genome.fa.s2.2.7.7.80.10.50.1000.188.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: At_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   319   320   
          321   322   

This is table  188  of  322  ( 38559 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)
61778971--61779125	81	1.9	81	82	2	195	43	16	8	31	1.78
61779608--61779660	22	2.4	21	84	9	79	24	22	16	35	1.95
61791208--61791260	26	2.0	26	100	0	106	43	18	7	30	1.78
61793036--61793270	51	4.6	51	74	2	168	33	25	15	25	1.95
61793075--61793270	50	3.9	50	75	4	169	33	25	15	26	1.95
61793625--61793683	30	1.9	30	82	3	73	23	22	8	45	1.79
61810963--61811042	28	2.7	31	86	11	114	42	12	10	35	1.76
61810976--61811042	28	2.4	28	100	0	134	44	8	8	37	1.67
61811088--61811132	15	2.8	17	83	12	60	37	15	0	46	1.46
61816327--61816435	55	2.0	55	92	3	184	33	29	5	31	1.80
61816561--61816715	67	2.4	65	78	12	158	21	30	17	29	1.96
61818243--61818364	47	2.7	44	82	10	156	26	18	30	24	1.98
61824537--61824609	36	2.0	36	100	0	146	42	19	16	21	1.89
61826957--61827028	34	2.1	34	100	0	144	36	31	19	12	1.89
61829538--61829684	29	5.2	29	81	4	140	27	14	31	25	1.95
61830951--61831221	46	5.8	46	74	11	155	23	28	19	28	1.98
61835424--61835547	43	3.0	42	83	5	162	31	21	16	30	1.95
61843410--61843627	24	8.4	28	74	17	204	23	23	14	37	1.92
61843410--61843627	52	4.2	52	89	2	325	23	23	14	37	1.92
61843426--61843596	28	6.6	28	75	15	100	23	22	15	38	1.92
61847753--61847832	41	2.0	41	85	5	108	22	15	8	53	1.68
61854340--61854538	99	2.0	100	98	1	382	40	8	18	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61855011--61855262	68	3.9	64	79	8	233	30	17	27	24	1.97
61855056--61855208	66	2.3	65	85	6	191	33	16	27	21	1.95
61856404--61856510	52	2.1	52	96	0	196	32	14	15	37	1.88
61861080--61861110	16	1.9	16	93	0	53	35	16	6	41	1.74
61873407--61873526	56	2.1	56	96	0	222	45	9	22	22	1.80
61874654--61874878	40	5.7	40	85	5	287	24	21	28	25	1.99
61874661--61874911	119	2.1	119	81	7	278	26	20	27	25	1.99
61881374--61881629	130	2.0	130	92	3	435	37	19	13	29	1.90
61882777--61882910	46	2.9	46	78	9	164	29	28	20	22	1.98
61883771--61883886	58	2.0	58	100	0	232	25	20	6	46	1.75
61888317--61888535	46	4.7	46	78	7	221	30	26	18	24	1.98
61891849--61891906	26	2.2	25	82	11	64	34	10	17	37	1.84
61895470--61895542	36	2.0	36	100	0	146	31	5	24	38	1.78
61896649--61896720	33	2.2	33	82	2	81	26	22	23	27	1.99
61901074--61901103	15	1.9	16	93	6	53	36	16	0	46	1.47
61901169--61901281	42	2.7	43	82	8	124	28	26	18	26	1.98
61902004--61902034	12	2.6	12	100	0	62	51	22	19	6	1.69
61908369--61908398	15	1.9	16	93	6	53	36	16	0	46	1.47
61908456--61908612	43	3.7	43	81	7	151	28	25	19	26	1.99
61908458--61908614	42	3.7	43	78	10	160	27	26	20	26	1.99
61910793--61910844	22	2.2	24	90	6	81	40	7	17	34	1.78
61918521--61918594	29	2.6	29	89	4	105	25	16	32	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61918944--61919048	39	2.6	39	80	10	122	27	20	27	23	1.99
61918910--61919122	40	5.3	40	81	7	127	25	22	27	24	2.00
61918985--61919139	80	2.0	80	83	3	197	25	21	29	23	1.99
61919027--61919139	40	2.8	40	94	0	190	25	22	29	23	1.99
61922506--61924609	47	44.1	47	97	0	3470	31	9	29	28	1.89
61924728--61924806	37	2.1	37	90	0	122	24	18	31	25	1.98
61927000--61927024	5	5.0	5	100	0	50	60	0	0	40	0.97
61933827--61933954	27	4.7	27	90	1	152	42	24	7	25	1.81
61933936--61934301	27	13.6	27	83	2	405	36	18	18	25	1.94
61933936--61934318	54	7.1	54	87	1	493	36	18	19	25	1.94
61934883--61935019	27	5.1	26	79	7	139	18	20	21	40	1.92
61934883--61935039	82	1.9	79	84	6	208	19	21	21	38	1.93
61935205--61935279	6	12.3	6	71	13	55	20	16	13	50	1.77
61935136--61935197	25	2.5	25	83	0	79	19	20	14	45	1.85
61935190--61935270	37	2.2	37	88	0	117	19	18	12	49	1.79
61935164--61935253	19	4.8	19	78	8	103	20	21	13	45	1.84
61937291--61937445	27	5.7	27	82	3	136	41	21	10	27	1.85
61937407--61937784	27	14.0	27	82	0	407	37	19	17	25	1.93
61937346--61937784	81	5.4	81	81	1	443	38	19	16	25	1.92
61937373--61937741	54	6.8	54	87	0	479	38	19	16	26	1.92
61938365--61938484	27	4.4	28	74	12	99	19	20	20	40	1.92
61938348--61938459	27	4.1	27	74	11	95	18	19	22	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61938604--61938665	25	2.5	25	89	0	88	19	17	14	48	1.81
61938601--61938716	6	18.8	6	68	15	67	18	17	13	50	1.79
61938623--61938716	37	2.5	37	87	0	143	19	18	13	48	1.80
61949509--61949638	54	2.4	54	85	2	172	30	21	9	39	1.85
61949509--61949639	27	4.9	27	83	3	156	29	21	9	39	1.84
61949617--61949870	27	9.4	27	78	4	235	38	21	9	30	1.84
61949543--61949666	54	2.3	54	80	0	140	32	20	9	37	1.85
61949617--61949871	81	3.2	80	83	5	309	39	21	9	30	1.84
61949888--61949939	27	1.9	27	88	7	79	38	11	13	36	1.81
61949984--61950062	27	2.9	27	86	3	88	34	21	24	20	1.97
61950001--61950084	27	3.1	27	86	3	107	32	20	25	22	1.98
61950887--61951022	26	5.2	26	86	6	188	28	21	23	26	1.99
61950887--61951010	54	2.3	55	87	6	186	26	23	24	25	2.00
61951181--61951272	42	2.2	42	90	0	139	30	14	20	34	1.92
61953683--61954083	27	14.8	27	77	3	196	36	19	9	34	1.85
61954114--61954173	27	2.2	27	82	5	68	35	16	28	20	1.94
61954128--61954205	27	2.9	27	86	3	104	32	19	25	23	1.98
61955008--61955127	54	2.3	54	91	7	194	25	23	24	26	2.00
61955008--61955133	26	4.8	26	89	6	184	25	23	23	26	2.00
61955278--61955369	42	2.2	42	92	0	148	29	14	21	34	1.93
61957676--61958045	27	13.7	27	78	8	182	38	21	7	32	1.82
61957771--61958072	81	3.7	80	79	7	306	40	20	9	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61957785--61958017	54	4.3	52	80	5	232	40	20	9	29	1.83
61958169--61958252	27	3.1	27	87	3	116	30	20	26	22	1.98
61959055--61959272	26	8.8	26	81	9	251	27	22	21	28	1.99
61959055--61959272	52	4.4	52	81	11	287	27	22	21	28	1.99
61959097--61959225	69	1.9	69	88	0	195	28	20	20	30	1.98
61959166--61959272	51	2.1	51	94	3	189	25	22	23	28	1.99
61959424--61959505	42	2.0	42	87	4	121	31	13	15	39	1.87
61959488--61959644	78	2.0	79	92	1	262	33	15	23	26	1.95
61961923--61962051	27	4.8	27	86	0	177	28	20	9	41	1.84
61962029--61962386	27	13.2	27	75	6	206	40	19	8	31	1.82
61962029--61962380	54	6.5	54	77	4	296	40	19	8	31	1.81
61962038--61962301	81	3.3	81	84	1	298	42	19	7	31	1.79
61962410--61962506	27	3.6	27	83	2	79	35	21	20	22	1.96
61962421--61962510	27	3.3	27	85	3	119	36	20	22	21	1.95
61963313--61963487	26	6.8	26	87	0	228	27	22	22	28	1.99
61963313--61963487	52	3.4	52	92	1	282	27	22	22	28	1.99
61963632--61963723	42	2.2	42	86	0	130	28	13	23	34	1.92
61967538--61967712	46	3.8	45	74	10	165	29	26	20	23	1.99
61970104--61970192	30	3.0	30	79	11	94	56	15	17	10	1.67
61970104--61970186	15	5.6	14	73	10	58	55	16	18	9	1.68
61970115--61970192	15	5.2	15	75	9	70	55	15	17	11	1.69
61973105--61973280	46	3.8	46	78	12	189	29	28	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61973113--61973283	93	1.8	93	91	0	279	28	29	20	21	1.98
61978820--61978858	17	2.3	17	90	0	60	20	10	12	56	1.65
61984578--61984616	19	2.0	19	85	5	51	53	0	12	33	1.39
61987197--61987269	35	2.1	35	97	0	137	39	13	20	26	1.90
61991599--61991673	37	2.0	37	94	0	132	33	13	16	37	1.87
61993787--61993843	28	2.1	28	90	3	89	43	12	5	38	1.65
61993984--61994204	46	4.8	46	78	12	186	27	17	29	25	1.97
62014226--62014493	40	6.7	40	93	0	455	32	20	26	21	1.98
62018927--62019099	46	3.8	44	80	13	188	26	19	30	24	1.98
62018929--62019141	46	4.6	46	77	12	170	26	19	30	23	1.98

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   319   320   
          321   322