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
A11 F28 I1 R1	134	60.5	2175152	94.0%	2044642	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,456,803	(C)_6→7	coding (427/1953 nt)	gspD →	Type II secretion system protein GspD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,456,797	1	.	C	95.5%	225.2 / 3.3	66	coding (421/1953 nt)	gspD	Type II secretion system protein GspD
Reads supporting (aligned to +/- strand): ref base . (1/2); new base C (28/35); total (29/37)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.23e-01

TGGTTTTCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTG  >  NC_000913/3456661‑3456929

tGGTTTTCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccc                                                                                                                                   >  1:39359/1‑140 (MQ=255)

 ggTTTTCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑cccc                                                                                                                                  >  2:241789/1‑140 (MQ=255)

 ggTTTTCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑cccc                                                                                                                                  >  2:27945/1‑140 (MQ=255)

    tttCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccc                                                                                                                               <  2:162072/140‑2 (MQ=255)

     ttCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccct                                                                                                                              <  1:901001/140‑3 (MQ=255)

     ttCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccct                                                                                                                              >  1:1076408/1‑138 (MQ=255)

      tCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccctg                                                                                                                             <  1:241789/140‑4 (MQ=255)

      tCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccctg                                                                                                                             <  1:197787/140‑4 (MQ=255)

        tGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑ccccccctgct                                                                                                                           <  1:640903/140‑6 (MQ=255)

            aGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGc                                                                                                                        >  2:309411/1‑140 (MQ=255)

            aGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGc                                                                                                                        <  2:583547/140‑1 (MQ=255)

            aGTGGTTCGCTAAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGc                                                                                                                        <  1:455190/140‑1 (MQ=255)

                  tCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAgatg                                                                                                                  <  1:925016/140‑1 (MQ=255)

                   cGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAgatga                                                                                                                 <  1:105128/140‑1 (MQ=255)

                    gCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAgatgat                                                                                                                >  2:952109/1‑140 (MQ=255)

                     cTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGatgatg                                                                                                               <  1:136533/140‑1 (MQ=255)

                       cAGCTAATGTAAAAACATCGCCAGGTATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATgatgga                                                                                                             <  1:120546/140‑1 (MQ=255)

                       cAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATgatgga                                                                                                             <  1:952109/140‑1 (MQ=255)

                             aTGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCggg                                                                                                       >  1:139569/1‑140 (MQ=255)

                                 aaaaaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGc                                                                                                   <  1:29556/140‑1 (MQ=255)

                                 aaaaaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGc                                                                                                   <  2:139569/140‑1 (MQ=255)

                                 aaaaaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCACGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCTCGC‑‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGc                                                                                                   <  2:959197/140‑1 (MQ=255)

                                   aaaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGt                                                                                                 <  1:933554/140‑1 (MQ=255)

                                    aaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTc                                                                                                >  2:399103/1‑140 (MQ=255)

                                    aaCATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTc                                                                                                >  1:640763/1‑140 (MQ=255)

                                       aTCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGt                                                                                             >  2:915569/1‑140 (MQ=255)

                                        tCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTa                                                                                            <  1:527096/140‑1 (MQ=255)

                                         cGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTaa                                                                                           >  1:55145/1‑140 (MQ=255)

                                         cGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTaa                                                                                           >  1:827335/1‑140 (MQ=255)

                                         cGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTaa                                                                                           >  1:823868/1‑140 (MQ=255)

                                               ggATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAAtgttgt                                                                                     <  1:309411/140‑1 (MQ=255)

                                               ggATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAAtgttgt                                                                                     <  2:39359/140‑1 (MQ=255)

                                               ggATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAAtgttgt                                                                                     <  2:21438/140‑1 (MQ=255)

                                                gatgatTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTtgtg                                                                                    <  2:1080652/140‑1 (MQ=255)

                                                    atTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCAtt                                                                                <  1:181998/140‑1 (MQ=255)

                                                         tGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGaa                                                                           >  2:397302/1‑140 (MQ=255)

                                                           aCAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGGAGCGTCGGTAATGTTGTGCATTATGAAcc                                                                         >  1:180525/1‑140 (MQ=255)

                                                              gTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTc                                                                      >  1:1026748/1‑140 (MQ=255)

                                                              gTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTc                                                                      >  2:930184/1‑140 (MQ=255)

                                                                 ctcGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCaa                                                                   >  1:639495/1‑140 (MQ=255)

                                                                  tcGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGCCCCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCaa                                                                   >  1:39405/1‑140 (MQ=255)

                                                                  tcGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAAc                                                                  >  1:740675/1‑140 (MQ=255)

                                                                         ggCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTa                                                           <  1:915569/140‑1 (MQ=255)

                                                                         ggCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTa                                                           >  2:916022/1‑140 (MQ=255)

                                                                             tAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCt                                                       <  2:823868/140‑1 (MQ=255)

                                                                                gTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGAc                                                    <  2:1026748/140‑1 (MQ=255)

                                                                                 tgatgaGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGAcc                                                   >  1:755780/1‑140 (MQ=255)

                                                                                    tgaGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGt                                                >  1:1018792/1‑140 (MQ=255)

                                                                                    tgaGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGt                                                <  2:514051/140‑1 (MQ=255)

                                                                                    tgaGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGt                                                >  1:435183/1‑140 (MQ=255)

                                                                                     gaGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTc                                               <  1:510233/140‑1 (MQ=255)

                                                                                       gTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGt                                             <  2:827335/140‑1 (MQ=255)

                                                                                        ttGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTg                                            >  1:111289/1‑140 (MQ=255)

                                                                                          ggTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCATCGGTAATGTTGTTCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGcc                                          >  2:1014651/1‑140 (MQ=255)

                                                                                            tCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTc                                        <  1:397302/140‑1 (MQ=255)

                                                                                              aCCCGAATTGTACCGCTGGAAAACGTTCCTGCTCGTGACCT‑AG‑‑CGCCCCTGCTCCGCCAGATGATGGATGCGGGTGGTGTCGGTAATGTTGTGCATTATGATCACGACAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:513467/140‑1 (MQ=255)

                                                                                               cccGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:111289/140‑1 (MQ=255)

                                                                                               cccGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:755780/140‑1 (MQ=255)

                                                                                               cccGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:740675/140‑1 (MQ=255)

                                                                                               cccGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:435183/140‑1 (MQ=255)

                                                                                               cccGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:639495/140‑1 (MQ=255)

                                                                                                      tGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATtaat                              >  1:518734/1‑140 (MQ=255)

                                                                                                             cTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     >  1:78079/1‑125 (MQ=255)

                                                                                                             cTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTccac                                     <  2:78079/125‑1 (MQ=255)

                                                                                                              ttGAGAACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGAt                      <  1:27945/140‑1 (MQ=255)

                                                                                                                gagaACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTg                    <  2:55145/140‑1 (MQ=255)

                                                                                                                gagaACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTg                    <  1:930184/140‑1 (MQ=255)

                                                                                                                gagaACGTTCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTg                    <  2:1076408/140‑1 (MQ=255)

                                                                                                                       ttCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCAt             >  1:914179/1‑140 (MQ=255)

                                                                                                                        tCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATa            >  2:322028/1‑140 (MQ=255)

                                                                                                                        tCCTGCTCGTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATa            <  1:322028/140‑1 (MQ=255)

                                                                                                                                gTGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGT‑ATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGtt   >  1:52789/1‑140 (MQ=255)

                                                                                                                                 tGACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGT‑ATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTg  <  2:52789/140‑1 (MQ=255)

                                                                                                                                  gACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTg  >  2:432243/1‑140 (MQ=255)

                                                                                                                                  gACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTg  >  1:601164/1‑140 (MQ=255)

                                                                                                                                  gACCT‑GGC‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTg  <  2:1018792/140‑1 (MQ=255)

TGGTTTTCTGAAAGTGGTTCGCTCAGCTAATGTAAAAACATCGCCAGGGATGATTGCTGACAGTTCTCGTCCAGGCGTAGGTGATGAGTTGGTCACCCGAATTGTACCGCTTGAGAACGTTCCTGCTCGTGACCT‑GG‑‑CCCCCCTGCTCCGCCAGATGATGGATGCGGGTAGCGTCGGTAATGTTGTGCATTATGAACCCTCCAACGTTCTTATTCTGACCGGTCGTGCCTCCACCATTAATAAACTGATTGAAGTCATAAAGCGCGTTG  >  NC_000913/3456661‑3456929

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A