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
A3 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,002,813	C→T	127 (TAG→TAA)	yigG ←	PRK11371 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,002,813	0	C	T	100.0%	196.3 / NA	61	127 (TAG→TAA)	yigG	PRK11371 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (30/31); total (30/31)

TGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAACTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGATA  >  NC_000913/4002695‑4002945

tGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                  >  1:104334/1‑139 (MQ=255)

tGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                  >  1:602019/1‑139 (MQ=255)

tGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                  >  1:182501/1‑139 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTa                                                                                                                 >  2:1201147/1‑135 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTa                                                                                                                 <  1:1201147/135‑1 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTg                                                                                                             <  1:1000735/139‑1 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTg                                                                                                             >  1:600298/1‑139 (MQ=255)

       gCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCa                                                                                                           >  2:803434/1‑139 (MQ=255)

                                                 aaTCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGt                                                                                       <  2:1214931/117‑1 (MQ=255)

                                                 aaTCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGt                                                                                       >  1:1214931/1‑117 (MQ=255)

                                                                       ttAATGAACCATCGTTCATATATTCCTTACTCATAAATACTGCATAATTATCGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCg                                                          >  1:907449/1‑124 (MQ=255)

                                                                       ttAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATATTTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCg                                                          <  2:907449/124‑1 (MQ=255)

                                                                         aaTGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAg                                         >  1:1267203/1‑139 (MQ=255)

                                                                                   cGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAg                                                                                                         >  1:879957/1‑65 (MQ=255)

                                                                                   cGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAg                                                                                                         <  2:879957/65‑1 (MQ=255)

                                                                                     ttCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAAcc                                                      >  2:1147627/1‑114 (MQ=255)

                                                                                     ttCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAAcc                                                      <  1:1147627/114‑1 (MQ=255)

                                                                                                cTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgt                  >  1:1307714/1‑139 (MQ=255)

                                                                                                  tACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtga                >  1:51019/1‑139 (MQ=255)

                                                                                                  tACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtga                >  2:374286/1‑139 (MQ=255)

                                                                                                  tACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtga                >  1:785183/1‑139 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtgat               >  2:1118254/1‑139 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACAGAAAGGGGAAAAATAACAAATTAAAAAAATCATCGAACCATACCCTGAACAGGCAAAATCTTCGGCTATAATTGtgat               >  1:398211/1‑139 (MQ=255)

                                                                                                    cTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtgatg              >  1:1341349/1‑139 (MQ=255)

                                                                                                      cATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTgatgat            <  2:182501/139‑1 (MQ=255)

                                                                                                      cATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTgatgat            <  2:1267203/139‑1 (MQ=255)

                                                                                                       aTAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCAtt                                                                                                     >  1:700973/1‑49 (MQ=255)

                                                                                                       aTAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCAtt                                                                                                     <  2:700973/49‑1 (MQ=255)

                                                                                                       aTAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATa           >  2:845407/1‑139 (MQ=255)

                                                                                                        tAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag          <  2:1307714/139‑1 (MQ=255)

                                                                                                        tAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag          <  1:1060290/139‑1 (MQ=255)

                                                                                                         aaaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCa                                                                                                           <  1:1161786/41‑1 (MQ=255)

                                                                                                         aaaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCa                                                                                                           >  2:1161786/1‑41 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAACAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  2:1391681/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  1:845407/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  2:51019/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  1:984693/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  2:398211/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  1:374286/139‑1 (MQ=255)

                                                                                                            tACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGTAAAAATAACAAATCAAATAAATCATAGAGGCATTGCCTGAACAGACAAAAGCTTCGGTTATCAGTGTGATGATAGAgat      <  1:505355/139‑1 (MQ=255)

                                                                                                            tACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgat      <  1:654927/139‑1 (MQ=255)

                                                                                                             aCTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatg     <  2:104334/139‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATGACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatgat   >  1:164276/1‑139 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATGACAAATCAAAAAAATCATCGAACCATTGCCTAAACAGGCAAAATCTTCGGCTATCATtgt                  >  1:956254/1‑124 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGaa                                            >  2:1091526/1‑98 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGaa                                            <  1:1091526/98‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgt                  <  2:956254/124‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTgatgat            >  1:908307/1‑130 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTgatgat            <  2:908307/130‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        >  2:45777/1‑134 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  1:45777/134‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag          <  2:395812/132‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag          >  1:395812/1‑132 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatgat   <  2:822891/139‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatg     >  2:1111514/1‑137 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatg     <  1:1111514/137‑1 (MQ=255)

                                                                                                                ccATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGata  <  1:388352/139‑1 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgtg                 >  2:177664/1‑123 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgtg                 <  1:177664/123‑1 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        >  1:1067017/1‑132 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag        <  2:1067017/132‑1 (MQ=255)

TGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAACTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGATA  >  NC_000913/4002695‑4002945

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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