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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,815,808	(A)_8→9	intergenic (‑40/+26)	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	3,815,800	1	.	A	100.0%	124.5 / NA	39	intergenic (‑32/+34)	pyrE/rph	orotate phosphoribosyltransferase/ribonuclease PH (defective),enzyme, Degradation of RNA, RNase PH
Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (21/18); total (21/18)

TAGGGGCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTC  >  NC_000913/3815671‑3815931

tAGGGGCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaa                                                                                                                            <  2:1305004/139‑2 (MQ=255)

 aGGGGCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaag                                                                                                                           >  1:167697/1‑137 (MQ=255)

  ggggCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaagg                                                                                                                          <  1:79675/139‑4 (MQ=255)

  ggggCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaagg                                                                                                                          <  1:425582/139‑4 (MQ=255)

     gCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGa                                                                                                                        <  2:738858/139‑1 (MQ=255)

                cGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCg                                                                                                             <  1:404470/139‑1 (MQ=255)

                             aaaCTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAg                                                                                                <  2:167697/139‑1 (MQ=255)

                                    ccAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCa                                                                                         >  1:717615/1‑139 (MQ=255)

                                    ccAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         <  1:1286081/106‑5 (MQ=255)

                                    ccAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         >  2:1286081/1‑102 (MQ=255)

                                         cTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGcgcc                                                                                    <  1:431163/139‑1 (MQ=255)

                                         cTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGcgcc                                                                                    <  2:671974/139‑1 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTg                                                                            >  2:262969/1‑126 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTg                                                                            <  1:262969/126‑1 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATg                                                               >  1:799888/1‑139 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATg                                                               >  1:1184413/1‑139 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         <  1:1138332/80‑5 (MQ=255)

                                                              cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         >  2:1138332/1‑76 (MQ=255)

                                                               gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         <  2:329062/79‑5 (MQ=255)

                                                               gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑aaaaaaaaaggc                                                                                                                         >  1:329062/1‑75 (MQ=255)

                                                                               ggCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCgg                                              >  1:589526/1‑139 (MQ=255)

                                                                                 cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCg                                                                                                             >  2:16583/1‑74 (MQ=255)

                                                                                 cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCg                                                                                                             <  1:16583/74‑1 (MQ=255)

                                                                                 cgcTGATATGGTTTCATGCCTTCGCTCCTCATC‑TACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGcc                                           >  2:1243408/1‑139 (MQ=255)

                                                                                    tGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCag                                         <  2:92650/139‑1 (MQ=255)

                                                                                      atatGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCagag                                       >  1:141130/1‑139 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGa                              >  1:1288209/1‑139 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACaa                                                                 <  2:16584/103‑1 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACaa                                                                 >  1:16584/1‑103 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCggg                                             <  1:1087658/123‑1 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCggg                                             >  2:1087658/1‑123 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGAt                             >  2:202836/1‑139 (MQ=255)

                                                                                                aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGAt                             >  1:458598/1‑139 (MQ=255)

                                                                                                 tGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATg                            <  1:202836/139‑1 (MQ=255)

                                                                                                 tGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATg                            <  2:799888/139‑1 (MQ=255)

                                                                                                 tGCCTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATg                            >  1:374476/1‑139 (MQ=255)

                                                                                                   ccTTCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAg                          <  2:374476/139‑1 (MQ=255)

                                                                                                     ttCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGgattcgatt                                                      >  2:1090686/1‑109 (MQ=255)

                                                                                                     ttCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGgattcgatt                                                      <  1:1090686/109‑1 (MQ=255)

                                                                                                      tCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGt                                                                         <  2:1137940/89‑1 (MQ=255)

                                                                                                      tCGCTCCTCATCTTACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGt                                                                         >  1:1137940/1‑89 (MQ=255)

                                                                                                                   tACTTTTCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTg          >  1:143058/1‑139 (MQ=255)

                                                                                                                       tttCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                       >  1:620831/1‑122 (MQ=255)

                                                                                                                       tttCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg                       <  2:620831/122‑1 (MQ=255)

                                                                                                                        ttCTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTAAAATGGATTGGATTCCCCt                                                 >  2:308811/1‑95 (MQ=255)

                                                                                                                        ttCTACAAACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCt                                                 <  1:308811/95‑1 (MQ=255)

                                                                                                                          cTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGc                                            >  2:294230/1‑98 (MQ=255)

                                                                                                                          cTACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGc                                            <  1:294230/98‑1 (MQ=255)

                                                                                                                           tACAGACA‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGTTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTc  >  2:711423/1‑139 (MQ=255)

TAGGGGCTTTTGCGCCCGGATTTCAGCGTAAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTC  >  NC_000913/3815671‑3815931

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A