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
A1 F14 I0 R1	248	61.6	2601574	98.7%	2567753	146.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947_CJ‑RC	5,512,723	T→G	43.5%	L36R (CTC→CGC)	urtB →	urea ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947_CJ‑RC	5,512,723	0	T	G	43.5%	14.5 / 10.3	35	L36R (CTC→CGC)	urtB	urea ABC transporter permease
Reads supporting (aligned to +/- strand): ref base T (12/7); new base G (6/8); total (18/17)
Fisher's exact test for biased strand distribution p-value = 3.04e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCCTGGCCAGCCAC  >  NC_002947_CJ‑RC/5512581‑5512868

gcgAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCGGGAAgg                                                                                                                                             >  8:293971/1‑149 (MQ=255)

           aaCACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCGGGCCGGCCGGGGCGAAGGCTggggggcc                                                                                                                                   >  1:60842/1‑143 (MQ=255)

            acacCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGcac                                                                                                                                  >  7:235640/1‑148 (MQ=255)

                cGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAAccc                                                                                                                             >  2:57902/1‑149 (MQ=255)

                                       cTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGGCGGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCAGCCcctgct                                                                                                      >  2:252379/1‑149 (MQ=255)

                                       cTCAGACTCCTGCTAACCCTCCTGCTGCTAATCCCCCTGGAAACCCCCTCAAGCTAGGGCGAATTTTTTATCACCGACACGCCCGCCGAGCAGGCGGGCTTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCgctgct                                                                                                      <  2:39352/149‑1 (MQ=255)

                                            aCTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCGGCTCGAAGGCTGGGCAGCACAAACCGAATCCGCGCGCCAGCCGCGGCTGGaa                                                                                                  >  6:187184/1‑148 (MQ=255)

                                                ccccccACCCTCCTGCTGCAAATCCCCCAGGCACCCCCCGCCCGCGCGGGCGAATTCTTTCTCACCCCCACCCCCGCCGAGCCGGCCGGCCTGCCCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAAc                                                                                               <  5:193877/142‑1 (MQ=255)

                                                   cccACCCTCCTGCTGCAAACCCCCCTGCCACCCCACGCCAGCGAGGGCTAATTCTTTCTCCCCGCCACGCCCGCCGAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTgc                                                                                           <  6:220285/146‑1 (MQ=255)

                                                        cctcctGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCCGCCGGCCTGCGCCCAGGCAGGGGAGCACAAACCCCAGCCCCGCCCCGGCCGCAGCTGGAAAACCAGCGCCAAg                                                                                     >  6:18209/1‑149 (MQ=255)

                                                        cctcctGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCCATGCCGCGCGCCTGCCGCTGCTGGAAAACCAGCGCCAAg                                                                                     >  2:192085/1‑149 (MQ=255)

                                                          tcctGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCGGCCCGGCGGCGCGCACGCTGGGGAGCACAACCCCAAGCCCCCCCCCAGCCCCGGCGGGAAAAACAGCCCCAAAGc                                                                                   >  4:75931/1‑149 (MQ=255)

                                                          tcctGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCCATGCCGCGCGCCGGCCGCGGCTGGAAAACCTGCGCCAAGGc                                                                                   >  6:237257/1‑149 (MQ=255)

                                                                    aaTCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGCGCAGGCCGGCCTGGTCGCAGGCTGGGCAGCACAACCCGATGCCGCGCGCCGGCCGCTGCTGGCAAACCTGCGCCAAGGCCGCCTCGccc                                                                         >  8:296697/1‑148 (MQ=255)

                                                                     aTCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCACGCCGGCCGGCGCGAAGGCAGGGGAGCCCAAACCCCTGCCCCCCGCCAGCCCCGGCTGGAAAACCAGCGCCCAAGCCGCATAGcccc                                                                        >  4:23822/1‑147 (MQ=255)

                                                                        ccccTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCCCAACCCGATGCCGCGCGCCTGCCGCTGCGGGAAAACCTGCGCCAAGGCCGCATCGCCACCaa                                                                     >  8:70237/1‑149 (MQ=255)

                                                                           cTGCCACCCCACGCCAGAGCGGGATAATTCTTTCCCCCCCCCCAGCCCGCCGCGCCGGCCGGCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGa                                                                  <  7:293971/149‑1 (MQ=255)

                                                                              gCAACCCACGCCTGCGTGGGCTATTTCTTTCTCACCGCCACGCCCGCCGTCCAGGCGGGCCGGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGAc                                                                 <  8:130851/147‑1 (MQ=255)

                                                                                aaCCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGCGCCGGCCCGGCGGGGCGCAGGGGGGGCCGCCCCACCCCAAGCCCCGCCCCGGCCGCGGCTGGAAAACCAGCGCCCAGGGCCCCTCGCCACCCAAGACaccc                                                             >  6:41790/1‑146 (MQ=255)

                                                                                           gCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCAGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTgcgc                                                  <  7:166741/149‑1 (MQ=255)

                                                                                             gAGGGCTAAATATTCCTCACCGCCCCCCCCGCCCCGCCGGCGGGCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCt                                                <  5:54679/149‑1 (MQ=255)

                                                                                              agggataaTTATTTCACCCCCCCCCGCCCGCCGCGCCGGCCGGCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTg                                               <  3:242033/143‑1 (MQ=255)

                                                                                              aGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTg                                               <  8:235640/149‑1 (MQ=255)

                                                                                                ggCGAATTCTTTCTCACCCCCCCCCCCGCCGCGCAGGCCGGCCGCCCCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGaa                                             <  3:114684/149‑1 (MQ=255)

                                                                                                   gAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACCACCCCATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGaacaa                                          >  8:76549/1‑149 (MQ=255)

                                                                                                     aTTCTTTCTCACCGCCAAGCCCGCCGAGCCGGCCCGCCAGCTCGAAGGCAGGGCAGCACAACCCCAAGCCGCGCGCCAGCCGCGGCTGGAAAACCAGCCCCCACGCCGCCACGCCCCCAAAGAAAACCCCAAGGAGCGCCAGAACAAcc                                        >  4:281642/1‑149 (MQ=255)

                                                                                                     aTTCTTTCACCCCCCCCCCCCCGCCGCGCCGGCGGCGCGGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAAcc                                        <  6:33366/149‑1 (MQ=255)

                                                                                                               aCCGCCAAGCCCGCCGAGCCGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACACCATCCCGCGCGCCTGCCCCTCCGGGAAAACCACCGCCAAGGCCCCAACGCCACCAATGACAAGCACAAAGTGCGCCAGAACAAACCCCTgcgccg                              >  4:286710/1‑147 (MQ=255)

                                                                                                                 cGCCACGCCCGCCGAGCTGGCCGGCGTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGcc                            <  2:60842/149‑1 (MQ=255)

                                                                                                                    cacgCCCGCCGCGCTGGCCGGCCTGGGCCAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGa                         <  5:56228/146‑1 (MQ=255)

                                                                                                                    cacccccGCCGAGCCGGCCGGCCGGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGa                         <  1:161967/145‑1 (MQ=255)

                                                                                                                     acgCCCGCCGAGCAGGCCGCCCTGCGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGAt                        <  5:187184/147‑1 (MQ=255)

                                                                                                                                      cggccggcTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCCTGgcca       <  3:75931/149‑1 (MQ=255)

                                                                                                                                      cggccggcGCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCCTGgcca       <  5:237257/149‑1 (MQ=255)

                                                                                                                                            gCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCCTGGCCAGccac  >  5:263225/1‑148 (MQ=255)

GCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGATCGACAACGCCCTGGCCAGCCAC  >  NC_002947_CJ‑RC/5512581‑5512868

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A