Multiple sequence alignment - TraesCS4B01G329100

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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 TraesCS4B01G329100 chr4B 100.000 3176 0 0 1 3176 619936777 619933602 0.000000e+00 5866.0
1 TraesCS4B01G329100 chr4B 83.439 2047 201 73 247 2205 619788734 619786738 0.000000e+00 1775.0
2 TraesCS4B01G329100 chr4B 87.492 1575 128 29 655 2205 619659804 619658275 0.000000e+00 1753.0
3 TraesCS4B01G329100 chr4B 86.294 1576 121 41 665 2194 619775237 619773711 0.000000e+00 1626.0
4 TraesCS4B01G329100 chr4B 84.686 1639 144 50 579 2175 619590364 619588791 0.000000e+00 1537.0
5 TraesCS4B01G329100 chr4B 86.521 549 70 3 2631 3176 619648289 619647742 4.530000e-168 601.0
6 TraesCS4B01G329100 chr4B 79.300 343 33 5 2311 2623 619658153 619657819 4.150000e-49 206.0
7 TraesCS4B01G329100 chr4B 85.294 170 15 4 2302 2471 619786615 619786456 1.960000e-37 167.0
8 TraesCS4B01G329100 chr4B 91.045 67 4 2 2209 2275 619786671 619786607 4.360000e-14 89.8
9 TraesCS4B01G329100 chr5A 91.369 2236 128 37 1 2205 666684693 666682492 0.000000e+00 3000.0
10 TraesCS4B01G329100 chr5A 86.284 1655 132 37 579 2186 666589263 666587657 0.000000e+00 1711.0
11 TraesCS4B01G329100 chr5A 86.897 1450 109 47 665 2069 666657383 666655970 0.000000e+00 1550.0
12 TraesCS4B01G329100 chr5A 84.301 1637 157 45 579 2175 666526005 666524429 0.000000e+00 1507.0
13 TraesCS4B01G329100 chr5A 87.860 972 98 9 2211 3176 666679780 666678823 0.000000e+00 1123.0
14 TraesCS4B01G329100 chr4D 85.574 1629 139 51 592 2175 485684112 485682535 0.000000e+00 1618.0
15 TraesCS4B01G329100 chr4D 91.781 949 60 2 1269 2205 485764279 485763337 0.000000e+00 1304.0
16 TraesCS4B01G329100 chr4D 90.513 917 57 14 325 1241 485765159 485764273 0.000000e+00 1184.0
17 TraesCS4B01G329100 chr4D 85.792 549 58 7 2302 2838 485763224 485762684 5.950000e-157 564.0


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 TraesCS4B01G329100 chr4B 619933602 619936777 3175 True 5866.000000 5866 100.000000 1 3176 1 chr4B.!!$R4 3175
1 TraesCS4B01G329100 chr4B 619773711 619775237 1526 True 1626.000000 1626 86.294000 665 2194 1 chr4B.!!$R3 1529
2 TraesCS4B01G329100 chr4B 619588791 619590364 1573 True 1537.000000 1537 84.686000 579 2175 1 chr4B.!!$R1 1596
3 TraesCS4B01G329100 chr4B 619657819 619659804 1985 True 979.500000 1753 83.396000 655 2623 2 chr4B.!!$R5 1968
4 TraesCS4B01G329100 chr4B 619786456 619788734 2278 True 677.266667 1775 86.592667 247 2471 3 chr4B.!!$R6 2224
5 TraesCS4B01G329100 chr4B 619647742 619648289 547 True 601.000000 601 86.521000 2631 3176 1 chr4B.!!$R2 545
6 TraesCS4B01G329100 chr5A 666678823 666684693 5870 True 2061.500000 3000 89.614500 1 3176 2 chr5A.!!$R4 3175
7 TraesCS4B01G329100 chr5A 666587657 666589263 1606 True 1711.000000 1711 86.284000 579 2186 1 chr5A.!!$R2 1607
8 TraesCS4B01G329100 chr5A 666655970 666657383 1413 True 1550.000000 1550 86.897000 665 2069 1 chr5A.!!$R3 1404
9 TraesCS4B01G329100 chr5A 666524429 666526005 1576 True 1507.000000 1507 84.301000 579 2175 1 chr5A.!!$R1 1596
10 TraesCS4B01G329100 chr4D 485682535 485684112 1577 True 1618.000000 1618 85.574000 592 2175 1 chr4D.!!$R1 1583
11 TraesCS4B01G329100 chr4D 485762684 485765159 2475 True 1017.333333 1304 89.362000 325 2838 3 chr4D.!!$R2 2513

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
976 1103 1.00622 ACAAGCACAGCGACGATCA 60.006 52.632 0.0 0.0 0.0 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2723 5713 0.601057 AAAATCCGGCTGAAAACCCG 59.399 50.0 0.0 0.0 43.97 5.28 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
139 142 7.939784 AGGTATATGGTTTCTTTGGAAGTTC 57.060 36.000 0.00 0.00 32.61 3.01
173 176 4.494410 GCACGTCATTTTATAGTTTTCGGC 59.506 41.667 0.00 0.00 0.00 5.54
202 205 3.181510 CGGACCAAGCACAATAGTTTAGC 60.182 47.826 0.00 0.00 0.00 3.09
213 216 9.326413 AGCACAATAGTTTAGCGATTAAATAGT 57.674 29.630 0.00 0.00 33.99 2.12
333 344 9.904198 AGGCTGGTTTTGCATAATAATAAAAAT 57.096 25.926 0.00 0.00 0.00 1.82
385 396 3.343421 GCACGGTGGTTCGGTGAC 61.343 66.667 10.60 0.00 45.97 3.67
424 435 7.436080 CCGTTATTGCAATAAAGCATCAATCTT 59.564 33.333 28.75 0.00 45.19 2.40
436 447 4.083110 AGCATCAATCTTTTGAACAGACCG 60.083 41.667 0.00 0.00 44.70 4.79
439 450 5.673337 TCAATCTTTTGAACAGACCGAAG 57.327 39.130 0.00 0.00 38.90 3.79
440 451 4.024048 TCAATCTTTTGAACAGACCGAAGC 60.024 41.667 0.00 0.00 38.90 3.86
448 459 1.583054 ACAGACCGAAGCTGTTGAAC 58.417 50.000 0.00 0.00 43.67 3.18
463 502 2.354109 TGAACACGAGAGATCAGCAC 57.646 50.000 0.00 0.00 0.00 4.40
470 509 1.593469 CGAGAGATCAGCACATGCAAG 59.407 52.381 6.64 0.00 45.16 4.01
471 510 2.737679 CGAGAGATCAGCACATGCAAGA 60.738 50.000 6.64 4.12 45.16 3.02
472 511 3.268330 GAGAGATCAGCACATGCAAGAA 58.732 45.455 6.64 0.00 45.16 2.52
473 512 3.682696 AGAGATCAGCACATGCAAGAAA 58.317 40.909 6.64 0.00 45.16 2.52
474 513 4.270834 AGAGATCAGCACATGCAAGAAAT 58.729 39.130 6.64 0.00 45.16 2.17
475 514 4.335874 AGAGATCAGCACATGCAAGAAATC 59.664 41.667 6.64 6.40 45.16 2.17
476 515 4.014406 AGATCAGCACATGCAAGAAATCA 58.986 39.130 6.64 0.00 45.16 2.57
477 516 3.564235 TCAGCACATGCAAGAAATCAC 57.436 42.857 6.64 0.00 45.16 3.06
478 517 3.151554 TCAGCACATGCAAGAAATCACT 58.848 40.909 6.64 0.00 45.16 3.41
479 518 4.325972 TCAGCACATGCAAGAAATCACTA 58.674 39.130 6.64 0.00 45.16 2.74
480 519 4.945543 TCAGCACATGCAAGAAATCACTAT 59.054 37.500 6.64 0.00 45.16 2.12
481 520 6.114767 TCAGCACATGCAAGAAATCACTATA 58.885 36.000 6.64 0.00 45.16 1.31
482 521 6.037500 TCAGCACATGCAAGAAATCACTATAC 59.962 38.462 6.64 0.00 45.16 1.47
483 522 5.297776 AGCACATGCAAGAAATCACTATACC 59.702 40.000 6.64 0.00 45.16 2.73
484 523 5.506317 GCACATGCAAGAAATCACTATACCC 60.506 44.000 0.00 0.00 41.59 3.69
485 524 5.824624 CACATGCAAGAAATCACTATACCCT 59.175 40.000 0.00 0.00 0.00 4.34
486 525 6.992123 CACATGCAAGAAATCACTATACCCTA 59.008 38.462 0.00 0.00 0.00 3.53
487 526 7.172190 CACATGCAAGAAATCACTATACCCTAG 59.828 40.741 0.00 0.00 0.00 3.02
488 527 5.611374 TGCAAGAAATCACTATACCCTAGC 58.389 41.667 0.00 0.00 0.00 3.42
489 528 5.366768 TGCAAGAAATCACTATACCCTAGCT 59.633 40.000 0.00 0.00 0.00 3.32
660 715 3.030291 CAGACTCTGAATGTCTAGGCCT 58.970 50.000 11.78 11.78 42.21 5.19
723 798 9.295825 TCACAAGTCTACATTCACCAAATTAAT 57.704 29.630 0.00 0.00 0.00 1.40
814 893 1.822613 CCGAGCTAGAGCACCGGTA 60.823 63.158 20.39 0.00 46.62 4.02
832 911 1.807142 GTAGCTTTCTCCAGTGCCAAC 59.193 52.381 0.00 0.00 0.00 3.77
976 1103 1.006220 ACAAGCACAGCGACGATCA 60.006 52.632 0.00 0.00 0.00 2.92
994 1142 1.602888 AAGCACTTGGAGCAGCAGG 60.603 57.895 0.00 0.00 0.00 4.85
1170 1318 0.108992 TCAACATCTACCGCCACGAC 60.109 55.000 0.00 0.00 0.00 4.34
1225 1387 3.786048 CACAAGAACAACTTCGAACAAGC 59.214 43.478 0.00 0.00 36.61 4.01
1250 1412 4.087510 TCGTCGTAGTGATCGTTTGATT 57.912 40.909 0.00 0.00 34.09 2.57
1275 1471 0.392060 ATGCATGTCTGAGCAGCGAA 60.392 50.000 0.00 0.00 44.94 4.70
1305 1502 3.181455 GGTGTGTGTATGGATATGCAGGA 60.181 47.826 2.55 0.00 29.18 3.86
1306 1503 3.809832 GTGTGTGTATGGATATGCAGGAC 59.190 47.826 2.55 4.24 29.18 3.85
1342 1539 2.761767 GAGAGGGAGTGGTACTTCTTCC 59.238 54.545 6.95 6.95 30.63 3.46
1344 1541 3.596956 AGAGGGAGTGGTACTTCTTCCTA 59.403 47.826 14.55 0.00 38.58 2.94
1672 1875 1.344191 GGAGATGAAGCAGAGGCCCT 61.344 60.000 0.00 0.00 42.56 5.19
1770 1979 2.281692 TCCGACGACGTCCAGGAA 60.282 61.111 21.63 6.27 37.88 3.36
1868 2101 0.038159 AAGAAGGAAGCAGACGTCGG 60.038 55.000 11.64 11.64 0.00 4.79
2282 5236 1.814394 TGCAATGAACTAAGCCTGCAG 59.186 47.619 6.78 6.78 35.02 4.41
2291 5245 0.984230 TAAGCCTGCAGTGGTTAGCT 59.016 50.000 13.81 10.05 0.00 3.32
2300 5254 4.002982 TGCAGTGGTTAGCTGTAAATCTG 58.997 43.478 0.00 0.00 36.42 2.90
2309 5263 9.330063 TGGTTAGCTGTAAATCTGATGAATTAG 57.670 33.333 0.00 0.00 0.00 1.73
2347 5301 5.066375 TCTGTGTTTGTCAAACTTCAGGATG 59.934 40.000 30.20 18.69 41.90 3.51
2570 5556 4.929479 AGCAAACCATTGTGGGTAATCTA 58.071 39.130 0.52 0.00 35.52 1.98
2646 5636 2.928801 TGTATGGACAATATGCCGCT 57.071 45.000 0.00 0.00 30.68 5.52
2712 5702 9.897744 TCTCACAAATGAAAAGTATTAAAGCTG 57.102 29.630 0.00 0.00 33.30 4.24
2723 5713 7.625828 AAGTATTAAAGCTGTTGGACCATAC 57.374 36.000 0.00 0.00 0.00 2.39
2726 5716 0.035439 AAGCTGTTGGACCATACGGG 60.035 55.000 13.95 6.53 44.81 5.28
2823 5814 3.850122 GCGGGAAGCTTCAACTATTTT 57.150 42.857 27.02 0.00 44.04 1.82
2842 5833 8.929746 ACTATTTTAGCTAAACTACGGAACAAC 58.070 33.333 18.45 0.00 0.00 3.32
2894 5885 3.181491 GCGTATTGAGCAATTTTGGCCTA 60.181 43.478 3.32 0.00 32.50 3.93
2898 5889 4.961730 TATTGAGCAATTTTGGCCTACCAT 59.038 37.500 3.32 0.00 37.76 3.55
2925 5916 7.307514 GGTTCGATAACACACACTATTGTTTGA 60.308 37.037 6.39 0.00 35.73 2.69
2936 5927 6.535150 CACACTATTGTTTGACATACCGAGAT 59.465 38.462 0.00 0.00 31.66 2.75
2942 5933 5.168569 TGTTTGACATACCGAGATGACTTC 58.831 41.667 3.82 0.00 0.00 3.01
2953 5944 4.194640 CGAGATGACTTCCATTCCAATGT 58.805 43.478 0.00 0.00 35.17 2.71
2954 5945 4.034858 CGAGATGACTTCCATTCCAATGTG 59.965 45.833 0.00 0.00 35.17 3.21
2981 5972 2.117423 CAAGGGGGTGGTTGTCCC 59.883 66.667 0.00 0.00 43.90 4.46
2986 5977 1.774300 GGGGTGGTTGTCCCTCATT 59.226 57.895 0.96 0.00 44.07 2.57
3029 6022 3.995048 ACCTTTCTTAACAAGCTCTACGC 59.005 43.478 0.00 0.00 39.57 4.42
3042 6035 0.539986 TCTACGCATGAGGGGGTTTC 59.460 55.000 0.00 0.00 35.41 2.78
3043 6036 0.251916 CTACGCATGAGGGGGTTTCA 59.748 55.000 0.00 0.00 35.41 2.69
3044 6037 0.916086 TACGCATGAGGGGGTTTCAT 59.084 50.000 0.00 0.00 35.73 2.57
3069 6062 2.224426 TGCCTAGAGGAAACTTGCGAAA 60.224 45.455 0.00 0.00 44.43 3.46
3078 6071 4.803613 AGGAAACTTGCGAAAACATTTGTC 59.196 37.500 0.00 0.00 37.44 3.18
3093 6086 0.469705 TTGTCCAAGGTGGCATTGCT 60.470 50.000 8.82 0.00 37.47 3.91
3099 6092 0.630673 AAGGTGGCATTGCTGGGATA 59.369 50.000 8.82 0.00 0.00 2.59
3118 6111 5.221461 GGGATAAAGGTCAGTGACGACATAT 60.221 44.000 16.89 11.91 37.66 1.78
3159 6152 4.635699 AAGGGGTTTACTACAAGGTGAG 57.364 45.455 0.00 0.00 0.00 3.51
3165 6158 4.571176 GGTTTACTACAAGGTGAGCTATGC 59.429 45.833 0.00 0.00 0.00 3.14
3167 6160 2.187958 ACTACAAGGTGAGCTATGCCA 58.812 47.619 0.00 0.00 0.00 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 102 7.827729 ACCATATACCTAGTGTTGGAAAGTTTC 59.172 37.037 7.09 7.09 0.00 2.78
105 108 7.504926 AGAAACCATATACCTAGTGTTGGAA 57.495 36.000 7.27 0.00 0.00 3.53
139 142 7.810766 ATAAAATGACGTGCATTAAACCTTG 57.189 32.000 11.79 0.00 46.25 3.61
173 176 0.249868 TGTGCTTGGTCCGACTTGAG 60.250 55.000 0.00 0.00 0.00 3.02
348 359 4.092968 GTGCCTTCACCGTACATAAGAAAG 59.907 45.833 0.00 0.00 37.24 2.62
385 396 8.647143 ATTGCAATAACGGAAATTTTATCCTG 57.353 30.769 11.02 0.00 34.66 3.86
424 435 2.325583 ACAGCTTCGGTCTGTTCAAA 57.674 45.000 0.00 0.00 41.61 2.69
436 447 2.743938 TCTCTCGTGTTCAACAGCTTC 58.256 47.619 0.00 0.00 0.00 3.86
439 450 2.665537 CTGATCTCTCGTGTTCAACAGC 59.334 50.000 0.00 0.00 0.00 4.40
440 451 2.665537 GCTGATCTCTCGTGTTCAACAG 59.334 50.000 0.00 0.00 0.00 3.16
448 459 0.928922 GCATGTGCTGATCTCTCGTG 59.071 55.000 0.00 0.55 38.21 4.35
463 502 6.148480 GCTAGGGTATAGTGATTTCTTGCATG 59.852 42.308 0.00 0.00 0.00 4.06
470 509 5.810080 ACCAGCTAGGGTATAGTGATTTC 57.190 43.478 0.00 0.00 43.89 2.17
471 510 7.506971 GTTTACCAGCTAGGGTATAGTGATTT 58.493 38.462 3.90 0.00 42.75 2.17
472 511 6.239232 CGTTTACCAGCTAGGGTATAGTGATT 60.239 42.308 3.90 0.00 42.75 2.57
473 512 5.243283 CGTTTACCAGCTAGGGTATAGTGAT 59.757 44.000 3.90 0.00 42.75 3.06
474 513 4.581824 CGTTTACCAGCTAGGGTATAGTGA 59.418 45.833 3.90 0.00 42.75 3.41
475 514 4.340381 ACGTTTACCAGCTAGGGTATAGTG 59.660 45.833 3.90 0.00 42.75 2.74
476 515 4.340381 CACGTTTACCAGCTAGGGTATAGT 59.660 45.833 3.90 2.87 42.75 2.12
477 516 4.340381 ACACGTTTACCAGCTAGGGTATAG 59.660 45.833 3.90 2.35 42.75 1.31
478 517 4.098349 CACACGTTTACCAGCTAGGGTATA 59.902 45.833 3.90 0.00 42.75 1.47
479 518 3.102204 ACACGTTTACCAGCTAGGGTAT 58.898 45.455 3.90 0.00 42.75 2.73
480 519 2.231964 CACACGTTTACCAGCTAGGGTA 59.768 50.000 0.00 0.00 43.89 3.69
481 520 1.001633 CACACGTTTACCAGCTAGGGT 59.998 52.381 0.82 0.82 43.89 4.34
482 521 1.274167 TCACACGTTTACCAGCTAGGG 59.726 52.381 7.06 0.00 43.89 3.53
483 522 2.736144 TCACACGTTTACCAGCTAGG 57.264 50.000 0.00 0.00 45.67 3.02
484 523 4.056050 ACTTTCACACGTTTACCAGCTAG 58.944 43.478 0.00 0.00 0.00 3.42
485 524 3.805422 CACTTTCACACGTTTACCAGCTA 59.195 43.478 0.00 0.00 0.00 3.32
486 525 2.612212 CACTTTCACACGTTTACCAGCT 59.388 45.455 0.00 0.00 0.00 4.24
487 526 2.853281 GCACTTTCACACGTTTACCAGC 60.853 50.000 0.00 0.00 0.00 4.85
488 527 2.353269 TGCACTTTCACACGTTTACCAG 59.647 45.455 0.00 0.00 0.00 4.00
489 528 2.096174 GTGCACTTTCACACGTTTACCA 59.904 45.455 10.32 0.00 36.97 3.25
573 620 2.437281 ACCTGATGGCTAAGACTGATGG 59.563 50.000 0.00 0.00 36.63 3.51
575 622 4.851639 AAACCTGATGGCTAAGACTGAT 57.148 40.909 0.00 0.00 36.63 2.90
660 715 6.292923 TGACTCCTTTTCGTCATCCTTTTTA 58.707 36.000 0.00 0.00 35.40 1.52
723 798 6.620877 TCTCTGCCTTTTGGAGACTTAATA 57.379 37.500 0.00 0.00 44.07 0.98
768 843 1.670811 GATCGAATGGATTTGTGCCGT 59.329 47.619 0.00 0.00 34.82 5.68
814 893 0.183492 TGTTGGCACTGGAGAAAGCT 59.817 50.000 0.00 0.00 0.00 3.74
832 911 0.660300 GAAAAGGCGGTCGCAGTTTG 60.660 55.000 17.21 0.00 44.11 2.93
880 973 8.091449 GTGGCTTATATAGAGCTTACAGTGATT 58.909 37.037 0.00 0.00 40.01 2.57
919 1031 1.133853 GGAAGCTGGATGATGAAGGCT 60.134 52.381 0.00 0.00 0.00 4.58
976 1103 1.602888 CCTGCTGCTCCAAGTGCTT 60.603 57.895 0.00 0.00 0.00 3.91
994 1142 1.087771 GCTGCCATTGCCATTGCTTC 61.088 55.000 0.00 0.00 38.71 3.86
1197 1359 5.459110 TCGAAGTTGTTCTTGTGTGTAAC 57.541 39.130 0.00 0.00 36.40 2.50
1198 1360 5.408909 TGTTCGAAGTTGTTCTTGTGTGTAA 59.591 36.000 0.00 0.00 36.40 2.41
1199 1361 4.930405 TGTTCGAAGTTGTTCTTGTGTGTA 59.070 37.500 0.00 0.00 36.40 2.90
1201 1363 4.335082 TGTTCGAAGTTGTTCTTGTGTG 57.665 40.909 0.00 0.00 36.40 3.82
1202 1364 4.671766 GCTTGTTCGAAGTTGTTCTTGTGT 60.672 41.667 0.00 0.00 36.40 3.72
1203 1365 3.786048 GCTTGTTCGAAGTTGTTCTTGTG 59.214 43.478 0.00 0.00 36.40 3.33
1204 1366 3.438781 TGCTTGTTCGAAGTTGTTCTTGT 59.561 39.130 0.00 0.00 36.40 3.16
1205 1367 3.786048 GTGCTTGTTCGAAGTTGTTCTTG 59.214 43.478 0.00 0.00 36.40 3.02
1225 1387 2.453650 ACGATCACTACGACGATGTG 57.546 50.000 0.00 10.08 34.70 3.21
1250 1412 1.021968 GCTCAGACATGCATGCATCA 58.978 50.000 30.07 10.80 33.90 3.07
1275 1471 1.272490 CCATACACACACCTCGTCAGT 59.728 52.381 0.00 0.00 0.00 3.41
1305 1502 0.909610 TCTCCCCGATCTTTGCCAGT 60.910 55.000 0.00 0.00 0.00 4.00
1306 1503 0.179062 CTCTCCCCGATCTTTGCCAG 60.179 60.000 0.00 0.00 0.00 4.85
1342 1539 2.202570 CTTCCGGTCACGCGGTAG 60.203 66.667 12.47 0.00 39.22 3.18
1641 1844 3.474600 CTTCATCTCCTCCATCGCAAAT 58.525 45.455 0.00 0.00 0.00 2.32
1672 1875 4.992511 GTACCCACCGTTGCCGCA 62.993 66.667 0.00 0.00 0.00 5.69
1786 1995 2.197324 CGAGGAGGAGGAGGAGGG 59.803 72.222 0.00 0.00 0.00 4.30
2088 2321 1.353022 AGGAACGGGTCATTTAGCCAA 59.647 47.619 0.00 0.00 46.87 4.52
2205 2438 7.925483 AGAGACGTCTATGTTCGTAGTACTATT 59.075 37.037 20.09 0.00 40.39 1.73
2282 5236 6.985188 TTCATCAGATTTACAGCTAACCAC 57.015 37.500 0.00 0.00 0.00 4.16
2300 5254 9.674824 CAGAACAATTCCATAAGCTAATTCATC 57.325 33.333 0.00 0.00 0.00 2.92
2309 5263 6.215845 ACAAACACAGAACAATTCCATAAGC 58.784 36.000 0.00 0.00 0.00 3.09
2462 5442 8.934023 AGAACTTCATGTTGTTATTTCCCTTA 57.066 30.769 6.18 0.00 39.30 2.69
2609 5595 1.018148 CAAAGTTGTACACCGGTGCA 58.982 50.000 34.26 20.45 37.88 4.57
2723 5713 0.601057 AAAATCCGGCTGAAAACCCG 59.399 50.000 0.00 0.00 43.97 5.28
2726 5716 8.807581 CATTTCTATTAAAATCCGGCTGAAAAC 58.192 33.333 0.00 0.00 0.00 2.43
2786 5777 6.147000 GCTTCCCGCTGATTAAATTTTCAAAA 59.853 34.615 0.00 0.00 35.14 2.44
2823 5814 7.577979 CAAATTGTTGTTCCGTAGTTTAGCTA 58.422 34.615 0.00 0.00 0.00 3.32
2833 5824 2.693074 AGGAAGCAAATTGTTGTTCCGT 59.307 40.909 14.04 5.07 43.00 4.69
2842 5833 6.824305 TCCTCTTTCTTAGGAAGCAAATTG 57.176 37.500 0.00 0.00 40.23 2.32
2871 5862 2.417243 GGCCAAAATTGCTCAATACGCT 60.417 45.455 0.00 0.00 0.00 5.07
2894 5885 3.071479 GTGTGTGTTATCGAACCATGGT 58.929 45.455 13.00 13.00 34.38 3.55
2898 5889 5.543714 ACAATAGTGTGTGTTATCGAACCA 58.456 37.500 0.00 0.00 36.31 3.67
2902 5893 6.702282 TGTCAAACAATAGTGTGTGTTATCGA 59.298 34.615 12.92 0.00 42.77 3.59
2925 5916 4.202264 GGAATGGAAGTCATCTCGGTATGT 60.202 45.833 0.00 0.00 34.44 2.29
2936 5927 4.892345 TGTTTCACATTGGAATGGAAGTCA 59.108 37.500 4.45 5.80 40.70 3.41
2942 5933 4.463539 TGGAGATGTTTCACATTGGAATGG 59.536 41.667 4.45 0.00 39.27 3.16
2953 5944 1.075374 CACCCCCTTGGAGATGTTTCA 59.925 52.381 0.00 0.00 38.00 2.69
2954 5945 1.616994 CCACCCCCTTGGAGATGTTTC 60.617 57.143 0.00 0.00 39.24 2.78
2962 5953 2.466186 GGACAACCACCCCCTTGGA 61.466 63.158 0.00 0.00 39.24 3.53
2964 5955 2.117423 GGGACAACCACCCCCTTG 59.883 66.667 0.00 0.00 41.38 3.61
3005 5996 5.389620 GCGTAGAGCTTGTTAAGAAAGGTTC 60.390 44.000 4.52 0.00 44.04 3.62
3006 5997 4.451435 GCGTAGAGCTTGTTAAGAAAGGTT 59.549 41.667 4.52 0.00 44.04 3.50
3029 6022 2.381911 CAGGAATGAAACCCCCTCATG 58.618 52.381 0.00 0.00 33.76 3.07
3069 6062 1.786937 TGCCACCTTGGACAAATGTT 58.213 45.000 0.00 0.00 40.96 2.71
3078 6071 2.652095 CCCAGCAATGCCACCTTGG 61.652 63.158 0.00 2.13 41.55 3.61
3093 6086 2.232941 GTCGTCACTGACCTTTATCCCA 59.767 50.000 3.50 0.00 32.61 4.37
3099 6092 7.584122 AGTATATATGTCGTCACTGACCTTT 57.416 36.000 3.50 0.00 38.11 3.11
3140 6133 2.305052 AGCTCACCTTGTAGTAAACCCC 59.695 50.000 0.00 0.00 0.00 4.95
3144 6137 4.224147 TGGCATAGCTCACCTTGTAGTAAA 59.776 41.667 0.00 0.00 0.00 2.01
3151 6144 0.035152 TGGTGGCATAGCTCACCTTG 60.035 55.000 19.75 1.03 44.36 3.61


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

AutoCloner maintained by Alex Coulton.