Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A5 F1 I2 R1	772	77.0	3769570	91.6%	3452926	105.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,728,118	(C)_8→9	coding (1254/1455 nt)	xylB ←	xylulokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,728,110	1	.	C	100.0%	152.3 / NA	46	D421G (GAT→GGT)	xylB	xylulokinase
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (20/26); total (20/26)

AGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA  >  NC_000913/3727980‑3728242

aGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAC‑‑cccccccc                                                                                                                              <  2:1234332/139‑1 (MQ=255)

          cGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTaa                                                                                                                     <  1:590814/139‑1 (MQ=255)

             cgcgcATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTCCGGTAATCg                                                                                                                  >  1:1171374/2‑139 (MQ=255)

                  aTCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGCTTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAgctg                                                                                                             <  1:765063/139‑1 (MQ=255)

                    cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGCgctgct                                                                                                           >  2:1052302/1‑139 (MQ=255)

                          gATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     <  1:984315/139‑1 (MQ=255)

                                aCTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGatat                                                                                               >  2:997802/1‑139 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     <  1:929013/119‑1 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     >  2:929013/1‑119 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa                                                                                 <  1:1871823/139‑1 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa                                                                                 >  1:719653/1‑139 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccccgtac                                                                                                                         >  2:423831/1‑93 (MQ=255)

                                              aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccccgtac                                                                                                                         <  1:423831/98‑6 (MQ=255)

                                                  gCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccccgtac                                                                                                                         <  1:810026/94‑6 (MQ=255)

                                                  gCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccccgtac                                                                                                                         >  2:810026/1‑89 (MQ=255)

                                                   cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa                                                                            <  2:333279/139‑1 (MQ=255)

                                                   cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccc                                                                                                                               <  1:258550/87‑1 (MQ=255)

                                                   cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccc                                                                                                                               >  2:258550/1‑87 (MQ=255)

                                                     gCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGt                                                                          >  2:1514862/1‑139 (MQ=255)

                                                            ttCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccc                                                                                                                                  >  1:1599615/1‑75 (MQ=255)

                                                            ttCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccc                                                                                                                                  <  2:1599615/75‑1 (MQ=255)

                                                                    gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTa                                                                         <  1:1677667/125‑1 (MQ=255)

                                                                    gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTa                                                                         >  2:1677667/1‑125 (MQ=255)

                                                                    gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc                                                           <  2:1509226/139‑1 (MQ=255)

                                                                        tttCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTATGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccccgcc                                                       <  2:1171374/139‑1 (MQ=255)

                                                                              tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                                 <  1:1514862/139‑1 (MQ=255)

                                                                              tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGACCCCAAt                                                 <  1:1227874/139‑1 (MQ=255)

                                                                              tGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACCGTAATCGCGCTGCTGACCGCTGATATCCGCCAGCATCTGACCCCAGTACTCACTACGCGCCCCGCCCCCAAt                                                 >  1:348262/1‑139 (MQ=255)

                                                                                  ttCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     >  1:481186/1‑83 (MQ=255)

                                                                                  ttCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     <  2:481186/83‑1 (MQ=255)

                                                                                     gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAgctgct                                                                                                           >  1:1152775/1‑74 (MQ=255)

                                                                                     gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAgctgct                                                                                                           <  2:1152775/74‑1 (MQ=255)

                                                                                     gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCa                                               <  2:758499/134‑1 (MQ=255)

                                                                                     gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCa                                               >  1:758499/1‑134 (MQ=255)

                                                                                      ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccc                                                                                                                              <  2:945996/53‑1 (MQ=255)

                                                                                      ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccc                                                                                                                              >  1:945996/1‑53 (MQ=255)

                                                                                       cgcgATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAgctg                                                                                                             <  2:710904/70‑1 (MQ=255)

                                                                                       cgcgATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAgctg                                                                                                             >  1:710904/1‑70 (MQ=255)

                                                                                          gATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCCGACGCCAGTACTCACTACGCGCCCCCCCCCCCATCAACGTAACACt                                     >  1:810679/1‑139 (MQ=255)

                                                                                            gtataagagacagtgctgcGCCCAGTGCTGGCCCC‑CATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  2:846497/126‑1 (MQ=255)

                                                                                             cTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCACCCCCAATCAACGTAACACTTTg                                  <  1:997802/139‑1 (MQ=255)

                                                                                               gcgcCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCCTCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCg                                >  1:242641/1‑139 (MQ=255)

                                                                                                      ccTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg                                                                               <  1:1400154/85‑1 (MQ=255)

                                                                                                      ccTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg                                                                               >  2:1400154/1‑85 (MQ=255)

                                                                                                      ccTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGCAACACCTTGCGGTTTAAt                         >  2:1082124/1‑139 (MQ=255)

                                                                                                          gctgcGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  2:856291/126‑1 (MQ=255)

                                                                                                          gctgcGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  >  1:856291/1‑126 (MQ=255)

                                                                                                          gctgcGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg                     <  1:1052302/139‑1 (MQ=255)

                                                                                                              cgcCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAg                  <  2:1072860/139‑1 (MQ=255)

                                                                                                                cccAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa                                                                                 <  2:298336/73‑1 (MQ=255)

                                                                                                                cccAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa                                                                                 >  1:298336/1‑73 (MQ=255)

                                                                                                                     tGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCCCTACGCGCCCCCCCCCCAATCAAAGTAACCCTTTGCGGTTTAATACCGCAGGCATGCAc          >  2:108532/1‑139 (MQ=255)

                                                                                                                     tGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCAc          <  2:242641/139‑1 (MQ=255)

                                                                                                                      gCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACg         <  2:810679/139‑1 (MQ=255)

                                                                                                                      gCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACg         <  2:1424255/139‑1 (MQ=255)

                                                                                                                         ggCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACa      <  2:1754636/139‑1 (MQ=255)

                                                                                                                             ccACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCa  >  2:1784304/1‑139 (MQ=255)

AGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA  >  NC_000913/3727980‑3728242

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A