Multiple sequence alignment - TraesCS3A01G109000

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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 TraesCS3A01G109000 chr3A 100.000 3438 0 0 1 3438 75020026 75016589 0.000000e+00 6349
1 TraesCS3A01G109000 chr3A 82.005 778 112 17 2667 3438 513751095 513751850 1.350000e-178 636
2 TraesCS3A01G109000 chr3A 77.986 695 110 30 207 868 399031291 399031975 2.490000e-106 396
3 TraesCS3A01G109000 chr3A 90.854 164 13 2 705 868 313372054 313372215 5.780000e-53 219
4 TraesCS3A01G109000 chr3D 95.157 2746 115 12 702 3436 64421574 64418836 0.000000e+00 4318
5 TraesCS3A01G109000 chr3D 77.902 896 121 27 28 853 381771710 381772598 1.430000e-133 486
6 TraesCS3A01G109000 chr3D 78.420 709 110 24 11 681 330760601 330761304 4.100000e-114 422
7 TraesCS3A01G109000 chr3D 88.843 242 16 2 1 241 64431438 64431207 1.560000e-73 287
8 TraesCS3A01G109000 chr3D 85.787 197 24 4 1 195 481633918 481633724 4.500000e-49 206
9 TraesCS3A01G109000 chr5B 83.805 778 108 16 2662 3435 487340624 487339861 0.000000e+00 723
10 TraesCS3A01G109000 chr5D 83.548 778 108 16 2662 3433 421140161 421139398 0.000000e+00 710
11 TraesCS3A01G109000 chr5D 82.216 776 114 19 2663 3435 27486185 27485431 0.000000e+00 647
12 TraesCS3A01G109000 chr5D 78.475 892 119 33 44 868 116144774 116143889 1.830000e-142 516
13 TraesCS3A01G109000 chr5D 79.916 717 104 19 1 681 315127246 315127958 1.110000e-134 490
14 TraesCS3A01G109000 chr5D 80.170 706 95 22 202 868 266201337 266202036 1.430000e-133 486
15 TraesCS3A01G109000 chr1B 83.184 779 113 17 2660 3435 405707891 405708654 0.000000e+00 697
16 TraesCS3A01G109000 chr4D 82.968 775 114 15 2667 3435 66551431 66552193 0.000000e+00 684
17 TraesCS3A01G109000 chr4D 79.161 715 110 22 1 681 254207932 254207223 3.130000e-125 459
18 TraesCS3A01G109000 chr4D 75.498 653 113 35 1 617 86156779 86156138 3.380000e-70 276
19 TraesCS3A01G109000 chr2D 82.642 772 119 13 2667 3435 650961567 650960808 0.000000e+00 669
20 TraesCS3A01G109000 chr2D 81.481 783 123 15 2658 3435 66859947 66860712 1.050000e-174 623
21 TraesCS3A01G109000 chr4B 82.028 779 109 23 2658 3434 537368608 537369357 4.840000e-178 634
22 TraesCS3A01G109000 chr4A 81.806 775 111 21 2662 3434 626719480 626720226 1.050000e-174 623
23 TraesCS3A01G109000 chr4A 85.128 195 28 1 1 195 103008679 103008872 7.530000e-47 198
24 TraesCS3A01G109000 chr6D 81.529 785 117 13 2658 3438 17885235 17885995 3.770000e-174 621
25 TraesCS3A01G109000 chr6D 83.165 594 82 9 2667 3258 465824092 465823515 8.450000e-146 527
26 TraesCS3A01G109000 chr6D 90.854 164 13 2 705 868 363164729 363164568 5.780000e-53 219
27 TraesCS3A01G109000 chr3B 81.596 777 116 18 2667 3438 728815600 728814846 4.870000e-173 617
28 TraesCS3A01G109000 chr3B 90.909 165 12 3 705 868 435275035 435275197 5.780000e-53 219
29 TraesCS3A01G109000 chr3B 90.854 164 14 1 705 868 525000103 524999941 5.780000e-53 219
30 TraesCS3A01G109000 chr6B 79.802 708 111 27 1 681 140369943 140370645 1.430000e-133 486
31 TraesCS3A01G109000 chr6B 90.854 164 12 3 705 868 463186504 463186664 2.080000e-52 217
32 TraesCS3A01G109000 chr2B 79.911 672 97 17 43 681 507440046 507440712 3.130000e-125 459
33 TraesCS3A01G109000 chr2B 79.208 707 104 26 11 681 362051413 362052112 5.230000e-123 451
34 TraesCS3A01G109000 chr2B 89.881 168 14 3 705 872 485817851 485818015 2.690000e-51 213
35 TraesCS3A01G109000 chr5A 77.471 688 124 26 206 868 148934697 148935378 1.940000e-102 383
36 TraesCS3A01G109000 chr7A 72.780 1036 186 55 1284 2259 613025947 613024948 2.630000e-66 263
37 TraesCS3A01G109000 chr7A 87.500 192 23 1 3 193 401911178 401911369 1.610000e-53 220
38 TraesCS3A01G109000 chr1A 87.245 196 23 2 1 195 439567519 439567325 4.470000e-54 222
39 TraesCS3A01G109000 chr7D 90.854 164 13 2 705 868 453600631 453600792 5.780000e-53 219
40 TraesCS3A01G109000 chr7D 85.204 196 28 1 1 195 265082952 265083147 2.090000e-47 200
41 TraesCS3A01G109000 chr7D 85.354 198 24 5 1 195 305363413 305363218 2.090000e-47 200
42 TraesCS3A01G109000 chr2A 80.078 256 40 8 45 291 734135453 734135706 2.730000e-41 180


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 TraesCS3A01G109000 chr3A 75016589 75020026 3437 True 6349 6349 100.000 1 3438 1 chr3A.!!$R1 3437
1 TraesCS3A01G109000 chr3A 513751095 513751850 755 False 636 636 82.005 2667 3438 1 chr3A.!!$F3 771
2 TraesCS3A01G109000 chr3A 399031291 399031975 684 False 396 396 77.986 207 868 1 chr3A.!!$F2 661
3 TraesCS3A01G109000 chr3D 64418836 64421574 2738 True 4318 4318 95.157 702 3436 1 chr3D.!!$R1 2734
4 TraesCS3A01G109000 chr3D 381771710 381772598 888 False 486 486 77.902 28 853 1 chr3D.!!$F2 825
5 TraesCS3A01G109000 chr3D 330760601 330761304 703 False 422 422 78.420 11 681 1 chr3D.!!$F1 670
6 TraesCS3A01G109000 chr5B 487339861 487340624 763 True 723 723 83.805 2662 3435 1 chr5B.!!$R1 773
7 TraesCS3A01G109000 chr5D 421139398 421140161 763 True 710 710 83.548 2662 3433 1 chr5D.!!$R3 771
8 TraesCS3A01G109000 chr5D 27485431 27486185 754 True 647 647 82.216 2663 3435 1 chr5D.!!$R1 772
9 TraesCS3A01G109000 chr5D 116143889 116144774 885 True 516 516 78.475 44 868 1 chr5D.!!$R2 824
10 TraesCS3A01G109000 chr5D 315127246 315127958 712 False 490 490 79.916 1 681 1 chr5D.!!$F2 680
11 TraesCS3A01G109000 chr5D 266201337 266202036 699 False 486 486 80.170 202 868 1 chr5D.!!$F1 666
12 TraesCS3A01G109000 chr1B 405707891 405708654 763 False 697 697 83.184 2660 3435 1 chr1B.!!$F1 775
13 TraesCS3A01G109000 chr4D 66551431 66552193 762 False 684 684 82.968 2667 3435 1 chr4D.!!$F1 768
14 TraesCS3A01G109000 chr4D 254207223 254207932 709 True 459 459 79.161 1 681 1 chr4D.!!$R2 680
15 TraesCS3A01G109000 chr4D 86156138 86156779 641 True 276 276 75.498 1 617 1 chr4D.!!$R1 616
16 TraesCS3A01G109000 chr2D 650960808 650961567 759 True 669 669 82.642 2667 3435 1 chr2D.!!$R1 768
17 TraesCS3A01G109000 chr2D 66859947 66860712 765 False 623 623 81.481 2658 3435 1 chr2D.!!$F1 777
18 TraesCS3A01G109000 chr4B 537368608 537369357 749 False 634 634 82.028 2658 3434 1 chr4B.!!$F1 776
19 TraesCS3A01G109000 chr4A 626719480 626720226 746 False 623 623 81.806 2662 3434 1 chr4A.!!$F2 772
20 TraesCS3A01G109000 chr6D 17885235 17885995 760 False 621 621 81.529 2658 3438 1 chr6D.!!$F1 780
21 TraesCS3A01G109000 chr6D 465823515 465824092 577 True 527 527 83.165 2667 3258 1 chr6D.!!$R2 591
22 TraesCS3A01G109000 chr3B 728814846 728815600 754 True 617 617 81.596 2667 3438 1 chr3B.!!$R2 771
23 TraesCS3A01G109000 chr6B 140369943 140370645 702 False 486 486 79.802 1 681 1 chr6B.!!$F1 680
24 TraesCS3A01G109000 chr2B 507440046 507440712 666 False 459 459 79.911 43 681 1 chr2B.!!$F3 638
25 TraesCS3A01G109000 chr2B 362051413 362052112 699 False 451 451 79.208 11 681 1 chr2B.!!$F1 670
26 TraesCS3A01G109000 chr5A 148934697 148935378 681 False 383 383 77.471 206 868 1 chr5A.!!$F1 662
27 TraesCS3A01G109000 chr7A 613024948 613025947 999 True 263 263 72.780 1284 2259 1 chr7A.!!$R1 975

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
917 1022 0.107214 CAATACCCGCACACATCCCT 60.107 55.0 0.0 0.0 0.0 4.20 F
992 1097 0.185175 ACCACCCTCACCAGGTTTTC 59.815 55.0 0.0 0.0 38.3 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2370 2532 0.179179 GCCATGCTTTCACGAGAAGC 60.179 55.0 12.77 12.77 34.71 3.86 R
2918 3081 0.320771 TCTTCCTTCAAGCGGTCTGC 60.321 55.0 0.00 0.00 46.98 4.26 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
47 50 4.344448 CCAAAAAGTTTCGTAGCGTTTGA 58.656 39.130 8.67 0.00 0.00 2.69
140 147 9.462606 CTGAGTTAATAGGTTAGTCCCAAAAAT 57.537 33.333 0.00 0.00 36.75 1.82
196 203 8.931385 AACATCCAAAATTGACACTATAATGC 57.069 30.769 0.00 0.00 0.00 3.56
198 205 6.130298 TCCAAAATTGACACTATAATGCCG 57.870 37.500 0.00 0.00 0.00 5.69
199 206 5.067153 TCCAAAATTGACACTATAATGCCGG 59.933 40.000 0.00 0.00 0.00 6.13
226 259 1.139058 AGACGTATCAGCATCCCCAAC 59.861 52.381 0.00 0.00 0.00 3.77
235 268 3.011144 TCAGCATCCCCAACCTTAATTCA 59.989 43.478 0.00 0.00 0.00 2.57
249 282 4.635765 CCTTAATTCATGCTCGTCCTCAAA 59.364 41.667 0.00 0.00 0.00 2.69
250 283 5.220739 CCTTAATTCATGCTCGTCCTCAAAG 60.221 44.000 0.00 0.00 0.00 2.77
402 452 3.327757 ACATCAATACTCGGCCATACCAT 59.672 43.478 2.24 0.00 39.03 3.55
418 470 7.230510 GGCCATACCATAAACAATCATGTCTTA 59.769 37.037 0.00 0.00 37.27 2.10
419 471 8.292448 GCCATACCATAAACAATCATGTCTTAG 58.708 37.037 0.00 0.00 39.40 2.18
522 589 1.874019 CGTCGATGACAAGCCGAGG 60.874 63.158 0.00 0.00 32.65 4.63
547 615 9.705290 GGAATTGGTTCATACTTTTTAATGTGT 57.295 29.630 0.00 0.00 36.01 3.72
591 660 6.092122 CACGTAATACATGAGTGTGAACCATT 59.908 38.462 0.00 0.00 39.39 3.16
642 711 7.194112 TGTGGTGATACAGATCAATAAGGAA 57.806 36.000 0.00 0.00 43.77 3.36
693 775 0.678395 ACGGCTATGGAGATGCTCAG 59.322 55.000 0.00 0.00 31.08 3.35
695 777 0.669932 GGCTATGGAGATGCTCAGCG 60.670 60.000 0.00 0.00 30.83 5.18
742 846 9.314321 GCACTAAGAGCTATAAGTGTATGAAAA 57.686 33.333 18.04 0.00 41.11 2.29
770 875 6.653320 TCAAACTGAAAACTAAGTGAGTGTGT 59.347 34.615 0.00 0.00 38.87 3.72
787 892 3.004734 GTGTGTATCCAACTTGCTTGCTT 59.995 43.478 0.00 0.00 0.00 3.91
810 915 8.730680 GCTTATGAAGACCTCAAACATTTAAGA 58.269 33.333 0.00 0.00 37.67 2.10
917 1022 0.107214 CAATACCCGCACACATCCCT 60.107 55.000 0.00 0.00 0.00 4.20
918 1023 0.107214 AATACCCGCACACATCCCTG 60.107 55.000 0.00 0.00 0.00 4.45
925 1030 2.491693 CCGCACACATCCCTGTTTAAAT 59.508 45.455 0.00 0.00 31.62 1.40
934 1039 7.153985 CACATCCCTGTTTAAATTGAATGTGT 58.846 34.615 16.97 6.44 31.62 3.72
941 1046 5.931146 TGTTTAAATTGAATGTGTGGCATCC 59.069 36.000 0.00 0.00 36.67 3.51
961 1066 2.352030 CCAACTACGCTGTAGAAACCGA 60.352 50.000 18.36 0.00 0.00 4.69
982 1087 1.418637 ACGCTAGAAAAACCACCCTCA 59.581 47.619 0.00 0.00 0.00 3.86
987 1092 1.133482 AGAAAAACCACCCTCACCAGG 60.133 52.381 0.00 0.00 39.98 4.45
988 1093 0.634465 AAAAACCACCCTCACCAGGT 59.366 50.000 0.00 0.00 38.30 4.00
989 1094 0.634465 AAAACCACCCTCACCAGGTT 59.366 50.000 0.00 0.00 45.73 3.50
990 1095 0.634465 AAACCACCCTCACCAGGTTT 59.366 50.000 0.00 0.00 46.43 3.27
991 1096 0.634465 AACCACCCTCACCAGGTTTT 59.366 50.000 0.00 0.00 41.33 2.43
992 1097 0.185175 ACCACCCTCACCAGGTTTTC 59.815 55.000 0.00 0.00 38.30 2.29
1033 1147 3.062774 GCGGTAGAAACTGAGAAGCATTC 59.937 47.826 0.00 0.00 37.68 2.67
1120 1234 2.547218 GGTAGACACGGCAGAGTTTTCA 60.547 50.000 0.00 0.00 0.00 2.69
1129 1243 3.335579 GGCAGAGTTTTCAACCGTAGAT 58.664 45.455 0.00 0.00 0.00 1.98
1273 1387 1.298667 GGCAACTTCCCTCGGCTAA 59.701 57.895 0.00 0.00 0.00 3.09
1457 1586 2.264794 GGACCTCGACGTTGCCAT 59.735 61.111 0.00 0.00 0.00 4.40
1470 1599 1.326548 GTTGCCATGGACGATAACGAC 59.673 52.381 18.40 1.62 42.66 4.34
1803 1956 0.620700 ACCTAAGCGTCCTCCCCATT 60.621 55.000 0.00 0.00 0.00 3.16
2287 2449 3.339042 CCATGGGCAGGGAGATGT 58.661 61.111 2.85 0.00 33.27 3.06
2510 2672 4.036518 AGGACCTTCTGTGATGAGCTTAT 58.963 43.478 0.00 0.00 0.00 1.73
2594 2756 8.680001 TGATTCCTTGATTTGACAGTATGAATG 58.320 33.333 0.00 0.00 39.69 2.67
2904 3067 3.736100 CGACGCCAGCAATTGCCA 61.736 61.111 26.45 0.00 43.38 4.92
2918 3081 4.368315 CAATTGCCATGGACATGAAGATG 58.632 43.478 18.40 0.00 41.20 2.90
2938 3101 1.677217 GCAGACCGCTTGAAGGAAGAT 60.677 52.381 0.00 0.00 37.77 2.40
3000 3163 3.936535 GGAGACCACTACCTCCCG 58.063 66.667 0.00 0.00 42.35 5.14
3070 3234 2.669569 CCGACACACAAGGCAGGG 60.670 66.667 0.00 0.00 0.00 4.45
3095 3259 0.690192 TGAAAGATGCGAAGGACCCA 59.310 50.000 0.00 0.00 0.00 4.51
3096 3260 1.087501 GAAAGATGCGAAGGACCCAC 58.912 55.000 0.00 0.00 0.00 4.61
3097 3261 0.400213 AAAGATGCGAAGGACCCACA 59.600 50.000 0.00 0.00 0.00 4.17
3098 3262 0.321653 AAGATGCGAAGGACCCACAC 60.322 55.000 0.00 0.00 0.00 3.82
3099 3263 1.003839 GATGCGAAGGACCCACACA 60.004 57.895 0.00 0.00 0.00 3.72
3100 3264 1.298859 GATGCGAAGGACCCACACAC 61.299 60.000 0.00 0.00 0.00 3.82
3101 3265 2.668550 GCGAAGGACCCACACACC 60.669 66.667 0.00 0.00 0.00 4.16
3102 3266 2.825982 CGAAGGACCCACACACCA 59.174 61.111 0.00 0.00 0.00 4.17
3103 3267 1.597027 CGAAGGACCCACACACCAC 60.597 63.158 0.00 0.00 0.00 4.16
3104 3268 1.228154 GAAGGACCCACACACCACC 60.228 63.158 0.00 0.00 0.00 4.61
3105 3269 1.990160 GAAGGACCCACACACCACCA 61.990 60.000 0.00 0.00 0.00 4.17
3106 3270 2.203294 GGACCCACACACCACCAC 60.203 66.667 0.00 0.00 0.00 4.16
3139 3310 3.970410 CAGCAACCAGGGGAGCCA 61.970 66.667 0.00 0.00 0.00 4.75
3316 3494 1.476477 GGACCTAGAAGCTCGACCTT 58.524 55.000 0.00 0.00 0.00 3.50
3422 3602 3.797353 CCACCCCATCCTCCACGG 61.797 72.222 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 92 4.876107 CCAGTGTCAGTTACTGTTTTCTGT 59.124 41.667 12.41 0.00 43.05 3.41
90 95 3.003378 GCCCAGTGTCAGTTACTGTTTTC 59.997 47.826 12.41 3.09 43.05 2.29
98 105 1.344438 CTCAGTGCCCAGTGTCAGTTA 59.656 52.381 3.28 0.00 33.58 2.24
180 187 4.523083 ACACCGGCATTATAGTGTCAATT 58.477 39.130 0.00 0.00 39.14 2.32
186 193 4.982916 GTCTCTAACACCGGCATTATAGTG 59.017 45.833 0.00 0.00 36.30 2.74
195 202 1.402968 TGATACGTCTCTAACACCGGC 59.597 52.381 0.00 0.00 0.00 6.13
196 203 2.541178 GCTGATACGTCTCTAACACCGG 60.541 54.545 0.00 0.00 0.00 5.28
198 205 3.777465 TGCTGATACGTCTCTAACACC 57.223 47.619 0.00 0.00 0.00 4.16
199 206 4.291783 GGATGCTGATACGTCTCTAACAC 58.708 47.826 0.00 0.00 0.00 3.32
226 259 3.797039 TGAGGACGAGCATGAATTAAGG 58.203 45.455 0.00 0.00 0.00 2.69
394 442 9.559732 TCTAAGACATGATTGTTTATGGTATGG 57.440 33.333 0.00 0.00 35.79 2.74
496 562 3.124636 GGCTTGTCATCGACGTTGTAATT 59.875 43.478 1.96 0.00 34.95 1.40
505 572 0.108804 TTCCTCGGCTTGTCATCGAC 60.109 55.000 0.00 0.00 0.00 4.20
506 573 0.824109 ATTCCTCGGCTTGTCATCGA 59.176 50.000 0.00 0.00 0.00 3.59
564 633 4.794278 TCACACTCATGTATTACGTGGT 57.206 40.909 14.51 9.36 36.72 4.16
609 678 9.685276 TTGATCTGTATCACCACATTCTATTTT 57.315 29.630 0.00 0.00 41.87 1.82
610 679 9.857656 ATTGATCTGTATCACCACATTCTATTT 57.142 29.630 0.00 0.00 41.87 1.40
628 697 9.415544 CCTTTTTGACTTTTCCTTATTGATCTG 57.584 33.333 0.00 0.00 0.00 2.90
642 711 7.606456 TGCGAGACTATATTCCTTTTTGACTTT 59.394 33.333 0.00 0.00 0.00 2.66
657 727 1.529865 CCGTGTCGATGCGAGACTATA 59.470 52.381 13.80 0.00 45.70 1.31
693 775 2.480037 TCCGTTGCATGATATCAATCGC 59.520 45.455 9.99 13.01 34.60 4.58
742 846 6.037610 CACTCACTTAGTTTTCAGTTTGAGCT 59.962 38.462 0.00 0.00 35.76 4.09
770 875 6.094048 GTCTTCATAAGCAAGCAAGTTGGATA 59.906 38.462 4.75 0.00 36.56 2.59
810 915 6.482308 GCTTGTATATTCCGGTGATGTACTTT 59.518 38.462 19.59 0.00 0.00 2.66
881 986 9.968870 GCGGGTATTGTTTTATTATGGAAATAA 57.031 29.630 0.00 0.00 0.00 1.40
886 991 5.886474 TGTGCGGGTATTGTTTTATTATGGA 59.114 36.000 0.00 0.00 0.00 3.41
895 1000 1.816224 GGATGTGTGCGGGTATTGTTT 59.184 47.619 0.00 0.00 0.00 2.83
899 1004 0.107214 CAGGGATGTGTGCGGGTATT 60.107 55.000 0.00 0.00 0.00 1.89
905 1010 3.848272 ATTTAAACAGGGATGTGTGCG 57.152 42.857 0.00 0.00 0.00 5.34
917 1022 5.931146 GGATGCCACACATTCAATTTAAACA 59.069 36.000 0.00 0.00 39.84 2.83
918 1023 5.931146 TGGATGCCACACATTCAATTTAAAC 59.069 36.000 0.00 0.00 41.58 2.01
934 1039 0.899019 TACAGCGTAGTTGGATGCCA 59.101 50.000 0.00 0.00 45.20 4.92
941 1046 2.937591 TCGGTTTCTACAGCGTAGTTG 58.062 47.619 13.06 0.32 46.75 3.16
961 1066 2.158726 TGAGGGTGGTTTTTCTAGCGTT 60.159 45.455 0.00 0.00 0.00 4.84
982 1087 5.163652 CGACTTTCAGAAAAGAAAACCTGGT 60.164 40.000 4.99 0.00 43.90 4.00
987 1092 4.433624 GCGACGACTTTCAGAAAAGAAAAC 59.566 41.667 0.00 0.00 43.90 2.43
988 1093 4.584394 GCGACGACTTTCAGAAAAGAAAA 58.416 39.130 0.00 0.00 43.90 2.29
989 1094 3.302221 CGCGACGACTTTCAGAAAAGAAA 60.302 43.478 0.00 0.00 43.90 2.52
990 1095 2.217847 CGCGACGACTTTCAGAAAAGAA 59.782 45.455 0.00 0.00 43.90 2.52
991 1096 1.784856 CGCGACGACTTTCAGAAAAGA 59.215 47.619 0.00 0.00 43.90 2.52
992 1097 1.718672 GCGCGACGACTTTCAGAAAAG 60.719 52.381 12.10 0.00 46.11 2.27
1038 1152 1.746787 TGGCATGATGACAGTGATTGC 59.253 47.619 0.00 0.00 28.05 3.56
1120 1234 3.631227 CGGAGTAGGAGAAATCTACGGTT 59.369 47.826 0.00 0.00 41.26 4.44
1129 1243 1.888018 CCACGCGGAGTAGGAGAAA 59.112 57.895 12.47 0.00 0.00 2.52
1451 1565 1.647346 GTCGTTATCGTCCATGGCAA 58.353 50.000 6.96 0.00 38.33 4.52
1731 1884 1.878953 AGAAATTGACCACGCGTTCT 58.121 45.000 10.22 4.13 0.00 3.01
1874 2027 1.512310 CACTCGACGACGGAGAAGC 60.512 63.158 7.55 0.00 40.21 3.86
2370 2532 0.179179 GCCATGCTTTCACGAGAAGC 60.179 55.000 12.77 12.77 34.71 3.86
2594 2756 8.622157 GGGATTTAGTAGAATAAACCTCTTTGC 58.378 37.037 0.00 0.00 0.00 3.68
2623 2785 7.936847 CACACCCCAGAAATTAACTATAGCATA 59.063 37.037 0.00 0.00 0.00 3.14
2904 3067 2.744166 CGGTCTGCATCTTCATGTCCAT 60.744 50.000 0.00 0.00 31.86 3.41
2918 3081 0.320771 TCTTCCTTCAAGCGGTCTGC 60.321 55.000 0.00 0.00 46.98 4.26
2938 3101 4.717629 CGAGCGGCGGAGTCAACA 62.718 66.667 9.78 0.00 36.03 3.33
2963 3126 2.595463 TTCAGCAGTGGCCTGTGC 60.595 61.111 19.07 19.07 42.56 4.57
3000 3163 0.605319 TTGGCACGGTCTGGATGAAC 60.605 55.000 0.00 0.00 0.00 3.18
3087 3251 2.004120 TGGTGGTGTGTGGGTCCTT 61.004 57.895 0.00 0.00 0.00 3.36
3089 3253 2.203294 GTGGTGGTGTGTGGGTCC 60.203 66.667 0.00 0.00 0.00 4.46
3092 3256 2.518349 GTGGTGGTGGTGTGTGGG 60.518 66.667 0.00 0.00 0.00 4.61
3095 3259 2.274104 GTGGTGGTGGTGGTGTGT 59.726 61.111 0.00 0.00 0.00 3.72
3096 3260 2.518349 GGTGGTGGTGGTGGTGTG 60.518 66.667 0.00 0.00 0.00 3.82
3097 3261 3.018193 TGGTGGTGGTGGTGGTGT 61.018 61.111 0.00 0.00 0.00 4.16
3098 3262 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
3099 3263 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
3100 3264 3.366406 TTGGTGGTGGTGGTGGTGG 62.366 63.158 0.00 0.00 0.00 4.61
3101 3265 2.124693 GTTGGTGGTGGTGGTGGTG 61.125 63.158 0.00 0.00 0.00 4.17
3102 3266 2.277404 GTTGGTGGTGGTGGTGGT 59.723 61.111 0.00 0.00 0.00 4.16
3103 3267 2.904866 CGTTGGTGGTGGTGGTGG 60.905 66.667 0.00 0.00 0.00 4.61
3104 3268 3.591835 GCGTTGGTGGTGGTGGTG 61.592 66.667 0.00 0.00 0.00 4.17
3105 3269 4.887190 GGCGTTGGTGGTGGTGGT 62.887 66.667 0.00 0.00 0.00 4.16
3106 3270 4.885270 TGGCGTTGGTGGTGGTGG 62.885 66.667 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.