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
A8 F56 I1 R1	5	46.6	2293046	94.7%	2171514	133.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	1,851,242	G→T	E96* (GAG→TAG)	relA →	ATP:GTP 3'‑pyrophosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,851,242	0	G	T	96.9%	89.9 / NA	32	E96* (GAG→TAG)	relA	ATP:GTP 3'‑pyrophosphotransferase
Reads supporting (aligned to +/- strand): ref base G (0/1); new base T (16/15); total (16/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACCCGGCCAAGCATTCCTGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCGAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTCGCAGGCGCAGGTAG  >  NC_002947/1851110‑1851386

aaCCCGGCCAAGCATTCCTGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCGGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTc                                                                                                                                 >  1:359647/1‑150 (MQ=255)

          aGCATTCCTGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAg                                                                                                                                          <  1:927703/131‑1 (MQ=255)

          aGCATTCCTGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAg                                                                                                                                          >  2:927703/1‑131 (MQ=255)

                  tGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCgg                                                                                                               >  2:686454/1‑150 (MQ=255)

                             tACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACGCTCGCCGAGGTCAGCCAGCGGTTTGGCCCggt                                                                                                    <  2:128102/150‑1 (MQ=255)

                                gTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCggtggt                                                                                                 >  1:1008639/1‑150 (MQ=255)

                                gTCCAGATTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCggtggt                                                                                                 <  1:45813/150‑1 (MQ=255)

                                   cAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGCCAGCCAGCGGTTTGGCCCGCGGGTGTc                                                                                              >  2:658184/1‑150 (MQ=255)

                                     gCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCa                                                                                            >  1:569067/1‑150 (MQ=255)

                                                 gcCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACg                                                                                <  2:347297/150‑1 (MQ=255)

                                                    tGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGgtg                                                                             >  2:793054/1‑150 (MQ=255)

                                                               gAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATg                                                                  >  1:217198/1‑150 (MQ=255)

                                                                aaaTTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATgg                                                                 <  2:1008639/150‑1 (MQ=255)

                                                                    tCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTc                                                                                                                                 <  1:157116/82‑1 (MQ=255)

                                                                    tCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTc                                                                                                                                 >  2:157116/1‑82 (MQ=255)

                                                                          tGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGtgctgc                                                                       <  1:373099/134‑1 (MQ=255)

                                                                          tGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGtgctgc                                                                       >  2:373099/1‑134 (MQ=255)

                                                                               tCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCa                                                  <  2:96649/150‑1 (MQ=255)

                                                                               tCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCa                                                  <  1:959390/150‑1 (MQ=255)

                                                                                                tCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCggtg                                                                                                   <  2:575575/84‑1 (MQ=255)

                                                                                                tCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCggtg                                                                                                   >  1:575575/1‑84 (MQ=255)

                                                                                                    tggtggCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGc                             >  2:42103/1‑150 (MQ=255)

                                                                                                       gggCTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCACGGCCGCCATCAGTGACAGCCTCAGCCCACGACAGTCGCCgg                          <  1:1143761/149‑1 (MQ=255)

                                                                                                          cTGCGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGc                       >  2:352961/1‑150 (MQ=255)

                                                                                                          cTGCGGTCATCTACCGCTAGGTGCGCGAGGGCCAGGTCACCCGTCACGAGGTTAGGCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGc                       <  2:359647/150‑1 (MQ=255)

                                                                                                             cGGTCATCTACCGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTgg                    <  1:352961/150‑1 (MQ=255)

                                                                                                                      aCCGCTCGGTGCGCTAGGGCAAGGTTACCCTCGCCGAGGTCAGCCAGCGGTTTTGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGTATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTcgcagg           <  1:87598/150‑1 (MQ=255)

                                                                                                                        cGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGt                                                      >  2:344571/1‑105 (MQ=255)

                                                                                                                        cGCTCGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGt                                                      <  1:344571/105‑1 (MQ=255)

                                                                                                                            cGGTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTcgcaggcgcagg     <  2:569067/150‑1 (MQ=255)

                                                                                                                             ggTGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTCGCAGGCGCAGGt    >  2:398151/1‑150 (MQ=255)

                                                                                                                               tGCGCTAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTCGCAGGCGCAGGTag  >  2:945245/1‑150 (MQ=255)

AACCCGGCCAAGCATTCCTGGGCGGATGGTACGTCCAGCTTCCAGGCAGGCCTGGAAATCGCCGAAATTCTGGCTGACCTCAAGCTCGACCAGGACTCCCTGGTGGCTGCGGTCATCTACCGCTCGGTGCGCGAGGGCAAGGTCACCCTCGCCGAGGTCAGCCAGCGGTTTGGCCCGGTGGTGTCCAAGCTGATCGACGGTGTGCTGCGCATGGCCGCCATCAGTGCCAGCCTCAGCCCACGACAGTCGCTGGTGCTGGGCTCGCAGGCGCAGGTAG  >  NC_002947/1851110‑1851386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A