BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,440,007	Δ1 bp	coding (34/201 nt)	cspA_2 ←	Cold shock protein CspA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,440,007	0	C	.	97.2%	794.2 / 15.2	180	coding (34/201 nt)	cspA_2	Cold shock protein CspA
Reads supporting (aligned to +/- strand): ref base C (1/0); major base . (79/94); minor base T (1/4); total (81/99)
Fisher's exact test for biased strand distribution p-value = 3.81e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 180 total aligned reads displayed.

TTGTGGACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGC  >  USA300TCH1516_ALE/1439864‑1440150

ttGTGGACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGCTAAAGCCGAATCCTTTTT‑AGCGtt                                                                                                                                           >  1:509661/1‑149 (MQ=255)

   tgGACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTaaa                                                                                                                                        <  1:1719089/149‑1 (MQ=255)

    ggACCGCGGTCGCCTTCAACTTCTTCAAACTTCACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAAc                                                                                                                                       <  1:204301/149‑1 (MQ=255)

    ggACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGTCCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAAc                                                                                                                                       <  2:726178/149‑1 (MQ=255)

    ggACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAAc                                                                                                                                       >  1:655562/1‑149 (MQ=255)

      aCCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAAccg                                                                                                                                     >  1:1437242/1‑148 (MQ=255)

      aCCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCa                                                                                                                                     >  2:41607/1‑149 (MQ=255)

               gCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGt                                                                                                                            <  1:1538384/149‑1 (MQ=255)

                 cTTCAACTGCTTCAAACTCAACAGCTTGACCTTCTTCTAATGAGTTGTAACCATCTTGGTTAATTGCTGAAAGATGTACGAATACGTCATTTTCTCCTTCATCTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTAc                                                                                                                          <  2:267143/149‑1 (MQ=39)

                  ctCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTAcc                                                                                                                         <  1:931643/148‑1 (MQ=255)

                     aaCTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTACCTGTACCTTg                                                                                                                      >  1:998432/1‑149 (MQ=255)

                     aaCTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCttt                                                                                                                      >  2:1670039/1‑148 (MQ=255)

                     aaCTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTg                                                                                                                      >  1:436618/1‑149 (MQ=255)

                         actTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTc                                                                                                                  <  2:941650/149‑1 (MQ=255)

                         actTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTc                                                                                                                  <  1:678674/149‑1 (MQ=255)

                          ctTCAAACTCCACAGCTTGACCTTCTTCTAATGATTTGTACCCTTCTTGGAAAAAAAAAAAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCa                                                                                                                 <  2:153844/149‑1 (MQ=255)

                          ctTCAAACTCAACTGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCa                                                                                                                 <  1:1160833/149‑1 (MQ=255)

                            tCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTAGGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATa                                                                                                               >  1:1070966/1‑149 (MQ=255)

                            tCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATa                                                                                                               >  1:1030212/1‑149 (MQ=255)

                                aCTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCGTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATTATCt                                                                                                           >  2:1489436/1‑149 (MQ=255)

                                  tCAACAGCGTTACCTTCTTCTAATGATTTGTAACCATCTTGGCTACTTGCTCAAAAATGTACGAATAGGTCATTTTATCTTTCATTTTCTATAAAGCCGAATCCTTTTT‑AGCGTTAACCCATTTAACTGTCCCTTGTTTCATAATCTGa                                                                                                         <  2:500871/149‑1 (MQ=255)

                                    aaCAGCTTGACCTTCTTCTAATGATTTGTAACCCTCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGaaa                                                                                                       <  1:666932/149‑1 (MQ=255)

                                      cAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTCCGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAAcc                                                                                                     >  1:985813/1‑149 (MQ=255)

                                      cAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATGTGAAAcc                                                                                                     >  2:1369327/1‑149 (MQ=255)

                                         cTTGACCTTCTTCTAATGATTTCTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTcc                                                                                                  <  2:1046085/149‑1 (MQ=255)

                                            gACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAg                                                                                               <  1:621276/149‑1 (MQ=255)

                                             aCCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCaccc                                                                                              <  2:1334311/149‑4 (MQ=255)

                                              ccTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGAc                                                                                             <  1:1663939/149‑1 (MQ=255)

                                               cttcttCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACt                                                                                            <  2:766548/149‑1 (MQ=255)

                                                  cttctAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTaaa                                                                                         >  1:1391175/1‑149 (MQ=255)

                                                    tctAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAat                                                                                       >  1:780078/1‑149 (MQ=255)

                                                    tctAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAat                                                                                       >  1:1842841/1‑149 (MQ=255)

                                                     ctAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAatt                                                                                      <  1:700868/149‑1 (MQ=255)

                                                      tAATGATTTGTAACCATCTTGGTTAATTGCTGAACAATGTACGAATACGTCATTTTCTCCTTCATCTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattc                                                                                     <  2:550414/149‑1 (MQ=255)

                                                       aaTGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattca                                                                                    <  1:1007078/149‑1 (MQ=255)

                                                        aTGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattcat                                                                                   <  2:458879/149‑1 (MQ=255)

                                                        aTGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattcat                                                                                   <  1:759566/149‑1 (MQ=255)

                                                         tGATTTGTAACCCTCTTGGTTAATTGCTGTAAAATGTACGAATACGTCATTTTCTCCTTCATCTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATACTCTGAAACCTCCAAGACTAAAattcatt                                                                                  <  2:1643245/149‑1 (MQ=255)

                                                         tGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattcatt                                                                                  <  1:726364/149‑1 (MQ=255)

                                                         tGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattcatt                                                                                  >  1:180303/1‑149 (MQ=255)

                                                            tttGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCaa                                                                               >  2:902255/1‑149 (MQ=255)

                                                               gTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAatat                                                                            >  1:1891832/1‑149 (MQ=255)

                                                                 aaCCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTCAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGc                                                                          <  1:1050990/149‑1 (MQ=255)

                                                                  aCCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCt                                                                         <  2:436618/149‑1 (MQ=255)

                                                                        ttGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCg                                                                   <  1:803464/149‑1 (MQ=255)

                                                                        ttGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCg                                                                   <  1:609144/149‑1 (MQ=255)

                                                                        ttGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCg                                                                   <  1:237925/149‑1 (MQ=255)

                                                                        ttGGTTAATTGCTGAAAAATGTACGAATACGTCACTTTCGCCTGCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCg                                                                   <  1:859469/149‑1 (MQ=255)

                                                                         ttgTTAATTGCCGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGc                                                                  <  2:118988/147‑1 (MQ=255)

                                                                         tGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGc                                                                  <  1:525367/149‑1 (MQ=255)

                                                                         tGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGc                                                                  <  1:182881/149‑1 (MQ=255)

                                                                         tGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGc                                                                  <  2:852684/149‑1 (MQ=255)

                                                                         tGGTTAATTCGTGAAAAATGTACGTATTCGTCATTTTCTCCTTTAACTTAGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGc                                                                  <  2:144570/149‑1 (MQ=255)

                                                                          ggTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATGAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAAACTCCAAGACTAAAATTCATTCAATATGCTTATTCGcc                                                                 >  2:1091761/1‑148 (MQ=255)

                                                                          ggTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCa                                                                 <  2:845968/149‑1 (MQ=255)

                                                                           gTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCat                                                                >  2:1669321/1‑149 (MQ=255)

                                                                           gTTAATTCCTGAAAAATGTACTAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCat                                                                <  2:3781/149‑1 (MQ=255)

                                                                             tAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATTCTTATTCGCatat                                                              >  1:1705859/1‑149 (MQ=255)

                                                                              aaTTGCTGAAAAATGTACGAATATGTCATTTTCTCCTGCAACTTCCATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAACCCTCCAAGACTAAAATTCATTCACTATGCTTATTCGCATAtt                                                             <  1:341902/149‑1 (MQ=255)

                                                                                 tGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACa                                                          >  1:1584857/1‑149 (MQ=255)

                                                                                  tcTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACaa                                                         <  2:625426/148‑1 (MQ=255)

                                                                                  gCTTAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTAT‑AGCGTTAAACCACTTATTTTTACCTTGGTTCACAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACaa                                                         <  2:822970/149‑1 (MQ=255)

                                                                                   cTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACaaa                                                        <  1:168509/149‑1 (MQ=255)

                                                                                   cTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACaaa                                                        <  1:896209/149‑1 (MQ=255)

                                                                                       aaaaTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAAt                                                    >  2:1807695/1‑149 (MQ=255)

                                                                                       aaaaTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAAt                                                    >  1:231423/1‑149 (MQ=255)

                                                                                         aaTGTACGAATACGTCATTTCCTCCTTCGACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAATCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATAc                                                  <  1:1135734/149‑1 (MQ=255)

                                                                                          aTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAGCCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATGTTACAAAAAAAACa                                                 >  1:1343485/1‑149 (MQ=255)

                                                                                          aTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTCACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACa                                                 <  2:1715201/149‑1 (MQ=255)

                                                                                          aTGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACATTCCAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACa                                                 >  1:379894/1‑149 (MQ=255)

                                                                                            gTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATg                                               >  1:1921170/1‑149 (MQ=255)

                                                                                            gTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATg                                               >  1:276488/1‑149 (MQ=255)

                                                                                             tACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGc                                              >  2:1973191/1‑149 (MQ=255)

                                                                                             tACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGc                                              >  1:1335875/1‑149 (MQ=255)

                                                                                             tACGAATACGTCATTTTCTCCTTCAACTGCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTCAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATgt                                              >  1:1405644/1‑148 (MQ=255)

                                                                                             tACGAATACGTCATTTCCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCGCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGc                                              >  2:1477558/1‑149 (MQ=255)

                                                                                                 aaTACGTCATTTTCTCCTGCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAAt                                          <  2:487355/149‑1 (MQ=255)

                                                                                                     cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGACACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCa                                      <  2:1894112/149‑1 (MQ=255)

                                                                                                     cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAGATTTCa                                      >  1:146815/1‑149 (MQ=255)

                                                                                                     cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCa                                      >  1:1090981/1‑149 (MQ=255)

                                                                                                     cGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCa                                      <  1:1244890/149‑1 (MQ=255)

                                                                                                      gTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCAc                                     <  1:1631714/149‑1 (MQ=255)

                                                                                                      gTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCAc                                     >  2:681522/1‑149 (MQ=255)

                                                                                                       tCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACt                                    >  2:1929908/1‑149 (MQ=255)

                                                                                                       tCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACt                                    <  1:1750332/149‑1 (MQ=255)

                                                                                                           tttCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCaaa                                <  1:1380309/149‑1 (MQ=255)

                                                                                                           tttCTCCTTAACCTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCaaa                                <  2:1128032/149‑1 (MQ=255)

                                                                                                           ttgctcCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCaaa                                <  2:794553/146‑1 (MQ=255)

                                                                                                               tcCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATAtt                            <  2:478070/149‑1 (MQ=255)

                                                                                                               cacTTCAACGTCGACAAAGCCTAAT‑CTTTTTTAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGAATAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATAtt                            <  2:393149/147‑1 (MQ=255)

                                                                                                                  ttCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAGTATTCtt                         >  1:243952/1‑149 (MQ=255)

                                                                                                                      aCTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACCCAAAACACAGGCAAATTTCACTCAAATATTCTTTGCa                     <  1:481419/149‑1 (MQ=255)

                                                                                                                            aTAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGAATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATgg               <  2:714508/149‑1 (MQ=255)

                                                                                                                             tAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTCTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATCTGCTTATTCGCATATTACAAAAAATACATGCAAGTTTCACTCAACGATTCTTTGCAATATGGa              >  1:1608898/1‑149 (MQ=255)

                                                                                                                               aaGCCGAATCCTTTTT‑AGCGTTAAACCATTTAAATGTACATTGTTTCATAATCTGAAACCACCAAGACTAAAAGTCATTCAATATGCTTATACGCATATTACAAAAAATACTTGCAAATTTCACTCAAATATTCTTTGCAATATGAaat            >  2:95024/1‑149 (MQ=255)

                                                                                                                                     aaTCCTTTTT‑AGCGTTAAACCATTTCACTGTACCTTGTTTCATTATCTGACACCTCCAAGACTAAAATTAATTCATTATGCTTATTCGCATCTTACAAAAAATACATGCAAATTTCACTCAAATTTTCTTTGCCATATGGaatgctgct      >  1:315184/1‑143 (MQ=255)

                                                                                                                                     aaTCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAatcat      >  2:493098/1‑149 (MQ=255)

                                                                                                                                     aaTCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAatcat      >  1:411504/1‑149 (MQ=255)

                                                                                                                                          cttttTAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAACTATCCTTTGCAATATGGAATAATCATCTGc  <  2:18746/148‑1 (MQ=255)

                                                                                                                                          cttttGAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGc  <  2:1151679/148‑1 (MQ=255)

TTGTGGACCGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAATCATCTGC  >  USA300TCH1516_ALE/1439864‑1440150

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`