Multiple sequence alignment - TraesCS5D01G023100

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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 TraesCS5D01G023100 chr5D 100.000 8563 0 0 1 8563 17245785 17237223 0.000000e+00 15813.0
1 TraesCS5D01G023100 chr5D 99.220 7436 33 6 742 8155 20957733 20965165 0.000000e+00 13387.0
2 TraesCS5D01G023100 chr5D 97.959 245 5 0 8142 8386 20965218 20965462 7.940000e-115 425.0
3 TraesCS5D01G023100 chr5D 99.123 114 1 0 8384 8497 20965634 20965747 1.130000e-48 206.0
4 TraesCS5D01G023100 chr5D 100.000 71 0 0 8493 8563 20980089 20980159 1.940000e-26 132.0
5 TraesCS5D01G023100 chr1B 91.401 3768 228 32 2412 6154 80919958 80923654 0.000000e+00 5075.0
6 TraesCS5D01G023100 chr1B 93.635 2655 121 11 3507 6154 80952843 80955456 0.000000e+00 3923.0
7 TraesCS5D01G023100 chr1B 89.631 1678 123 28 6151 7805 80923792 80925441 0.000000e+00 2087.0
8 TraesCS5D01G023100 chr1B 89.672 1675 121 28 6151 7800 80955594 80957241 0.000000e+00 2087.0
9 TraesCS5D01G023100 chr1B 84.897 629 77 5 2412 3025 80952086 80952711 3.400000e-173 619.0
10 TraesCS5D01G023100 chr1B 83.422 567 70 11 1916 2479 80951920 80952465 9.920000e-139 505.0
11 TraesCS5D01G023100 chr1B 83.895 534 62 11 1949 2479 80919825 80920337 9.990000e-134 488.0
12 TraesCS5D01G023100 chr1B 87.697 317 25 6 7814 8117 80958420 80958735 2.940000e-94 357.0
13 TraesCS5D01G023100 chr1B 84.507 142 16 3 3734 3869 80920194 80920335 1.500000e-27 135.0
14 TraesCS5D01G023100 chr1B 84.507 142 16 3 3734 3869 80952322 80952463 1.500000e-27 135.0
15 TraesCS5D01G023100 chr2D 94.126 732 41 1 1 732 32425943 32425214 0.000000e+00 1112.0
16 TraesCS5D01G023100 chr4A 92.906 733 42 5 1 732 532211034 532210311 0.000000e+00 1057.0
17 TraesCS5D01G023100 chrUn 89.213 686 57 5 1 673 78841078 78840397 0.000000e+00 841.0
18 TraesCS5D01G023100 chrUn 82.456 627 87 19 1 619 26570290 26570901 2.120000e-145 527.0
19 TraesCS5D01G023100 chr2A 92.277 505 32 4 1 504 82976100 82976598 0.000000e+00 710.0
20 TraesCS5D01G023100 chr5B 83.680 625 84 14 1 620 321410638 321410027 2.680000e-159 573.0
21 TraesCS5D01G023100 chr3A 83.096 633 89 12 1 623 750257972 750258596 2.090000e-155 560.0
22 TraesCS5D01G023100 chr6D 82.880 625 90 13 1 620 341115001 341114389 5.850000e-151 545.0
23 TraesCS5D01G023100 chr6D 93.750 48 2 1 7576 7622 370852987 370852940 4.290000e-08 71.3
24 TraesCS5D01G023100 chr7A 82.540 630 91 15 1 619 113455650 113455029 3.520000e-148 536.0
25 TraesCS5D01G023100 chr6B 86.000 100 8 2 7576 7675 555959876 555959783 1.520000e-17 102.0


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 TraesCS5D01G023100 chr5D 17237223 17245785 8562 True 15813.000000 15813 100.000000 1 8563 1 chr5D.!!$R1 8562
1 TraesCS5D01G023100 chr5D 20957733 20965747 8014 False 4672.666667 13387 98.767333 742 8497 3 chr5D.!!$F2 7755
2 TraesCS5D01G023100 chr1B 80919825 80925441 5616 False 1946.250000 5075 87.358500 1949 7805 4 chr1B.!!$F1 5856
3 TraesCS5D01G023100 chr1B 80951920 80958735 6815 False 1271.000000 3923 87.305000 1916 8117 6 chr1B.!!$F2 6201
4 TraesCS5D01G023100 chr2D 32425214 32425943 729 True 1112.000000 1112 94.126000 1 732 1 chr2D.!!$R1 731
5 TraesCS5D01G023100 chr4A 532210311 532211034 723 True 1057.000000 1057 92.906000 1 732 1 chr4A.!!$R1 731
6 TraesCS5D01G023100 chrUn 78840397 78841078 681 True 841.000000 841 89.213000 1 673 1 chrUn.!!$R1 672
7 TraesCS5D01G023100 chrUn 26570290 26570901 611 False 527.000000 527 82.456000 1 619 1 chrUn.!!$F1 618
8 TraesCS5D01G023100 chr5B 321410027 321410638 611 True 573.000000 573 83.680000 1 620 1 chr5B.!!$R1 619
9 TraesCS5D01G023100 chr3A 750257972 750258596 624 False 560.000000 560 83.096000 1 623 1 chr3A.!!$F1 622
10 TraesCS5D01G023100 chr6D 341114389 341115001 612 True 545.000000 545 82.880000 1 620 1 chr6D.!!$R1 619
11 TraesCS5D01G023100 chr7A 113455029 113455650 621 True 536.000000 536 82.540000 1 619 1 chr7A.!!$R1 618

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
673 714 0.387202 CATCGTGGAGCTGTAGGAGG 59.613 60.000 0.00 0.00 0.00 4.30 F
734 775 1.277273 CAAGCTGTCCAGATCTGACCA 59.723 52.381 24.62 17.28 0.00 4.02 F
2456 2506 1.008206 ACAGAAGAGGAGGATGGAGCT 59.992 52.381 0.00 0.00 0.00 4.09 F
3003 3053 1.664965 GGCCATGATAGCGACGACC 60.665 63.158 0.00 0.00 0.00 4.79 F
4369 4425 9.478768 AAGAGAAAGTTAGTGTAGAAGTAAAGC 57.521 33.333 0.00 0.00 0.00 3.51 F
5188 5244 7.675619 AGATTGTTTGATTAATTGTCTTCCCCT 59.324 33.333 0.00 0.00 0.00 4.79 F
5790 5847 0.469917 GCCTCTAGGGTTGCAGCATA 59.530 55.000 2.05 0.00 37.43 3.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2456 2506 1.375908 GAGTTGTCGGATGGCTGCA 60.376 57.895 0.50 0.0 0.00 4.41 R
3003 3053 3.126073 GCACTTGCCCTTTTTCTTCTTG 58.874 45.455 0.00 0.0 34.31 3.02 R
4369 4425 2.097791 TCGTCTTGTTTTCCGGGTTTTG 59.902 45.455 0.00 0.0 0.00 2.44 R
4656 4712 5.425217 TGAATAATTGGGACTCTGCTCAGTA 59.575 40.000 0.00 0.0 0.00 2.74 R
5662 5719 7.042335 CCTCTTGACCTACATTAGTTAACAGG 58.958 42.308 8.61 7.1 0.00 4.00 R
7366 7568 2.747446 TGCTAATTTCCGCTGAACCTTC 59.253 45.455 0.00 0.0 0.00 3.46 R
7574 7783 0.538057 TGCTTCCCCTTGCACTTCAG 60.538 55.000 0.00 0.0 33.94 3.02 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
33 34 8.506437 TCAAGAGAATACAAACACAATAAGCAG 58.494 33.333 0.00 0.00 0.00 4.24
84 93 1.827789 AGCCAACACCAACGCACAT 60.828 52.632 0.00 0.00 0.00 3.21
88 97 1.334599 CCAACACCAACGCACATACAC 60.335 52.381 0.00 0.00 0.00 2.90
165 183 6.399564 CGATGAAAAATTAAAACCCAAGCGAC 60.400 38.462 0.00 0.00 0.00 5.19
339 358 7.770897 GCTAGAATCTAGATTTTCACCCTGAAA 59.229 37.037 20.58 0.00 43.84 2.69
393 413 7.119262 CCTTCAACAAGGTAACGATGTAAGAAT 59.881 37.037 0.00 0.00 44.11 2.40
415 435 3.386932 ACATCACCATTGCCAGGTATT 57.613 42.857 0.00 0.00 37.23 1.89
665 706 2.485582 CGTCGACATCGTGGAGCT 59.514 61.111 17.16 0.00 40.80 4.09
673 714 0.387202 CATCGTGGAGCTGTAGGAGG 59.613 60.000 0.00 0.00 0.00 4.30
675 716 2.351244 CGTGGAGCTGTAGGAGGCA 61.351 63.158 0.00 0.00 0.00 4.75
732 773 1.277557 ACCAAGCTGTCCAGATCTGAC 59.722 52.381 24.62 18.68 0.00 3.51
733 774 1.406614 CCAAGCTGTCCAGATCTGACC 60.407 57.143 24.62 13.66 0.00 4.02
734 775 1.277273 CAAGCTGTCCAGATCTGACCA 59.723 52.381 24.62 17.28 0.00 4.02
735 776 1.649321 AGCTGTCCAGATCTGACCAA 58.351 50.000 24.62 5.81 0.00 3.67
736 777 2.194859 AGCTGTCCAGATCTGACCAAT 58.805 47.619 24.62 8.34 0.00 3.16
737 778 2.575279 AGCTGTCCAGATCTGACCAATT 59.425 45.455 24.62 7.73 0.00 2.32
738 779 2.681848 GCTGTCCAGATCTGACCAATTG 59.318 50.000 24.62 5.43 0.00 2.32
739 780 3.276857 CTGTCCAGATCTGACCAATTGG 58.723 50.000 24.62 23.31 42.17 3.16
740 781 2.912295 TGTCCAGATCTGACCAATTGGA 59.088 45.455 31.22 8.90 38.94 3.53
745 786 5.061853 CCAGATCTGACCAATTGGATGTAG 58.938 45.833 31.22 19.98 38.94 2.74
862 903 4.761227 TGATATGCGCCATGAACACATTAT 59.239 37.500 4.18 0.00 0.00 1.28
976 1023 1.535204 AAGCATTTGAACTGGGCCGG 61.535 55.000 11.83 11.83 0.00 6.13
1022 1069 3.511699 TGTGTGTGAATCGCTATGTCTC 58.488 45.455 0.00 0.00 0.00 3.36
1242 1289 1.680651 CCTGCACGTCTCTCCTCCT 60.681 63.158 0.00 0.00 0.00 3.69
1243 1290 1.662438 CCTGCACGTCTCTCCTCCTC 61.662 65.000 0.00 0.00 0.00 3.71
1244 1291 1.662438 CTGCACGTCTCTCCTCCTCC 61.662 65.000 0.00 0.00 0.00 4.30
1405 1452 4.436183 GCTTTTCTCTCCTCGTAAATGCAC 60.436 45.833 0.00 0.00 34.16 4.57
2456 2506 1.008206 ACAGAAGAGGAGGATGGAGCT 59.992 52.381 0.00 0.00 0.00 4.09
3003 3053 1.664965 GGCCATGATAGCGACGACC 60.665 63.158 0.00 0.00 0.00 4.79
4369 4425 9.478768 AAGAGAAAGTTAGTGTAGAAGTAAAGC 57.521 33.333 0.00 0.00 0.00 3.51
5188 5244 7.675619 AGATTGTTTGATTAATTGTCTTCCCCT 59.324 33.333 0.00 0.00 0.00 4.79
5662 5719 4.918810 AAATACAAGAATCCAATCCCGC 57.081 40.909 0.00 0.00 0.00 6.13
5790 5847 0.469917 GCCTCTAGGGTTGCAGCATA 59.530 55.000 2.05 0.00 37.43 3.14
7155 7354 2.041928 CCCTCTGCCCCTCCTCTT 59.958 66.667 0.00 0.00 0.00 2.85
7323 7525 9.919348 CAATTTCATTTCATTCAAAACGAAACT 57.081 25.926 0.00 0.00 37.12 2.66
7366 7568 0.673985 TGCGGATCCCTCGATAACAG 59.326 55.000 6.06 0.00 0.00 3.16
7574 7783 2.113860 TGGATTAGTTCAGTGCCAGC 57.886 50.000 0.00 0.00 0.00 4.85
7714 7936 7.985752 GCTCCTTTAGATTAGTGTTAAGCCTTA 59.014 37.037 0.00 0.00 0.00 2.69
7776 7998 1.196808 CGAGTTATGTTTGCGGTTGCT 59.803 47.619 0.00 0.00 43.34 3.91
8301 9768 4.290942 AGTAGGTCCCTTAGAATGACAGG 58.709 47.826 0.00 0.00 0.00 4.00
8482 10123 4.789012 TCTTGCAAGCCCTTTAATCAAG 57.211 40.909 21.99 0.00 0.00 3.02
8514 10155 3.182263 CCCACCCCACCACCAGAA 61.182 66.667 0.00 0.00 0.00 3.02
8515 10156 2.773527 CCCACCCCACCACCAGAAA 61.774 63.158 0.00 0.00 0.00 2.52
8516 10157 1.464722 CCACCCCACCACCAGAAAT 59.535 57.895 0.00 0.00 0.00 2.17
8517 10158 0.611896 CCACCCCACCACCAGAAATC 60.612 60.000 0.00 0.00 0.00 2.17
8518 10159 0.112218 CACCCCACCACCAGAAATCA 59.888 55.000 0.00 0.00 0.00 2.57
8519 10160 0.112412 ACCCCACCACCAGAAATCAC 59.888 55.000 0.00 0.00 0.00 3.06
8520 10161 0.112218 CCCCACCACCAGAAATCACA 59.888 55.000 0.00 0.00 0.00 3.58
8521 10162 1.272648 CCCCACCACCAGAAATCACAT 60.273 52.381 0.00 0.00 0.00 3.21
8522 10163 2.094675 CCCACCACCAGAAATCACATC 58.905 52.381 0.00 0.00 0.00 3.06
8523 10164 1.739466 CCACCACCAGAAATCACATCG 59.261 52.381 0.00 0.00 0.00 3.84
8524 10165 2.426522 CACCACCAGAAATCACATCGT 58.573 47.619 0.00 0.00 0.00 3.73
8525 10166 2.416547 CACCACCAGAAATCACATCGTC 59.583 50.000 0.00 0.00 0.00 4.20
8526 10167 2.303022 ACCACCAGAAATCACATCGTCT 59.697 45.455 0.00 0.00 0.00 4.18
8527 10168 2.932614 CCACCAGAAATCACATCGTCTC 59.067 50.000 0.00 0.00 0.00 3.36
8528 10169 2.600420 CACCAGAAATCACATCGTCTCG 59.400 50.000 0.00 0.00 0.00 4.04
8529 10170 2.231478 ACCAGAAATCACATCGTCTCGT 59.769 45.455 0.00 0.00 0.00 4.18
8530 10171 2.854777 CCAGAAATCACATCGTCTCGTC 59.145 50.000 0.00 0.00 0.00 4.20
8531 10172 3.428180 CCAGAAATCACATCGTCTCGTCT 60.428 47.826 0.00 0.00 0.00 4.18
8532 10173 3.788694 CAGAAATCACATCGTCTCGTCTC 59.211 47.826 0.00 0.00 0.00 3.36
8533 10174 3.440522 AGAAATCACATCGTCTCGTCTCA 59.559 43.478 0.00 0.00 0.00 3.27
8534 10175 4.097135 AGAAATCACATCGTCTCGTCTCAT 59.903 41.667 0.00 0.00 0.00 2.90
8535 10176 3.617540 ATCACATCGTCTCGTCTCATC 57.382 47.619 0.00 0.00 0.00 2.92
8536 10177 2.633488 TCACATCGTCTCGTCTCATCT 58.367 47.619 0.00 0.00 0.00 2.90
8537 10178 2.609916 TCACATCGTCTCGTCTCATCTC 59.390 50.000 0.00 0.00 0.00 2.75
8538 10179 2.352960 CACATCGTCTCGTCTCATCTCA 59.647 50.000 0.00 0.00 0.00 3.27
8539 10180 3.003171 CACATCGTCTCGTCTCATCTCAT 59.997 47.826 0.00 0.00 0.00 2.90
8540 10181 3.003171 ACATCGTCTCGTCTCATCTCATG 59.997 47.826 0.00 0.00 0.00 3.07
8541 10182 1.332065 TCGTCTCGTCTCATCTCATGC 59.668 52.381 0.00 0.00 0.00 4.06
8542 10183 1.599171 CGTCTCGTCTCATCTCATGCC 60.599 57.143 0.00 0.00 0.00 4.40
8543 10184 1.035923 TCTCGTCTCATCTCATGCCC 58.964 55.000 0.00 0.00 0.00 5.36
8544 10185 0.033228 CTCGTCTCATCTCATGCCCC 59.967 60.000 0.00 0.00 0.00 5.80
8545 10186 1.300465 CGTCTCATCTCATGCCCCG 60.300 63.158 0.00 0.00 0.00 5.73
8546 10187 1.596477 GTCTCATCTCATGCCCCGC 60.596 63.158 0.00 0.00 0.00 6.13
8547 10188 2.065789 TCTCATCTCATGCCCCGCA 61.066 57.895 0.00 0.00 44.86 5.69
8548 10189 1.597302 CTCATCTCATGCCCCGCAG 60.597 63.158 0.00 0.00 43.65 5.18
8549 10190 3.285215 CATCTCATGCCCCGCAGC 61.285 66.667 0.00 0.00 43.65 5.25
8550 10191 3.486685 ATCTCATGCCCCGCAGCT 61.487 61.111 0.00 0.00 43.65 4.24
8551 10192 3.472943 ATCTCATGCCCCGCAGCTC 62.473 63.158 0.00 0.00 43.65 4.09
8552 10193 4.172512 CTCATGCCCCGCAGCTCT 62.173 66.667 0.00 0.00 43.65 4.09
8553 10194 4.166888 TCATGCCCCGCAGCTCTC 62.167 66.667 0.00 0.00 43.65 3.20
8554 10195 4.172512 CATGCCCCGCAGCTCTCT 62.173 66.667 0.00 0.00 43.65 3.10
8555 10196 3.859414 ATGCCCCGCAGCTCTCTC 61.859 66.667 0.00 0.00 43.65 3.20
8559 10200 4.154347 CCCGCAGCTCTCTCCCAC 62.154 72.222 0.00 0.00 0.00 4.61
8560 10201 4.154347 CCGCAGCTCTCTCCCACC 62.154 72.222 0.00 0.00 0.00 4.61
8561 10202 3.385384 CGCAGCTCTCTCCCACCA 61.385 66.667 0.00 0.00 0.00 4.17
8562 10203 2.267324 GCAGCTCTCTCCCACCAC 59.733 66.667 0.00 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 6.294508 GGGTGTCTGCTTATTGTGTTTGTATT 60.295 38.462 0.00 0.00 0.00 1.89
33 34 2.252072 TTATGCAGAGGCCGGGTGTC 62.252 60.000 2.18 0.00 40.13 3.67
84 93 0.744771 TTGCTGGCGTGTTGTGTGTA 60.745 50.000 0.00 0.00 0.00 2.90
88 97 1.967762 CTATTTGCTGGCGTGTTGTG 58.032 50.000 0.00 0.00 0.00 3.33
165 183 5.389830 CGTAATTTGCTGATCGTGGATATGG 60.390 44.000 0.00 0.00 0.00 2.74
339 358 2.167693 TCGGTTATGCTCGGACTGATTT 59.832 45.455 0.00 0.00 0.00 2.17
393 413 2.897271 ACCTGGCAATGGTGATGTTA 57.103 45.000 0.00 0.00 36.30 2.41
400 420 2.917713 TTGGAATACCTGGCAATGGT 57.082 45.000 3.71 3.71 41.28 3.55
415 435 1.559682 GTCTAGGTCTGGCCAATTGGA 59.440 52.381 29.02 7.21 40.61 3.53
665 706 2.216331 TGCTGCAGTGCCTCCTACA 61.216 57.895 16.64 0.00 0.00 2.74
673 714 4.338539 GGCTGTGTGCTGCAGTGC 62.339 66.667 16.64 8.58 42.39 4.40
675 716 1.111116 AATTGGCTGTGTGCTGCAGT 61.111 50.000 16.64 0.00 42.39 4.40
701 742 0.957395 CAGCTTGGTTGCGGTGATCT 60.957 55.000 0.00 0.00 38.13 2.75
732 773 1.597742 CTCGGCCTACATCCAATTGG 58.402 55.000 19.08 19.08 0.00 3.16
733 774 1.597742 CCTCGGCCTACATCCAATTG 58.402 55.000 0.00 0.00 0.00 2.32
734 775 0.474184 CCCTCGGCCTACATCCAATT 59.526 55.000 0.00 0.00 0.00 2.32
735 776 0.399949 TCCCTCGGCCTACATCCAAT 60.400 55.000 0.00 0.00 0.00 3.16
736 777 0.619255 TTCCCTCGGCCTACATCCAA 60.619 55.000 0.00 0.00 0.00 3.53
737 778 0.399949 ATTCCCTCGGCCTACATCCA 60.400 55.000 0.00 0.00 0.00 3.41
738 779 0.035458 CATTCCCTCGGCCTACATCC 59.965 60.000 0.00 0.00 0.00 3.51
739 780 0.035458 CCATTCCCTCGGCCTACATC 59.965 60.000 0.00 0.00 0.00 3.06
740 781 0.399949 TCCATTCCCTCGGCCTACAT 60.400 55.000 0.00 0.00 0.00 2.29
745 786 3.878667 CCCTCCATTCCCTCGGCC 61.879 72.222 0.00 0.00 0.00 6.13
1244 1291 4.803426 GTCGAGAGCAGGGCGTGG 62.803 72.222 9.49 0.00 0.00 4.94
1275 1322 0.599204 TAATTGTAGCTAGCGCGGCC 60.599 55.000 21.05 10.22 42.32 6.13
1405 1452 1.419387 CATAGGCAAGGAGAGGAAGGG 59.581 57.143 0.00 0.00 0.00 3.95
2037 2084 4.371786 GAGATGACGGCATAATCTTCACA 58.628 43.478 2.12 0.00 34.11 3.58
2456 2506 1.375908 GAGTTGTCGGATGGCTGCA 60.376 57.895 0.50 0.00 0.00 4.41
3003 3053 3.126073 GCACTTGCCCTTTTTCTTCTTG 58.874 45.455 0.00 0.00 34.31 3.02
4369 4425 2.097791 TCGTCTTGTTTTCCGGGTTTTG 59.902 45.455 0.00 0.00 0.00 2.44
4656 4712 5.425217 TGAATAATTGGGACTCTGCTCAGTA 59.575 40.000 0.00 0.00 0.00 2.74
5662 5719 7.042335 CCTCTTGACCTACATTAGTTAACAGG 58.958 42.308 8.61 7.10 0.00 4.00
5790 5847 7.807977 ATTTCTTGATATTGCGTGTCCTAAT 57.192 32.000 0.00 0.00 0.00 1.73
7366 7568 2.747446 TGCTAATTTCCGCTGAACCTTC 59.253 45.455 0.00 0.00 0.00 3.46
7574 7783 0.538057 TGCTTCCCCTTGCACTTCAG 60.538 55.000 0.00 0.00 33.94 3.02
7714 7936 7.443575 GTGCTTGTCAGGTAATATCATCTCAAT 59.556 37.037 0.00 0.00 0.00 2.57
7715 7937 6.763135 GTGCTTGTCAGGTAATATCATCTCAA 59.237 38.462 0.00 0.00 0.00 3.02
7716 7938 6.127083 TGTGCTTGTCAGGTAATATCATCTCA 60.127 38.462 0.00 0.00 0.00 3.27
7806 8028 1.336755 ACCAACCTTTGAACATGACGC 59.663 47.619 0.00 0.00 0.00 5.19
8285 9752 2.832838 TCTGCCTGTCATTCTAAGGGA 58.167 47.619 0.00 0.00 0.00 4.20
8301 9768 4.471386 TCCCTCCCTGCTAATAATATCTGC 59.529 45.833 0.00 0.00 0.00 4.26
8497 10138 2.092904 ATTTCTGGTGGTGGGGTGGG 62.093 60.000 0.00 0.00 0.00 4.61
8498 10139 0.611896 GATTTCTGGTGGTGGGGTGG 60.612 60.000 0.00 0.00 0.00 4.61
8499 10140 0.112218 TGATTTCTGGTGGTGGGGTG 59.888 55.000 0.00 0.00 0.00 4.61
8500 10141 0.112412 GTGATTTCTGGTGGTGGGGT 59.888 55.000 0.00 0.00 0.00 4.95
8501 10142 0.112218 TGTGATTTCTGGTGGTGGGG 59.888 55.000 0.00 0.00 0.00 4.96
8502 10143 2.094675 GATGTGATTTCTGGTGGTGGG 58.905 52.381 0.00 0.00 0.00 4.61
8503 10144 1.739466 CGATGTGATTTCTGGTGGTGG 59.261 52.381 0.00 0.00 0.00 4.61
8504 10145 2.416547 GACGATGTGATTTCTGGTGGTG 59.583 50.000 0.00 0.00 0.00 4.17
8505 10146 2.303022 AGACGATGTGATTTCTGGTGGT 59.697 45.455 0.00 0.00 0.00 4.16
8506 10147 2.932614 GAGACGATGTGATTTCTGGTGG 59.067 50.000 0.00 0.00 0.00 4.61
8507 10148 2.600420 CGAGACGATGTGATTTCTGGTG 59.400 50.000 0.00 0.00 0.00 4.17
8508 10149 2.231478 ACGAGACGATGTGATTTCTGGT 59.769 45.455 0.00 0.00 0.00 4.00
8509 10150 2.854777 GACGAGACGATGTGATTTCTGG 59.145 50.000 0.00 0.00 0.00 3.86
8510 10151 3.763902 AGACGAGACGATGTGATTTCTG 58.236 45.455 0.00 0.00 0.00 3.02
8511 10152 3.440522 TGAGACGAGACGATGTGATTTCT 59.559 43.478 0.00 0.00 0.00 2.52
8512 10153 3.759418 TGAGACGAGACGATGTGATTTC 58.241 45.455 0.00 0.00 0.00 2.17
8513 10154 3.850122 TGAGACGAGACGATGTGATTT 57.150 42.857 0.00 0.00 0.00 2.17
8514 10155 3.629855 AGATGAGACGAGACGATGTGATT 59.370 43.478 0.00 0.00 0.00 2.57
8515 10156 3.210227 AGATGAGACGAGACGATGTGAT 58.790 45.455 0.00 0.00 0.00 3.06
8516 10157 2.609916 GAGATGAGACGAGACGATGTGA 59.390 50.000 0.00 0.00 0.00 3.58
8517 10158 2.352960 TGAGATGAGACGAGACGATGTG 59.647 50.000 0.00 0.00 0.00 3.21
8518 10159 2.633488 TGAGATGAGACGAGACGATGT 58.367 47.619 0.00 0.00 0.00 3.06
8519 10160 3.553532 CATGAGATGAGACGAGACGATG 58.446 50.000 0.00 0.00 0.00 3.84
8520 10161 2.031245 GCATGAGATGAGACGAGACGAT 60.031 50.000 0.00 0.00 0.00 3.73
8521 10162 1.332065 GCATGAGATGAGACGAGACGA 59.668 52.381 0.00 0.00 0.00 4.20
8522 10163 1.599171 GGCATGAGATGAGACGAGACG 60.599 57.143 0.00 0.00 0.00 4.18
8523 10164 1.269517 GGGCATGAGATGAGACGAGAC 60.270 57.143 0.00 0.00 0.00 3.36
8524 10165 1.035923 GGGCATGAGATGAGACGAGA 58.964 55.000 0.00 0.00 0.00 4.04
8525 10166 0.033228 GGGGCATGAGATGAGACGAG 59.967 60.000 0.00 0.00 0.00 4.18
8526 10167 1.738346 CGGGGCATGAGATGAGACGA 61.738 60.000 0.00 0.00 0.00 4.20
8527 10168 1.300465 CGGGGCATGAGATGAGACG 60.300 63.158 0.00 0.00 0.00 4.18
8528 10169 1.596477 GCGGGGCATGAGATGAGAC 60.596 63.158 0.00 0.00 0.00 3.36
8529 10170 2.036428 CTGCGGGGCATGAGATGAGA 62.036 60.000 0.00 0.00 38.13 3.27
8530 10171 1.597302 CTGCGGGGCATGAGATGAG 60.597 63.158 0.00 0.00 38.13 2.90
8531 10172 2.507452 CTGCGGGGCATGAGATGA 59.493 61.111 0.00 0.00 38.13 2.92
8532 10173 3.285215 GCTGCGGGGCATGAGATG 61.285 66.667 0.00 0.00 38.13 2.90
8533 10174 3.472943 GAGCTGCGGGGCATGAGAT 62.473 63.158 0.00 0.00 38.13 2.75
8534 10175 4.166888 GAGCTGCGGGGCATGAGA 62.167 66.667 0.00 0.00 38.13 3.27
8535 10176 4.172512 AGAGCTGCGGGGCATGAG 62.173 66.667 0.00 0.00 38.13 2.90
8536 10177 4.166888 GAGAGCTGCGGGGCATGA 62.167 66.667 0.00 0.00 38.13 3.07
8537 10178 4.172512 AGAGAGCTGCGGGGCATG 62.173 66.667 0.00 0.00 38.13 4.06
8538 10179 3.859414 GAGAGAGCTGCGGGGCAT 61.859 66.667 0.00 0.00 38.13 4.40
8542 10183 4.154347 GTGGGAGAGAGCTGCGGG 62.154 72.222 0.00 0.00 32.52 6.13
8543 10184 4.154347 GGTGGGAGAGAGCTGCGG 62.154 72.222 0.00 0.00 32.52 5.69
8544 10185 3.385384 TGGTGGGAGAGAGCTGCG 61.385 66.667 0.00 0.00 32.52 5.18
8545 10186 2.267324 GTGGTGGGAGAGAGCTGC 59.733 66.667 0.00 0.00 0.00 5.25


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

AutoCloner maintained by Alex Coulton.