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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,913,584	Δ1 bp	coding (68/2235 nt)	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	2,913,584	0	C	.	100.0%	186.6 / NA	44	coding (68/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (24/20); total (24/20)

GAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGC  >  NC_000913/2913452‑2913711

gagaGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGAt                                                                                                                          >  2:446800/1‑139 (MQ=255)

gagaGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGAt                                                                                                                          >  1:417774/1‑139 (MQ=255)

 agagGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATc                                                                                                                         >  2:756830/1‑139 (MQ=255)

                       accacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   <  1:201288/139‑1 (MQ=255)

                        ccacGCCACAATAACAGACTGGCAGCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCATGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAcc                                                                                                  <  1:36694/139‑1 (MQ=255)

                          acGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                <  1:606251/139‑1 (MQ=255)

                           cGCCACAATAACAGACTGGCCTCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:741270/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCa                                                                                                    <  1:209845/134‑1 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCa                                                                                                    >  2:209845/1‑134 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:196905/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  2:649175/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:231040/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:506315/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:670280/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:799743/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:771417/1‑139 (MQ=255)

                           cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCA‑TTTTCCGGATCAAATTCACCAGcc                                                                                              >  1:582187/1‑139 (MQ=255)

                             ccACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCt                                                                                             <  1:452214/139‑1 (MQ=255)

                              cacaATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCtt                                                                                            >  2:543354/1‑139 (MQ=255)

                                    aaCAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                                                      <  2:358231/139‑1 (MQ=255)

                                    aaCAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                                                      <  2:773745/139‑1 (MQ=255)

                                      cAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGatat                                                                                    >  1:695009/1‑139 (MQ=255)

                                          cTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGc                                                                                <  2:231040/139‑1 (MQ=255)

                                           tGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGAGCa                                                                               >  1:75407/1‑139 (MQ=255)

                                             gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         >  2:474807/1‑127 (MQ=255)

                                             gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         <  1:474807/127‑1 (MQ=255)

                                             gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCAct                                                                             >  1:451970/1‑139 (MQ=255)

                                                   ggATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTAc                                                                       <  1:756830/139‑1 (MQ=255)

                                                     aTGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCA‑TTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGc                                                                    <  2:582187/139‑1 (MQ=255)

                                                             gCGTCTGTTGCAGACAATTCGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATc                                                             <  1:49893/139‑1 (MQ=255)

                                                                tCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTc                                                          <  1:797611/139‑1 (MQ=255)

                                                                tCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAACACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTc                                                          <  2:621747/139‑1 (MQ=255)

                                                                            aaTACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         >  2:363790/1‑96 (MQ=255)

                                                                            aaTACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         <  1:363790/96‑1 (MQ=255)

                                                                              tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   >  2:308960/1‑84 (MQ=255)

                                                                              tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   <  1:308960/84‑1 (MQ=255)

                                                                              tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                <  1:648621/87‑1 (MQ=255)

                                                                              tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                >  2:648621/1‑87 (MQ=255)

                                                                               aCGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGAc                                           <  2:24906/139‑1 (MQ=255)

                                                                                                        acacGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCg                  <  1:446800/139‑1 (MQ=255)

                                                                                                             aCTTCTGGCTGGTAATACCCAGA‑TTACGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCaatt             >  2:624363/1‑137 (MQ=255)

                                                                                                                        gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCtctc                                                     <  2:710350/88‑1 (MQ=255)

                                                                                                                        gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCtctc                                                     >  1:710350/1‑88 (MQ=255)

                                                                                                                        gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAATTATTTAAcgcgc  >  1:781955/1‑139 (MQ=255)

GAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGC  >  NC_000913/2913452‑2913711

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A