGTGT 57.197 42.857 0.00 0.00 0.00 3.72
3674 4353 3.085443 AGAGAAACAGAGACGTGTGTG 57.915 47.619 8.40 8.40 28.64 3.82
3689 4368 1.152510 GTGTGTGTGTGTGTGTGTCA 58.847 50.000 0.00 0.00 0.00 3.58
3691 4370 1.533299 TGTGTGTGTGTGTGTGTCAAC 59.467 47.619 0.00 0.00 0.00 3.18
3692 4371 1.135803 GTGTGTGTGTGTGTGTCAACC 60.136 52.381 0.00 0.00 0.00 3.77
3697 4376 3.874543 TGTGTGTGTGTGTCAACCTATTC 59.125 43.478 0.00 0.00 0.00 1.75
3751 4431 7.009179 TCACTATCAATCCAGTCTTGAAGTT 57.991 36.000 0.00 0.00 36.30 2.66
3768 4448 6.024552 TGAAGTTTTTGAAACTTGCTGTCT 57.975 33.333 19.94 0.00 40.27 3.41
3905 4589 6.543735 ACACCTTAAAGCAAAAGGATAGTCT 58.456 36.000 16.09 0.00 45.41 3.24
3927 4611 3.822735 TCAGAAAAGGCATTGAGAGTTGG 59.177 43.478 0.00 0.00 0.00 3.77
3952 4636 2.225467 GGCACAAAGATATGAGGGAGC 58.775 52.381 0.00 0.00 0.00 4.70
3954 4638 2.421952 GCACAAAGATATGAGGGAGCCA 60.422 50.000 0.00 0.00 0.00 4.75
3955 4639 3.474600 CACAAAGATATGAGGGAGCCAG 58.525 50.000 0.00 0.00 0.00 4.85
3956 4640 3.135348 CACAAAGATATGAGGGAGCCAGA 59.865 47.826 0.00 0.00 0.00 3.86
3957 4641 3.782523 ACAAAGATATGAGGGAGCCAGAA 59.217 43.478 0.00 0.00 0.00 3.02
3958 4642 4.414846 ACAAAGATATGAGGGAGCCAGAAT 59.585 41.667 0.00 0.00 0.00 2.40
3959 4643 4.637387 AAGATATGAGGGAGCCAGAATG 57.363 45.455 0.00 0.00 0.00 2.67
3960 4644 3.866816 AGATATGAGGGAGCCAGAATGA 58.133 45.455 0.00 0.00 39.69 2.57
3961 4645 4.437023 AGATATGAGGGAGCCAGAATGAT 58.563 43.478 0.00 0.00 39.69 2.45
3962 4646 4.850963 AGATATGAGGGAGCCAGAATGATT 59.149 41.667 0.00 0.00 39.69 2.57
3964 4648 3.287867 TGAGGGAGCCAGAATGATTTC 57.712 47.619 0.00 0.00 39.69 2.17
3965 4649 2.092212 TGAGGGAGCCAGAATGATTTCC 60.092 50.000 0.00 0.00 39.69 3.13
3966 4650 2.174424 GAGGGAGCCAGAATGATTTCCT 59.826 50.000 0.00 0.00 39.69 3.36
3967 4651 2.174424 AGGGAGCCAGAATGATTTCCTC 59.826 50.000 0.00 0.00 39.69 3.71
3968 4652 2.174424 GGGAGCCAGAATGATTTCCTCT 59.826 50.000 0.00 0.00 39.69 3.69
3971 4655 4.521146 GAGCCAGAATGATTTCCTCTGAA 58.479 43.478 7.85 0.00 39.69 3.02
3973 4657 4.226846 AGCCAGAATGATTTCCTCTGAAGA 59.773 41.667 7.85 0.00 39.69 2.87
3974 4658 4.946157 GCCAGAATGATTTCCTCTGAAGAA 59.054 41.667 7.85 0.00 39.69 2.52
3976 4660 6.413052 CCAGAATGATTTCCTCTGAAGAAGA 58.587 40.000 7.85 0.00 39.69 2.87
3977 4661 6.315891 CCAGAATGATTTCCTCTGAAGAAGAC 59.684 42.308 7.85 0.00 39.69 3.01
3979 4663 7.278424 CAGAATGATTTCCTCTGAAGAAGACTC 59.722 40.741 0.00 0.00 39.69 3.36
3980 4664 6.872585 ATGATTTCCTCTGAAGAAGACTCT 57.127 37.500 0.00 0.00 0.00 3.24
3981 4665 6.678568 TGATTTCCTCTGAAGAAGACTCTT 57.321 37.500 0.00 0.00 44.93 2.85
3982 4666 7.782897 TGATTTCCTCTGAAGAAGACTCTTA 57.217 36.000 0.00 0.00 42.19 2.10
3984 4668 5.652994 TTCCTCTGAAGAAGACTCTTAGC 57.347 43.478 0.00 0.00 42.19 3.09
3985 4669 3.692101 TCCTCTGAAGAAGACTCTTAGCG 59.308 47.826 0.00 0.00 42.19 4.26
3989 4673 4.519350 TCTGAAGAAGACTCTTAGCGTTCA 59.481 41.667 0.00 0.00 42.19 3.18
3991 4675 4.982916 TGAAGAAGACTCTTAGCGTTCAAC 59.017 41.667 0.00 0.00 42.19 3.18
3992 4676 4.857509 AGAAGACTCTTAGCGTTCAACT 57.142 40.909 0.00 0.00 0.00 3.16
3993 4677 4.551388 AGAAGACTCTTAGCGTTCAACTG 58.449 43.478 0.00 0.00 0.00 3.16
3994 4678 4.038162 AGAAGACTCTTAGCGTTCAACTGT 59.962 41.667 0.00 0.00 0.00 3.55
3996 4680 2.987821 GACTCTTAGCGTTCAACTGTCC 59.012 50.000 0.00 0.00 0.00 4.02
3997 4681 2.628657 ACTCTTAGCGTTCAACTGTCCT 59.371 45.455 0.00 0.00 0.00 3.85
3998 4682 3.069729 ACTCTTAGCGTTCAACTGTCCTT 59.930 43.478 0.00 0.00 0.00 3.36
3999 4683 4.058817 CTCTTAGCGTTCAACTGTCCTTT 58.941 43.478 0.00 0.00 0.00 3.11
4000 4684 4.448210 TCTTAGCGTTCAACTGTCCTTTT 58.552 39.130 0.00 0.00 0.00 2.27
4001 4685 5.603596 TCTTAGCGTTCAACTGTCCTTTTA 58.396 37.500 0.00 0.00 0.00 1.52
4002 4686 6.228258 TCTTAGCGTTCAACTGTCCTTTTAT 58.772 36.000 0.00 0.00 0.00 1.40
4003 4687 6.708949 TCTTAGCGTTCAACTGTCCTTTTATT 59.291 34.615 0.00 0.00 0.00 1.40
4004 4688 5.358298 AGCGTTCAACTGTCCTTTTATTC 57.642 39.130 0.00 0.00 0.00 1.75
4005 4689 4.819630 AGCGTTCAACTGTCCTTTTATTCA 59.180 37.500 0.00 0.00 0.00 2.57
4006 4690 5.049405 AGCGTTCAACTGTCCTTTTATTCAG 60.049 40.000 0.00 0.00 0.00 3.02
4007 4691 5.277828 GCGTTCAACTGTCCTTTTATTCAGT 60.278 40.000 0.00 0.00 41.93 3.41
4010 4694 8.339714 CGTTCAACTGTCCTTTTATTCAGTTTA 58.660 33.333 6.66 0.00 45.01 2.01
4131 4848 1.712977 GCAGAGCCTCCAGATTTGCG 61.713 60.000 0.00 0.00 0.00 4.85
4145 4862 3.260884 AGATTTGCGGAGAGAACAACCTA 59.739 43.478 0.00 0.00 0.00 3.08
4236 4953 3.981071 TTCCACTTATCTGACCACAGG 57.019 47.619 0.00 0.00 43.60 4.00
4299 5016 3.368739 CCTTGAATTGGGGAGTGATTTGC 60.369 47.826 0.00 0.00 0.00 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.764054 CGGCTCCCTCTTCCTCCAT 60.764 63.158 0.00 0.00 0.00 3.41
1 2 2.364317 CGGCTCCCTCTTCCTCCA 60.364 66.667 0.00 0.00 0.00 3.86
148 162 3.122937 GCATGAACGCGATCTTTCTTT 57.877 42.857 15.93 0.00 0.00 2.52
538 813 1.336056 GGCCGGCGTGAAATTTTTACA 60.336 47.619 22.54 0.00 0.00 2.41
547 822 3.969250 GATCTTGGGCCGGCGTGAA 62.969 63.158 22.54 11.75 0.00 3.18
548 823 4.467084 GATCTTGGGCCGGCGTGA 62.467 66.667 22.54 15.56 0.00 4.35
551 826 4.794648 TTGGATCTTGGGCCGGCG 62.795 66.667 22.54 6.52 0.00 6.46
552 827 3.140814 GTTGGATCTTGGGCCGGC 61.141 66.667 21.18 21.18 0.00 6.13
553 828 2.824041 CGTTGGATCTTGGGCCGG 60.824 66.667 0.00 0.00 0.00 6.13
554 829 2.106683 GTCGTTGGATCTTGGGCCG 61.107 63.158 0.00 0.00 0.00 6.13
555 830 1.749258 GGTCGTTGGATCTTGGGCC 60.749 63.158 0.00 0.00 0.00 5.80
556 831 1.749258 GGGTCGTTGGATCTTGGGC 60.749 63.158 0.00 0.00 0.00 5.36
557 832 0.255890 ATGGGTCGTTGGATCTTGGG 59.744 55.000 0.00 0.00 0.00 4.12
558 833 1.065491 TGATGGGTCGTTGGATCTTGG 60.065 52.381 0.00 0.00 0.00 3.61
559 834 2.009774 GTGATGGGTCGTTGGATCTTG 58.990 52.381 0.00 0.00 0.00 3.02
560 835 1.065418 GGTGATGGGTCGTTGGATCTT 60.065 52.381 0.00 0.00 0.00 2.40
561 836 0.541863 GGTGATGGGTCGTTGGATCT 59.458 55.000 0.00 0.00 0.00 2.75
562 837 0.810031 CGGTGATGGGTCGTTGGATC 60.810 60.000 0.00 0.00 0.00 3.36
563 838 1.220749 CGGTGATGGGTCGTTGGAT 59.779 57.895 0.00 0.00 0.00 3.41
564 839 2.660206 CGGTGATGGGTCGTTGGA 59.340 61.111 0.00 0.00 0.00 3.53
565 840 3.124921 GCGGTGATGGGTCGTTGG 61.125 66.667 0.00 0.00 0.00 3.77
566 841 3.124921 GGCGGTGATGGGTCGTTG 61.125 66.667 0.00 0.00 0.00 4.10
567 842 4.404098 GGGCGGTGATGGGTCGTT 62.404 66.667 0.00 0.00 0.00 3.85
569 844 4.175337 ATGGGCGGTGATGGGTCG 62.175 66.667 0.00 0.00 0.00 4.79
570 845 2.203209 GATGGGCGGTGATGGGTC 60.203 66.667 0.00 0.00 0.00 4.46
571 846 3.809013 GGATGGGCGGTGATGGGT 61.809 66.667 0.00 0.00 0.00 4.51
572 847 3.807839 TGGATGGGCGGTGATGGG 61.808 66.667 0.00 0.00 0.00 4.00
573 848 2.516930 GTGGATGGGCGGTGATGG 60.517 66.667 0.00 0.00 0.00 3.51
574 849 2.114670 GTGTGGATGGGCGGTGATG 61.115 63.158 0.00 0.00 0.00 3.07
575 850 2.272146 GTGTGGATGGGCGGTGAT 59.728 61.111 0.00 0.00 0.00 3.06
576 851 3.245346 TGTGTGGATGGGCGGTGA 61.245 61.111 0.00 0.00 0.00 4.02
582 857 0.322816 CTTGGGTCTGTGTGGATGGG 60.323 60.000 0.00 0.00 0.00 4.00
626 908 1.375523 CTTCCACGTGTACTGGGGC 60.376 63.158 15.65 0.00 0.00 5.80
640 922 2.162408 CCCGTGAATTGAAAGCTCTTCC 59.838 50.000 0.00 0.00 0.00 3.46
719 1002 4.084888 GAACGGACGGCGCAAAGG 62.085 66.667 10.83 0.00 0.00 3.11
794 1080 3.182996 GGGGTGGAGTGGGGTGTT 61.183 66.667 0.00 0.00 0.00 3.32
831 1117 4.865228 TTGGGTGGGTGGGTGGGA 62.865 66.667 0.00 0.00 0.00 4.37
832 1118 3.599933 ATTGGGTGGGTGGGTGGG 61.600 66.667 0.00 0.00 0.00 4.61
833 1119 2.037208 GATTGGGTGGGTGGGTGG 59.963 66.667 0.00 0.00 0.00 4.61
834 1120 2.361104 CGATTGGGTGGGTGGGTG 60.361 66.667 0.00 0.00 0.00 4.61
835 1121 4.360405 GCGATTGGGTGGGTGGGT 62.360 66.667 0.00 0.00 0.00 4.51
878 1378 2.492090 GCGAGGCGAGATCTGTGT 59.508 61.111 0.00 0.00 0.00 3.72
1021 1521 4.315941 GGGGATCGGCGGATGGAC 62.316 72.222 12.00 1.94 31.51 4.02
1065 1569 1.370609 GACTCACCGATCAGACGAGA 58.629 55.000 7.01 0.00 35.09 4.04
1123 1627 3.081804 CAAACCGCCTAACAGAAATCCT 58.918 45.455 0.00 0.00 0.00 3.24
1124 1628 2.163613 CCAAACCGCCTAACAGAAATCC 59.836 50.000 0.00 0.00 0.00 3.01
1125 1629 2.817844 ACCAAACCGCCTAACAGAAATC 59.182 45.455 0.00 0.00 0.00 2.17
1126 1630 2.871453 ACCAAACCGCCTAACAGAAAT 58.129 42.857 0.00 0.00 0.00 2.17
1129 1633 1.950909 CAAACCAAACCGCCTAACAGA 59.049 47.619 0.00 0.00 0.00 3.41
1131 1635 2.054232 TCAAACCAAACCGCCTAACA 57.946 45.000 0.00 0.00 0.00 2.41
1134 1638 1.002201 TCGATCAAACCAAACCGCCTA 59.998 47.619 0.00 0.00 0.00 3.93
1135 1639 0.250553 TCGATCAAACCAAACCGCCT 60.251 50.000 0.00 0.00 0.00 5.52
1136 1640 0.808755 ATCGATCAAACCAAACCGCC 59.191 50.000 0.00 0.00 0.00 6.13
1156 1660 3.733344 ATCCACGAACCCCATCGCG 62.733 63.158 0.00 0.00 46.51 5.87
1160 1664 1.077501 CTGCATCCACGAACCCCAT 60.078 57.895 0.00 0.00 0.00 4.00
1219 1724 4.421479 ACTCCGCGCTTGTCTCCG 62.421 66.667 5.56 0.00 0.00 4.63
1225 1730 2.103143 AGATCGACTCCGCGCTTG 59.897 61.111 5.56 0.00 35.37 4.01
1359 1864 3.621268 TCGCAAACCACAACATAGATAGC 59.379 43.478 0.00 0.00 0.00 2.97
1364 1869 4.143347 GCAAAATCGCAAACCACAACATAG 60.143 41.667 0.00 0.00 0.00 2.23
1475 1980 3.419943 TGCCATTTTGATCACAGCACTA 58.580 40.909 0.00 0.00 0.00 2.74
1476 1981 2.241160 TGCCATTTTGATCACAGCACT 58.759 42.857 0.00 0.00 0.00 4.40
1477 1982 2.728690 TGCCATTTTGATCACAGCAC 57.271 45.000 0.00 0.00 0.00 4.40
1478 1983 2.563620 ACATGCCATTTTGATCACAGCA 59.436 40.909 0.00 0.56 0.00 4.41
1479 1984 3.241067 ACATGCCATTTTGATCACAGC 57.759 42.857 0.00 0.00 0.00 4.40
1480 1985 4.811908 TGAACATGCCATTTTGATCACAG 58.188 39.130 0.00 0.00 0.00 3.66
1481 1986 4.523558 TCTGAACATGCCATTTTGATCACA 59.476 37.500 0.00 0.00 0.00 3.58
1482 1987 5.063180 TCTGAACATGCCATTTTGATCAC 57.937 39.130 0.00 0.00 0.00 3.06
1483 1988 5.186215 ACATCTGAACATGCCATTTTGATCA 59.814 36.000 0.00 0.00 0.00 2.92
1484 1989 5.657474 ACATCTGAACATGCCATTTTGATC 58.343 37.500 0.00 0.00 0.00 2.92
1485 1990 5.670792 ACATCTGAACATGCCATTTTGAT 57.329 34.783 0.00 0.00 0.00 2.57
1486 1991 5.244402 AGAACATCTGAACATGCCATTTTGA 59.756 36.000 0.00 0.00 0.00 2.69
1487 1992 5.475719 AGAACATCTGAACATGCCATTTTG 58.524 37.500 0.00 0.00 0.00 2.44
1488 1993 5.733620 AGAACATCTGAACATGCCATTTT 57.266 34.783 0.00 0.00 0.00 1.82
1515 2020 1.006337 GCCAGGCAAATGAAACGCA 60.006 52.632 6.55 0.00 0.00 5.24
1567 2072 2.685017 AGAGTCTCCATGGCGCCA 60.685 61.111 34.80 34.80 0.00 5.69
1835 2352 2.972348 TGGAGTTATAGGAATCGCCCT 58.028 47.619 0.00 0.00 40.29 5.19
1843 2360 5.317262 AGGAGATCCTGATGGAGTTATAGGA 59.683 44.000 0.00 0.00 46.55 2.94
1933 2450 3.263425 GGTGGAGTGAGAACTTGGGAATA 59.737 47.826 0.00 0.00 0.00 1.75
1948 2465 2.345244 CTGCGCTTCTGGTGGAGT 59.655 61.111 9.73 0.00 38.74 3.85
1972 2489 2.647297 GCAGGTGGCAACTCAAGC 59.353 61.111 0.00 0.00 43.97 4.01
2063 2580 1.593196 TTGTCACCGAAGAAGCCAAG 58.407 50.000 0.00 0.00 0.00 3.61
2074 2591 2.022764 TGGCAGTATCATTGTCACCG 57.977 50.000 0.00 0.00 0.00 4.94
2492 3011 1.353394 ATTACCCTACCCCTGCCTGC 61.353 60.000 0.00 0.00 0.00 4.85
2604 3123 2.663602 GCGAGGCAGAATGTATGTATCG 59.336 50.000 0.00 0.00 39.31 2.92
2722 3244 1.072965 CTTCTTGAACCTCCACTGGCT 59.927 52.381 0.00 0.00 0.00 4.75
2780 3302 3.879892 GGGGAGATGTGCAGATAAAAGTC 59.120 47.826 0.00 0.00 0.00 3.01
2793 3315 0.722676 TAAGGTGGGAGGGGAGATGT 59.277 55.000 0.00 0.00 0.00 3.06
2796 3318 0.797579 AACTAAGGTGGGAGGGGAGA 59.202 55.000 0.00 0.00 0.00 3.71
2903 3425 4.801330 ACATGAACGAGGATCTACACAA 57.199 40.909 0.00 0.00 0.00 3.33
2911 3433 3.055167 TGGACATGAACATGAACGAGGAT 60.055 43.478 19.56 0.00 41.20 3.24
2916 3438 3.009026 TCCATGGACATGAACATGAACG 58.991 45.455 25.30 14.63 45.55 3.95
2919 3441 4.031636 TGTTCCATGGACATGAACATGA 57.968 40.909 25.30 14.36 45.55 3.07
2921 3443 4.158949 CACATGTTCCATGGACATGAACAT 59.841 41.667 37.15 29.71 42.78 2.71
2931 3453 0.332632 ACCCTCCACATGTTCCATGG 59.667 55.000 4.97 4.97 34.58 3.66
2949 3471 1.336755 ACATGCCAACGGAACTCAAAC 59.663 47.619 0.00 0.00 0.00 2.93
2952 3474 1.336440 CAAACATGCCAACGGAACTCA 59.664 47.619 0.00 0.00 0.00 3.41
2984 3506 4.268359 GCAGGTCTCTGAAATGGAATCTT 58.732 43.478 0.00 0.00 43.49 2.40
3034 3556 6.147864 AGATTAAAGAAGCAGCACACAAAA 57.852 33.333 0.00 0.00 0.00 2.44
3036 3558 5.772825 AAGATTAAAGAAGCAGCACACAA 57.227 34.783 0.00 0.00 0.00 3.33
3088 3610 4.887071 ACCACAGCACAAGAATCACTTTAA 59.113 37.500 0.00 0.00 36.61 1.52
3100 3622 2.439883 TGCAGCACCACAGCACAA 60.440 55.556 0.00 0.00 35.61 3.33
3151 3673 3.971702 GGCTGAGCACCCCAGGTT 61.972 66.667 6.82 0.00 31.02 3.50
3317 3840 4.114073 CAAAGAAAGCAACAACATCTGCA 58.886 39.130 0.00 0.00 41.17 4.41
3403 3926 2.862700 TCGACAACACGACGTTCAG 58.137 52.632 0.00 0.00 34.86 3.02
3458 3981 7.639113 ATTCAGGTCAAAGAAGTTAACAACA 57.361 32.000 8.61 0.00 0.00 3.33
3481 4017 8.514594 CAGGTCAAATCACACACATAACTTAAT 58.485 33.333 0.00 0.00 0.00 1.40
3489 4025 5.596836 AAAACAGGTCAAATCACACACAT 57.403 34.783 0.00 0.00 0.00 3.21
3545 4219 5.293079 GCTTAATGCCTTAAGTCTCAGTCAG 59.707 44.000 18.87 0.00 43.81 3.51
3559 4233 6.876257 GCTGACTAATAGTATGCTTAATGCCT 59.124 38.462 9.01 0.00 42.00 4.75
3560 4234 6.876257 AGCTGACTAATAGTATGCTTAATGCC 59.124 38.462 11.93 0.00 42.00 4.40
3561 4235 7.148507 CCAGCTGACTAATAGTATGCTTAATGC 60.149 40.741 17.39 0.00 35.62 3.56
3562 4236 7.875041 ACCAGCTGACTAATAGTATGCTTAATG 59.125 37.037 17.39 6.88 35.62 1.90
3563 4237 7.967908 ACCAGCTGACTAATAGTATGCTTAAT 58.032 34.615 17.39 3.98 35.62 1.40
3564 4238 7.361457 ACCAGCTGACTAATAGTATGCTTAA 57.639 36.000 17.39 0.00 35.62 1.85
3565 4239 6.978674 ACCAGCTGACTAATAGTATGCTTA 57.021 37.500 17.39 0.00 35.62 3.09
3566 4240 5.878406 ACCAGCTGACTAATAGTATGCTT 57.122 39.130 17.39 2.59 35.62 3.91
3567 4241 5.878406 AACCAGCTGACTAATAGTATGCT 57.122 39.130 17.39 11.93 37.34 3.79
3568 4242 6.238484 CCAAAACCAGCTGACTAATAGTATGC 60.238 42.308 17.39 8.44 0.00 3.14
3572 4247 5.499004 TCCAAAACCAGCTGACTAATAGT 57.501 39.130 17.39 0.00 0.00 2.12
3591 4266 3.758755 AGAGATATGCTTCGCAATCCA 57.241 42.857 0.00 0.00 43.62 3.41
3596 4271 6.153510 ACCTGATAATAGAGATATGCTTCGCA 59.846 38.462 0.00 0.00 44.86 5.10
3610 4285 4.083643 CCATCGCAAAGCACCTGATAATAG 60.084 45.833 0.00 0.00 0.00 1.73
3650 4329 4.935808 ACACACGTCTCTGTTTCTCTTTTT 59.064 37.500 0.00 0.00 0.00 1.94
3651 4330 4.330074 CACACACGTCTCTGTTTCTCTTTT 59.670 41.667 0.00 0.00 0.00 2.27
3652 4331 3.865745 CACACACGTCTCTGTTTCTCTTT 59.134 43.478 0.00 0.00 0.00 2.52
3657 4336 2.029244 CACACACACACGTCTCTGTTTC 59.971 50.000 0.00 0.00 0.00 2.78
3668 4347 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
3669 4348 1.152510 GACACACACACACACACACA 58.847 50.000 0.00 0.00 0.00 3.72
3670 4349 1.152510 TGACACACACACACACACAC 58.847 50.000 0.00 0.00 0.00 3.82
3671 4350 1.533299 GTTGACACACACACACACACA 59.467 47.619 0.00 0.00 0.00 3.72
3672 4351 1.135803 GGTTGACACACACACACACAC 60.136 52.381 0.00 0.00 0.00 3.82
3673 4352 1.160989 GGTTGACACACACACACACA 58.839 50.000 0.00 0.00 0.00 3.72
3674 4353 1.448985 AGGTTGACACACACACACAC 58.551 50.000 0.00 0.00 0.00 3.82
3751 4431 6.042143 GGATCAAAGACAGCAAGTTTCAAAA 58.958 36.000 0.00 0.00 0.00 2.44
3826 4507 2.827921 ACCTCAAACATCAATCCAAGCC 59.172 45.455 0.00 0.00 0.00 4.35
3905 4589 3.822735 CCAACTCTCAATGCCTTTTCTGA 59.177 43.478 0.00 0.00 0.00 3.27
3927 4611 3.633986 CCCTCATATCTTTGTGCCCTTTC 59.366 47.826 0.00 0.00 0.00 2.62
3952 4636 6.315891 GTCTTCTTCAGAGGAAATCATTCTGG 59.684 42.308 11.73 1.69 39.01 3.86
3954 4638 7.180766 AGAGTCTTCTTCAGAGGAAATCATTCT 59.819 37.037 0.00 0.00 35.79 2.40
3955 4639 7.330262 AGAGTCTTCTTCAGAGGAAATCATTC 58.670 38.462 0.00 0.00 31.79 2.67
3956 4640 7.256494 AGAGTCTTCTTCAGAGGAAATCATT 57.744 36.000 0.00 0.00 31.79 2.57
3957 4641 6.872585 AGAGTCTTCTTCAGAGGAAATCAT 57.127 37.500 0.00 0.00 31.79 2.45
3958 4642 6.678568 AAGAGTCTTCTTCAGAGGAAATCA 57.321 37.500 0.00 0.00 39.46 2.57
3959 4643 6.756542 GCTAAGAGTCTTCTTCAGAGGAAATC 59.243 42.308 9.12 0.00 42.60 2.17
3960 4644 6.627065 CGCTAAGAGTCTTCTTCAGAGGAAAT 60.627 42.308 9.12 0.00 42.60 2.17
3961 4645 5.336055 CGCTAAGAGTCTTCTTCAGAGGAAA 60.336 44.000 9.12 0.00 42.60 3.13
3962 4646 4.156922 CGCTAAGAGTCTTCTTCAGAGGAA 59.843 45.833 9.12 0.00 42.60 3.36
3964 4648 3.442273 ACGCTAAGAGTCTTCTTCAGAGG 59.558 47.826 9.12 0.23 42.60 3.69
3965 4649 4.695217 ACGCTAAGAGTCTTCTTCAGAG 57.305 45.455 9.12 5.66 42.60 3.35
3966 4650 4.519350 TGAACGCTAAGAGTCTTCTTCAGA 59.481 41.667 9.12 0.00 42.60 3.27
3967 4651 4.799678 TGAACGCTAAGAGTCTTCTTCAG 58.200 43.478 9.12 2.18 42.60 3.02
3968 4652 4.848562 TGAACGCTAAGAGTCTTCTTCA 57.151 40.909 9.12 9.37 42.60 3.02
3971 4655 4.038162 ACAGTTGAACGCTAAGAGTCTTCT 59.962 41.667 9.12 0.00 34.29 2.85
3973 4657 4.299978 GACAGTTGAACGCTAAGAGTCTT 58.700 43.478 10.87 10.87 0.00 3.01
3974 4658 3.305471 GGACAGTTGAACGCTAAGAGTCT 60.305 47.826 0.00 0.00 0.00 3.24
3976 4660 2.628657 AGGACAGTTGAACGCTAAGAGT 59.371 45.455 0.00 0.00 0.00 3.24
3977 4661 3.305398 AGGACAGTTGAACGCTAAGAG 57.695 47.619 0.00 0.00 0.00 2.85
3979 4663 4.813296 AAAAGGACAGTTGAACGCTAAG 57.187 40.909 0.00 0.00 0.00 2.18
3980 4664 6.483974 TGAATAAAAGGACAGTTGAACGCTAA 59.516 34.615 0.00 0.00 0.00 3.09
3981 4665 5.992829 TGAATAAAAGGACAGTTGAACGCTA 59.007 36.000 0.00 0.00 0.00 4.26
3982 4666 4.819630 TGAATAAAAGGACAGTTGAACGCT 59.180 37.500 0.00 0.00 0.00 5.07
3984 4668 6.300354 ACTGAATAAAAGGACAGTTGAACG 57.700 37.500 0.00 0.00 40.03 3.95
3994 4678 9.487790 CCAGCAAATTTAAACTGAATAAAAGGA 57.512 29.630 13.72 0.00 31.67 3.36
3997 4681 8.987890 GCTCCAGCAAATTTAAACTGAATAAAA 58.012 29.630 13.72 0.00 41.59 1.52
3998 4682 8.532977 GCTCCAGCAAATTTAAACTGAATAAA 57.467 30.769 13.72 0.00 41.59 1.40
4113 4821 1.094073 CCGCAAATCTGGAGGCTCTG 61.094 60.000 15.23 8.02 0.00 3.35
4117 4825 3.819188 CTCCGCAAATCTGGAGGC 58.181 61.111 0.24 0.00 46.55 4.70
4131 4848 5.745227 TCCATCAAATAGGTTGTTCTCTCC 58.255 41.667 0.00 0.00 38.47 3.71
4145 4862 8.464404 CAATCAGTGATACAACTTCCATCAAAT 58.536 33.333 5.94 0.00 30.85 2.32
4236 4953 2.027192 TGGGCAAGGACACACTATTCTC 60.027 50.000 0.00 0.00 0.00 2.87
4299 5016 0.250234 TTCTGGTGGAAGAGCATCCG 59.750 55.000 0.00 0.00 42.76 4.18


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

AutoCloner maintained by Alex Coulton.