genome.fa.s4.2.7.7.80.10.50.1000.97.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  97  of  235  ( 28198 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)
33496409--33496450	17	2.6	16	92	3	66	50	0	0	50	1.00
33497107--33497240	49	2.7	49	84	0	142	24	26	18	29	1.98
33497301--33497429	46	2.9	42	83	9	132	26	26	17	29	1.98
33503802--33503851	22	2.3	20	78	18	55	66	2	0	32	1.03
33504431--33504485	24	2.4	23	81	6	58	1	29	1	67	1.11
33505943--33505991	21	2.4	19	83	12	62	30	2	2	65	1.15
33505944--33505997	21	2.6	21	82	8	58	29	1	1	66	1.12
33506642--33506679	15	2.7	14	92	8	60	21	0	0	78	0.74
33507421--33507462	22	1.9	22	85	9	59	11	28	21	38	1.89
33508164--33509738	310	5.0	310	96	1	2540	20	18	18	41	1.90
33508930--33509754	328	2.5	328	94	0	1425	20	18	18	41	1.90
33509927--33509985	31	1.9	31	96	0	109	33	5	16	44	1.70
33510869--33510920	18	3.3	18	65	34	55	30	7	15	46	1.74
33510861--33510920	29	2.1	29	100	0	120	31	6	15	46	1.71
33512241--33512299	29	2.0	29	93	0	100	28	20	25	25	1.99
33512329--33512581	49	5.3	49	75	9	202	26	19	28	25	1.99
33512366--33512587	98	2.3	92	82	6	248	26	19	29	24	1.99
33516028--33516057	15	2.1	15	93	6	53	33	0	10	56	1.32
33516018--33516078	32	1.9	32	86	3	88	34	3	8	54	1.47
33516931--33517033	54	1.9	54	80	11	122	55	4	1	37	1.33
33517251--33517319	28	2.7	26	79	16	72	40	1	0	57	1.07
33517266--33517310	20	2.4	19	82	10	56	40	2	0	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33520478--33520570	27	3.4	27	82	5	98	33	11	31	23	1.91
33522635--33522702	33	2.1	33	97	0	127	26	20	7	45	1.77
33533975--33534194	46	4.7	46	76	12	166	23	29	18	28	1.98
33537232--33537395	69	2.4	69	84	3	215	31	14	31	23	1.94
33544982--33545079	49	2.0	49	100	0	196	26	16	32	24	1.96
33547447--33547484	19	2.0	19	94	0	67	36	7	10	44	1.68
33548246--33548281	16	2.2	16	90	0	54	16	2	2	77	1.00
33559279--33559581	27	11.3	27	86	4	294	40	21	8	29	1.82
33559603--33559852	27	9.3	27	84	1	322	36	20	19	24	1.95
33565575--33565887	27	11.6	27	81	6	260	39	23	8	27	1.85
33565601--33565888	134	2.1	133	79	6	303	39	23	9	28	1.85
33565845--33566094	27	9.3	27	88	3	360	34	21	20	23	1.97
33566746--33566797	27	2.0	26	88	3	77	17	25	21	36	1.94
33569895--33569947	16	3.1	18	71	20	51	62	1	3	32	1.24
33571349--33571378	14	2.1	15	93	6	53	6	0	16	76	0.99
33575561--33575603	22	2.0	22	85	0	59	44	0	2	53	1.13
33579108--33579145	15	2.5	15	100	0	76	34	0	13	52	1.40
33579163--33579201	18	2.1	19	90	4	62	41	0	10	48	1.37
33579441--33579575	39	3.4	39	74	6	112	22	20	28	28	1.99
33579698--33579738	19	2.2	19	87	12	59	46	0	24	29	1.53
33584700--33584736	19	1.9	19	88	0	56	35	16	13	35	1.88
33585870--33585917	18	2.7	18	96	0	87	35	12	12	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33586346--33586651	72	4.2	72	91	1	454	24	6	14	54	1.65
33588442--33588505	13	4.9	13	80	0	83	34	26	7	31	1.85
33588895--33588924	13	2.3	13	94	0	51	26	23	26	23	2.00
33590313--33590340	6	4.7	6	100	0	56	50	35	0	14	1.43
33590315--33590360	12	3.5	13	80	16	51	43	39	2	15	1.59
33590867--33590937	22	3.2	22	67	21	67	46	8	1	43	1.42
33590861--33590952	44	2.1	44	97	0	175	43	10	2	43	1.51
33591407--33591444	8	4.9	8	93	6	60	0	18	0	81	0.69
33591406--33591446	15	2.7	15	88	3	64	0	19	0	80	0.71
33592876--33592908	9	3.7	9	100	0	66	54	0	0	45	0.99
33603509--33603557	24	2.0	24	92	0	80	34	14	14	36	1.86
33605821--33605854	13	2.6	14	90	9	54	26	2	32	38	1.71
33619611--33619642	16	2.0	16	93	0	55	62	3	18	15	1.45
33619681--33619717	19	1.9	19	88	0	56	56	2	0	40	1.13
33628590--33628639	25	2.1	25	88	7	77	72	2	2	24	1.06
33629133--33629174	21	2.1	19	86	8	57	30	2	2	64	1.19
33629130--33629206	17	4.2	18	69	14	68	45	1	1	51	1.17
33629194--33629241	19	2.4	22	83	13	59	35	0	8	56	1.30
33631979--33632018	17	2.4	18	80	16	50	40	0	0	60	0.97
33632053--33632116	12	5.2	12	73	26	55	45	1	1	51	1.20
33631973--33632113	63	2.2	64	81	9	173	41	2	2	53	1.27
33631975--33632129	63	2.5	61	81	11	158	41	1	3	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33634899--33635002	52	2.0	52	92	0	172	28	3	18	49	1.65
33638707--33638879	49	3.5	50	79	3	170	35	24	12	26	1.92
33641415--33641453	17	2.3	18	82	13	55	41	0	0	58	0.98
33641429--33641489	31	1.9	32	93	3	106	36	0	1	62	1.05
33641415--33641531	48	2.4	49	88	4	166	37	1	2	58	1.22
33641425--33641503	17	4.8	17	81	9	101	37	1	1	59	1.14
33642731--33642921	103	1.9	101	91	2	310	45	9	11	33	1.74
33645949--33645978	5	6.0	5	92	0	51	16	0	23	60	1.36
33651912--33651955	19	2.3	19	92	4	70	6	27	29	36	1.83
33651912--33651967	20	2.8	19	89	5	76	7	26	28	37	1.83
33652825--33652955	64	2.0	64	97	0	244	45	9	22	23	1.81
33653433--33653522	46	2.0	46	95	0	162	21	17	30	31	1.96
33653498--33653667	92	1.8	93	91	1	279	22	20	27	29	1.98
33653502--33653671	46	3.7	46	75	14	179	22	20	27	30	1.98
33656588--33656641	15	3.6	15	76	0	63	11	18	12	57	1.64
33656584--33656652	30	2.3	30	85	2	95	8	17	17	56	1.65
33666199--33666235	18	2.0	19	89	5	58	21	43	0	35	1.53
33667580--33667648	32	2.2	32	97	2	131	21	21	8	47	1.77
33678929--33679055	37	3.2	39	76	11	134	34	23	16	25	1.95
33678925--33679021	40	2.5	38	78	8	108	31	24	16	26	1.96
33679408--33679440	13	2.6	13	90	4	50	48	12	0	39	1.40
33680658--33680689	15	2.1	15	94	0	55	56	9	0	34	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33686723--33686903	23	7.9	24	72	7	135	22	20	20	35	1.96
33686737--33686904	46	3.7	46	86	1	239	22	20	19	36	1.95
33690875--33690965	45	2.0	45	87	4	130	34	14	8	42	1.76
33690963--33691035	36	2.0	36	89	0	110	32	10	8	47	1.68
33690999--33691115	56	2.1	57	85	1	155	35	11	7	45	1.70
33693431--33693470	20	2.0	21	85	14	57	52	7	20	20	1.70
33704639--33704780	42	3.3	43	82	7	155	26	19	25	28	1.99
33708043--33708162	23	5.2	23	79	2	98	20	19	21	39	1.93
33708053--33708201	46	3.2	46	82	1	147	22	19	20	36	1.95
33708075--33708201	23	5.5	23	80	5	123	22	18	20	38	1.93
33708053--33708200	69	2.1	69	85	2	190	22	19	20	36	1.95
33711319--33711423	51	2.1	51	98	0	201	29	20	15	35	1.93
33713970--33714002	17	1.9	17	100	0	66	30	24	0	45	1.53
33717997--33718092	40	2.4	41	81	10	101	27	28	14	30	1.95
33724756--33724795	21	2.0	21	95	5	73	20	30	40	10	1.85
33726029--33726144	47	2.5	46	83	12	139	23	31	18	25	1.97
33727808--33727931	46	2.7	46	84	2	160	25	22	19	32	1.97
33727808--33727930	23	5.3	23	72	5	97	26	22	19	31	1.98
33731891--33731929	14	2.8	14	88	7	53	51	20	2	25	1.60
33734631--33734671	14	3.1	14	82	6	50	2	17	0	80	0.82
33734622--33734665	22	2.0	21	86	4	61	0	20	0	79	0.73
33734786--33734833	19	2.5	19	86	6	62	35	6	4	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33734786--33734837	18	2.7	19	88	5	70	34	7	3	53	1.48
33738894--33738930	15	2.5	15	95	0	65	24	16	29	29	1.96
33743721--33743779	30	2.0	30	82	0	73	40	8	25	25	1.83
33744421--33744865	50	8.8	50	78	3	410	26	17	25	30	1.97
33744421--33744860	101	4.4	99	76	7	393	26	17	25	30	1.97
33744421--33744862	151	2.9	151	88	0	641	26	17	25	30	1.97
33745421--33745747	180	1.8	180	86	2	478	38	11	18	31	1.85
33753307--33753401	43	2.2	42	81	7	111	25	15	24	34	1.95
33754137--33754181	22	2.0	24	82	8	58	35	4	24	35	1.76
33758784--33758826	6	7.0	6	81	2	50	76	0	18	4	0.95

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