Hello everyone, I want to download the GC percent of Rat genome, when I am trying from Table browser I am getting data in 5 bp window and that too only of one chromosome at a time. Now I want the GC percent in much higher window atleast 1 kb, so is there any tool (in UCSC/Galaxy) through which I can get the data in 1 kb or higher window . Also when I downloaded the data from download page then I could not see any kind of percentage or I am not able to interpret the data in proper manner. This how the file looks, some of the starting lines of the files are:
585 chr1 0 5120 chr1.0 5 1024 0 /gbdb/rn4/wib/gc5Base.wib 0 100 781 32475 1671220 585 chr1 5120 10240 chr1.1 5 1024 1024 /gbdb/rn4/wib/gc5Base.wib 0 100 1009 33205 1516480 585 chr1 10240 15360 chr1.2 5 1024 2048 /gbdb/rn4/wib/gc5Base.wib 0 100 1010 33401.7 1549170 585 chr1 15360 20480 chr1.3 5 1024 3072 /gbdb/rn4/wib/gc5Base.wib 0 80 1024 35640 1664800 585 chr1 20480 25600 chr1.4 5 1024 4096 /gbdb/rn4/wib/gc5Base.wib 0 100 1014 40660 2077200 585 chr1 25600 30720 chr1.5 5 1024 5120 /gbdb/rn4/wib/gc5Base.wib 0 100 1007 39313.4 1976960 585 chr1 30720 35385 chr1.6 5 933 6144 /gbdb/rn4/wib/gc5Base.wib 0 100 924 34840 1670400 585 chr1 40625 45745 chr1.7 5 1024 7077 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38893.3 1892710 585 chr1 45745 50865 chr1.8 5 1024 8101 /gbdb/rn4/wib/gc5Base.wib 0 100 972 35395 1683220 585 chr1 50865 55985 chr1.9 5 1024 9125 /gbdb/rn4/wib/gc5Base.wib 0 100 1012 37466.6 1795620 585 chr1 55985 61105 chr1.10 5 1024 10149 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 41060 2108400 585 chr1 61105 66225 chr1.11 5 1024 11173 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39140 1952400 585 chr1 66225 71345 chr1.12 5 1024 12197 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 42520 2170400 585 chr1 71345 76465 chr1.13 5 1024 13221 /gbdb/rn4/wib/gc5Base.wib 0 100 1006 38545.1 1901430 585 chr1 76465 78385 chr1.14 5 384 14245 /gbdb/rn4/wib/gc5Base.wib 0 100 384 13353.3 629909 585 chr1 91025 96145 chr1.15 5 1024 14629 /gbdb/rn4/wib/gc5Base.wib 0 100 1011 38305 1884740 585 chr1 96145 101265 chr1.16 5 1024 15653 /gbdb/rn4/wib/gc5Base.wib 0 100 1014 41125 2120220 585 chr1 101265 106385 chr1.17 5 1024 16677 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38920 1874400 585 chr1 106385 111505 chr1.18 5 1024 17701 /gbdb/rn4/wib/gc5Base.wib 0 80 1024 33680 1498400 585 chr1 111505 116625 chr1.19 5 1024 18725 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 34860 1613200 585 chr1 116625 121745 chr1.20 5 1024 19749 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 41000 2098400 585 chr1 121745 126865 chr1.21 5 1024 20773 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 42820 2201200 73 chr1 126865 131985 chr1.22 5 1024 21797 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 43860 2360400 586 chr1 131985 137105 chr1.23 5 1024 22821 /gbdb/rn4/wib/gc5Base.wib 0 100 1013 40653.3 2107910 586 chr1 137105 142225 chr1.24 5 1024 23845 /gbdb/rn4/wib/gc5Base.wib 0 100 957 39666.6 2102620 586 chr1 142225 147345 chr1.25 5 1024 24869 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40020 1986000 586 chr1 147345 152465 chr1.26 5 1024 25893 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39360 1961600 586 chr1 152465 157585 chr1.27 5 1024 26917 /gbdb/rn4/wib/gc5Base.wib 0 100 1015 40786.7 2059650 586 chr1 157585 162635 chr1.28 5 1010 27941 /gbdb/rn4/wib/gc5Base.wib 0 100 997 38910 2026700 586 chr1 162810 167930 chr1.29 5 1024 28951 /gbdb/rn4/wib/gc5Base.wib 0 100 1011 46180 2609200 586 chr1 167930 173050 chr1.30 5 1024 29975 /gbdb/rn4/wib/gc5Base.wib 0 100 1015 42313.3 2269910 586 chr1 173050 178170 chr1.31 5 1024 30999 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40960 2112800 586 chr1 178170 183290 chr1.32 5 1024 32023 /gbdb/rn4/wib/gc5Base.wib 0 100 980 36278.3 1802230 586 chr1 183290 188410 chr1.33 5 1024 33047 /gbdb/rn4/wib/gc5Base.wib 0 100 1012 41008.3 2122900 586 chr1 188410 193530 chr1.34 5 1024 34071 /gbdb/rn4/wib/gc5Base.wib 0 100 1006 37873.3 1811310 586 chr1 193530 198650 chr1.35 5 1024 35095 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38540 1915600 586 chr1 198650 203770 chr1.36 5 1024 36119 /gbdb/rn4/wib/gc5Base.wib 0 80 1024 39180 1953200 586 chr1 203770 208890 chr1.37 5 1024 37143 /gbdb/rn4/wib/gc5Base.wib 0 100 1012 41915 2166680 586 chr1 208890 214010 chr1.38 5 1024 38167 /gbdb/rn4/wib/gc5Base.wib 0 100 1002 46110 2600060 586 chr1 214010 219130 chr1.39 5 1024 39191 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 46200 2586400 586 chr1 219130 224250 chr1.40 5 1024 40215 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40720 2051200 586 chr1 224250 229370 chr1.41 5 1024 41239 /gbdb/rn4/wib/gc5Base.wib 0 100 1006 36323.3 1714920 586 chr1 229370 234490 chr1.42 5 1024 42263 /gbdb/rn4/wib/gc5Base.wib 0 100 1015 38190 1862450 586 chr1 234490 239610 chr1.43 5 1024 43287 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 37960 1822400 586 chr1 239610 244730 chr1.44 5 1024 44311 /gbdb/rn4/wib/gc5Base.wib 0 80 1006 33625 1506220 586 chr1 244730 249850 chr1.45 5 1024 45335 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39200 1940000 586 chr1 249850 254970 chr1.46 5 1024 46359 /gbdb/rn4/wib/gc5Base.wib 0 80 786 27595 1290420 586 chr1 254970 260090 chr1.47 5 1024 47383 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 35860 1746800 73 chr1 260090 262795 chr1.48 5 541 48407 /gbdb/rn4/wib/gc5Base.wib 0 80 532 16995 744725 587 chr1 265435 270555 chr1.49 5 1024 48948 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 36480 1732800 587 chr1 270555 275675 chr1.50 5 1024 49972 /gbdb/rn4/wib/gc5Base.wib 0 100 912 34101.7 1633970 587 chr1 275675 280795 chr1.51 5 1024 50996 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38020 1816400 587 chr1 280795 285915 chr1.52 5 1024 52020 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38660 1863600 587 chr1 285915 291035 chr1.53 5 1024 53044 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39180 1933200 587 chr1 291035 296155 chr1.54 5 1024 54068 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40000 1949600 587 chr1 296155 301275 chr1.55 5 1024 55092 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 47620 2745200 587 chr1 301275 306395 chr1.56 5 1024 56116 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 47120 2698400 587 chr1 306395 311515 chr1.57 5 1024 57140 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38100 1848400 587 chr1 311515 316635 chr1.58 5 1024 58164 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 32320 1409600 587 chr1 316635 321755 chr1.59 5 1024 59188 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 34760 1626400 587 chr1 321755 326875 chr1.60 5 1024 60212 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38040 1880000 587 chr1 326875 331995 chr1.61 5 1024 61236 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38700 1918800 587 chr1 331995 337115 chr1.62 5 1024 62260 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40620 2050000 587 chr1 337115 342235 chr1.63 5 1024 63284 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38600 1884000 587 chr1 342235 347355 chr1.64 5 1024 64308 /gbdb/rn4/wib/gc5Base.wib 0 80 1024 35520 1634400 587 chr1 347355 352475 chr1.65 5 1024 65332 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 33960 1573600 587 chr1 352475 357595 chr1.66 5 1024 66356 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 33980 1530800 587 chr1 357595 362715 chr1.67 5 1024 67380 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 37660 1824400 587 chr1 362715 367835 chr1.68 5 1024 68404 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 42960 2231200 587 chr1 367835 372955 chr1.69 5 1024 69428 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38520 1863200 587 chr1 372955 378075 chr1.70 5 1024 70452 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39680 1986400 587 chr1 378075 383195 chr1.71 5 1024 71476 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40220 2057200 587 chr1 383195 388315 chr1.72 5 1024 72500 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 47080 2645600 73 chr1 388315 393435 chr1.73 5 1024 73524 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40580 2053200 588 chr1 393435 397950 chr1.74 5 903 74548 /gbdb/rn4/wib/gc5Base.wib 0 100 903 33150 1569300 588 chr1 398670 403790 chr1.75 5 1024 75451 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 46820 2650000 588 chr1 403790 408910 chr1.76 5 1024 76475 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38760 1895200 588 chr1 408910 414030 chr1.77 5 1024 77499 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40860 2054000 588 chr1 414030 419150 chr1.78 5 1024 78523 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 46240 2546400 588 chr1 419150 424270 chr1.79 5 1024 79547 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 43660 2328400 588 chr1 424270 429390 chr1.80 5 1024 80571 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 41500 2135600 588 chr1 429390 434510 chr1.81 5 1024 81595 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 39896.6 1956370 588 chr1 434510 439630 chr1.82 5 1024 82619 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38280 1868000 588 chr1 439630 444750 chr1.83 5 1024 83643 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 40220 2045200 588 chr1 444750 449870 chr1.84 5 1024 84667 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 43750 2314900 588 chr1 449870 454990 chr1.85 5 1024 85691 /gbdb/rn4/wib/gc5Base.wib 0 100 1005 44216.6 2447530 588 chr1 454990 460110 chr1.86 5 1024 86715 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 38980 1890800 588 chr1 460110 465230 chr1.87 5 1024 87739 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 44600 2403200 588 chr1 465230 470350 chr1.88 5 1024 88763 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 41240 2109600 588 chr1 470350 473415 chr1.89 5 613 89787 /gbdb/rn4/wib/gc5Base.wib 0 100 613 22280 1077600 588 chr1 475710 480830 chr1.90 5 1024 90400 /gbdb/rn4/wib/gc5Base.wib 0 100 1023 39729.9 1989580 588 chr1 480830 481470 chr1.91 5 128 91424 /gbdb/rn4/wib/gc5Base.wib 0 80 128 4640 216250 588 chr1 486710 489395 chr1.92 5 537 91552 /gbdb/rn4/wib/gc5Base.wib 0 80 537 19580 905450 588 chr1 494590 499710 chr1.93 5 1024 92089 /gbdb/rn4/wib/gc5Base.wib 0 100 1014 41950 2168450 588 chr1 499710 504830 chr1.94 5 1024 93113 /gbdb/rn4/wib/gc5Base.wib 0 100 828 31840 1592800 588 chr1 504830 509950 chr1.95 5 1024 94137 /gbdb/rn4/wib/gc5Base.wib 0 100 1005 39645 2047420 588 chr1 509950 515070 chr1.96 5 1024 95161 /gbdb/rn4/wib/gc5Base.wib 0 100 1015 36440 1772000 588 chr1 515070 520190 chr1.97 5 1024 96185 /gbdb/rn4/wib/gc5Base.wib 0 100 1015 37446.7 1749650 73 chr1 520190 525310 chr1.98 5 1024 97209 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 42380 2210000 589 chr1 525310 530430 chr1.99 5 1024 98233 /gbdb/rn4/wib/gc5Base.wib 0 100 1024 41420 2149200 Thanks and regards Vaibhav Jain Research Scholar @IGIB New Delhi, INDIA _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
