genome.fa.s5.2.7.7.80.10.50.1000.177.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  177  of  318  ( 38109 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55646361--55646480	38	3.1	37	80	7	132	30	22	22	25	1.99
55646324--55646480	78	2.0	80	81	7	189	32	23	20	23	1.98
55653951--55653989	15	2.4	17	87	12	55	53	7	5	33	1.51
55657837--55657861	13	1.9	13	100	0	50	44	0	8	48	1.32
55658319--55658359	20	2.0	22	85	9	59	48	0	24	26	1.51
55658991--55659052	32	1.9	32	93	0	106	27	14	24	33	1.94
55672077--55672143	20	3.3	20	85	0	98	31	13	22	32	1.92
55672194--55672242	23	2.1	23	96	0	89	28	20	20	30	1.98
55672457--55672516	31	1.9	31	93	0	102	36	16	21	25	1.94
55676481--55676692	40	5.3	40	83	1	248	25	23	26	25	2.00
55683416--55683483	20	3.4	20	81	0	82	35	11	19	33	1.88
55683534--55683606	23	3.1	23	94	3	128	28	20	20	30	1.98
55683533--55683627	24	4.0	24	89	6	140	28	21	22	28	1.99
55683821--55683880	31	1.9	31	93	0	102	36	16	21	25	1.94
55687078--55687339	131	2.0	131	97	0	497	38	19	9	31	1.84
55689259--55689562	27	11.3	27	79	2	256	42	20	8	28	1.81
55689259--55689560	81	3.7	81	80	3	304	42	19	8	29	1.81
55689416--55689561	53	2.7	52	79	4	139	41	20	8	30	1.81
55689583--55689668	27	3.2	27	84	0	100	36	17	20	25	1.95
55690027--55690076	22	2.3	22	78	0	55	24	28	18	30	1.97
55690234--55690341	27	4.0	26	83	5	108	22	21	20	36	1.96
55690459--55690549	6	14.8	6	75	13	87	17	17	16	48	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55690459--55690549	37	2.5	37	84	10	116	17	17	16	48	1.82
55690459--55690549	43	2.1	43	89	0	137	17	17	16	48	1.82
55692490--55692850	27	13.4	27	78	4	291	40	21	8	29	1.82
55692490--55692850	134	2.7	134	83	3	388	40	21	8	29	1.82
55692484--55692846	80	4.5	81	78	4	313	39	21	7	30	1.82
55692840--55693089	27	9.3	27	83	0	304	36	21	18	23	1.95
55692597--55692883	134	2.1	133	78	5	301	40	22	8	28	1.84
55693437--55693497	22	2.7	23	78	12	65	22	26	21	29	1.99
55693662--55693760	27	3.7	26	82	6	108	23	23	18	35	1.96
55693653--55693760	54	2.0	53	82	5	128	21	23	19	36	1.95
55693877--55693943	31	2.2	31	86	0	89	20	19	13	46	1.83
55698891--55699009	55	2.2	55	80	5	134	25	26	25	22	2.00
55708375--55708592	40	5.5	40	88	4	282	22	24	27	24	2.00
55716494--55716657	40	4.1	39	87	7	197	21	23	29	25	1.99
55724550--55724832	40	7.1	40	92	1	435	22	24	27	25	2.00
55731737--55731781	20	2.2	20	88	0	63	35	13	2	48	1.54
55739569--55739731	27	6.0	27	76	5	150	39	16	14	29	1.89
55739597--55739757	81	2.0	81	81	0	187	37	15	13	32	1.87
55746208--55746396	27	7.0	26	75	12	150	41	19	13	25	1.88
55746208--55746397	54	3.5	53	76	9	170	41	20	13	25	1.88
55746208--55746395	81	2.3	80	80	10	213	41	19	13	26	1.88
55746384--55746479	28	3.5	28	78	5	97	20	18	18	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55747947--55747972	10	2.6	10	100	0	52	42	23	0	34	1.54
55750525--55750676	29	5.3	29	77	10	136	27	32	11	27	1.92
55750544--55750677	29	4.7	28	82	5	137	26	32	11	28	1.92
55750869--55750911	16	2.7	16	88	0	59	11	20	18	48	1.79
55752775--55752830	28	2.0	28	100	0	112	35	32	3	28	1.74
55759437--55759480	22	2.0	22	95	0	79	15	0	27	56	1.40
55763051--55763226	50	3.5	49	81	3	172	29	25	17	27	1.98
55770545--55770606	25	2.4	24	80	17	63	59	0	4	35	1.19
55772745--55772858	60	1.9	60	96	0	210	21	29	25	22	1.99
55772805--55773022	39	5.6	39	93	0	382	22	29	24	22	1.99
55778635--55778745	39	2.8	39	90	0	177	24	28	26	20	1.99
55778693--55778806	60	1.9	60	92	0	192	21	28	26	23	1.99
55778753--55778970	39	5.6	39	93	0	373	22	28	25	22	1.99
55778654--55778844	99	1.9	99	94	0	337	22	28	25	23	1.99
55778635--55778884	138	1.8	138	94	0	446	22	28	26	22	1.99
55784563--55784673	39	2.8	39	93	0	186	25	30	25	18	1.98
55784621--55784734	60	1.9	60	96	0	210	20	29	27	22	1.98
55784681--55784898	39	5.6	39	91	0	364	22	29	24	23	1.99
55784582--55784772	99	1.9	99	95	0	346	22	29	25	22	1.99
55792167--55792236	35	2.0	35	88	0	104	31	24	4	40	1.74
55793343--55793410	26	2.5	26	76	4	64	41	22	16	20	1.90
55793343--55793437	27	3.6	27	78	2	75	42	16	15	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55793386--55793448	27	2.3	27	80	0	81	39	9	14	36	1.78
55793440--55793492	27	2.0	27	88	0	79	24	18	20	35	1.95
55795666--55795701	17	2.1	18	89	5	56	41	5	5	47	1.50
55799476--55799537	26	2.3	27	88	2	90	40	24	12	22	1.89
55799468--55799537	27	2.6	27	82	6	90	42	21	11	24	1.85
55799546--55799669	53	2.3	53	81	4	142	38	16	18	25	1.92
55799606--55799675	27	2.6	27	83	0	104	31	22	20	25	1.98
55803331--55803407	28	2.8	26	78	9	66	36	18	15	29	1.92
55803387--55803517	27	4.9	27	79	1	138	32	17	22	27	1.97
55813678--55813713	12	3.3	11	88	11	56	66	0	0	33	0.92
55815963--55816006	20	2.2	20	91	0	70	13	34	31	20	1.92
55817452--55817521	21	3.2	21	62	18	52	38	25	15	20	1.92
55818408--55818478	31	2.3	31	92	4	117	43	11	22	22	1.85
55825511--55825689	85	2.1	85	98	0	349	37	8	27	26	1.85
55827875--55828169	47	6.1	47	87	5	374	31	12	29	26	1.92
55827875--55828146	151	1.8	147	91	3	445	32	12	28	26	1.92
55828143--55828233	46	2.0	46	84	0	119	32	9	31	25	1.89
55828380--55828524	37	3.9	37	96	0	254	24	19	31	25	1.98
55829791--55830181	199	2.0	200	92	0	658	24	21	28	25	1.99
55829791--55830181	40	9.8	40	92	0	640	24	21	28	25	1.99
55830393--55830501	57	1.9	57	86	1	155	23	20	28	27	1.99
55831951--55832129	85	2.1	85	98	0	349	37	8	27	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55834310--55834702	47	8.1	47	86	7	468	31	12	30	26	1.93
55834384--55834459	24	3.2	24	62	23	61	28	13	32	25	1.93
55834310--55834702	98	4.1	97	84	8	516	31	12	30	26	1.93
55834310--55834702	151	2.7	145	86	7	568	31	12	30	26	1.93
55834541--55834708	93	1.8	91	87	5	214	32	12	31	23	1.92
55834673--55834763	46	2.0	46	86	0	128	32	8	31	26	1.87
55834910--55835074	37	4.5	37	96	0	303	24	18	32	24	1.97
55851101--55851133	14	2.3	15	89	5	50	45	48	3	3	1.33
55851866--55851993	48	2.7	47	81	7	152	24	30	17	27	1.97
55857460--55857556	50	1.9	50	100	0	194	29	25	11	32	1.91
55863564--55863618	28	1.9	28	85	10	76	23	43	21	10	1.84
55865539--55865633	25	3.8	25	84	4	129	24	22	24	29	1.99
55865836--55866027	27	7.1	27	84	2	242	25	20	18	35	1.95
55865837--55866027	54	3.5	54	89	0	283	25	20	17	36	1.95
55866194--55866385	27	7.1	27	87	0	267	24	21	19	34	1.96
55866203--55866385	54	3.4	54	93	0	312	24	22	19	33	1.97
55865670--55868891	358	9.0	358	98	0	6210	29	24	16	29	1.96
55866552--55866743	27	7.1	27	85	0	249	25	21	18	34	1.96
55866561--55866743	54	3.4	54	93	3	305	25	22	18	33	1.96
55866910--55867101	27	7.1	27	86	0	258	23	22	19	34	1.96
55866914--55867101	54	3.5	54	92	2	297	23	22	18	34	1.96
55867268--55867459	27	7.1	27	89	0	276	24	22	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55867277--55867459	54	3.4	54	95	0	321	24	23	19	32	1.97
55867626--55867817	27	7.1	27	89	0	276	24	22	19	33	1.97
55867635--55867817	54	3.4	54	95	0	321	24	23	19	32	1.97
55867984--55868175	27	7.1	27	85	0	249	24	22	19	33	1.97
55867988--55868175	54	3.5	54	91	2	288	24	22	18	34	1.96
55868342--55868533	27	7.1	27	87	0	267	24	21	19	34	1.96
55868351--55868533	54	3.4	54	93	0	312	24	22	19	33	1.97
55868700--55868915	27	8.0	27	87	0	297	24	21	19	34	1.96
55868704--55868915	54	3.9	54	92	2	336	24	22	18	34	1.96
55868906--55869171	27	9.8	27	77	9	238	30	7	19	42	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318