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	5,512,711	A→C	37.6%	Q32P (CAG→CCG)	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	5,512,711	0	A	C	37.6%	17.6 / 11.7	39	Q32P (CAG→CCG)	urtB	urea ABC transporter permease
Reads supporting (aligned to +/- strand): ref base A (14/8); new base C (7/7); total (22/17)
Fisher's exact test for biased strand distribution p-value = 4.99e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGAT  >  NC_002947_CJ‑RC/5512564‑5512846

tAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAg                                                                                                                                        >  4:114684/1‑149 (MQ=255)

tAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAg                                                                                                                                        >  4:242033/1‑149 (MQ=255)

    aGCGGGCTCACCCGCGAAGAATCCAACCCCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGCGGCggccg                                                                                                                                    >  1:200152/1‑149 (MQ=255)

    aGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAggccg                                                                                                                                    <  7:267386/149‑1 (MQ=255)

        ggCCCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCt                                                                                                                                <  3:163500/149‑1 (MQ=255)

         gCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAcgccccccac                                                                                                                               >  4:201124/1‑143 (MQ=255)

         gCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTg                                                                                                                               >  6:54679/1‑149 (MQ=255)

                 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)

TAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCTCGAAGGCTGGGCAGCACAACCCGATGCCGCGCGCCTGCCGCTGCTGGAAAACCTGCGCCAAGGCCGCATCGCCACCAATGACAAGCGCAAGGTGCGCCTGAACAACCGCCTGCGCGGCCTGAT  >  NC_002947_CJ‑RC/5512564‑5512846

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