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
A17 F104 I1 R1	25	31.6	1325236	90.2%	1195362	142.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	710,436	G→A	H71Y (CAC→TAC)	fur ←	DNA‑binding transcriptional dual regulator Fur

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	710,436	0	G	A	96.4%	77.5 / NA	28	H71Y (CAC→TAC)	fur	DNA‑binding transcriptional dual regulator Fur
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (14/13); minor base C (1/0); total (15/13)
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

TTGCGGCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTGGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAA  >  NC_000913/710298‑710573

ttGCGGCTACTTCCCGCTGACGCGCCTCGATGCAATCATCACTAAAGTCGATAATCTTGCCGCAGTCGAGCCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCgg                                                                                                                                       <  1:135866/143‑1 (MQ=255)

          ttCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGCTCGTGGTGATGTTGCTGTGTCAATTCAAATACGGATTTACCGCCTCCTACATTGTAAGGGCTGCCGATAc                                                                                                                             >  2:416876/1‑143 (MQ=255)

                    cgcgCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCgtcgtc                                                                                                                   <  2:600018/143‑1 (MQ=255)

                     gcgcTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTCACGGGTGACGATACCAACGTCGTCa                                                                                                                  >  2:123471/1‑143 (MQ=255)

                             aTGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGGTACCAGCGTCGTCAAACTGGtt                                                                                                          >  2:314800/1‑143 (MQ=255)

                             aTGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGtt                                                                                                          >  2:477116/1‑143 (MQ=255)

                             aTGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGATGACGATACCACCGGCGTCAAACTgact                                                                                                          >  2:514318/1‑140 (MQ=255)

                              tGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAACATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGGTc                                                                                                         >  2:28974/1‑143 (MQ=255)

                               ggAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCa                                                                                                        >  1:284942/1‑143 (MQ=255)

                                       caCTAAATGCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCGGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGa                                                                                                <  2:414795/143‑1 (MQ=255)

                                             aTTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATAcc                                                                                          <  1:264699/143‑1 (MQ=255)

                                                cGATAACCTTGCCGCAGTCGAGGCAGATCAGCTGACCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTa                                                                                       <  1:660730/143‑1 (MQ=255)

                                                       cTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCGAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGAc                                                                                >  1:343434/1‑143 (MQ=255)

                                                       cTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATGTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGAc                                                                                <  2:484141/143‑1 (MQ=255)

                                                           ccGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAAt                                                                            <  1:130438/143‑1 (MQ=255)

                                                             gCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGCTACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAAttt                                                                          <  1:399003/143‑1 (MQ=255)

                                                              cAGTCCGGGCAGATCAGGTGAGCGTGGTGATGGTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATttc                                                                         <  1:234270/143‑1 (MQ=255)

                                                                                   tCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACg                                                    >  2:429718/1‑143 (MQ=255)

                                                                                      tggtgATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGGAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGttt                                                 <  1:308503/143‑1 (MQ=255)

                                                                                          gATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGCTCAGCCGTTTGtat                                             >  2:600175/1‑143 (MQ=255)

                                                                                                          ttCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATATCTTCACCTATATCGATCAGACGGTGGTATAAATCTTCCGCACTGa                             >  1:371965/1‑143 (MQ=255)

                                                                                                                tACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGAt                       >  1:328980/1‑143 (MQ=255)

                                                                                                                        tACCGCCTTCAAACATGTAGCGGATGACGAGACCAGCGTCGCCAAACTCGCTCAGTACGCGATATACCCTACCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTcc               <  1:14037/143‑1 (MQ=255)

                                                                                                                             ccTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTGCCGCACTGACGTGGTGGTTGTTCGGCTc          >  1:54483/1‑143 (MQ=255)

                                                                                                                               ttCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCt        >  1:315383/1‑143 (MQ=255)

                                                                                                                                  aaaaTTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTgaa     >  1:162246/1‑143 (MQ=255)

                                                                                                                                     aTTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATGTACCGTAGCCAGCCTATTTGCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTgaagaa  <  1:337508/143‑1 (MQ=255)

                                                                                                                                     aTTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTgaagaa  <  1:314800/143‑1 (MQ=255)

TTGCGGCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTGGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAA  >  NC_000913/710298‑710573

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A