* 2006/11/01 17:57:47 search 6.78
* 2006/11/01 17:57:46, 2006/11/01 17:57:46, furoligos
* maximum number of mismatches now allowed: 6
* feature: "Fur consensus" will be written to searchfeatures
*    typed pattern: "gataatgattatcattatc"
* expanded pattern: "gataatgattatcattatc"
* *
* piece: yoeA, #1, configuration: linear, direction: +, begin: 1, end: 123
* "gataatgattatcattatc"
  "ataaatgaaaataattatc"
  "xxx     xx  x      " 6 mismatche(s)
   ^ 13 *
  "gaaaataattatcattaca"
  "  x   x          xx" 4 mismatche(s)
   ^ 19       6 bases from last match *
  "tgtaatgataattattttc"
  "xx       x  x   x  " 5 mismatche(s)
   ^ 91      72 bases from last match *
  "gataattattttcatttat"
  "      x   x     xxx" 5 mismatche(s)
   ^ 97       6 bases from last match *
 4 matches in piece
*************
* *
* piece: fepD-entS, #2, configuration: linear, direction: +, begin: 1, end: 123
* "gataatgattatcattatc"
  "gataatgaaattaattatc"
  "        xxx x      " 4 mismatche(s)
   ^ 19 *
  "gaaattaattatcgttatc"
  "  x x x      x     " 4 mismatche(s)
   ^ 25       6 bases from last match *
  "gataacgataattaatttc"
  "     x   x  x x x  " 5 mismatche(s)
   ^ 85      60 bases from last match *
  "gataattaatttcattatc"
  "      x x x        " 3 mismatche(s)
   ^ 91       6 bases from last match *
 4 matches in piece
*************
* *
* piece: gpmA, #3, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
  "tataatgagaattattatc"
  "x       xx  x      " 4 mismatche(s)
   ^ 13 *
  "gagaattattatcattaaa"
  "  x   x          xx" 4 mismatche(s)
   ^ 19       6 bases from last match *
  "tttaatgataataattctc"
  "xx       x  x   x  " 5 mismatche(s)
   ^ 67      48 bases from last match *
  "gataataattctcattata"
  "      x   x       x" 3 mismatche(s)
   ^ 73       6 bases from last match *
 4 matches in piece
*************
* *
* piece: ryhB, #4, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
  "gacaataataatcattctc"
  "  x   x  x      x  " 4 mismatche(s)
   ^ 13 *
  "aataatcattctcattcgc"
  "x     x   x     xx " 5 mismatche(s)
   ^ 19       6 bases from last match *
  "gcgaatgagaatgattatt"
  " xx     xx  x     x" 6 mismatche(s)
   ^ 67      48 bases from last match *
  "gagaatgattattattgtc"
  "  x         x   x  " 3 mismatche(s)
   ^ 73       6 bases from last match *
 4 matches in piece
*************
* *
* piece: fhuA, #5, configuration: linear, direction: +, begin: 1, end: 111
* "gataatgattatcattatc"
  "ctttataataatcattctc"
  "xx x  x  x      x  " 6 mismatche(s)
   ^ 19 *
  "aataatcattctcgtttac"
  "x     x   x  x  xx " 6 mismatche(s)
   ^ 25       6 bases from last match *
  "gagaatgattattataaag"
  "  x         x  x xx" 5 mismatche(s)
   ^ 79      54 bases from last match *
 3 matches in piece
*************
* *
* piece: nohA, #6, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
  "gtagatgataatcattatc"
  " xxx     x         " 4 mismatche(s)
   ^ 13 *
  "gataatcattatcacttta"
  "      x       x x x" 4 mismatche(s)
   ^ 19       6 bases from last match *
  "taaagtgataatgattatc"
  "x x x    x  x      " 5 mismatche(s)
   ^ 67      48 bases from last match *
  "gataatgattatcatctac"
  "               xxx " 3 mismatche(s)
   ^ 73       6 bases from last match *
 4 matches in piece
*************
* *
* piece: oppA, #7, configuration: linear, direction: +, begin: 1, end: 111
* "gataatgattatcattatc"
  "ggtaatgagaataattaac"
  " x      xx  x    x " 5 mismatche(s)
   ^ 19 *
  "gttaattattctcattacc"
  " x    x   x      x " 4 mismatche(s)
   ^ 79      60 bases from last match *
 2 matches in piece
*************
* *
* piece: gspC, #8, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
 0 matches in piece
*************
* *
* piece: yhaU, #9, configuration: linear, direction: +, begin: 1, end: 105
* "gataatgattatcattatc"
  "attactgattatttttatt"
  "xx  x       xx    x" 6 mismatche(s)
   ^ 76 *
  "gattatttttattgttacc"
  "   x  xx    xx   x " 6 mismatche(s)
   ^ 82       6 bases from last match *
 2 matches in piece
*************
* *
* piece: yahA, #10, configuration: linear, direction: +, begin: 1, end: 111
* "gataatgattatcattatc"
  "attaatgataatcactatc"
  "xx       x    x    " 4 mismatche(s)
   ^ 19 *
  "gataatcactatcaccata"
  "      x x     xx  x" 5 mismatche(s)
   ^ 25       6 bases from last match *
  "tatggtgatagtgattatc"
  "x  xx    xx x      " 6 mismatche(s)
   ^ 73      48 bases from last match *
  "gatagtgattatcattaat"
  "    x            xx" 3 mismatche(s)
   ^ 79       6 bases from last match *
 4 matches in piece
*************
* *
* piece: fadD, #11, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
  "cactatgataatcaatatc"
  "x xx     x    x    " 5 mismatche(s)
   ^ 13 *
  "gataatcaatatcatatgg"
  "      x x      xxxx" 6 mismatche(s)
   ^ 19       6 bases from last match *
  "gatattgattatcatagtg"
  "    x          xx x" 4 mismatche(s)
   ^ 73      54 bases from last match *
 3 matches in piece
*************
* *
* piece: ygaC, #12, configuration: linear, direction: +, begin: 1, end: 99
* "gataatgattatcattatc"
 0 matches in piece
*************
* *
* piece: exbB, #13, configuration: linear, direction: +, begin: 1, end: 107
* "gataatgattatcattatc"
  "gatagtcgttctcattact"
  "    x xx  x      xx" 6 mismatche(s)
   ^ 18 *
 1 match in piece
*************
* *
* piece: exbD, #14, configuration: linear, direction: +, begin: 1, end: 107
* "gataatgattatcattatc"
 0 matches in piece
*************
* *
* piece: fhuF, #15, configuration: linear, direction: +, begin: 1, end: 109
* "gataatgattatcattatc"
  "acaaatgataaaaattatc"
  "xxx      x xx      " 6 mismatche(s)
   ^ 4 *
  "gataaaaattatcatatga"
  "     xx        xxxx" 6 mismatche(s)
   ^ 10       6 bases from last match *
  "gatattggttatcattatc"
  "    x  x           " 2 mismatche(s)
   ^ 27      17 bases from last match *
  "gataatgataaccaatatc"
  "         x x  x    " 3 mismatche(s)
   ^ 69      42 bases from last match *
 4 matches in piece
*************
* 39 matches in book
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