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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,815,811	C→T	intergenic (‑43/+23)	pyrE ← / ← rph	orotate phosphoribosyltransferase/ribonuclease PH (defective),enzyme, Degradation of RNA, RNase PH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,815,811	0	C	T	100.0%	104.7 / NA	34	intergenic (‑43/+23)	pyrE/rph	orotate phosphoribosyltransferase/ribonuclease PH (defective),enzyme, Degradation of RNA, RNase PH
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/17); total (17/17)

AAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCC  >  NC_000913/3815700‑3815934

aaaCTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACACAAAAATGGTGACTCATCAGTCGCCTTAAAAATCAGt                                                                                                  >  2:240496/1‑139 (MQ=255)

      gCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCa                                                                                            <  1:423363/139‑1 (MQ=255)

           aCTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTAAAAAATCAGTTTGCCAGcgcc                                                                                       <  1:636192/139‑1 (MQ=255)

                               aGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGt                                                                                                                  <  2:634838/92‑1 (MQ=255)

                               aGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGt                                                                                                                  >  1:634838/1‑92 (MQ=255)

                                  gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGga                                                                >  2:304235/1‑139 (MQ=255)

                                           aTAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACt                                                                                                                         >  2:158481/1‑73 (MQ=255)

                                           aTAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACt                                                                                                                         <  1:158481/73‑1 (MQ=255)

                                                    cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCt                                                    >  1:826971/1‑133 (MQ=255)

                                                    cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCt                                                    <  2:826971/133‑1 (MQ=255)

                                                                   aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCa                                                                                            <  2:682091/78‑1 (MQ=255)

                                                                   aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCa                                                                                            >  1:682091/1‑78 (MQ=255)

                                                                   aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATg                               >  2:246332/1‑139 (MQ=255)

                                                                   aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATg                               >  1:358446/1‑139 (MQ=255)

                                                                    tGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAg                                  >  2:463178/1‑135 (MQ=255)

                                                                    tGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAg                                  <  1:463178/135‑1 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCggg                                                <  1:189218/117‑1 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCggg                                                >  2:189218/1‑117 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGcc                                        <  1:402948/125‑1 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGcc                                        >  2:402948/1‑125 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                          <  1:246332/139‑1 (MQ=255)

                                                                        ttCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                          <  2:526732/139‑1 (MQ=255)

                                                                          cGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGct                        >  1:198890/1‑139 (MQ=255)

                                                                           gCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCt                                                    >  1:481673/1‑110 (MQ=255)

                                                                           gCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCt                                                    <  2:481673/110‑1 (MQ=255)

                                                                             tcctcATCTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCtt                     <  1:645089/139‑1 (MQ=255)

                                                                                    cTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGt                            >  2:580623/1‑125 (MQ=255)

                                                                                    cTTACTTTTCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGt                            <  1:580623/125‑1 (MQ=255)

                                                                                           ttCTACAGACAAAAAAAAGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGc       >  1:675266/1‑139 (MQ=255)

                                                                                                cAGACAAAAAAAAGGTGACTCATCAGTCGCCTTTAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGcc  <  2:198890/139‑1 (MQ=255)

                                                                                                     aaaaaaaaGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                          >  2:513891/1‑110 (MQ=255)

                                                                                                     aaaaaaaaGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                          <  1:513891/110‑1 (MQ=255)

                                                                                                     aaaaaaaaGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGcc  >  1:276584/1‑134 (MQ=255)

                                                                                                     aaaaaaaaGGTGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGcc  <  2:276584/134‑1 (MQ=255)

AAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCC  >  NC_000913/3815700‑3815934

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A