New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? AP009048 314454 =NA (NA)7 (0.090) 6/90 NT NA coding (874/888 nt) eaeH attaching and effacing protein, pathogenesis factor
?AP009048 314485 = NA (NA)intergenic (+17/‑21) eaeH/insE attaching and effacing protein, pathogenesis factor/IS3 element protein

Only 100 of 144 total aligned reads displayed.

CTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/314527‑314454
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taagTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  >  AP009048/314485‑314554
                                                                                                                                                
CTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           <  1:760920/71‑1
CTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           <  1:2410306/71‑1
CTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           <  1:72608/71‑1
 TGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:459213/1‑70
 TGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:1551719/1‑70
 TGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:2140084/1‑70
  GTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:373601/1‑69
  GTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:5512311/1‑69
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:1119962/71‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:3503533/71‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:3093039/71‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:7321353/71‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         <  1:2748057/70‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTA                                                                          <  1:2695888/69‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTA                                                                          <  1:7232517/69‑1
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:2560813/1‑68
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:5191960/1‑68
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:5141522/1‑68
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:4198195/1‑68
   TTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTACACTATTGCTGGGTA                                                                          <  1:937633/69‑1
   TTTTTGTCATGTGAGTCACCTCTCACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:6045579/1‑68
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         >  1:1057459/1‑69
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTA                                                                          <  1:6545170/68‑1
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:5122012/1‑67
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:1672531/1‑67
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:6116882/1‑67
    TTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:7390802/1‑67
     TTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:599075/69‑1
     TTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:3487468/1‑66
     TTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGT                                                                           >  1:5101991/1‑66
            TGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACCATTGCTGGGTAA                                                                         <  1:7279115/61‑1
                AGTCACCTCTGACTGAGAGTTTACTCGCTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         <  1:1359306/57‑1
                AGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         <  1:6457018/57‑1
                           ACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTA                                                                          <  1:4483325/45‑1
                           ACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTA                                                                          <  1:3572166/45‑1
                            CTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG                                                                        <  1:6815839/46‑1
                               AGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         >  1:4797714/1‑42
                                GAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         >  1:115078/1‑41
                                GAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAA                                                                         >  1:3945435/1‑41
                                        TCACTTAGCCGCGTGTCCACTATTGCTGGGTAAGTGAGTAAACTCTCAGTCAGAGGTGA                                               <  1:3432058/59‑1
                                          ACTTAGCCGCGTGTCCACTATTGCTGGGTAAGTGAGTAAACTCTCAGTCAGAGGTG                                                <  1:5604964/56‑1
                                             TAGCCGCGTGTCCACTATTGCTGGGTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAA                                >  1:1813694/1‑69
                                                       TCCACTATTGCTGGGTAAGTGAGTAAACTCTCAGTCAGAGGTGAC                                              >  1:5915598/1‑45
                                                       TCCACTATTGCTGGGTAAGTGAGTAAACTCTCAGTCAGAGGTGAC                                              >  1:5996859/1‑45
                                                                     aTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC                                     <  1:3159455/39‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCTCATGACAAAAACAGTAT                          >  1:7870792/1‑50
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGT      >  1:152861/1‑70
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGT                  <  1:2192731/58‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTA                           <  1:3562405/49‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTA                           <  1:2556743/49‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTA                           <  1:6169617/49‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC                                     <  1:1541478/39‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATAACAAA                                  <  1:2240301/42‑1
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAT                                        >  1:6556821/1‑36
                                                                      TAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAT                                        >  1:5667357/1‑36
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAAag                              >  1:6389979/1‑43
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     >  1:2685698/1‑70
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     >  1:4639093/1‑70
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     >  1:4894940/1‑70
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACC          >  1:4364337/1‑65
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACC          >  1:4049939/1‑65
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAA            >  1:6000432/1‑63
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAA                >  1:16317/1‑59
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCA                        <  1:5669022/51‑1
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCA                        <  1:5143883/51‑1
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCA                        <  1:5445503/51‑1
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAG                             <  1:1954173/46‑1
                                                                       AAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAA                                 >  1:449217/1‑42
                                                                       AAGAGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAA            >  1:690142/1‑63
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:4508647/71‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:1997283/71‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:6228369/71‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:7128607/71‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:7507906/71‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     <  1:6841126/69‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     <  1:5929224/69‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     <  1:872825/69‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTA     <  1:3962903/69‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACC          >  1:4736746/1‑64
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAA                       >  1:2129671/1‑51
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAA                       >  1:7261411/1‑51
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAT                          >  1:4351637/1‑48
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAT                          >  1:4346450/1‑48
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAA                                <  1:4805622/42‑1
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAA                                >  1:1331757/1‑42
                                                                        AGTGAGTAAACTCTCAGTCAGAGGTGACCCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:2385676/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  <  1:3553005/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  <  1:218581/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  <  1:456519/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  <  1:4441333/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  <  1:3763239/71‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   >  1:4246356/1‑70
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   >  1:3399388/1‑70
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   >  1:3841724/1‑70
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAA   <  1:968061/70‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAA             >  1:5260169/1‑60
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCA                    >  1:1862700/1‑53
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCA                    >  1:1251960/1‑53
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC                                     <  1:1283287/36‑1
                                                                         GTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC                                     <  1:3673764/36‑1
                                                                                                                                                
CTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/314527‑314454
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taagTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAAC  >  AP009048/314485‑314554

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.