Multiple sequence alignment - TraesCS6A01G412300

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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 TraesCS6A01G412300 chr6A 100.000 3545 0 0 1 3545 614010348 614006804 0.000000e+00 6547.0
1 TraesCS6A01G412300 chr6A 79.479 653 70 31 412 1043 614083835 614083226 4.260000e-109 405.0
2 TraesCS6A01G412300 chr6A 90.283 247 17 3 1122 1361 614083194 614082948 2.050000e-82 316.0
3 TraesCS6A01G412300 chr6A 82.133 375 44 10 394 764 614024479 614024124 2.070000e-77 300.0
4 TraesCS6A01G412300 chr6A 86.111 252 23 8 413 660 614018569 614018326 9.760000e-66 261.0
5 TraesCS6A01G412300 chr6A 96.403 139 5 0 2 140 614025027 614024889 2.750000e-56 230.0
6 TraesCS6A01G412300 chr6A 90.244 164 13 3 1119 1280 614018331 614018169 9.970000e-51 211.0
7 TraesCS6A01G412300 chr6A 92.537 67 5 0 1295 1361 614018181 614018115 2.910000e-16 97.1
8 TraesCS6A01G412300 chr6D 88.249 3506 301 47 2 3439 467934751 467931289 0.000000e+00 4089.0
9 TraesCS6A01G412300 chr6D 82.273 440 47 15 936 1361 467977691 467977269 5.630000e-93 351.0
10 TraesCS6A01G412300 chr6D 77.440 461 65 27 175 609 467979516 467979069 4.570000e-59 239.0
11 TraesCS6A01G412300 chr6B 88.109 3406 267 75 10 3370 714066761 714063449 0.000000e+00 3919.0
12 TraesCS6A01G412300 chr6B 80.306 523 64 17 850 1361 714080789 714080295 3.360000e-95 359.0
13 TraesCS6A01G412300 chr6B 93.785 177 10 1 3368 3543 714060767 714060591 7.550000e-67 265.0
14 TraesCS6A01G412300 chr6B 77.060 449 53 30 196 612 714081378 714080948 2.770000e-51 213.0
15 TraesCS6A01G412300 chr1B 91.379 58 5 0 3466 3523 497471604 497471661 2.930000e-11 80.5
16 TraesCS6A01G412300 chr1B 94.118 51 1 2 3468 3517 526368619 526368570 3.790000e-10 76.8
17 TraesCS6A01G412300 chr1B 93.750 48 3 0 3468 3515 412897601 412897648 4.910000e-09 73.1
18 TraesCS6A01G412300 chr1A 91.379 58 5 0 3466 3523 472080689 472080746 2.930000e-11 80.5
19 TraesCS6A01G412300 chr3A 100.000 35 0 0 3480 3514 644678237 644678203 8.210000e-07 65.8
20 TraesCS6A01G412300 chr3A 97.143 35 0 1 3464 3497 705312870 705312836 1.370000e-04 58.4


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 TraesCS6A01G412300 chr6A 614006804 614010348 3544 True 6547.0 6547 100.0000 1 3545 1 chr6A.!!$R1 3544
1 TraesCS6A01G412300 chr6A 614082948 614083835 887 True 360.5 405 84.8810 412 1361 2 chr6A.!!$R4 949
2 TraesCS6A01G412300 chr6A 614024124 614025027 903 True 265.0 300 89.2680 2 764 2 chr6A.!!$R3 762
3 TraesCS6A01G412300 chr6D 467931289 467934751 3462 True 4089.0 4089 88.2490 2 3439 1 chr6D.!!$R1 3437
4 TraesCS6A01G412300 chr6D 467977269 467979516 2247 True 295.0 351 79.8565 175 1361 2 chr6D.!!$R2 1186
5 TraesCS6A01G412300 chr6B 714060591 714066761 6170 True 2092.0 3919 90.9470 10 3543 2 chr6B.!!$R1 3533
6 TraesCS6A01G412300 chr6B 714080295 714081378 1083 True 286.0 359 78.6830 196 1361 2 chr6B.!!$R2 1165

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
419 674 0.692419 AGCTAGCCAGGCAGTACCAT 60.692 55.0 15.8 0.0 43.14 3.55 F
2317 3866 0.112412 AAGGGCCGGTGTTTCTTCAT 59.888 50.0 1.9 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2394 3943 0.181350 GGTCCCCTTGCATCCTGTAG 59.819 60.0 0.00 0.0 0.0 2.74 R
3412 7676 0.327259 ATGGTGTCACATGCTCTGCT 59.673 50.0 5.12 0.0 0.0 4.24 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
108 109 9.539825 GTCATCACATTACTTAAGTCAGATCAT 57.460 33.333 12.39 0.00 0.00 2.45
253 476 6.487668 CGAAACCCTTTCCCTTTCTTACTTTA 59.512 38.462 0.00 0.00 36.30 1.85
271 494 1.704641 TACTGGATCTCACATCGGGG 58.295 55.000 0.00 0.00 0.00 5.73
312 544 1.670295 GTAATGGCGCACACATCATCA 59.330 47.619 10.83 0.00 0.00 3.07
313 545 1.395635 AATGGCGCACACATCATCAT 58.604 45.000 10.83 0.00 0.00 2.45
314 546 0.949397 ATGGCGCACACATCATCATC 59.051 50.000 10.83 0.00 0.00 2.92
315 547 1.096967 TGGCGCACACATCATCATCC 61.097 55.000 10.83 0.00 0.00 3.51
316 548 1.096967 GGCGCACACATCATCATCCA 61.097 55.000 10.83 0.00 0.00 3.41
319 551 1.329599 CGCACACATCATCATCCACAG 59.670 52.381 0.00 0.00 0.00 3.66
320 552 1.065102 GCACACATCATCATCCACAGC 59.935 52.381 0.00 0.00 0.00 4.40
323 555 3.191791 CACACATCATCATCCACAGCAAA 59.808 43.478 0.00 0.00 0.00 3.68
360 604 1.439353 CCGATTTGCCTCCATCCACG 61.439 60.000 0.00 0.00 0.00 4.94
405 654 1.583986 CTGGCCGCTAGCTAGCTAG 59.416 63.158 37.09 37.09 43.76 3.42
419 674 0.692419 AGCTAGCCAGGCAGTACCAT 60.692 55.000 15.80 0.00 43.14 3.55
585 883 2.825836 CCTCCATCGCCCACAAGC 60.826 66.667 0.00 0.00 0.00 4.01
658 957 1.405391 GGCACCCAATTTTTCCCATCG 60.405 52.381 0.00 0.00 0.00 3.84
907 1290 4.797800 TCTCGATCCATTCCATCTGATC 57.202 45.455 0.00 0.00 0.00 2.92
978 2490 2.021722 ACGTTGATGCGTGCAAACT 58.978 47.368 0.00 0.00 43.99 2.66
1117 2629 2.745821 CCTTAGTTCCTTACAAACCGGC 59.254 50.000 0.00 0.00 0.00 6.13
1173 2695 3.059051 GCTCTGTTTTGCTCTGTTCTGAG 60.059 47.826 2.99 2.99 37.16 3.35
1181 2703 2.154854 CTCTGTTCTGAGCGGTTTCA 57.845 50.000 0.14 0.00 0.00 2.69
1182 2704 1.795286 CTCTGTTCTGAGCGGTTTCAC 59.205 52.381 0.14 0.00 0.00 3.18
1187 2718 2.154854 TCTGAGCGGTTTCACTCTTG 57.845 50.000 0.00 0.00 33.92 3.02
1188 2719 1.412710 TCTGAGCGGTTTCACTCTTGT 59.587 47.619 0.00 0.00 33.92 3.16
1470 3004 3.555966 CCTCCAGGTAATCAATTGACCC 58.444 50.000 11.07 11.06 33.40 4.46
1472 3006 2.574369 TCCAGGTAATCAATTGACCCGT 59.426 45.455 11.07 0.43 33.40 5.28
1474 3008 2.607635 CAGGTAATCAATTGACCCGTCG 59.392 50.000 11.07 2.58 33.40 5.12
1527 3064 5.282055 TCGATCCATCAATAGTTCTTGCT 57.718 39.130 0.00 0.00 0.00 3.91
1561 3098 7.872483 ACAACCATTGATTTATTTCTTGGTGAC 59.128 33.333 0.00 0.00 34.87 3.67
1733 3270 1.144936 GCAGAGCGGCTACCTGAAT 59.855 57.895 19.47 0.00 0.00 2.57
1736 3273 1.936547 CAGAGCGGCTACCTGAATTTC 59.063 52.381 12.05 0.00 0.00 2.17
1794 3333 1.251251 GCTGGCTCACAAGGTTCATT 58.749 50.000 0.00 0.00 0.00 2.57
1898 3437 2.053244 CTCAGGATTACCCATGCCTCT 58.947 52.381 0.00 0.00 37.41 3.69
1906 3445 1.377725 CCCATGCCTCTTGTCGCTT 60.378 57.895 0.00 0.00 0.00 4.68
2001 3540 1.344438 TGACATCACTCCGCTGTTCTT 59.656 47.619 0.00 0.00 0.00 2.52
2011 3550 7.380536 TCACTCCGCTGTTCTTTACTTATTTA 58.619 34.615 0.00 0.00 0.00 1.40
2012 3551 8.038944 TCACTCCGCTGTTCTTTACTTATTTAT 58.961 33.333 0.00 0.00 0.00 1.40
2022 3561 8.938906 GTTCTTTACTTATTTATTGGTCGGTCA 58.061 33.333 0.00 0.00 0.00 4.02
2029 3568 7.610305 ACTTATTTATTGGTCGGTCAAGACATT 59.390 33.333 2.29 0.00 42.62 2.71
2039 3579 6.183360 GGTCGGTCAAGACATTATTTGTTAGG 60.183 42.308 2.29 0.00 42.62 2.69
2060 3600 9.664332 GTTAGGATTATCTTGCTGATGTATGAT 57.336 33.333 3.60 0.00 36.65 2.45
2061 3601 9.662947 TTAGGATTATCTTGCTGATGTATGATG 57.337 33.333 3.60 0.00 36.65 3.07
2062 3602 7.914859 AGGATTATCTTGCTGATGTATGATGA 58.085 34.615 3.60 0.00 36.65 2.92
2063 3603 8.380867 AGGATTATCTTGCTGATGTATGATGAA 58.619 33.333 3.60 0.00 36.65 2.57
2064 3604 8.449397 GGATTATCTTGCTGATGTATGATGAAC 58.551 37.037 3.60 0.00 36.65 3.18
2070 3614 9.399797 TCTTGCTGATGTATGATGAACTTTAAT 57.600 29.630 0.00 0.00 0.00 1.40
2094 3638 5.988310 AATCAGCATTGACTTTTCCATGA 57.012 34.783 0.00 0.00 35.83 3.07
2168 3712 2.170187 CTCTGCCTGCTTTCTCACCTAT 59.830 50.000 0.00 0.00 0.00 2.57
2183 3727 6.080009 TCTCACCTATCATTCCATCTCATCA 58.920 40.000 0.00 0.00 0.00 3.07
2197 3741 5.104776 CCATCTCATCAGTCTTCCAAGGTAA 60.105 44.000 0.00 0.00 0.00 2.85
2252 3801 7.984050 TGTGATGAACAACAAATTTACCATGTT 59.016 29.630 8.78 8.78 37.76 2.71
2301 3850 5.817988 CAGTCATTGCTGATGATAACAAGG 58.182 41.667 6.62 0.00 46.01 3.61
2306 3855 1.597742 CTGATGATAACAAGGGCCGG 58.402 55.000 0.00 0.00 0.00 6.13
2317 3866 0.112412 AAGGGCCGGTGTTTCTTCAT 59.888 50.000 1.90 0.00 0.00 2.57
2340 3889 1.867233 GCAGACAACATACATAGCGGG 59.133 52.381 0.00 0.00 0.00 6.13
2346 3895 1.369692 CATACATAGCGGGCCGGAA 59.630 57.895 29.48 0.95 0.00 4.30
2440 3989 1.360852 AGAGACCAGGGTCATCAGACT 59.639 52.381 19.92 6.81 46.76 3.24
2449 3998 3.730059 AGGGTCATCAGACTATAGGAGGT 59.270 47.826 4.43 0.00 44.36 3.85
2493 4042 1.986882 CCTCCTGGTTGAAGCAAGTT 58.013 50.000 0.00 0.00 0.00 2.66
2568 4117 1.823295 CACCCGGTCGATTCCTCAT 59.177 57.895 0.00 0.00 0.00 2.90
2588 4137 1.545136 TGTGTTTCGATGGCATTGCAT 59.455 42.857 11.39 2.21 0.00 3.96
2645 4194 8.492673 TCATGTAGGATTTGATAGAACAACAC 57.507 34.615 0.00 0.00 0.00 3.32
2647 4196 4.946784 AGGATTTGATAGAACAACACGC 57.053 40.909 0.00 0.00 0.00 5.34
2649 4198 4.943705 AGGATTTGATAGAACAACACGCAT 59.056 37.500 0.00 0.00 0.00 4.73
2655 4204 4.699735 TGATAGAACAACACGCATTGGATT 59.300 37.500 4.46 0.00 33.63 3.01
2684 4233 6.949352 TCTTTCTGAACTTGCAAGAAGATT 57.051 33.333 32.50 16.22 0.00 2.40
2708 4258 3.746492 AGTAACTTGTTGCATCGACCTTC 59.254 43.478 4.58 0.00 0.00 3.46
2714 4264 2.290260 TGTTGCATCGACCTTCTGGATT 60.290 45.455 0.00 0.00 37.04 3.01
2777 4327 1.675483 CGGGCATGTTATAGCTGCAAA 59.325 47.619 1.02 0.00 37.64 3.68
2804 4354 7.433131 ACAACATTTTCATATAATTGCAGCTCG 59.567 33.333 0.00 0.00 0.00 5.03
2824 4374 2.414559 CGTGAAATGTGACCTCAATGCC 60.415 50.000 0.00 0.00 0.00 4.40
2850 4400 9.847224 CTATAGTTTAACAATCCACCTGGTATT 57.153 33.333 0.00 0.00 36.34 1.89
2856 4406 3.214328 CAATCCACCTGGTATTACCTGC 58.786 50.000 13.90 0.00 39.58 4.85
2876 4427 3.019564 GCTGGGCTTTGACTGTATTCAT 58.980 45.455 0.00 0.00 0.00 2.57
2886 4437 8.289618 GCTTTGACTGTATTCATTGTCTTAACA 58.710 33.333 0.00 0.00 0.00 2.41
3021 4601 6.604396 TCATGCATTGTATTGGATTCAGAGTT 59.396 34.615 0.00 0.00 0.00 3.01
3044 4624 4.974368 TTTTCCGTTGGATTTCGCATAT 57.026 36.364 0.00 0.00 0.00 1.78
3096 4676 0.742505 TACCGATACAGGAAGCACCG 59.257 55.000 0.00 0.00 44.74 4.94
3132 4712 4.887655 GTGGGATACTTCCGGATTTTGATT 59.112 41.667 4.15 0.00 43.63 2.57
3145 4725 6.183360 CCGGATTTTGATTTGTCATCCCATTA 60.183 38.462 0.00 0.00 31.19 1.90
3240 4820 1.143813 ATCCGATTGCCCTGGATTCT 58.856 50.000 0.00 0.00 39.45 2.40
3245 4825 2.305009 GATTGCCCTGGATTCTGGAAG 58.695 52.381 0.00 0.00 34.32 3.46
3262 4842 2.416244 AAGACGACACCGCACGATGT 62.416 55.000 0.00 0.00 39.95 3.06
3276 4856 3.918253 GATGTTGCCGACCCTGCCA 62.918 63.158 0.00 0.00 0.00 4.92
3300 4880 3.321968 GGAACTGAGCCAATTGGTTCTTT 59.678 43.478 33.04 26.59 44.56 2.52
3374 7638 5.044846 ACCATTAGGCCCTCCATTATGTATC 60.045 44.000 0.00 0.00 39.06 2.24
3420 7684 1.137675 CACTAGTGGCATAGCAGAGCA 59.862 52.381 15.49 0.00 0.00 4.26
3479 7743 5.731678 AGACCAAAATAAGTACTCCCTCCAT 59.268 40.000 0.00 0.00 0.00 3.41
3513 7777 8.211116 TCTTGTCGTGGTTTTAGTTCAAATTA 57.789 30.769 0.00 0.00 0.00 1.40
3538 7802 8.980143 AATTATGGAATTTGAACTAAACCACG 57.020 30.769 0.00 0.00 30.77 4.94
3539 7803 7.747155 TTATGGAATTTGAACTAAACCACGA 57.253 32.000 0.00 0.00 0.00 4.35
3540 7804 5.427036 TGGAATTTGAACTAAACCACGAC 57.573 39.130 0.00 0.00 0.00 4.34
3541 7805 4.882427 TGGAATTTGAACTAAACCACGACA 59.118 37.500 0.00 0.00 0.00 4.35
3543 7807 6.039941 TGGAATTTGAACTAAACCACGACAAT 59.960 34.615 0.00 0.00 0.00 2.71
3544 7808 7.228906 TGGAATTTGAACTAAACCACGACAATA 59.771 33.333 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 109 4.902443 TGGACAAAGTTGTAATTTCGCA 57.098 36.364 0.00 0.00 42.43 5.10
191 196 0.442699 CGAGCAACCGAAAAGTAGCC 59.557 55.000 0.00 0.00 0.00 3.93
229 452 6.726490 AAAGTAAGAAAGGGAAAGGGTTTC 57.274 37.500 0.00 0.00 38.94 2.78
253 476 1.050988 CCCCCGATGTGAGATCCAGT 61.051 60.000 0.00 0.00 0.00 4.00
271 494 2.271944 AAGCTGGTTGGAACAGTACC 57.728 50.000 0.00 0.00 42.39 3.34
320 552 3.726517 CACCGGACCGCAGCTTTG 61.727 66.667 9.46 0.00 0.00 2.77
360 604 1.131315 GAGGTCCAAGAATTTCTGCGC 59.869 52.381 0.00 0.00 0.00 6.09
405 654 1.026718 GTGACATGGTACTGCCTGGC 61.027 60.000 12.87 12.87 38.35 4.85
406 655 0.324614 TGTGACATGGTACTGCCTGG 59.675 55.000 0.00 0.00 38.35 4.45
407 656 2.011947 CATGTGACATGGTACTGCCTG 58.988 52.381 17.51 0.00 38.35 4.85
408 657 1.065199 CCATGTGACATGGTACTGCCT 60.065 52.381 31.37 0.00 38.35 4.75
419 674 2.038952 AGCTTAACTGCTCCATGTGACA 59.961 45.455 0.00 0.00 39.34 3.58
585 883 3.770666 AGAAGTACGACCATGTCAATCG 58.229 45.455 0.00 0.00 41.60 3.34
833 1136 8.304596 CAATTGACACTACTAGTTTCTAGTGGA 58.695 37.037 21.77 11.43 42.85 4.02
907 1290 3.151958 ATCGATCGACCGGGCAAGG 62.152 63.158 22.06 0.00 37.30 3.61
976 2488 6.705302 TCTTTATCTTCAGCAATCAGACAGT 58.295 36.000 0.00 0.00 0.00 3.55
978 2490 7.333323 TCATCTTTATCTTCAGCAATCAGACA 58.667 34.615 0.00 0.00 0.00 3.41
990 2502 5.816777 ACTGCTGCTCTTCATCTTTATCTTC 59.183 40.000 0.00 0.00 0.00 2.87
1066 2578 0.179111 CGATCACGTACCATGGTGCT 60.179 55.000 28.17 10.03 34.20 4.40
1067 2579 0.179121 TCGATCACGTACCATGGTGC 60.179 55.000 28.17 24.95 40.69 5.01
1173 2695 1.795286 CAGAGACAAGAGTGAAACCGC 59.205 52.381 0.00 0.00 37.80 5.68
1175 2697 3.063485 GAGCAGAGACAAGAGTGAAACC 58.937 50.000 0.00 0.00 37.80 3.27
1180 2702 0.735632 GCCGAGCAGAGACAAGAGTG 60.736 60.000 0.00 0.00 0.00 3.51
1181 2703 1.181741 TGCCGAGCAGAGACAAGAGT 61.182 55.000 0.00 0.00 33.32 3.24
1182 2704 1.588597 TGCCGAGCAGAGACAAGAG 59.411 57.895 0.00 0.00 33.32 2.85
1474 3008 2.668550 GTGGCTGTTCCGGTCACC 60.669 66.667 0.00 7.53 39.20 4.02
1527 3064 6.694445 ATAAATCAATGGTTGTTTCCCCAA 57.306 33.333 0.00 0.00 33.66 4.12
1724 3261 4.469945 TCCCTGTACTGGAAATTCAGGTAG 59.530 45.833 19.66 0.00 42.63 3.18
1733 3270 1.132657 TCCCACTCCCTGTACTGGAAA 60.133 52.381 19.66 6.96 0.00 3.13
1736 3273 0.252284 AGTCCCACTCCCTGTACTGG 60.252 60.000 11.71 11.71 0.00 4.00
1794 3333 2.372264 GAAGAGCAAAGATGGCCATGA 58.628 47.619 26.56 0.00 0.00 3.07
2001 3540 8.095792 TGTCTTGACCGACCAATAAATAAGTAA 58.904 33.333 0.00 0.00 32.97 2.24
2011 3550 5.710099 ACAAATAATGTCTTGACCGACCAAT 59.290 36.000 0.00 0.00 37.96 3.16
2012 3551 5.067273 ACAAATAATGTCTTGACCGACCAA 58.933 37.500 0.00 0.00 37.96 3.67
2029 3568 9.851686 ACATCAGCAAGATAATCCTAACAAATA 57.148 29.630 0.00 0.00 34.43 1.40
2039 3579 9.217278 AGTTCATCATACATCAGCAAGATAATC 57.783 33.333 0.00 0.00 34.43 1.75
2070 3614 7.465353 TCATGGAAAAGTCAATGCTGATTAA 57.535 32.000 0.00 0.00 35.40 1.40
2071 3615 7.339976 TGATCATGGAAAAGTCAATGCTGATTA 59.660 33.333 0.00 0.00 35.40 1.75
2077 3621 6.921857 CCTAATGATCATGGAAAAGTCAATGC 59.078 38.462 9.46 0.00 35.40 3.56
2159 3703 6.080009 TGATGAGATGGAATGATAGGTGAGA 58.920 40.000 0.00 0.00 0.00 3.27
2168 3712 4.718276 TGGAAGACTGATGAGATGGAATGA 59.282 41.667 0.00 0.00 0.00 2.57
2197 3741 5.761205 TGTATGTGGCAGGTGGTAAATATT 58.239 37.500 0.00 0.00 0.00 1.28
2208 3752 2.094597 CACAACCAATGTATGTGGCAGG 60.095 50.000 7.50 0.00 41.46 4.85
2259 3808 8.814038 ATGACTGCAAATTACTTTCTTCCTAT 57.186 30.769 0.00 0.00 0.00 2.57
2293 3842 1.074889 AGAAACACCGGCCCTTGTTAT 59.925 47.619 15.30 6.52 34.82 1.89
2301 3850 0.804989 CAGATGAAGAAACACCGGCC 59.195 55.000 0.00 0.00 0.00 6.13
2306 3855 4.035558 TGTTGTCTGCAGATGAAGAAACAC 59.964 41.667 21.47 3.69 31.73 3.32
2317 3866 3.447742 CGCTATGTATGTTGTCTGCAGA 58.552 45.455 13.74 13.74 0.00 4.26
2346 3895 1.595993 CGATCTCACCCTCACCGTGT 61.596 60.000 0.00 0.00 32.86 4.49
2351 3900 2.105128 CCGCGATCTCACCCTCAC 59.895 66.667 8.23 0.00 0.00 3.51
2394 3943 0.181350 GGTCCCCTTGCATCCTGTAG 59.819 60.000 0.00 0.00 0.00 2.74
2440 3989 3.052869 TGGAGCTCAGACAACCTCCTATA 60.053 47.826 17.19 0.00 43.34 1.31
2449 3998 2.061220 CCCAGTGGAGCTCAGACAA 58.939 57.895 17.19 0.00 0.00 3.18
2499 4048 2.513259 GGTGAAGTCGGGGTGGTGA 61.513 63.158 0.00 0.00 0.00 4.02
2555 4104 2.348666 CGAAACACATGAGGAATCGACC 59.651 50.000 0.00 0.00 0.00 4.79
2558 4107 3.001634 CCATCGAAACACATGAGGAATCG 59.998 47.826 0.00 3.98 0.00 3.34
2568 4117 0.957362 TGCAATGCCATCGAAACACA 59.043 45.000 1.53 0.00 0.00 3.72
2588 4137 3.118445 TGTCATATCTTCACATTGCCCGA 60.118 43.478 0.00 0.00 0.00 5.14
2645 4194 6.151691 TCAGAAAGAAGAAAAATCCAATGCG 58.848 36.000 0.00 0.00 0.00 4.73
2647 4196 9.538508 AAGTTCAGAAAGAAGAAAAATCCAATG 57.461 29.630 0.00 0.00 36.78 2.82
2649 4198 7.492344 GCAAGTTCAGAAAGAAGAAAAATCCAA 59.508 33.333 0.00 0.00 36.78 3.53
2655 4204 7.156876 TCTTGCAAGTTCAGAAAGAAGAAAA 57.843 32.000 25.19 0.00 36.78 2.29
2684 4233 3.064207 GGTCGATGCAACAAGTTACTGA 58.936 45.455 0.00 0.00 0.00 3.41
2708 4258 5.491070 TGTCTGACACTTAATCCAATCCAG 58.509 41.667 6.36 0.00 0.00 3.86
2714 4264 4.455533 GCATGTTGTCTGACACTTAATCCA 59.544 41.667 10.56 0.00 31.30 3.41
2748 4298 0.104120 TAACATGCCCGTCGATGAGG 59.896 55.000 6.11 6.99 0.00 3.86
2777 4327 9.090692 GAGCTGCAATTATATGAAAATGTTGTT 57.909 29.630 1.02 0.00 0.00 2.83
2792 4342 3.750652 TCACATTTCACGAGCTGCAATTA 59.249 39.130 1.02 0.00 0.00 1.40
2804 4354 2.821969 AGGCATTGAGGTCACATTTCAC 59.178 45.455 0.00 0.00 0.00 3.18
2824 4374 9.847224 AATACCAGGTGGATTGTTAAACTATAG 57.153 33.333 0.76 0.00 38.94 1.31
2850 4400 0.036732 CAGTCAAAGCCCAGCAGGTA 59.963 55.000 0.00 0.00 38.26 3.08
2856 4406 4.460382 ACAATGAATACAGTCAAAGCCCAG 59.540 41.667 0.00 0.00 0.00 4.45
2876 4427 4.095782 GGTTGCTGAGTGTTGTTAAGACAA 59.904 41.667 0.00 0.00 43.23 3.18
2886 4437 3.492102 ATGTACAGGTTGCTGAGTGTT 57.508 42.857 0.33 0.00 0.00 3.32
3021 4601 4.974368 ATGCGAAATCCAACGGAAAATA 57.026 36.364 0.00 0.00 34.34 1.40
3044 4624 4.883585 GGATATCTTGTCATGACCTTTGCA 59.116 41.667 22.85 0.00 0.00 4.08
3096 4676 0.988678 ATCCCACTTCCCACCTAGGC 60.989 60.000 9.30 0.00 35.39 3.93
3121 4701 4.717233 TGGGATGACAAATCAAAATCCG 57.283 40.909 0.00 0.00 38.69 4.18
3132 4712 5.824624 GCTTGAGATCTTAATGGGATGACAA 59.175 40.000 0.00 0.00 0.00 3.18
3145 4725 4.899352 ACTAAGTGGTGCTTGAGATCTT 57.101 40.909 0.00 0.00 38.05 2.40
3240 4820 2.028484 GTGCGGTGTCGTCTTCCA 59.972 61.111 0.00 0.00 38.89 3.53
3245 4825 2.019951 AACATCGTGCGGTGTCGTC 61.020 57.895 11.02 0.00 38.89 4.20
3276 4856 0.779997 ACCAATTGGCTCAGTTCCCT 59.220 50.000 24.79 0.00 39.32 4.20
3290 4870 5.061721 ACAGAACCCACTAAAGAACCAAT 57.938 39.130 0.00 0.00 0.00 3.16
3300 4880 7.094377 GCATCATTTTTCTTACAGAACCCACTA 60.094 37.037 0.00 0.00 33.26 2.74
3347 4927 1.912862 ATGGAGGGCCTAATGGTCTT 58.087 50.000 5.73 0.00 38.23 3.01
3412 7676 0.327259 ATGGTGTCACATGCTCTGCT 59.673 50.000 5.12 0.00 0.00 4.24
3420 7684 3.942829 CACCTGTAGAATGGTGTCACAT 58.057 45.455 5.12 0.00 46.18 3.21
3455 7719 5.098663 TGGAGGGAGTACTTATTTTGGTCT 58.901 41.667 0.00 0.00 0.00 3.85
3479 7743 4.345859 AACCACGACAAGAACTATGGAA 57.654 40.909 0.00 0.00 0.00 3.53
3513 7777 8.798402 TCGTGGTTTAGTTCAAATTCCATAATT 58.202 29.630 0.00 0.00 36.87 1.40


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

AutoCloner maintained by Alex Coulton.