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 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,912,885	A→G	I256T (ATC→ACC)	relA ←	(p)ppGpp synthetase I/GTP pyrophosphokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,912,885	0	A	G	97.2%	124.2 / ‑3.8	36	I256T (ATC→ACC)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (16/19); total (17/19)
Fisher's exact test for biased strand distribution p-value = 4.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

TGGCGATAGTGAGTGTGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGG  >  NC_000913/2912747‑2913034

tGGCGATAGTGAGTGTGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGgac                                                                                                                                           >  2:93333/1‑151 (MQ=255)

      tAGTGAGTGTGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCAt                                                                                                                                     >  1:317449/1‑151 (MQ=255)

        gtgagtgTGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATac                                                                                                                                   >  2:453769/1‑151 (MQ=255)

            gtgtGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACtt                                                                                                                               <  2:249134/151‑1 (MQ=255)

                  aCTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCtt                                                                                                                         <  2:147262/151‑1 (MQ=255)

                       ccccAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAAc                                                                                                                     <  2:131868/150‑1 (MQ=255)

                       ccccAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAAc                                                                                                                     <  1:93333/150‑1 (MQ=255)

                              gCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAg                                                                                                             <  1:328700/151‑1 (MQ=255)

                                  cATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCttt                                                                                                         <  1:583496/151‑1 (MQ=255)

                                               tAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAgcgcgc                                                                                            >  1:300582/1‑151 (MQ=255)

                                                   cGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAgcgcgc                                                                                            >  1:108268/1‑147 (MQ=255)

                                                   cGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGAt                                                                                        <  1:427899/151‑1 (MQ=255)

                                                        ggCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCa                                                                                   <  2:185852/151‑1 (MQ=255)

                                                           gACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACg                                                                                <  2:190978/151‑1 (MQ=255)

                                                              aaTACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAAc                                                                             >  2:192120/1‑151 (MQ=255)

                                                                   gTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTc                                                                        <  2:135268/151‑1 (MQ=255)

                                                                     aCCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCg                                                                       <  2:574510/150‑1 (MQ=255)

                                                                           cgcacATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAgt                                                                >  2:53866/1‑151 (MQ=255)

                                                                                   aaaCAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCgg                                                        >  1:439417/1‑151 (MQ=255)

                                                                                   aaaCAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCgg                                                        >  2:404014/1‑151 (MQ=255)

                                                                                       aGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCg                                                     >  1:483035/1‑150 (MQ=255)

                                                                                        gCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCgag                                                   <  1:148714/151‑1 (MQ=255)

                                                                                         cTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCg                                                     >  2:77253/1‑148 (MQ=255)

                                                                                               aaaGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGt                                            >  2:614469/1‑151 (MQ=255)

                                                                                                        gTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATgcagc                                   <  1:374826/151‑1 (MQ=255)

                                                                                                          tCTTTTTCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATgcagca                                  <  1:301267/150‑1 (MQ=255)

                                                                                                                tCTGCATTTTACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTgg                            <  1:162899/150‑1 (MQ=255)

                                                                                                                       tttACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGt                    >  1:341643/1‑151 (MQ=255)

                                                                                                                        ttACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGt                    <  1:611154/150‑1 (MQ=255)

                                                                                                                         tACGCCAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGgtt                  >  2:301031/1‑151 (MQ=255)

                                                                                                                             ccAGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTAt              <  2:134482/151‑1 (MQ=255)

                                                                                                                               aGATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTc            <  2:47204/151‑1 (MQ=255)

                                                                                                                                gATGCTGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCg           >  1:19933/1‑151 (MQ=255)

                                                                                                                                     tGTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtgg      >  1:463004/1‑151 (MQ=255)

                                                                                                                                      gTAGGTGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg       <  2:16609/149‑1 (MQ=255)

                                                                                                                                         gATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtggatgg  >  1:347396/1‑151 (MQ=255)

TGGCGATAGTGAGTGTGCACTATCCCCAGTGCGGCATAGCAATCCTGTAAACGCTCGGCGACAATACGTACCGCACGCACATCAAACAGCTCATCAAAGGCGAGGTTCTTTTTCTGCATTTTACGCCAGATGCTGTAGATGTGTTTCGGACGACCATACACTTCCGCTTTAACGCCTTCAGCTTTCATCTCAGCGCGCAGATGACCAACGAACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGG  >  NC_000913/2912747‑2913034

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A