Multiple sequence alignment - TraesCS4D01G095300

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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 TraesCS4D01G095300 chr4D 100.000 3878 0 0 1 3878 70671955 70668078 0.000000e+00 7162.0
1 TraesCS4D01G095300 chr4D 84.766 768 69 23 2779 3538 70661729 70661002 0.000000e+00 726.0
2 TraesCS4D01G095300 chr4B 96.277 2820 89 5 1073 3878 104563991 104561174 0.000000e+00 4612.0
3 TraesCS4D01G095300 chr4B 92.698 315 9 3 575 875 104564849 104564535 3.560000e-120 442.0
4 TraesCS4D01G095300 chr4B 81.854 507 74 15 1 500 379639113 379638618 1.000000e-110 411.0
5 TraesCS4D01G095300 chr4A 97.237 2497 57 3 1022 3518 524404513 524402029 0.000000e+00 4218.0
6 TraesCS4D01G095300 chr4A 86.088 1948 206 40 979 2878 664228735 664230665 0.000000e+00 2036.0
7 TraesCS4D01G095300 chr4A 83.333 798 89 22 1 775 524435081 524434305 0.000000e+00 697.0
8 TraesCS4D01G095300 chr4A 88.693 398 24 11 541 931 524405338 524404955 2.110000e-127 466.0
9 TraesCS4D01G095300 chr7A 86.069 1931 223 35 995 2900 52657867 52655958 0.000000e+00 2034.0
10 TraesCS4D01G095300 chr7D 85.693 1985 202 46 978 2900 49761585 49763549 0.000000e+00 2017.0
11 TraesCS4D01G095300 chr7D 82.341 487 68 15 1 482 385705146 385705619 1.300000e-109 407.0
12 TraesCS4D01G095300 chrUn 74.306 1584 350 47 1332 2878 323954278 323955841 5.500000e-173 617.0
13 TraesCS4D01G095300 chr6A 74.403 1590 338 57 1332 2878 6892540 6890977 5.500000e-173 617.0
14 TraesCS4D01G095300 chr6A 82.330 515 74 14 1 502 435343069 435343579 7.700000e-117 431.0
15 TraesCS4D01G095300 chr6D 74.165 1587 344 53 1332 2878 7211292 7209732 1.990000e-167 599.0
16 TraesCS4D01G095300 chr6D 87.342 395 41 8 1 390 58106936 58107326 9.890000e-121 444.0
17 TraesCS4D01G095300 chr6D 76.141 679 136 23 2213 2878 7194480 7193815 2.230000e-87 333.0
18 TraesCS4D01G095300 chr6D 95.455 44 2 0 3835 3878 18444571 18444528 1.930000e-08 71.3
19 TraesCS4D01G095300 chr5D 83.499 503 73 6 1 500 34809278 34808783 9.820000e-126 460.0
20 TraesCS4D01G095300 chr1D 83.918 485 62 9 1 481 143440129 143439657 2.130000e-122 449.0
21 TraesCS4D01G095300 chr1D 85.151 431 54 8 76 500 252907731 252907305 2.140000e-117 433.0
22 TraesCS4D01G095300 chr7B 82.711 509 73 9 1 502 20038408 20037908 4.600000e-119 438.0
23 TraesCS4D01G095300 chr1B 81.649 485 81 6 1 483 630254875 630255353 2.810000e-106 396.0
24 TraesCS4D01G095300 chr3D 92.063 63 3 2 3817 3878 61234179 61234240 1.920000e-13 87.9
25 TraesCS4D01G095300 chr6B 93.182 44 3 0 3835 3878 41852151 41852194 8.990000e-07 65.8


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 TraesCS4D01G095300 chr4D 70668078 70671955 3877 True 7162 7162 100.0000 1 3878 1 chr4D.!!$R2 3877
1 TraesCS4D01G095300 chr4D 70661002 70661729 727 True 726 726 84.7660 2779 3538 1 chr4D.!!$R1 759
2 TraesCS4D01G095300 chr4B 104561174 104564849 3675 True 2527 4612 94.4875 575 3878 2 chr4B.!!$R2 3303
3 TraesCS4D01G095300 chr4A 524402029 524405338 3309 True 2342 4218 92.9650 541 3518 2 chr4A.!!$R2 2977
4 TraesCS4D01G095300 chr4A 664228735 664230665 1930 False 2036 2036 86.0880 979 2878 1 chr4A.!!$F1 1899
5 TraesCS4D01G095300 chr4A 524434305 524435081 776 True 697 697 83.3330 1 775 1 chr4A.!!$R1 774
6 TraesCS4D01G095300 chr7A 52655958 52657867 1909 True 2034 2034 86.0690 995 2900 1 chr7A.!!$R1 1905
7 TraesCS4D01G095300 chr7D 49761585 49763549 1964 False 2017 2017 85.6930 978 2900 1 chr7D.!!$F1 1922
8 TraesCS4D01G095300 chrUn 323954278 323955841 1563 False 617 617 74.3060 1332 2878 1 chrUn.!!$F1 1546
9 TraesCS4D01G095300 chr6A 6890977 6892540 1563 True 617 617 74.4030 1332 2878 1 chr6A.!!$R1 1546
10 TraesCS4D01G095300 chr6A 435343069 435343579 510 False 431 431 82.3300 1 502 1 chr6A.!!$F1 501
11 TraesCS4D01G095300 chr6D 7209732 7211292 1560 True 599 599 74.1650 1332 2878 1 chr6D.!!$R2 1546
12 TraesCS4D01G095300 chr6D 7193815 7194480 665 True 333 333 76.1410 2213 2878 1 chr6D.!!$R1 665
13 TraesCS4D01G095300 chr7B 20037908 20038408 500 True 438 438 82.7110 1 502 1 chr7B.!!$R1 501

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
461 469 0.105039 GCGGATTTCGGAGTCCTGAT 59.895 55.000 7.77 0.0 39.69 2.90 F
474 482 0.541998 TCCTGATGACACGACTGGGT 60.542 55.000 0.00 0.0 0.00 4.51 F
943 970 0.676782 CACTCACACCCGGGGAAATC 60.677 60.000 27.92 0.0 0.00 2.17 F
944 971 1.077716 CTCACACCCGGGGAAATCC 60.078 63.158 27.92 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1815 2220 0.815734 CGTATCCCGTGAAGGTGTCT 59.184 55.000 0.00 0.0 38.74 3.41 R
2144 2555 1.790043 TGCTTGACGTGTTGTGATACG 59.210 47.619 0.00 0.0 44.67 3.06 R
2760 3228 0.830648 CCGGGCTCCAATCAGAAGTA 59.169 55.000 0.00 0.0 0.00 2.24 R
3297 3779 6.127366 TGGACAATAGAAAATTGGAAGATGGC 60.127 38.462 3.07 0.0 33.56 4.40 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
73 74 1.211969 CGTTGTCGGAGTCCATCGT 59.788 57.895 10.49 0.00 0.00 3.73
108 110 2.887360 GAACACCTAGCGGGCGTA 59.113 61.111 0.00 0.00 39.10 4.42
173 175 2.742372 GGAAAGCTCGCGCAGGAA 60.742 61.111 8.75 0.00 39.10 3.36
175 177 3.354499 GAAAGCTCGCGCAGGAACG 62.354 63.158 8.75 0.00 39.10 3.95
211 213 0.677098 GGCGGAACCCTCTCTTTTCC 60.677 60.000 0.00 0.00 36.24 3.13
215 217 1.003718 AACCCTCTCTTTTCCGGCG 60.004 57.895 0.00 0.00 0.00 6.46
224 226 3.212796 TTTTCCGGCGGGGGAATGT 62.213 57.895 27.98 0.00 45.13 2.71
230 232 1.375326 GGCGGGGGAATGTCCTATC 59.625 63.158 0.00 0.00 36.57 2.08
245 247 1.745320 CTATCTAGCGGCGGTGGGTT 61.745 60.000 23.33 12.45 0.00 4.11
246 248 2.023414 TATCTAGCGGCGGTGGGTTG 62.023 60.000 23.33 6.69 0.00 3.77
284 286 4.530857 CAAGGTAGCGGGAGGGCG 62.531 72.222 0.00 0.00 38.18 6.13
315 317 2.585247 GGGTGCGCGTATCTGGAC 60.585 66.667 8.43 0.00 0.00 4.02
369 371 3.744719 GGCGCGGTTTTCCCTTCC 61.745 66.667 8.83 0.00 36.42 3.46
371 373 2.667199 CGCGGTTTTCCCTTCCGT 60.667 61.111 0.00 0.00 45.11 4.69
373 375 2.674084 GCGGTTTTCCCTTCCGTCG 61.674 63.158 0.00 0.00 45.11 5.12
377 379 0.672711 GTTTTCCCTTCCGTCGGAGG 60.673 60.000 16.15 16.15 31.21 4.30
408 416 4.335647 CTGCACTGGGTTCGGCCT 62.336 66.667 0.00 0.00 37.43 5.19
418 426 3.399181 TTCGGCCTTGGGATCGCT 61.399 61.111 11.46 0.00 0.00 4.93
459 467 1.521681 GGCGGATTTCGGAGTCCTG 60.522 63.158 7.77 0.92 39.69 3.86
460 468 1.515954 GCGGATTTCGGAGTCCTGA 59.484 57.895 7.77 3.56 39.69 3.86
461 469 0.105039 GCGGATTTCGGAGTCCTGAT 59.895 55.000 7.77 0.00 39.69 2.90
462 470 1.858091 CGGATTTCGGAGTCCTGATG 58.142 55.000 7.77 0.00 34.75 3.07
463 471 1.409064 CGGATTTCGGAGTCCTGATGA 59.591 52.381 7.77 0.00 34.75 2.92
465 473 5.292356 CGGATTTCGGAGTCCTGATGACA 62.292 52.174 7.77 0.00 39.83 3.58
474 482 0.541998 TCCTGATGACACGACTGGGT 60.542 55.000 0.00 0.00 0.00 4.51
513 521 3.742983 AAAAAGTGGGCGCGAAAAA 57.257 42.105 12.10 0.00 0.00 1.94
539 548 1.340399 CCTGTGGCCTGGAGATGCTA 61.340 60.000 3.32 0.00 31.55 3.49
553 562 1.273606 GATGCTATTAGAGGGCTGCGA 59.726 52.381 0.00 0.00 0.00 5.10
605 614 0.960364 GCCGTGGTGATGAATGGTGT 60.960 55.000 0.00 0.00 0.00 4.16
644 656 0.966179 TCGTTAGACTGGCTGCAAGA 59.034 50.000 11.82 0.00 34.07 3.02
776 798 2.245546 AGATTGGATTTGGAGCCATGGA 59.754 45.455 18.40 0.00 41.82 3.41
789 811 2.020694 GCCATGGACTTGTGATCCCAG 61.021 57.143 18.40 0.00 35.12 4.45
881 908 1.638589 TGGAAACAGGGGGAAATCGAT 59.361 47.619 0.00 0.00 35.01 3.59
894 921 5.808030 GGGGAAATCGATCGATTAATCTCTC 59.192 44.000 36.17 29.06 43.26 3.20
931 958 2.725641 CCCACGACGTCACTCACA 59.274 61.111 17.16 0.00 0.00 3.58
932 959 1.660575 CCCACGACGTCACTCACAC 60.661 63.158 17.16 0.00 0.00 3.82
933 960 1.660575 CCACGACGTCACTCACACC 60.661 63.158 17.16 0.00 0.00 4.16
934 961 1.660575 CACGACGTCACTCACACCC 60.661 63.158 17.16 0.00 0.00 4.61
935 962 2.428569 CGACGTCACTCACACCCG 60.429 66.667 17.16 0.00 0.00 5.28
936 963 2.049433 GACGTCACTCACACCCGG 60.049 66.667 11.55 0.00 0.00 5.73
937 964 3.569049 GACGTCACTCACACCCGGG 62.569 68.421 22.25 22.25 0.00 5.73
938 965 4.373116 CGTCACTCACACCCGGGG 62.373 72.222 27.92 16.65 0.00 5.73
939 966 2.920912 GTCACTCACACCCGGGGA 60.921 66.667 27.92 11.96 0.00 4.81
940 967 2.122769 TCACTCACACCCGGGGAA 60.123 61.111 27.92 5.77 0.00 3.97
941 968 1.766864 TCACTCACACCCGGGGAAA 60.767 57.895 27.92 6.17 0.00 3.13
942 969 1.131303 TCACTCACACCCGGGGAAAT 61.131 55.000 27.92 0.00 0.00 2.17
943 970 0.676782 CACTCACACCCGGGGAAATC 60.677 60.000 27.92 0.00 0.00 2.17
944 971 1.077716 CTCACACCCGGGGAAATCC 60.078 63.158 27.92 0.00 0.00 3.01
963 990 4.354943 CCCCACCCTCACTCCCCT 62.355 72.222 0.00 0.00 0.00 4.79
964 991 2.689034 CCCACCCTCACTCCCCTC 60.689 72.222 0.00 0.00 0.00 4.30
965 992 2.689034 CCACCCTCACTCCCCTCC 60.689 72.222 0.00 0.00 0.00 4.30
966 993 2.689034 CACCCTCACTCCCCTCCC 60.689 72.222 0.00 0.00 0.00 4.30
967 994 4.026357 ACCCTCACTCCCCTCCCC 62.026 72.222 0.00 0.00 0.00 4.81
968 995 4.024984 CCCTCACTCCCCTCCCCA 62.025 72.222 0.00 0.00 0.00 4.96
969 996 2.689034 CCTCACTCCCCTCCCCAC 60.689 72.222 0.00 0.00 0.00 4.61
970 997 2.452114 CTCACTCCCCTCCCCACT 59.548 66.667 0.00 0.00 0.00 4.00
971 998 1.992277 CTCACTCCCCTCCCCACTG 60.992 68.421 0.00 0.00 0.00 3.66
972 999 2.203998 CACTCCCCTCCCCACTGT 60.204 66.667 0.00 0.00 0.00 3.55
973 1000 2.122954 ACTCCCCTCCCCACTGTC 59.877 66.667 0.00 0.00 0.00 3.51
974 1001 2.452114 CTCCCCTCCCCACTGTCT 59.548 66.667 0.00 0.00 0.00 3.41
975 1002 1.687493 CTCCCCTCCCCACTGTCTC 60.687 68.421 0.00 0.00 0.00 3.36
976 1003 2.689034 CCCCTCCCCACTGTCTCC 60.689 72.222 0.00 0.00 0.00 3.71
986 1013 2.231380 ACTGTCTCCGCCCCCAAAT 61.231 57.895 0.00 0.00 0.00 2.32
991 1018 2.612430 TCCGCCCCCAAATCTCCA 60.612 61.111 0.00 0.00 0.00 3.86
992 1019 2.440247 CCGCCCCCAAATCTCCAC 60.440 66.667 0.00 0.00 0.00 4.02
1008 1039 1.380380 CACCCCTCCAATGGCTTCC 60.380 63.158 0.00 0.00 0.00 3.46
1012 1043 1.699752 CCTCCAATGGCTTCCCCTT 59.300 57.895 0.00 0.00 0.00 3.95
1038 1416 2.348998 GTCCTCACCACCCAGCTG 59.651 66.667 6.78 6.78 0.00 4.24
1290 1671 1.449956 CTCCAAGGCTGCTCTGCTC 60.450 63.158 0.00 0.00 0.00 4.26
1575 1980 4.452733 GGGTCGGGCTCCTTCACG 62.453 72.222 0.00 0.00 0.00 4.35
1737 2142 2.925170 AACAGCCTGCGGGAGACT 60.925 61.111 18.31 0.00 33.58 3.24
2012 2423 4.208686 GAGCTACGGTGGCTCGGG 62.209 72.222 27.01 0.00 45.01 5.14
2144 2555 2.464459 CCGGCATCGACTTCAAGGC 61.464 63.158 0.00 0.00 39.00 4.35
2595 3048 2.040544 GGGCAATGTCACCGGAGTG 61.041 63.158 9.46 0.00 46.00 3.51
2637 3096 1.487976 CCTGTATCATGCCACCAGAGT 59.512 52.381 0.00 0.00 0.00 3.24
2760 3228 0.994247 TGGCCATCTGTCACCTTGAT 59.006 50.000 0.00 0.00 0.00 2.57
3297 3779 3.348647 TTGGGTCATGTCCTGTATGTG 57.651 47.619 8.93 0.00 0.00 3.21
3519 4004 1.635487 CTGGGAATCTTGGGGAAGTGA 59.365 52.381 0.00 0.00 0.00 3.41
3643 4162 4.560856 GCGCGTGCTCCTCGATCT 62.561 66.667 15.02 0.00 38.39 2.75
3654 4173 1.395826 CCTCGATCTGGGTCTCCACC 61.396 65.000 0.00 0.00 42.90 4.61
3679 4198 0.034186 TTGGATTGCTTCCTGGCGAT 60.034 50.000 7.63 0.00 45.68 4.58
3708 4227 2.399611 GCGGCGATGTTGTAGCAC 59.600 61.111 12.98 0.00 0.00 4.40
3719 4238 2.193248 GTAGCACCATGGAGGGCC 59.807 66.667 21.47 0.00 43.89 5.80
3734 4253 2.343758 GCCTGTTCTCCTGCACGA 59.656 61.111 0.00 0.00 0.00 4.35
3747 4266 1.003839 GCACGAGGTGGATGTGGAA 60.004 57.895 0.00 0.00 33.64 3.53
3791 4310 1.241315 CCGGATTTGGCTTTCGTGGT 61.241 55.000 0.00 0.00 0.00 4.16
3800 4319 1.372004 CTTTCGTGGTCGGCGTGTA 60.372 57.895 6.85 0.00 37.69 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 0.526211 CTCAACGATGGACTCCGACA 59.474 55.000 0.00 0.00 0.00 4.35
73 74 0.320334 TCGGCGATTTGTCTGCTCAA 60.320 50.000 4.99 0.00 0.00 3.02
169 171 1.995626 CATCCTCCACCCCGTTCCT 60.996 63.158 0.00 0.00 0.00 3.36
192 194 0.677098 GGAAAAGAGAGGGTTCCGCC 60.677 60.000 0.00 0.00 32.03 6.13
199 201 2.125106 CCGCCGGAAAAGAGAGGG 60.125 66.667 5.05 0.00 0.00 4.30
211 213 2.450479 GATAGGACATTCCCCCGCCG 62.450 65.000 0.00 0.00 37.19 6.46
215 217 1.550976 CGCTAGATAGGACATTCCCCC 59.449 57.143 0.00 0.00 37.19 5.40
224 226 1.901948 CCACCGCCGCTAGATAGGA 60.902 63.158 0.00 0.00 0.00 2.94
264 266 4.530857 CCTCCCGCTACCTTGCCG 62.531 72.222 0.00 0.00 0.00 5.69
265 267 4.176752 CCCTCCCGCTACCTTGCC 62.177 72.222 0.00 0.00 0.00 4.52
297 299 3.845259 TCCAGATACGCGCACCCC 61.845 66.667 5.73 0.00 0.00 4.95
299 301 2.954868 CGTCCAGATACGCGCACC 60.955 66.667 5.73 0.00 35.87 5.01
300 302 2.202570 ACGTCCAGATACGCGCAC 60.203 61.111 5.73 0.00 46.71 5.34
301 303 2.202557 CACGTCCAGATACGCGCA 60.203 61.111 5.73 0.00 46.71 6.09
302 304 3.617538 GCACGTCCAGATACGCGC 61.618 66.667 5.73 0.00 46.71 6.86
303 305 1.742900 CTTGCACGTCCAGATACGCG 61.743 60.000 3.53 3.53 46.71 6.01
304 306 0.457853 TCTTGCACGTCCAGATACGC 60.458 55.000 0.00 0.00 46.71 4.42
305 307 3.921729 GCATCTTGCACGTCCAGATACG 61.922 54.545 0.00 0.00 44.26 3.06
306 308 1.594862 GCATCTTGCACGTCCAGATAC 59.405 52.381 0.00 0.00 44.26 2.24
307 309 1.939974 GCATCTTGCACGTCCAGATA 58.060 50.000 0.00 0.00 44.26 1.98
327 329 1.238439 CACCACTGTCAGGCGAAAAT 58.762 50.000 4.53 0.00 0.00 1.82
388 390 2.669569 CCGAACCCAGTGCAGTGG 60.670 66.667 30.55 30.55 37.34 4.00
390 392 4.643387 GGCCGAACCCAGTGCAGT 62.643 66.667 0.00 0.00 0.00 4.40
392 394 3.884774 AAGGCCGAACCCAGTGCA 61.885 61.111 0.00 0.00 40.58 4.57
393 395 3.365265 CAAGGCCGAACCCAGTGC 61.365 66.667 0.00 0.00 40.58 4.40
396 398 2.893682 GATCCCAAGGCCGAACCCAG 62.894 65.000 0.00 0.00 40.58 4.45
408 416 2.721803 TTTTGGCCCAGCGATCCCAA 62.722 55.000 0.00 0.00 35.68 4.12
442 450 0.105039 ATCAGGACTCCGAAATCCGC 59.895 55.000 0.00 0.00 40.20 5.54
443 451 1.409064 TCATCAGGACTCCGAAATCCG 59.591 52.381 0.00 0.00 40.20 4.18
510 518 3.443588 GCCACAGGCCGACTTTTT 58.556 55.556 0.00 0.00 44.06 1.94
520 528 1.340399 TAGCATCTCCAGGCCACAGG 61.340 60.000 5.01 3.60 0.00 4.00
521 529 0.763652 ATAGCATCTCCAGGCCACAG 59.236 55.000 5.01 0.00 0.00 3.66
522 530 1.216064 AATAGCATCTCCAGGCCACA 58.784 50.000 5.01 0.00 0.00 4.17
524 532 2.902486 CTCTAATAGCATCTCCAGGCCA 59.098 50.000 5.01 0.00 0.00 5.36
525 533 2.235898 CCTCTAATAGCATCTCCAGGCC 59.764 54.545 0.00 0.00 0.00 5.19
526 534 2.235898 CCCTCTAATAGCATCTCCAGGC 59.764 54.545 0.00 0.00 0.00 4.85
527 535 2.235898 GCCCTCTAATAGCATCTCCAGG 59.764 54.545 0.00 0.00 0.00 4.45
528 536 3.055963 CAGCCCTCTAATAGCATCTCCAG 60.056 52.174 0.00 0.00 0.00 3.86
539 548 0.179108 GTCGTTCGCAGCCCTCTAAT 60.179 55.000 0.00 0.00 0.00 1.73
605 614 4.680237 CGCCGACCTGCCTTGTCA 62.680 66.667 0.00 0.00 32.91 3.58
651 663 4.021925 AGCGGTTGTCCTGCCTCC 62.022 66.667 0.00 0.00 35.18 4.30
704 726 2.124983 CCGCTGGAGGGACATGTG 60.125 66.667 1.15 0.00 0.00 3.21
776 798 0.898320 CGTCTCCTGGGATCACAAGT 59.102 55.000 0.00 0.00 0.00 3.16
789 811 2.408241 CCTCCGTGACCTCGTCTCC 61.408 68.421 0.00 0.00 33.15 3.71
881 908 4.153411 GGAGGGGAAGAGAGATTAATCGA 58.847 47.826 9.78 0.00 0.00 3.59
894 921 1.622442 TGGGGGATTGGAGGGGAAG 60.622 63.158 0.00 0.00 0.00 3.46
946 973 4.354943 AGGGGAGTGAGGGTGGGG 62.355 72.222 0.00 0.00 0.00 4.96
947 974 2.689034 GAGGGGAGTGAGGGTGGG 60.689 72.222 0.00 0.00 0.00 4.61
948 975 2.689034 GGAGGGGAGTGAGGGTGG 60.689 72.222 0.00 0.00 0.00 4.61
949 976 2.689034 GGGAGGGGAGTGAGGGTG 60.689 72.222 0.00 0.00 0.00 4.61
950 977 4.026357 GGGGAGGGGAGTGAGGGT 62.026 72.222 0.00 0.00 0.00 4.34
951 978 4.024984 TGGGGAGGGGAGTGAGGG 62.025 72.222 0.00 0.00 0.00 4.30
952 979 2.689034 GTGGGGAGGGGAGTGAGG 60.689 72.222 0.00 0.00 0.00 3.86
953 980 1.992277 CAGTGGGGAGGGGAGTGAG 60.992 68.421 0.00 0.00 0.00 3.51
954 981 2.122729 CAGTGGGGAGGGGAGTGA 59.877 66.667 0.00 0.00 0.00 3.41
955 982 2.203998 ACAGTGGGGAGGGGAGTG 60.204 66.667 0.00 0.00 0.00 3.51
956 983 2.122954 GACAGTGGGGAGGGGAGT 59.877 66.667 0.00 0.00 0.00 3.85
957 984 1.687493 GAGACAGTGGGGAGGGGAG 60.687 68.421 0.00 0.00 0.00 4.30
958 985 2.450243 GAGACAGTGGGGAGGGGA 59.550 66.667 0.00 0.00 0.00 4.81
959 986 2.689034 GGAGACAGTGGGGAGGGG 60.689 72.222 0.00 0.00 0.00 4.79
960 987 3.077556 CGGAGACAGTGGGGAGGG 61.078 72.222 0.00 0.00 0.00 4.30
961 988 3.775654 GCGGAGACAGTGGGGAGG 61.776 72.222 0.00 0.00 0.00 4.30
962 989 3.775654 GGCGGAGACAGTGGGGAG 61.776 72.222 0.00 0.00 31.66 4.30
967 994 2.484287 ATTTGGGGGCGGAGACAGTG 62.484 60.000 0.00 0.00 37.00 3.66
968 995 2.198304 GATTTGGGGGCGGAGACAGT 62.198 60.000 0.00 0.00 37.00 3.55
969 996 1.452108 GATTTGGGGGCGGAGACAG 60.452 63.158 0.00 0.00 37.00 3.51
970 997 1.910580 GAGATTTGGGGGCGGAGACA 61.911 60.000 0.00 0.00 37.00 3.41
971 998 1.153147 GAGATTTGGGGGCGGAGAC 60.153 63.158 0.00 0.00 0.00 3.36
972 999 2.375345 GGAGATTTGGGGGCGGAGA 61.375 63.158 0.00 0.00 0.00 3.71
973 1000 2.193248 GGAGATTTGGGGGCGGAG 59.807 66.667 0.00 0.00 0.00 4.63
974 1001 2.612430 TGGAGATTTGGGGGCGGA 60.612 61.111 0.00 0.00 0.00 5.54
975 1002 2.440247 GTGGAGATTTGGGGGCGG 60.440 66.667 0.00 0.00 0.00 6.13
976 1003 2.440247 GGTGGAGATTTGGGGGCG 60.440 66.667 0.00 0.00 0.00 6.13
986 1013 2.308722 GCCATTGGAGGGGTGGAGA 61.309 63.158 6.95 0.00 34.94 3.71
991 1018 2.626467 GGGAAGCCATTGGAGGGGT 61.626 63.158 6.95 0.00 37.86 4.95
992 1019 2.280079 GGGAAGCCATTGGAGGGG 59.720 66.667 6.95 0.00 0.00 4.79
1027 1405 3.325753 GAGGAGCAGCTGGGTGGT 61.326 66.667 17.12 4.15 0.00 4.16
1038 1416 1.457455 CAGGAGGAGGAGGAGGAGC 60.457 68.421 0.00 0.00 0.00 4.70
1290 1671 1.153489 CACATCAGAGGACGGGCAG 60.153 63.158 0.00 0.00 0.00 4.85
1815 2220 0.815734 CGTATCCCGTGAAGGTGTCT 59.184 55.000 0.00 0.00 38.74 3.41
2131 2542 2.165641 TGTGATACGCCTTGAAGTCGAT 59.834 45.455 1.56 0.00 0.00 3.59
2144 2555 1.790043 TGCTTGACGTGTTGTGATACG 59.210 47.619 0.00 0.00 44.67 3.06
2204 2645 2.435805 TCTGGAGACCACTTCATATGCC 59.564 50.000 0.00 0.00 30.47 4.40
2595 3048 3.660111 GTCACCTTGCCACCGTGC 61.660 66.667 0.00 0.00 0.00 5.34
2760 3228 0.830648 CCGGGCTCCAATCAGAAGTA 59.169 55.000 0.00 0.00 0.00 2.24
3297 3779 6.127366 TGGACAATAGAAAATTGGAAGATGGC 60.127 38.462 3.07 0.00 33.56 4.40
3519 4004 2.554032 CTCGTTGCAAATTCAAGAGGGT 59.446 45.455 0.00 0.00 0.00 4.34
3571 4056 3.827898 GGAGCTCCTCCGTCACCG 61.828 72.222 26.25 0.00 41.08 4.94
3634 4153 0.395862 GTGGAGACCCAGATCGAGGA 60.396 60.000 10.67 0.00 44.55 3.71
3700 4219 1.302949 GCCCTCCATGGTGCTACAA 59.697 57.895 12.58 0.00 0.00 2.41
3701 4220 2.679342 GGCCCTCCATGGTGCTACA 61.679 63.158 12.58 0.00 34.05 2.74
3708 4227 1.225704 GAGAACAGGCCCTCCATGG 59.774 63.158 4.97 4.97 33.74 3.66
3734 4253 1.542375 AGCCCTTCCACATCCACCT 60.542 57.895 0.00 0.00 0.00 4.00
3747 4266 4.954118 TGACCGTGGACCAGCCCT 62.954 66.667 0.00 0.00 34.97 5.19
3800 4319 2.119832 AGTACCTCACCCCACGCT 59.880 61.111 0.00 0.00 0.00 5.07
3835 4354 2.114411 TTTCACCCGGAGTTGCCC 59.886 61.111 0.73 0.00 0.00 5.36
3848 4367 4.435137 TCCCAGAAAGATCTAGGGTTTCA 58.565 43.478 17.25 1.71 41.28 2.69


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

AutoCloner maintained by Alex Coulton.