genome.fa.s4.2.7.7.80.10.50.1000.147.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  147  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)
49471870--49472042	43	4.0	43	73	8	145	26	15	24	34	1.94
49482304--49482529	127	1.8	125	85	6	323	40	3	8	46	1.53
49482549--49482582	17	1.9	18	88	5	52	50	5	5	38	1.51
49488605--49488647	22	1.9	23	90	4	70	20	0	53	25	1.46
49490397--49490547	28	5.4	28	92	1	223	33	28	11	25	1.92
49497610--49497639	14	2.1	15	93	6	53	66	0	6	26	1.16
49497619--49497686	28	2.5	27	80	15	70	63	1	10	25	1.35
49500779--49500853	27	2.8	27	77	2	80	32	17	8	42	1.78
49507986--49509384	100	14.0	98	91	2	581	25	21	21	31	1.98
49508145--49508555	50	8.2	49	76	10	147	26	20	22	31	1.98
49508195--49509372	50	23.6	50	90	3	1765	25	21	21	31	1.98
49511258--49511356	48	2.1	48	90	0	153	16	29	12	42	1.84
49515975--49516062	44	2.0	44	95	0	158	23	20	22	32	1.98
49522139--49522167	5	5.8	5	100	0	58	82	0	0	17	0.66
49531247--49531306	27	2.2	27	78	0	66	38	6	3	51	1.45
49531283--49531332	19	2.6	19	80	0	64	38	8	0	54	1.30
49533408--49533457	24	2.0	25	84	3	66	28	22	8	42	1.81
49536523--49536576	7	7.7	7	80	15	58	85	3	11	0	0.73
49536523--49536576	15	3.9	14	80	14	58	85	3	11	0	0.73
49536534--49536576	19	2.3	19	92	8	70	86	0	13	0	0.58
49536536--49536581	12	3.8	12	83	16	51	82	0	15	2	0.76
49537582--49537987	45	8.8	46	68	17	168	33	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49537620--49537976	182	2.0	180	80	5	405	32	18	20	28	1.96
49537759--49538015	137	1.9	137	82	1	327	34	18	17	29	1.94
49539905--49539957	19	2.8	19	76	0	61	35	7	3	52	1.48
49543504--49543530	7	3.9	7	100	0	54	44	0	0	55	0.99
49544268--49544301	18	1.9	17	88	5	50	26	17	0	55	1.42
49548652--49548778	66	1.9	69	85	8	181	52	2	5	39	1.37
49548994--49549038	15	3.0	15	86	0	63	53	17	22	6	1.67
49549015--49549072	20	2.9	20	80	10	73	53	13	20	12	1.72
49548994--49549072	40	2.0	40	82	5	97	53	15	21	10	1.71
49558907--49558931	7	3.6	7	100	0	50	76	12	0	12	1.04
49559205--49559252	11	4.2	11	78	17	53	77	0	22	0	0.78
49559192--49559273	26	3.2	25	80	13	80	69	1	29	0	0.96
49559405--49559440	7	5.0	7	90	6	54	80	0	19	0	0.71
49559759--49559785	12	2.2	12	100	0	54	85	0	14	0	0.61
49559758--49559806	21	2.3	21	86	6	64	77	0	22	0	0.77
49560201--49560256	17	3.2	17	80	9	67	35	10	8	44	1.71
49560201--49560256	19	3.1	19	85	7	73	35	10	8	44	1.71
49561022--49561192	67	2.6	67	98	0	324	23	25	18	32	1.97
49566458--49566497	7	5.7	7	88	8	55	87	2	0	10	0.63
49566466--49566496	13	2.4	13	94	0	53	87	3	0	9	0.66
49566457--49566499	21	2.0	22	90	4	70	86	2	0	11	0.67
49567375--49568756	75	18.0	77	85	5	1601	28	17	21	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49567354--49568688	384	3.5	378	84	5	1699	28	17	21	33	1.95
49569698--49569742	15	3.1	15	78	12	58	80	0	17	2	0.82
49569698--49569741	13	3.1	14	80	9	54	79	0	18	2	0.83
49569910--49569963	6	9.5	6	80	15	62	81	0	18	0	0.69
49569910--49569965	22	2.5	21	85	8	76	82	0	17	0	0.68
49570284--49570345	20	3.0	20	79	11	72	80	0	19	0	0.71
49570266--49570345	33	2.5	32	82	9	99	77	0	22	0	0.77
49570286--49570345	12	5.2	12	74	8	61	83	0	16	0	0.65
49570701--49570756	17	3.2	17	80	9	67	35	8	10	44	1.71
49570701--49570756	19	3.1	19	85	7	73	35	8	10	44	1.71
49572457--49572498	21	2.0	20	86	13	59	47	9	11	30	1.72
49572294--49572693	200	2.0	200	100	0	800	39	16	12	32	1.85
49576555--49576606	25	2.0	26	85	10	72	25	1	23	50	1.60
49579199--49579512	16	19.0	16	64	25	77	45	16	2	35	1.61
49579236--49579276	13	2.8	15	85	14	59	46	19	0	34	1.50
49579330--49579533	9	23.8	9	68	21	109	47	17	2	31	1.63
49579348--49579416	19	3.8	20	76	20	87	49	20	0	30	1.49
49579350--49579433	35	2.4	35	97	0	159	48	20	0	30	1.50
49579333--49579533	59	3.3	59	84	8	246	47	17	2	32	1.63
49585007--49585057	21	2.4	21	86	0	66	37	17	41	3	1.68
49584941--49585133	87	2.2	87	88	3	282	38	19	31	10	1.86
49585094--49585133	21	1.9	21	89	0	62	35	20	40	5	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49585105--49585146	21	2.0	21	85	0	57	33	19	40	7	1.78
49584985--49585150	87	1.9	87	83	3	199	39	19	30	10	1.85
49585506--49585882	43	8.9	43	76	6	257	24	23	22	29	1.99
49585482--49585898	86	4.9	85	74	6	290	25	23	22	28	1.99
49590127--49590185	12	5.1	12	82	13	70	22	0	8	69	1.15
49590127--49590168	3	14.0	3	84	0	57	26	0	7	66	1.17
49598983--49599021	15	2.6	15	80	15	53	25	7	7	58	1.52
49602729--49602774	24	1.9	24	86	0	65	45	15	26	13	1.82
49610966--49611691	44	16.7	45	70	12	260	29	19	23	27	1.98
49610882--49611691	217	3.7	216	89	2	1185	29	19	22	27	1.98
49611238--49611339	43	2.3	44	85	5	127	29	20	25	24	1.99
49611620--49611741	44	2.8	43	78	6	120	31	16	22	28	1.96
49613576--49613614	15	2.6	15	80	15	53	25	7	7	58	1.52
49619911--49619968	28	2.1	28	100	0	116	46	6	15	31	1.72
49627337--49627718	50	7.6	50	88	0	539	21	31	20	26	1.98
49627735--49627828	48	2.0	48	82	0	116	25	25	20	28	1.99
49628473--49628861	194	2.0	194	100	0	778	32	26	18	22	1.97
49630570--49630603	17	2.0	17	94	0	59	23	14	0	61	1.33
49635200--49635847	326	2.0	326	90	0	1010	41	19	5	33	1.76
49636663--49636796	31	4.4	31	85	4	191	45	17	5	30	1.73
49636663--49636819	62	2.5	62	86	4	183	45	17	7	29	1.76
49637382--49637410	11	2.7	11	94	5	51	68	0	3	27	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49637649--49637690	17	2.5	17	80	7	50	40	16	4	38	1.70
49641863--49641942	11	7.4	11	73	17	60	36	2	0	61	1.10
49641833--49641930	42	2.3	42	89	8	153	35	1	1	62	1.09
49641834--49641879	17	2.7	17	82	0	56	39	0	2	58	1.10
49641856--49641957	42	2.4	42	86	4	134	37	1	0	60	1.08
49641897--49641957	21	3.0	20	77	13	70	39	1	0	59	1.08
49641895--49641982	22	4.1	22	75	15	62	42	2	0	55	1.12
49641924--49641982	22	2.7	22	82	14	70	40	3	0	55	1.16
49642554--49642579	13	2.0	13	100	0	52	61	0	0	38	0.96
49644056--49644083	8	3.5	8	100	0	56	57	0	0	42	0.99
49647039--49647076	20	1.9	20	84	10	51	26	2	5	65	1.27
49651836--49652305	235	2.0	235	99	0	922	29	21	12	36	1.91
49652413--49652745	167	2.0	167	96	0	621	25	12	26	34	1.92
49652704--49653321	308	2.0	308	96	0	1146	29	13	26	30	1.94
49653479--49654125	324	2.0	324	97	0	1222	33	15	21	29	1.94
49654119--49654788	334	2.0	334	98	0	1288	20	17	30	30	1.96
49655001--49655105	53	2.0	53	96	0	192	19	5	21	53	1.66
49655008--49655120	53	2.1	52	87	6	156	20	6	21	52	1.68
49661496--49661575	26	2.9	27	76	9	81	37	17	13	31	1.89
49661576--49661706	65	2.0	65	95	0	235	25	14	17	42	1.87
49663121--49663294	46	3.8	44	80	9	179	21	29	20	28	1.98
49663032--49663293	94	2.8	92	77	12	239	23	29	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49669389--49669545	43	3.6	44	74	9	144	32	22	16	28	1.96
49680554--49680620	27	2.5	27	83	9	84	22	25	20	31	1.98
49691827--49692049	39	5.7	40	86	7	273	25	22	27	24	2.00
49691827--49692049	79	2.8	81	85	8	282	25	22	27	24	2.00
49691827--49692082	79	3.3	79	82	9	224	26	21	27	24	1.99
49693907--49694054	57	2.6	57	79	4	147	29	21	18	31	1.97
49695016--49695055	15	2.6	16	84	4	55	30	10	2	57	1.45
49718861--49718975	55	2.1	55	80	9	128	18	24	34	22	1.96
49719481--49719548	34	2.0	34	85	5	93	20	26	23	29	1.99
49726195--49726233	15	2.6	16	84	8	55	53	15	17	12	1.72

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