Multiple sequence alignment - TraesCS7B01G377100

Loading Multiple Alignment...

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 TraesCS7B01G377100 chr7B 100.000 3149 0 0 393 3541 641808020 641804872 0.000000e+00 5816.0
1 TraesCS7B01G377100 chr7B 84.515 1227 169 14 1186 2406 641783687 641782476 0.000000e+00 1194.0
2 TraesCS7B01G377100 chr7B 83.293 1245 180 15 1194 2425 641755489 641754260 0.000000e+00 1122.0
3 TraesCS7B01G377100 chr7B 85.887 992 114 14 1035 2004 641855691 641854704 0.000000e+00 1033.0
4 TraesCS7B01G377100 chr7B 87.736 212 11 8 773 981 641861081 641860882 2.130000e-57 233.0
5 TraesCS7B01G377100 chr7B 82.869 251 19 13 878 1108 641764737 641764491 1.670000e-48 204.0
6 TraesCS7B01G377100 chr7B 94.595 74 2 2 587 660 641870734 641870663 2.890000e-21 113.0
7 TraesCS7B01G377100 chr7B 80.576 139 18 8 979 1108 641787928 641787790 8.090000e-17 99.0
8 TraesCS7B01G377100 chr7B 100.000 45 0 0 1 45 641808412 641808368 2.270000e-12 84.2
9 TraesCS7B01G377100 chr7B 100.000 34 0 0 795 828 641870320 641870287 2.950000e-06 63.9
10 TraesCS7B01G377100 chr7D 96.686 1750 50 3 619 2365 578064202 578065946 0.000000e+00 2904.0
11 TraesCS7B01G377100 chr7D 87.694 1674 137 33 924 2567 578049515 578051149 0.000000e+00 1886.0
12 TraesCS7B01G377100 chr7D 86.498 1185 118 12 1180 2350 578125261 578126417 0.000000e+00 1264.0
13 TraesCS7B01G377100 chr7D 95.761 519 21 1 2946 3464 578067641 578068158 0.000000e+00 835.0
14 TraesCS7B01G377100 chr7D 93.558 326 14 3 2426 2751 578065946 578066264 2.470000e-131 479.0
15 TraesCS7B01G377100 chr7D 95.397 239 9 2 426 664 578063966 578064202 2.580000e-101 379.0
16 TraesCS7B01G377100 chr7D 94.787 211 7 2 2743 2949 578067231 578067441 3.410000e-85 326.0
17 TraesCS7B01G377100 chr7D 84.689 209 19 9 734 939 578048500 578048698 2.790000e-46 196.0
18 TraesCS7B01G377100 chr7D 100.000 44 0 0 1 44 578063921 578063964 8.150000e-12 82.4
19 TraesCS7B01G377100 chr7A 91.074 1434 75 13 1049 2468 670265795 670264401 0.000000e+00 1890.0
20 TraesCS7B01G377100 chr7A 86.855 1590 138 39 796 2350 670270361 670268808 0.000000e+00 1712.0
21 TraesCS7B01G377100 chr7A 92.059 340 16 5 669 1007 670266122 670265793 5.350000e-128 468.0
22 TraesCS7B01G377100 chr7A 96.226 53 1 1 434 486 670266184 670266133 6.300000e-13 86.1
23 TraesCS7B01G377100 chr3B 78.517 782 118 28 1489 2260 675559927 675560668 5.350000e-128 468.0


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 TraesCS7B01G377100 chr7B 641804872 641808412 3540 True 2950.100000 5816 100.0000 1 3541 2 chr7B.!!$R7 3540
1 TraesCS7B01G377100 chr7B 641782476 641783687 1211 True 1194.000000 1194 84.5150 1186 2406 1 chr7B.!!$R3 1220
2 TraesCS7B01G377100 chr7B 641754260 641755489 1229 True 1122.000000 1122 83.2930 1194 2425 1 chr7B.!!$R1 1231
3 TraesCS7B01G377100 chr7B 641854704 641855691 987 True 1033.000000 1033 85.8870 1035 2004 1 chr7B.!!$R5 969
4 TraesCS7B01G377100 chr7D 578125261 578126417 1156 False 1264.000000 1264 86.4980 1180 2350 1 chr7D.!!$F1 1170
5 TraesCS7B01G377100 chr7D 578048500 578051149 2649 False 1041.000000 1886 86.1915 734 2567 2 chr7D.!!$F2 1833
6 TraesCS7B01G377100 chr7D 578063921 578068158 4237 False 834.233333 2904 96.0315 1 3464 6 chr7D.!!$F3 3463
7 TraesCS7B01G377100 chr7A 670264401 670270361 5960 True 1039.025000 1890 91.5535 434 2468 4 chr7A.!!$R1 2034
8 TraesCS7B01G377100 chr3B 675559927 675560668 741 False 468.000000 468 78.5170 1489 2260 1 chr3B.!!$F1 771

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
442 443 1.229145 AGAGAGAGCTGTGGTGCCT 60.229 57.895 0.0 0.0 0.00 4.75 F
1221 2144 0.171455 CCTTCACCTTCGACCTCTCG 59.829 60.000 0.0 0.0 41.65 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2425 7728 0.250553 TAAGCAACACCCAAGGACGG 60.251 55.0 0.0 0.0 0.0 4.79 R
3049 9534 1.199615 TGGACAATCGGTGGAGCATA 58.800 50.0 0.0 0.0 0.0 3.14 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
414 415 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
415 416 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
416 417 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
417 418 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
418 419 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
419 420 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
420 421 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
421 422 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
422 423 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
423 424 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
424 425 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
425 426 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
426 427 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
427 428 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
428 429 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
431 432 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
442 443 1.229145 AGAGAGAGCTGTGGTGCCT 60.229 57.895 0.00 0.00 0.00 4.75
517 518 2.343758 GCTGTGGCGTCCTCTTCA 59.656 61.111 0.00 0.00 0.00 3.02
573 574 1.753073 CCAAAGCCATGAATCCTGTCC 59.247 52.381 0.00 0.00 0.00 4.02
584 585 4.452825 TGAATCCTGTCCGACTAGAGTAG 58.547 47.826 0.00 0.00 0.00 2.57
585 586 2.328819 TCCTGTCCGACTAGAGTAGC 57.671 55.000 0.00 0.00 0.00 3.58
718 764 6.461092 CGCTCTCACCCAGTAGATGTATTTAA 60.461 42.308 0.00 0.00 0.00 1.52
879 925 9.362151 ACAAGTGGAAGATTAACCTAAATGAAA 57.638 29.630 0.00 0.00 0.00 2.69
1008 1893 1.000506 CTGCTCAAATGCAACTGCCTT 59.999 47.619 0.00 0.00 42.83 4.35
1221 2144 0.171455 CCTTCACCTTCGACCTCTCG 59.829 60.000 0.00 0.00 41.65 4.04
1538 2469 1.455822 TTGGGGAACAGGGTCTTCAT 58.544 50.000 0.00 0.00 0.00 2.57
1798 7029 4.048470 GGCCCAACCAGGACCCTC 62.048 72.222 0.00 0.00 41.22 4.30
1923 7154 3.957586 CTCAGCACCACCCTGCCA 61.958 66.667 0.00 0.00 37.96 4.92
2017 7248 1.731969 GCTCCGTTGAACGCTACGT 60.732 57.895 12.95 0.00 43.97 3.57
2251 7493 0.464036 GACCTACGACATCCATGGCA 59.536 55.000 6.96 0.00 34.77 4.92
2408 7707 2.082231 CATCAGGTTGCAGAGTGAAGG 58.918 52.381 0.00 0.00 0.00 3.46
2422 7725 4.020128 AGAGTGAAGGAGGTGGAATGTAAC 60.020 45.833 0.00 0.00 0.00 2.50
2425 7728 4.215613 GTGAAGGAGGTGGAATGTAACAAC 59.784 45.833 0.00 0.00 0.00 3.32
2447 7750 0.476338 TCCTTGGGTGTTGCTTAGCA 59.524 50.000 1.39 1.39 36.47 3.49
2524 7827 1.964891 CAGTCACCCTGCTGTGCTG 60.965 63.158 0.00 0.00 36.17 4.41
2567 7870 7.003482 TGCAATGCTCCATCTGGTATTAATTA 58.997 34.615 6.82 0.00 36.34 1.40
2568 7871 7.040478 TGCAATGCTCCATCTGGTATTAATTAC 60.040 37.037 6.82 0.00 36.34 1.89
2607 7910 2.221981 GCACATTTGCGAGGCTAGATAC 59.778 50.000 0.00 0.00 39.50 2.24
2610 7913 4.512944 CACATTTGCGAGGCTAGATACATT 59.487 41.667 0.00 0.00 0.00 2.71
2669 7972 8.723942 ATGTGTTAGGTAGAAGATGAAATGTC 57.276 34.615 0.00 0.00 0.00 3.06
2772 9050 9.817809 AGTTAACTGTATGATACATTGGTACAG 57.182 33.333 7.48 8.76 44.72 2.74
2773 9051 9.042008 GTTAACTGTATGATACATTGGTACAGG 57.958 37.037 5.65 0.00 43.93 4.00
2774 9052 6.174720 ACTGTATGATACATTGGTACAGGG 57.825 41.667 5.65 0.00 43.93 4.45
2794 9074 2.939103 GGATGACATAGAGTGGTTGTGC 59.061 50.000 0.00 0.00 0.00 4.57
2797 9077 0.973632 ACATAGAGTGGTTGTGCGGA 59.026 50.000 0.00 0.00 0.00 5.54
2826 9106 6.925610 AGCTTCTCATGCAAAATATAACGA 57.074 33.333 0.00 0.00 0.00 3.85
2845 9125 5.035784 ACGATTGCTTTAGTTTTCTCTGC 57.964 39.130 0.00 0.00 0.00 4.26
2970 9455 1.910580 TTCCTCCATCTTCCACGCCC 61.911 60.000 0.00 0.00 0.00 6.13
2995 9480 2.781431 AAATGTTCCTCCACCCGCCC 62.781 60.000 0.00 0.00 0.00 6.13
3007 9492 1.228613 CCCGCCCCAACTTTTACCA 60.229 57.895 0.00 0.00 0.00 3.25
3149 9634 3.055385 GCTCACTCCCATTGTAGTTACCA 60.055 47.826 0.00 0.00 0.00 3.25
3155 9640 5.253096 ACTCCCATTGTAGTTACCATTTCCT 59.747 40.000 0.00 0.00 0.00 3.36
3176 9661 5.066893 TCCTTGTTCATTATGCTCATCTTGC 59.933 40.000 0.00 0.00 0.00 4.01
3186 9671 4.750021 TGCTCATCTTGCTCTACTCAAT 57.250 40.909 0.00 0.00 0.00 2.57
3241 9726 6.018832 GGTTTGTGACTTTCAACATTCAATGG 60.019 38.462 1.58 0.00 33.60 3.16
3258 9743 7.936496 TTCAATGGAAAGTAATATGAGTGCA 57.064 32.000 0.00 0.00 0.00 4.57
3291 9776 7.204243 TGTCTAGAAGTAGTCCAGGTGTATA 57.796 40.000 0.00 0.00 0.00 1.47
3421 9906 4.319190 CGAATTGTGGAACTACGAAAAGCA 60.319 41.667 0.00 0.00 38.04 3.91
3424 9909 5.856126 TTGTGGAACTACGAAAAGCATAG 57.144 39.130 0.00 0.00 38.04 2.23
3442 9927 6.245408 AGCATAGTACAAAATTGAAGGGTCA 58.755 36.000 0.00 0.00 0.00 4.02
3464 9949 3.897239 TGTCCATGACACAAAGGAGTTT 58.103 40.909 0.00 0.00 37.67 2.66
3465 9950 3.882888 TGTCCATGACACAAAGGAGTTTC 59.117 43.478 0.00 0.00 37.67 2.78
3466 9951 4.137543 GTCCATGACACAAAGGAGTTTCT 58.862 43.478 0.00 0.00 32.09 2.52
3467 9952 4.580580 GTCCATGACACAAAGGAGTTTCTT 59.419 41.667 0.00 0.00 32.09 2.52
3468 9953 5.067805 GTCCATGACACAAAGGAGTTTCTTT 59.932 40.000 0.00 0.00 33.68 2.52
3469 9954 5.656416 TCCATGACACAAAGGAGTTTCTTTT 59.344 36.000 0.00 0.00 35.04 2.27
3470 9955 6.154363 TCCATGACACAAAGGAGTTTCTTTTT 59.846 34.615 0.00 0.00 35.04 1.94
3493 9978 7.652300 TTTTGGCTAGCGTATAACATATGAG 57.348 36.000 10.38 0.00 0.00 2.90
3494 9979 6.584185 TTGGCTAGCGTATAACATATGAGA 57.416 37.500 10.38 0.00 0.00 3.27
3495 9980 5.950883 TGGCTAGCGTATAACATATGAGAC 58.049 41.667 10.38 0.00 0.00 3.36
3496 9981 5.475564 TGGCTAGCGTATAACATATGAGACA 59.524 40.000 10.38 0.00 0.00 3.41
3497 9982 6.152831 TGGCTAGCGTATAACATATGAGACAT 59.847 38.462 10.38 0.00 0.00 3.06
3498 9983 6.473778 GGCTAGCGTATAACATATGAGACATG 59.526 42.308 10.38 0.00 0.00 3.21
3499 9984 7.251281 GCTAGCGTATAACATATGAGACATGA 58.749 38.462 10.38 0.00 0.00 3.07
3500 9985 7.219154 GCTAGCGTATAACATATGAGACATGAC 59.781 40.741 10.38 0.00 0.00 3.06
3501 9986 6.390721 AGCGTATAACATATGAGACATGACC 58.609 40.000 10.38 0.00 0.00 4.02
3502 9987 6.015434 AGCGTATAACATATGAGACATGACCA 60.015 38.462 10.38 0.00 0.00 4.02
3503 9988 6.089551 GCGTATAACATATGAGACATGACCAC 59.910 42.308 10.38 0.00 0.00 4.16
3504 9989 6.305638 CGTATAACATATGAGACATGACCACG 59.694 42.308 10.38 1.68 0.00 4.94
3505 9990 3.459232 ACATATGAGACATGACCACGG 57.541 47.619 10.38 0.00 0.00 4.94
3506 9991 3.031013 ACATATGAGACATGACCACGGA 58.969 45.455 10.38 0.00 0.00 4.69
3507 9992 3.643320 ACATATGAGACATGACCACGGAT 59.357 43.478 10.38 0.00 0.00 4.18
3508 9993 4.832823 ACATATGAGACATGACCACGGATA 59.167 41.667 10.38 0.00 0.00 2.59
3509 9994 5.481824 ACATATGAGACATGACCACGGATAT 59.518 40.000 10.38 0.00 0.00 1.63
3510 9995 3.733443 TGAGACATGACCACGGATATG 57.267 47.619 0.00 0.00 0.00 1.78
3511 9996 2.365293 TGAGACATGACCACGGATATGG 59.635 50.000 0.00 0.00 46.10 2.74
3512 9997 1.070758 AGACATGACCACGGATATGGC 59.929 52.381 0.00 0.00 44.33 4.40
3513 9998 0.108585 ACATGACCACGGATATGGCC 59.891 55.000 0.00 0.00 44.33 5.36
3514 9999 0.397941 CATGACCACGGATATGGCCT 59.602 55.000 3.32 0.00 44.33 5.19
3515 10000 0.687354 ATGACCACGGATATGGCCTC 59.313 55.000 3.32 0.00 44.33 4.70
3516 10001 1.371558 GACCACGGATATGGCCTCC 59.628 63.158 3.32 0.90 44.33 4.30
3517 10002 2.113243 GACCACGGATATGGCCTCCC 62.113 65.000 3.32 0.00 44.33 4.30
3518 10003 1.843376 CCACGGATATGGCCTCCCT 60.843 63.158 3.32 0.00 31.52 4.20
3519 10004 0.544357 CCACGGATATGGCCTCCCTA 60.544 60.000 3.32 0.00 31.52 3.53
3520 10005 1.573108 CACGGATATGGCCTCCCTAT 58.427 55.000 3.32 0.00 0.00 2.57
3521 10006 2.625883 CCACGGATATGGCCTCCCTATA 60.626 54.545 3.32 0.00 31.52 1.31
3522 10007 2.695666 CACGGATATGGCCTCCCTATAG 59.304 54.545 3.32 0.00 0.00 1.31
3523 10008 2.315155 ACGGATATGGCCTCCCTATAGT 59.685 50.000 3.32 0.00 0.00 2.12
3524 10009 3.530564 ACGGATATGGCCTCCCTATAGTA 59.469 47.826 3.32 0.00 0.00 1.82
3525 10010 4.016851 ACGGATATGGCCTCCCTATAGTAA 60.017 45.833 3.32 0.00 0.00 2.24
3526 10011 4.585162 CGGATATGGCCTCCCTATAGTAAG 59.415 50.000 3.32 0.00 0.00 2.34
3527 10012 5.530243 GGATATGGCCTCCCTATAGTAAGT 58.470 45.833 3.32 0.00 0.00 2.24
3528 10013 5.364157 GGATATGGCCTCCCTATAGTAAGTG 59.636 48.000 3.32 0.00 0.00 3.16
3529 10014 3.985553 TGGCCTCCCTATAGTAAGTGA 57.014 47.619 3.32 0.00 0.00 3.41
3530 10015 4.487282 TGGCCTCCCTATAGTAAGTGAT 57.513 45.455 3.32 0.00 0.00 3.06
3531 10016 4.417437 TGGCCTCCCTATAGTAAGTGATC 58.583 47.826 3.32 0.00 0.00 2.92
3532 10017 4.140782 TGGCCTCCCTATAGTAAGTGATCA 60.141 45.833 3.32 0.00 0.00 2.92
3533 10018 4.221041 GGCCTCCCTATAGTAAGTGATCAC 59.779 50.000 18.47 18.47 0.00 3.06
3534 10019 5.081032 GCCTCCCTATAGTAAGTGATCACT 58.919 45.833 22.89 22.89 44.94 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
392 393 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
393 394 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
394 395 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
395 396 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
396 397 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
397 398 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
398 399 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
399 400 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
400 401 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
401 402 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
402 403 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
403 404 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
404 405 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
405 406 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
406 407 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
407 408 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
408 409 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
409 410 4.261994 GCTCTCTCTCTCTCTCTCTCTCTC 60.262 54.167 0.00 0.00 0.00 3.20
410 411 3.640967 GCTCTCTCTCTCTCTCTCTCTCT 59.359 52.174 0.00 0.00 0.00 3.10
411 412 3.640967 AGCTCTCTCTCTCTCTCTCTCTC 59.359 52.174 0.00 0.00 0.00 3.20
412 413 3.387374 CAGCTCTCTCTCTCTCTCTCTCT 59.613 52.174 0.00 0.00 0.00 3.10
413 414 3.133721 ACAGCTCTCTCTCTCTCTCTCTC 59.866 52.174 0.00 0.00 0.00 3.20
414 415 3.110705 ACAGCTCTCTCTCTCTCTCTCT 58.889 50.000 0.00 0.00 0.00 3.10
415 416 3.201290 CACAGCTCTCTCTCTCTCTCTC 58.799 54.545 0.00 0.00 0.00 3.20
416 417 2.092753 CCACAGCTCTCTCTCTCTCTCT 60.093 54.545 0.00 0.00 0.00 3.10
417 418 2.292267 CCACAGCTCTCTCTCTCTCTC 58.708 57.143 0.00 0.00 0.00 3.20
418 419 1.635487 ACCACAGCTCTCTCTCTCTCT 59.365 52.381 0.00 0.00 0.00 3.10
419 420 1.745087 CACCACAGCTCTCTCTCTCTC 59.255 57.143 0.00 0.00 0.00 3.20
420 421 1.838112 CACCACAGCTCTCTCTCTCT 58.162 55.000 0.00 0.00 0.00 3.10
421 422 0.173255 GCACCACAGCTCTCTCTCTC 59.827 60.000 0.00 0.00 0.00 3.20
422 423 1.257055 GGCACCACAGCTCTCTCTCT 61.257 60.000 0.00 0.00 34.17 3.10
423 424 1.217779 GGCACCACAGCTCTCTCTC 59.782 63.158 0.00 0.00 34.17 3.20
424 425 0.835543 AAGGCACCACAGCTCTCTCT 60.836 55.000 0.00 0.00 34.17 3.10
425 426 0.036022 AAAGGCACCACAGCTCTCTC 59.964 55.000 0.00 0.00 34.17 3.20
426 427 0.475906 AAAAGGCACCACAGCTCTCT 59.524 50.000 0.00 0.00 34.17 3.10
427 428 0.595095 CAAAAGGCACCACAGCTCTC 59.405 55.000 0.00 0.00 34.17 3.20
428 429 1.458639 GCAAAAGGCACCACAGCTCT 61.459 55.000 0.00 0.00 43.97 4.09
471 472 4.701956 ATTTTCCTCAACCATGTAAGCG 57.298 40.909 0.00 0.00 0.00 4.68
517 518 2.159382 CGGAAACCACCTAACTTGCAT 58.841 47.619 0.00 0.00 0.00 3.96
564 565 3.117813 AGCTACTCTAGTCGGACAGGATT 60.118 47.826 11.27 4.96 0.00 3.01
573 574 1.268352 GGCCATGAGCTACTCTAGTCG 59.732 57.143 0.00 0.00 43.05 4.18
655 701 7.607607 GGGCTTAAATCAAATTTCTGGTTCAAT 59.392 33.333 0.00 0.00 33.82 2.57
718 764 1.488393 GGCTGTAATCTTCCTCCTGCT 59.512 52.381 0.00 0.00 0.00 4.24
896 943 7.010160 TGATCCCTTTTCACAAAATAGACCTT 58.990 34.615 0.00 0.00 0.00 3.50
1008 1893 2.224744 TGGATGTAGTTCAAGCCAAGCA 60.225 45.455 0.00 0.00 33.66 3.91
1115 2038 1.254975 ACGGACACCATGGATGACGA 61.255 55.000 21.47 0.00 0.00 4.20
1155 2078 4.760047 CCCTCCGTCAAGTGGCCG 62.760 72.222 0.00 0.00 0.00 6.13
1158 2081 3.316573 GAGGCCCTCCGTCAAGTGG 62.317 68.421 0.00 0.00 37.47 4.00
1730 2674 2.429930 CTTTGGGGTGGTCTGCGA 59.570 61.111 0.00 0.00 0.00 5.10
1741 6969 2.054453 GGCTGCCCTTAGCTTTGGG 61.054 63.158 16.75 16.75 46.00 4.12
1923 7154 2.074729 CCTCCTCGAGGTAGGTGAAT 57.925 55.000 30.17 0.00 44.25 2.57
2005 7236 2.431260 GCCGGACGTAGCGTTCAA 60.431 61.111 5.05 0.00 41.37 2.69
2228 7470 2.630098 CCATGGATGTCGTAGGTCATCT 59.370 50.000 5.56 1.98 38.50 2.90
2408 7707 2.740447 GACGGTTGTTACATTCCACCTC 59.260 50.000 2.96 0.00 0.00 3.85
2422 7725 2.029743 CAACACCCAAGGACGGTTG 58.970 57.895 0.00 0.00 33.73 3.77
2425 7728 0.250553 TAAGCAACACCCAAGGACGG 60.251 55.000 0.00 0.00 0.00 4.79
2447 7750 6.833416 AGTAGTACTTCTCTGAGCAATCTGAT 59.167 38.462 0.00 0.00 0.00 2.90
2524 7827 8.295288 AGCATTGCAATTTAATAGAGTGATAGC 58.705 33.333 9.83 4.21 0.00 2.97
2567 7870 2.279918 GGTCACACCGCTCGTTGT 60.280 61.111 0.00 0.00 0.00 3.32
2597 7900 4.139786 CACATGGCAAATGTATCTAGCCT 58.860 43.478 4.14 0.00 45.42 4.58
2607 7910 4.255833 ACCTAACAACACATGGCAAATG 57.744 40.909 0.00 0.00 0.00 2.32
2610 7913 6.412362 AATAAACCTAACAACACATGGCAA 57.588 33.333 0.00 0.00 0.00 4.52
2643 7946 9.817809 GACATTTCATCTTCTACCTAACACATA 57.182 33.333 0.00 0.00 0.00 2.29
2704 8007 3.426787 TCCGTGGTGTATTTTGTCCAT 57.573 42.857 0.00 0.00 32.45 3.41
2752 9030 6.419484 TCCCTGTACCAATGTATCATACAG 57.581 41.667 3.38 0.00 42.77 2.74
2772 9050 3.535561 CACAACCACTCTATGTCATCCC 58.464 50.000 0.00 0.00 0.00 3.85
2773 9051 2.939103 GCACAACCACTCTATGTCATCC 59.061 50.000 0.00 0.00 0.00 3.51
2774 9052 2.604914 CGCACAACCACTCTATGTCATC 59.395 50.000 0.00 0.00 0.00 2.92
2794 9074 1.337635 GCATGAGAAGCTAGGGATCCG 60.338 57.143 5.45 0.00 0.00 4.18
2797 9077 3.939740 TTTGCATGAGAAGCTAGGGAT 57.060 42.857 0.00 0.00 0.00 3.85
2826 9106 5.072741 TGGAGCAGAGAAAACTAAAGCAAT 58.927 37.500 0.00 0.00 0.00 3.56
2845 9125 6.774656 ACTTAAATAGCCCATGAGAAATGGAG 59.225 38.462 5.93 0.00 41.64 3.86
2977 9462 2.355115 GGCGGGTGGAGGAACATT 59.645 61.111 0.00 0.00 0.00 2.71
2978 9463 3.728373 GGGCGGGTGGAGGAACAT 61.728 66.667 0.00 0.00 0.00 2.71
3049 9534 1.199615 TGGACAATCGGTGGAGCATA 58.800 50.000 0.00 0.00 0.00 3.14
3149 9634 7.893124 AGATGAGCATAATGAACAAGGAAAT 57.107 32.000 0.00 0.00 0.00 2.17
3155 9640 5.884232 AGAGCAAGATGAGCATAATGAACAA 59.116 36.000 0.00 0.00 0.00 2.83
3381 9866 7.698550 CCACAATTCGTCTCCTATTCGATATAG 59.301 40.741 0.00 0.00 33.72 1.31
3421 9906 7.339466 GGACATGACCCTTCAATTTTGTACTAT 59.661 37.037 0.00 0.00 34.61 2.12
3424 9909 5.242838 TGGACATGACCCTTCAATTTTGTAC 59.757 40.000 11.80 0.00 34.61 2.90
3442 9927 3.795688 ACTCCTTTGTGTCATGGACAT 57.204 42.857 2.02 0.00 44.63 3.06
3468 9953 7.929245 TCTCATATGTTATACGCTAGCCAAAAA 59.071 33.333 9.66 0.00 0.00 1.94
3469 9954 7.384115 GTCTCATATGTTATACGCTAGCCAAAA 59.616 37.037 9.66 0.00 0.00 2.44
3470 9955 6.866770 GTCTCATATGTTATACGCTAGCCAAA 59.133 38.462 9.66 0.00 0.00 3.28
3471 9956 6.015772 TGTCTCATATGTTATACGCTAGCCAA 60.016 38.462 9.66 0.00 0.00 4.52
3472 9957 5.475564 TGTCTCATATGTTATACGCTAGCCA 59.524 40.000 9.66 0.00 0.00 4.75
3473 9958 5.950883 TGTCTCATATGTTATACGCTAGCC 58.049 41.667 9.66 0.00 0.00 3.93
3474 9959 7.219154 GTCATGTCTCATATGTTATACGCTAGC 59.781 40.741 4.06 4.06 0.00 3.42
3475 9960 7.698550 GGTCATGTCTCATATGTTATACGCTAG 59.301 40.741 1.90 0.00 0.00 3.42
3476 9961 7.175990 TGGTCATGTCTCATATGTTATACGCTA 59.824 37.037 1.90 0.00 0.00 4.26
3477 9962 6.015434 TGGTCATGTCTCATATGTTATACGCT 60.015 38.462 1.90 0.00 0.00 5.07
3478 9963 6.089551 GTGGTCATGTCTCATATGTTATACGC 59.910 42.308 1.90 0.00 0.00 4.42
3479 9964 6.305638 CGTGGTCATGTCTCATATGTTATACG 59.694 42.308 1.90 0.00 0.00 3.06
3480 9965 6.586463 CCGTGGTCATGTCTCATATGTTATAC 59.414 42.308 1.90 0.00 0.00 1.47
3481 9966 6.492087 TCCGTGGTCATGTCTCATATGTTATA 59.508 38.462 1.90 0.00 0.00 0.98
3482 9967 5.304357 TCCGTGGTCATGTCTCATATGTTAT 59.696 40.000 1.90 0.00 0.00 1.89
3483 9968 4.647399 TCCGTGGTCATGTCTCATATGTTA 59.353 41.667 1.90 0.00 0.00 2.41
3484 9969 3.450817 TCCGTGGTCATGTCTCATATGTT 59.549 43.478 1.90 0.00 0.00 2.71
3485 9970 3.031013 TCCGTGGTCATGTCTCATATGT 58.969 45.455 1.90 0.00 0.00 2.29
3486 9971 3.733443 TCCGTGGTCATGTCTCATATG 57.267 47.619 0.00 0.00 0.00 1.78
3487 9972 5.105187 CCATATCCGTGGTCATGTCTCATAT 60.105 44.000 0.00 0.00 34.46 1.78
3488 9973 4.220602 CCATATCCGTGGTCATGTCTCATA 59.779 45.833 0.00 0.00 34.46 2.15
3489 9974 3.007290 CCATATCCGTGGTCATGTCTCAT 59.993 47.826 0.00 0.00 34.46 2.90
3490 9975 2.365293 CCATATCCGTGGTCATGTCTCA 59.635 50.000 0.00 0.00 34.46 3.27
3491 9976 2.868044 GCCATATCCGTGGTCATGTCTC 60.868 54.545 0.00 0.00 41.47 3.36
3492 9977 1.070758 GCCATATCCGTGGTCATGTCT 59.929 52.381 0.00 0.00 41.47 3.41
3493 9978 1.512926 GCCATATCCGTGGTCATGTC 58.487 55.000 0.00 0.00 41.47 3.06
3494 9979 0.108585 GGCCATATCCGTGGTCATGT 59.891 55.000 0.00 0.00 43.43 3.21
3495 9980 0.397941 AGGCCATATCCGTGGTCATG 59.602 55.000 5.01 0.00 46.40 3.07
3496 9981 0.687354 GAGGCCATATCCGTGGTCAT 59.313 55.000 5.01 0.00 46.40 3.06
3497 9982 1.407656 GGAGGCCATATCCGTGGTCA 61.408 60.000 5.01 0.00 46.40 4.02
3498 9983 1.371558 GGAGGCCATATCCGTGGTC 59.628 63.158 5.01 0.00 44.30 4.02
3499 9984 2.147387 GGGAGGCCATATCCGTGGT 61.147 63.158 5.01 0.00 41.47 4.16
3500 9985 0.544357 TAGGGAGGCCATATCCGTGG 60.544 60.000 13.50 0.00 42.35 4.94
3501 9986 1.573108 ATAGGGAGGCCATATCCGTG 58.427 55.000 13.50 0.00 37.75 4.94
3502 9987 2.315155 ACTATAGGGAGGCCATATCCGT 59.685 50.000 5.01 7.82 37.75 4.69
3503 9988 3.033659 ACTATAGGGAGGCCATATCCG 57.966 52.381 5.01 0.00 37.75 4.18
3504 9989 5.364157 CACTTACTATAGGGAGGCCATATCC 59.636 48.000 5.01 2.48 32.50 2.59
3505 9990 6.195700 TCACTTACTATAGGGAGGCCATATC 58.804 44.000 5.01 0.00 32.50 1.63
3506 9991 6.167061 TCACTTACTATAGGGAGGCCATAT 57.833 41.667 5.01 0.00 34.70 1.78
3507 9992 5.610429 TCACTTACTATAGGGAGGCCATA 57.390 43.478 5.01 0.00 0.00 2.74
3508 9993 4.487282 TCACTTACTATAGGGAGGCCAT 57.513 45.455 5.01 0.00 0.00 4.40
3509 9994 3.985553 TCACTTACTATAGGGAGGCCA 57.014 47.619 5.01 0.00 0.00 5.36
3510 9995 4.221041 GTGATCACTTACTATAGGGAGGCC 59.779 50.000 18.83 0.00 29.52 5.19
3511 9996 5.081032 AGTGATCACTTACTATAGGGAGGC 58.919 45.833 22.89 0.00 38.83 4.70


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

AutoCloner maintained by Alex Coulton.