Multiple sequence alignment - TraesCS4A01G322800

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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 TraesCS4A01G322800 chr4A 100.000 4222 0 0 1 4222 610705805 610710026 0.000000e+00 7797.0
1 TraesCS4A01G322800 chr4A 96.168 2766 70 21 1397 4130 611073150 611070389 0.000000e+00 4488.0
2 TraesCS4A01G322800 chr4A 86.232 1489 178 15 1052 2525 611203507 611202031 0.000000e+00 1589.0
3 TraesCS4A01G322800 chr4A 85.964 1489 182 15 1052 2525 610640280 610641756 0.000000e+00 1567.0
4 TraesCS4A01G322800 chr4A 84.677 1488 199 20 1060 2527 611025663 611027141 0.000000e+00 1458.0
5 TraesCS4A01G322800 chr4A 92.609 460 28 4 6 464 611080190 611079736 0.000000e+00 656.0
6 TraesCS4A01G322800 chr4A 90.000 270 23 3 1079 1346 611073503 611073236 3.120000e-91 346.0
7 TraesCS4A01G322800 chr4A 80.000 275 35 11 738 1009 610639944 610640201 7.210000e-43 185.0
8 TraesCS4A01G322800 chr4A 84.112 214 9 2 750 963 611073998 611073810 2.590000e-42 183.0
9 TraesCS4A01G322800 chr4A 79.061 277 36 13 738 1009 611203845 611203586 2.020000e-38 171.0
10 TraesCS4A01G322800 chr4A 98.936 94 1 0 4129 4222 359273795 359273888 7.260000e-38 169.0
11 TraesCS4A01G322800 chr4A 83.721 86 4 8 2636 2712 611027220 611027304 5.860000e-09 73.1
12 TraesCS4A01G322800 chr4A 97.436 39 1 0 2636 2674 611027339 611027377 2.720000e-07 67.6
13 TraesCS4A01G322800 chr5B 95.136 2837 57 37 6 2771 704761714 704758888 0.000000e+00 4399.0
14 TraesCS4A01G322800 chr5B 94.998 2779 88 14 1397 4130 704498692 704501464 0.000000e+00 4314.0
15 TraesCS4A01G322800 chr5B 86.770 1489 170 16 1052 2525 704479165 704480641 0.000000e+00 1633.0
16 TraesCS4A01G322800 chr5B 86.685 1487 174 12 1052 2525 704824488 704823013 0.000000e+00 1628.0
17 TraesCS4A01G322800 chr5B 84.610 1488 200 18 1060 2527 704723269 704724747 0.000000e+00 1452.0
18 TraesCS4A01G322800 chr5B 93.000 500 29 6 2814 3310 704758892 704758396 0.000000e+00 725.0
19 TraesCS4A01G322800 chr5B 93.103 348 19 1 228 570 704497391 704497738 4.870000e-139 505.0
20 TraesCS4A01G322800 chr5B 90.370 270 22 3 1079 1346 704498339 704498606 6.720000e-93 351.0
21 TraesCS4A01G322800 chr5B 87.987 308 10 5 3651 3932 704758403 704758097 5.230000e-89 339.0
22 TraesCS4A01G322800 chr5B 86.853 251 11 4 713 963 704497828 704498056 1.160000e-65 261.0
23 TraesCS4A01G322800 chr5B 75.719 313 39 15 3657 3932 704317963 704317651 5.730000e-24 122.0
24 TraesCS4A01G322800 chr5B 75.725 276 31 16 738 1009 704824819 704824576 5.770000e-19 106.0
25 TraesCS4A01G322800 chr5B 83.721 86 4 8 2636 2712 704724826 704724910 5.860000e-09 73.1
26 TraesCS4A01G322800 chr5B 97.436 39 1 0 2636 2674 704724946 704724984 2.720000e-07 67.6
27 TraesCS4A01G322800 chr3A 98.947 95 1 0 4128 4222 102618074 102618168 2.020000e-38 171.0
28 TraesCS4A01G322800 chr6B 97.030 101 2 1 4123 4222 641890519 641890619 7.260000e-38 169.0
29 TraesCS4A01G322800 chr5D 98.936 94 1 0 4129 4222 50385990 50386083 7.260000e-38 169.0
30 TraesCS4A01G322800 chr1A 97.000 100 2 1 4123 4222 368828371 368828273 2.610000e-37 167.0
31 TraesCS4A01G322800 chr7B 96.970 99 2 1 4124 4222 609580779 609580876 9.390000e-37 165.0
32 TraesCS4A01G322800 chr1B 96.078 102 3 1 4122 4222 617828533 617828634 9.390000e-37 165.0
33 TraesCS4A01G322800 chr7A 96.040 101 3 1 4122 4222 666604604 666604703 3.380000e-36 163.0
34 TraesCS4A01G322800 chr2B 94.393 107 5 1 4116 4222 608219924 608220029 3.380000e-36 163.0


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 TraesCS4A01G322800 chr4A 610705805 610710026 4221 False 7797.000000 7797 100.000000 1 4222 1 chr4A.!!$F2 4221
1 TraesCS4A01G322800 chr4A 611070389 611073998 3609 True 1672.333333 4488 90.093333 750 4130 3 chr4A.!!$R2 3380
2 TraesCS4A01G322800 chr4A 611202031 611203845 1814 True 880.000000 1589 82.646500 738 2525 2 chr4A.!!$R3 1787
3 TraesCS4A01G322800 chr4A 610639944 610641756 1812 False 876.000000 1567 82.982000 738 2525 2 chr4A.!!$F3 1787
4 TraesCS4A01G322800 chr4A 611025663 611027377 1714 False 532.900000 1458 88.611333 1060 2712 3 chr4A.!!$F4 1652
5 TraesCS4A01G322800 chr5B 704758097 704761714 3617 True 1821.000000 4399 92.041000 6 3932 3 chr5B.!!$R2 3926
6 TraesCS4A01G322800 chr5B 704479165 704480641 1476 False 1633.000000 1633 86.770000 1052 2525 1 chr5B.!!$F1 1473
7 TraesCS4A01G322800 chr5B 704497391 704501464 4073 False 1357.750000 4314 91.331000 228 4130 4 chr5B.!!$F2 3902
8 TraesCS4A01G322800 chr5B 704823013 704824819 1806 True 867.000000 1628 81.205000 738 2525 2 chr5B.!!$R3 1787
9 TraesCS4A01G322800 chr5B 704723269 704724984 1715 False 530.900000 1452 88.589000 1060 2712 3 chr5B.!!$F3 1652

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
410 416 1.153353 ATCAAATCAAACGGACGCGT 58.847 45.0 13.85 13.85 0.00 6.01 F
473 479 1.789523 AGCGTTATAGGAAGCTCCCA 58.210 50.0 0.00 0.00 37.19 4.37 F
1346 1624 0.179124 CTTCCAGAGGTACTGCGCTC 60.179 60.0 9.73 0.00 44.52 5.03 F
2106 2433 0.109532 TTCCATGCCGTGAACCTTGA 59.890 50.0 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1347 1625 1.728971 GCAATCAACAGAGACGAGGTG 59.271 52.381 0.0 0.0 0.00 4.00 R
1349 1627 1.998315 CTGCAATCAACAGAGACGAGG 59.002 52.381 0.0 0.0 37.32 4.63 R
2605 2934 3.307059 GGTCCAGCACAGTACTTCTCAAT 60.307 47.826 0.0 0.0 0.00 2.57 R
3623 3996 0.550914 TAGGCGGGAATGCTTTGGAT 59.449 50.000 0.0 0.0 34.52 3.41 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
26 27 1.988107 TGAGGCATCAACCTTCCTTCT 59.012 47.619 0.00 0.00 41.32 2.85
410 416 1.153353 ATCAAATCAAACGGACGCGT 58.847 45.000 13.85 13.85 0.00 6.01
473 479 1.789523 AGCGTTATAGGAAGCTCCCA 58.210 50.000 0.00 0.00 37.19 4.37
784 832 2.637382 TGGTTTCTGAGGTATGAGCACA 59.363 45.455 0.00 0.00 0.00 4.57
788 836 3.093057 TCTGAGGTATGAGCACACTCT 57.907 47.619 2.79 0.00 43.85 3.24
1087 1365 5.486735 TCAAATTGAGCCATTGACCATTT 57.513 34.783 0.00 0.00 0.00 2.32
1346 1624 0.179124 CTTCCAGAGGTACTGCGCTC 60.179 60.000 9.73 0.00 44.52 5.03
1347 1625 1.605058 TTCCAGAGGTACTGCGCTCC 61.605 60.000 9.73 6.17 44.52 4.70
1349 1627 1.153745 CAGAGGTACTGCGCTCCAC 60.154 63.158 9.73 2.87 41.55 4.02
1352 1630 2.184579 GGTACTGCGCTCCACCTC 59.815 66.667 9.73 0.00 0.00 3.85
1355 1633 2.697761 TACTGCGCTCCACCTCGTC 61.698 63.158 9.73 0.00 0.00 4.20
1527 1854 5.243507 TGTGGATGCTTTGCTCTAAATTGAA 59.756 36.000 0.00 0.00 0.00 2.69
2106 2433 0.109532 TTCCATGCCGTGAACCTTGA 59.890 50.000 0.00 0.00 0.00 3.02
2412 2741 3.825308 TGCAAATTTTCTCAGATGACGC 58.175 40.909 0.00 0.00 0.00 5.19
2594 2923 2.749076 GCCAACTATCATGCTGTCAACA 59.251 45.455 0.00 0.00 0.00 3.33
2597 2926 4.397103 CCAACTATCATGCTGTCAACATGT 59.603 41.667 14.36 0.00 44.26 3.21
2598 2927 5.329493 CAACTATCATGCTGTCAACATGTG 58.671 41.667 14.36 9.42 44.26 3.21
2599 2928 4.835678 ACTATCATGCTGTCAACATGTGA 58.164 39.130 14.36 0.00 44.26 3.58
2600 2929 5.434408 ACTATCATGCTGTCAACATGTGAT 58.566 37.500 14.36 6.79 44.26 3.06
2601 2930 4.632538 ATCATGCTGTCAACATGTGATG 57.367 40.909 14.36 0.00 44.26 3.07
2603 2932 3.687698 TCATGCTGTCAACATGTGATGAG 59.312 43.478 14.36 1.78 44.26 2.90
2604 2933 3.405823 TGCTGTCAACATGTGATGAGA 57.594 42.857 0.00 0.00 38.90 3.27
2605 2934 3.742385 TGCTGTCAACATGTGATGAGAA 58.258 40.909 0.00 0.00 38.90 2.87
2984 3356 0.892755 TACCGGAGCGTCTGTTCAAT 59.107 50.000 9.46 0.00 0.00 2.57
3498 3870 2.104792 TGTATATGCTTCCTCCCTGCAC 59.895 50.000 0.00 0.00 39.63 4.57
3561 3933 2.224450 ACGCAGCCCTAGTTGTTTTAGT 60.224 45.455 0.00 0.00 0.00 2.24
3623 3996 1.741055 GCGTTGGGTGTTATCCGATCA 60.741 52.381 0.00 0.00 0.00 2.92
4135 4534 9.863845 TTCAGTTTCAGTTAAAGTTAAAAAGGG 57.136 29.630 0.00 0.00 0.00 3.95
4136 4535 7.977293 TCAGTTTCAGTTAAAGTTAAAAAGGGC 59.023 33.333 0.00 0.00 0.00 5.19
4137 4536 7.762159 CAGTTTCAGTTAAAGTTAAAAAGGGCA 59.238 33.333 0.00 0.00 0.00 5.36
4138 4537 7.979537 AGTTTCAGTTAAAGTTAAAAAGGGCAG 59.020 33.333 0.00 0.00 0.00 4.85
4139 4538 5.838529 TCAGTTAAAGTTAAAAAGGGCAGC 58.161 37.500 0.00 0.00 0.00 5.25
4140 4539 4.988540 CAGTTAAAGTTAAAAAGGGCAGCC 59.011 41.667 1.26 1.26 0.00 4.85
4141 4540 4.039973 AGTTAAAGTTAAAAAGGGCAGCCC 59.960 41.667 24.90 24.90 45.90 5.19
4151 4550 4.437587 GGCAGCCCCAGTGCATCT 62.438 66.667 0.00 0.00 43.12 2.90
4152 4551 2.591753 GCAGCCCCAGTGCATCTA 59.408 61.111 0.00 0.00 40.86 1.98
4153 4552 1.525535 GCAGCCCCAGTGCATCTAG 60.526 63.158 0.00 0.00 40.86 2.43
4154 4553 1.525535 CAGCCCCAGTGCATCTAGC 60.526 63.158 0.00 0.00 45.96 3.42
4155 4554 1.692042 AGCCCCAGTGCATCTAGCT 60.692 57.895 0.00 0.00 45.94 3.32
4156 4555 1.227793 GCCCCAGTGCATCTAGCTC 60.228 63.158 0.00 0.00 45.94 4.09
4157 4556 1.449353 CCCCAGTGCATCTAGCTCC 59.551 63.158 0.00 0.00 45.94 4.70
4158 4557 1.449353 CCCAGTGCATCTAGCTCCC 59.551 63.158 0.00 0.00 45.94 4.30
4159 4558 1.068753 CCAGTGCATCTAGCTCCCG 59.931 63.158 0.00 0.00 45.94 5.14
4160 4559 1.593750 CAGTGCATCTAGCTCCCGC 60.594 63.158 0.00 0.00 45.94 6.13
4162 4561 1.144936 GTGCATCTAGCTCCCGCTT 59.855 57.895 0.00 0.00 46.47 4.68
4163 4562 1.144716 TGCATCTAGCTCCCGCTTG 59.855 57.895 0.00 0.00 46.47 4.01
4164 4563 1.144936 GCATCTAGCTCCCGCTTGT 59.855 57.895 0.00 0.00 46.47 3.16
4165 4564 1.156645 GCATCTAGCTCCCGCTTGTG 61.157 60.000 0.00 0.00 46.47 3.33
4166 4565 1.144936 ATCTAGCTCCCGCTTGTGC 59.855 57.895 0.00 0.00 46.47 4.57
4167 4566 1.617018 ATCTAGCTCCCGCTTGTGCA 61.617 55.000 0.00 0.00 46.47 4.57
4168 4567 1.812922 CTAGCTCCCGCTTGTGCAG 60.813 63.158 0.00 0.00 46.47 4.41
4169 4568 3.315142 TAGCTCCCGCTTGTGCAGG 62.315 63.158 0.00 0.00 46.47 4.85
4171 4570 4.335647 CTCCCGCTTGTGCAGGGT 62.336 66.667 7.78 0.00 46.04 4.34
4172 4571 4.329545 TCCCGCTTGTGCAGGGTC 62.330 66.667 7.78 0.00 46.04 4.46
4173 4572 4.335647 CCCGCTTGTGCAGGGTCT 62.336 66.667 0.00 0.00 43.24 3.85
4174 4573 3.052082 CCGCTTGTGCAGGGTCTG 61.052 66.667 0.00 0.00 39.64 3.51
4175 4574 3.052082 CGCTTGTGCAGGGTCTGG 61.052 66.667 0.00 0.00 39.64 3.86
4176 4575 2.674380 GCTTGTGCAGGGTCTGGG 60.674 66.667 0.00 0.00 39.41 4.45
4177 4576 2.034687 CTTGTGCAGGGTCTGGGG 59.965 66.667 0.00 0.00 31.21 4.96
4178 4577 2.449518 TTGTGCAGGGTCTGGGGA 60.450 61.111 0.00 0.00 31.21 4.81
4179 4578 2.067932 CTTGTGCAGGGTCTGGGGAA 62.068 60.000 0.00 0.00 31.21 3.97
4180 4579 2.067932 TTGTGCAGGGTCTGGGGAAG 62.068 60.000 0.00 0.00 31.21 3.46
4181 4580 2.935481 TGCAGGGTCTGGGGAAGG 60.935 66.667 0.00 0.00 31.21 3.46
4182 4581 3.732849 GCAGGGTCTGGGGAAGGG 61.733 72.222 0.00 0.00 31.21 3.95
4183 4582 2.204151 CAGGGTCTGGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
4184 4583 2.125225 AGGGTCTGGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
4185 4584 3.015753 GGGTCTGGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
4186 4585 3.400054 GGTCTGGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
4187 4586 2.284405 GTCTGGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
4188 4587 2.284405 TCTGGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
4189 4588 3.400054 CTGGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
4190 4589 4.257810 TGGGGAAGGGTCCGACCA 62.258 66.667 19.43 0.00 46.04 4.02
4191 4590 3.714001 GGGGAAGGGTCCGACCAC 61.714 72.222 19.43 8.70 46.04 4.16
4192 4591 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
4193 4592 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
4194 4593 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
4195 4594 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
4196 4595 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
4197 4596 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
4198 4597 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
4208 4607 3.934068 ACCACTTTGGGTCTATTGTACG 58.066 45.455 0.00 0.00 43.37 3.67
4209 4608 2.676342 CCACTTTGGGTCTATTGTACGC 59.324 50.000 0.00 0.00 32.67 4.42
4210 4609 3.331150 CACTTTGGGTCTATTGTACGCA 58.669 45.455 0.00 0.00 37.94 5.24
4211 4610 3.370978 CACTTTGGGTCTATTGTACGCAG 59.629 47.826 0.00 0.00 40.36 5.18
4212 4611 2.018542 TTGGGTCTATTGTACGCAGC 57.981 50.000 0.00 0.00 40.36 5.25
4213 4612 0.177141 TGGGTCTATTGTACGCAGCC 59.823 55.000 0.00 0.00 35.18 4.85
4214 4613 0.464452 GGGTCTATTGTACGCAGCCT 59.536 55.000 0.00 0.00 0.00 4.58
4215 4614 1.134491 GGGTCTATTGTACGCAGCCTT 60.134 52.381 0.00 0.00 0.00 4.35
4216 4615 2.629051 GGTCTATTGTACGCAGCCTTT 58.371 47.619 0.00 0.00 0.00 3.11
4217 4616 2.608090 GGTCTATTGTACGCAGCCTTTC 59.392 50.000 0.00 0.00 0.00 2.62
4218 4617 2.608090 GTCTATTGTACGCAGCCTTTCC 59.392 50.000 0.00 0.00 0.00 3.13
4219 4618 1.940613 CTATTGTACGCAGCCTTTCCC 59.059 52.381 0.00 0.00 0.00 3.97
4220 4619 0.328258 ATTGTACGCAGCCTTTCCCT 59.672 50.000 0.00 0.00 0.00 4.20
4221 4620 0.978151 TTGTACGCAGCCTTTCCCTA 59.022 50.000 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.620585 GGAAGGTTGATGCCTCAATAGC 59.379 50.000 7.71 0.00 43.08 2.97
2 3 4.162040 AGGAAGGTTGATGCCTCAATAG 57.838 45.455 7.71 0.00 43.08 1.73
3 4 4.228210 AGAAGGAAGGTTGATGCCTCAATA 59.772 41.667 7.71 0.00 43.08 1.90
410 416 1.229400 AACCCCTAGCGAACTCCCA 60.229 57.895 0.00 0.00 0.00 4.37
473 479 7.202093 CCTTAATTTCAAAGTCCTCCCCTTTTT 60.202 37.037 0.00 0.00 29.89 1.94
649 697 3.637273 GAGGAGGCGTTGGGGTGT 61.637 66.667 0.00 0.00 0.00 4.16
784 832 6.760440 AAGTAATCATGGATGGATGAGAGT 57.240 37.500 0.00 0.00 35.81 3.24
788 836 7.939039 GGAGTTTAAGTAATCATGGATGGATGA 59.061 37.037 0.00 0.00 36.78 2.92
1346 1624 2.341257 CAATCAACAGAGACGAGGTGG 58.659 52.381 0.00 0.00 0.00 4.61
1347 1625 1.728971 GCAATCAACAGAGACGAGGTG 59.271 52.381 0.00 0.00 0.00 4.00
1349 1627 1.998315 CTGCAATCAACAGAGACGAGG 59.002 52.381 0.00 0.00 37.32 4.63
1352 1630 4.867047 AGTAATCTGCAATCAACAGAGACG 59.133 41.667 0.00 0.00 46.71 4.18
1355 1633 9.713740 GAAATTAGTAATCTGCAATCAACAGAG 57.286 33.333 0.00 0.00 46.71 3.35
1966 2293 3.507411 ACTCAGCCACTCTAGGTTACAA 58.493 45.455 0.00 0.00 0.00 2.41
2106 2433 4.158764 CCAGTCCTCTGTATTCGAAAGTCT 59.841 45.833 0.00 0.00 39.82 3.24
2396 2725 6.741992 TGTAAATGCGTCATCTGAGAAAAT 57.258 33.333 0.00 0.00 0.00 1.82
2594 2923 7.548427 CACAGTACTTCTCAATTCTCATCACAT 59.452 37.037 0.00 0.00 0.00 3.21
2597 2926 5.871524 GCACAGTACTTCTCAATTCTCATCA 59.128 40.000 0.00 0.00 0.00 3.07
2598 2927 6.035866 CAGCACAGTACTTCTCAATTCTCATC 59.964 42.308 0.00 0.00 0.00 2.92
2599 2928 5.873712 CAGCACAGTACTTCTCAATTCTCAT 59.126 40.000 0.00 0.00 0.00 2.90
2600 2929 5.233225 CAGCACAGTACTTCTCAATTCTCA 58.767 41.667 0.00 0.00 0.00 3.27
2601 2930 4.629200 CCAGCACAGTACTTCTCAATTCTC 59.371 45.833 0.00 0.00 0.00 2.87
2603 2932 4.390297 GTCCAGCACAGTACTTCTCAATTC 59.610 45.833 0.00 0.00 0.00 2.17
2604 2933 4.319177 GTCCAGCACAGTACTTCTCAATT 58.681 43.478 0.00 0.00 0.00 2.32
2605 2934 3.307059 GGTCCAGCACAGTACTTCTCAAT 60.307 47.826 0.00 0.00 0.00 2.57
3623 3996 0.550914 TAGGCGGGAATGCTTTGGAT 59.449 50.000 0.00 0.00 34.52 3.41
4134 4533 2.955022 CTAGATGCACTGGGGCTGCC 62.955 65.000 11.05 11.05 33.36 4.85
4135 4534 1.525535 CTAGATGCACTGGGGCTGC 60.526 63.158 0.00 0.00 35.03 5.25
4136 4535 1.525535 GCTAGATGCACTGGGGCTG 60.526 63.158 0.00 0.00 42.31 4.85
4137 4536 1.692042 AGCTAGATGCACTGGGGCT 60.692 57.895 0.00 0.00 45.94 5.19
4138 4537 1.227793 GAGCTAGATGCACTGGGGC 60.228 63.158 0.00 0.00 45.94 5.80
4139 4538 1.449353 GGAGCTAGATGCACTGGGG 59.551 63.158 0.00 0.00 45.94 4.96
4140 4539 1.449353 GGGAGCTAGATGCACTGGG 59.551 63.158 0.85 0.00 45.94 4.45
4141 4540 1.068753 CGGGAGCTAGATGCACTGG 59.931 63.158 0.85 0.00 45.94 4.00
4142 4541 4.746361 CGGGAGCTAGATGCACTG 57.254 61.111 0.85 0.00 45.94 3.66
4157 4556 3.052082 CAGACCCTGCACAAGCGG 61.052 66.667 0.00 0.00 46.23 5.52
4158 4557 3.052082 CCAGACCCTGCACAAGCG 61.052 66.667 0.00 0.00 46.23 4.68
4159 4558 2.674380 CCCAGACCCTGCACAAGC 60.674 66.667 0.00 0.00 42.57 4.01
4160 4559 2.034687 CCCCAGACCCTGCACAAG 59.965 66.667 0.00 0.00 0.00 3.16
4161 4560 2.067932 CTTCCCCAGACCCTGCACAA 62.068 60.000 0.00 0.00 0.00 3.33
4162 4561 2.449518 TTCCCCAGACCCTGCACA 60.450 61.111 0.00 0.00 0.00 4.57
4163 4562 2.352805 CTTCCCCAGACCCTGCAC 59.647 66.667 0.00 0.00 0.00 4.57
4164 4563 2.935481 CCTTCCCCAGACCCTGCA 60.935 66.667 0.00 0.00 0.00 4.41
4165 4564 3.732849 CCCTTCCCCAGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
4166 4565 2.204151 ACCCTTCCCCAGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
4167 4566 2.125225 GACCCTTCCCCAGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
4168 4567 3.015753 GGACCCTTCCCCAGACCC 61.016 72.222 0.00 0.00 35.57 4.46
4169 4568 3.400054 CGGACCCTTCCCCAGACC 61.400 72.222 0.00 0.00 38.99 3.85
4170 4569 2.284405 TCGGACCCTTCCCCAGAC 60.284 66.667 0.00 0.00 38.99 3.51
4171 4570 2.284405 GTCGGACCCTTCCCCAGA 60.284 66.667 0.00 0.00 38.99 3.86
4172 4571 3.400054 GGTCGGACCCTTCCCCAG 61.400 72.222 16.55 0.00 38.99 4.45
4173 4572 4.257810 TGGTCGGACCCTTCCCCA 62.258 66.667 23.81 0.69 38.99 4.96
4174 4573 3.714001 GTGGTCGGACCCTTCCCC 61.714 72.222 23.81 0.00 38.99 4.81
4175 4574 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
4176 4575 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
4177 4576 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
4178 4577 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
4179 4578 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
4180 4579 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
4181 4580 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
4182 4581 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
4187 4586 3.867216 GCGTACAATAGACCCAAAGTGGT 60.867 47.826 0.00 0.00 42.79 4.16
4188 4587 2.676342 GCGTACAATAGACCCAAAGTGG 59.324 50.000 0.00 0.00 37.25 4.00
4189 4588 3.331150 TGCGTACAATAGACCCAAAGTG 58.669 45.455 0.00 0.00 0.00 3.16
4190 4589 3.596214 CTGCGTACAATAGACCCAAAGT 58.404 45.455 0.00 0.00 0.00 2.66
4191 4590 2.351726 GCTGCGTACAATAGACCCAAAG 59.648 50.000 0.00 0.00 0.00 2.77
4192 4591 2.352388 GCTGCGTACAATAGACCCAAA 58.648 47.619 0.00 0.00 0.00 3.28
4193 4592 1.406341 GGCTGCGTACAATAGACCCAA 60.406 52.381 0.00 0.00 0.00 4.12
4194 4593 0.177141 GGCTGCGTACAATAGACCCA 59.823 55.000 0.00 0.00 0.00 4.51
4195 4594 0.464452 AGGCTGCGTACAATAGACCC 59.536 55.000 0.00 0.00 0.00 4.46
4196 4595 2.311124 AAGGCTGCGTACAATAGACC 57.689 50.000 0.00 0.00 0.00 3.85
4197 4596 2.608090 GGAAAGGCTGCGTACAATAGAC 59.392 50.000 0.00 0.00 0.00 2.59
4198 4597 2.419574 GGGAAAGGCTGCGTACAATAGA 60.420 50.000 0.00 0.00 0.00 1.98
4199 4598 1.940613 GGGAAAGGCTGCGTACAATAG 59.059 52.381 0.00 0.00 0.00 1.73
4200 4599 1.557832 AGGGAAAGGCTGCGTACAATA 59.442 47.619 0.00 0.00 0.00 1.90
4201 4600 0.328258 AGGGAAAGGCTGCGTACAAT 59.672 50.000 0.00 0.00 0.00 2.71
4202 4601 0.978151 TAGGGAAAGGCTGCGTACAA 59.022 50.000 0.00 0.00 0.00 2.41
4203 4602 2.673685 TAGGGAAAGGCTGCGTACA 58.326 52.632 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.