genome.fa.s4.2.7.7.80.10.50.1000.165.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  165  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)
55681966--55682143	24	7.4	24	94	0	284	31	21	20	26	1.98
55690104--55690151	25	1.9	25	86	0	69	33	25	16	25	1.96
55690199--55690254	11	5.5	11	71	16	57	35	12	19	32	1.89
55690188--55690254	20	3.3	20	93	0	116	34	11	20	32	1.90
55690304--55690470	24	7.0	24	89	2	230	30	21	20	26	1.98
55695881--55696011	49	2.7	50	82	5	169	21	26	21	30	1.98
55696029--55696198	48	3.6	48	83	3	218	22	29	19	28	1.98
55696029--55696240	46	4.5	47	79	7	209	23	29	17	29	1.97
55696029--55696243	94	2.3	93	84	4	281	23	29	18	28	1.97
55698710--55698791	39	2.1	39	97	0	155	43	23	4	28	1.74
55701902--55702024	63	2.0	63	98	0	237	22	20	19	37	1.94
55702270--55702486	109	2.0	109	98	0	416	38	10	22	29	1.86
55702591--55702807	109	2.0	109	97	0	407	34	6	16	42	1.75
55703239--55703601	46	7.7	46	74	18	280	21	22	28	27	1.99
55703285--55703554	47	5.6	47	73	19	229	21	21	28	27	1.99
55703236--55703599	93	3.8	93	90	4	523	21	21	28	27	1.99
55703411--55703609	101	2.0	100	95	1	362	21	22	29	27	1.99
55703655--55703927	137	2.0	137	98	0	528	27	14	25	32	1.94
55706143--55706172	11	2.7	11	89	0	51	33	0	10	56	1.32
55712257--55712311	17	3.1	17	86	5	65	78	0	3	18	0.90
55712267--55712311	6	7.5	6	90	9	65	82	0	2	15	0.77
55717333--55717364	9	3.8	9	88	12	50	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55733734--55733786	23	2.4	22	76	20	56	69	1	18	9	1.25
55739686--55739848	47	3.5	46	79	8	179	29	20	28	21	1.98
55739583--55739848	140	1.9	141	80	5	315	30	19	27	21	1.98
55743299--55743566	48	5.6	48	80	9	271	31	18	26	24	1.97
55746997--55747073	30	2.6	30	81	6	77	27	12	19	40	1.88
55749552--55749803	68	3.8	64	76	8	197	29	17	28	24	1.97
55753102--55753228	23	5.3	22	76	12	101	33	19	24	22	1.97
55761562--55761746	40	4.7	40	80	7	200	24	22	27	25	2.00
55761562--55761746	79	2.3	81	82	7	218	24	22	27	25	2.00
55761615--55761779	79	2.1	79	83	6	201	26	21	27	24	1.99
55763616--55763787	93	1.8	93	90	2	274	29	29	19	21	1.98
55763608--55763782	46	3.8	45	77	10	183	29	29	19	21	1.98
55763659--55763802	46	3.1	44	70	21	107	29	28	19	22	1.98
55763840--55763934	47	2.0	47	95	0	172	22	31	15	30	1.95
55769523--55769619	47	2.1	47	92	0	158	46	15	6	31	1.70
55771960--55772045	43	2.0	43	90	0	136	19	19	30	30	1.97
55776781--55776896	43	2.7	43	82	1	126	22	17	31	29	1.96
55776811--55776896	43	2.0	43	88	0	127	23	19	30	26	1.98
55784841--55784994	42	3.6	42	76	10	152	25	18	25	29	1.98
55789323--55789487	47	3.5	47	80	11	230	27	28	19	24	1.98
55789317--55789537	46	4.8	46	78	11	238	28	27	19	23	1.99
55789318--55789540	93	2.4	93	99	0	437	28	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55790524--55790676	74	2.1	74	96	1	281	29	22	9	38	1.86
55796721--55796858	69	2.0	68	97	1	258	22	17	14	44	1.85
55799014--55799113	42	2.4	42	80	6	105	26	17	25	32	1.97
55806735--55806790	28	2.0	28	82	3	69	46	7	1	44	1.41
55811662--55811707	24	2.0	24	91	4	76	15	19	26	39	1.91
55815839--55815946	43	2.5	43	83	3	137	25	13	22	38	1.91
55819361--55819445	35	2.4	35	82	0	98	29	12	15	42	1.84
55821966--55822059	44	2.1	44	96	0	170	11	6	31	50	1.64
55821979--55822071	44	2.1	44	91	0	150	12	5	33	48	1.64
55829116--55829187	34	2.1	34	81	0	81	36	6	12	44	1.69
55829267--55829322	9	6.2	9	87	0	85	17	1	25	55	1.52
55829247--55829314	27	2.5	27	85	4	84	20	2	23	52	1.60
55829271--55829322	18	2.9	18	94	0	95	15	1	26	55	1.50
55841514--55841550	16	2.3	16	90	0	56	13	18	16	51	1.76
55845378--55845430	24	2.2	24	93	0	88	15	32	43	9	1.78
55851352--55851524	46	3.8	44	77	11	161	22	20	27	30	1.98
55851405--55851473	20	3.1	20	65	31	50	18	17	33	30	1.94
55851351--55851519	93	1.8	93	87	2	250	22	20	27	29	1.98
55853881--55853927	16	2.9	16	81	12	60	21	4	21	53	1.63
55854539--55854587	24	2.0	24	100	0	98	46	12	20	20	1.82
55857200--55857299	43	2.3	43	91	0	155	29	25	18	28	1.98
55857312--55857414	41	2.5	41	83	0	134	31	26	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55861314--55861347	14	2.4	14	100	0	68	44	5	29	20	1.75
55862698--55862796	40	2.4	40	88	3	135	21	18	27	33	1.96
55862783--55862864	28	2.9	28	81	3	103	24	14	30	30	1.95
55868978--55869100	43	2.9	43	86	2	160	29	26	19	25	1.99
55880090--55880132	22	2.0	22	85	0	59	6	23	2	67	1.27
55881374--55881485	27	4.1	27	82	7	129	16	23	23	37	1.93
55881375--55881481	54	2.0	54	87	3	153	16	22	22	38	1.93
55883401--55883562	43	3.8	43	77	11	136	32	25	20	22	1.98
55888820--55888987	43	4.0	44	70	12	136	30	26	17	25	1.97
55889624--55889678	25	2.2	24	78	9	58	58	9	3	29	1.46
55893018--55893283	43	6.2	43	86	3	347	28	25	17	28	1.97
55894564--55894604	21	1.9	22	90	5	66	53	0	2	43	1.13
55894625--55894668	22	2.0	22	90	0	70	45	0	4	50	1.22
55903965--55904044	30	2.7	30	82	7	99	56	15	17	11	1.67
55903965--55904035	15	4.7	15	81	6	90	57	12	18	11	1.64
55903967--55904044	15	5.2	15	78	9	79	56	15	16	11	1.67
55910279--55910308	14	2.1	14	93	0	51	33	3	36	26	1.73
55910376--55910405	14	2.1	14	93	0	51	13	3	40	43	1.60
55911537--55911597	30	2.0	30	100	0	122	22	18	13	45	1.83
55911793--55911839	15	3.1	15	74	17	51	19	0	34	46	1.50
55911793--55911842	16	3.2	16	74	5	57	18	0	34	48	1.48
55911943--55912046	41	2.5	41	87	3	138	19	21	21	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55911943--55912077	41	3.3	40	81	4	119	20	20	21	37	1.94
55912101--55912126	12	2.2	12	100	0	52	46	30	15	7	1.74
55913941--55913986	24	1.9	24	82	8	58	60	13	0	26	1.32
55937711--55937821	53	2.1	53	89	0	168	21	26	41	10	1.86
55953330--55953471	70	2.0	70	98	0	275	35	22	16	25	1.95
55954243--55954396	42	3.7	41	84	4	193	31	15	24	29	1.96
55954243--55954415	85	2.1	83	80	6	188	30	14	25	30	1.95
55954421--55954465	22	2.0	22	100	0	90	26	24	4	44	1.72
55958638--55958804	71	2.4	71	93	0	298	31	21	12	34	1.91
55969970--55970044	18	4.2	18	75	10	73	26	2	24	46	1.66
55969977--55970076	36	2.8	36	80	8	89	24	5	22	49	1.70
55970118--55970182	34	1.9	34	84	6	87	16	15	26	41	1.88
55975705--55975798	47	2.0	47	97	0	179	37	8	19	35	1.82
55979328--55979374	24	1.9	24	83	12	60	76	2	6	14	1.08
55979343--55979378	17	2.0	17	89	10	54	72	2	5	19	1.17
55979470--55979554	34	2.4	34	82	7	91	61	2	35	1	1.17
55979662--55979705	21	2.0	22	83	12	56	36	0	6	56	1.26
55979662--55979711	22	2.3	22	82	6	57	36	0	6	58	1.23
55979732--55979775	7	6.3	7	100	0	88	27	0	0	72	0.85
55979732--55979782	21	2.5	20	93	6	86	27	0	0	72	0.85
55979825--55979873	21	2.4	19	75	15	53	28	0	2	69	1.00
55980087--55980146	31	1.9	31	89	0	93	58	11	1	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55980443--55980483	13	3.1	13	85	3	55	0	21	0	78	0.76
55980448--55980480	8	4.2	8	92	3	50	0	18	0	81	0.68
55981097--55981158	30	2.1	30	100	0	124	22	16	12	48	1.80
55982729--55982942	47	4.6	47	77	10	190	27	18	30	24	1.98
55982729--55982943	46	4.6	47	80	6	192	26	18	30	24	1.97
55990793--55990842	25	2.0	25	96	0	91	32	18	8	42	1.79
55993356--55993399	19	2.4	19	85	7	56	50	0	9	40	1.34
56002261--56002297	11	3.5	11	92	3	58	10	16	43	29	1.82
56005932--56006034	37	2.8	37	89	0	161	23	17	32	27	1.97
56007973--56008006	11	3.2	11	91	4	52	29	0	0	70	0.87

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