genome.fa.s4.2.7.7.80.10.50.1000.17.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  17  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)
4966291--4966372	29	2.9	28	78	3	92	24	17	28	30	1.97
4966264--4966393	57	2.3	57	81	6	149	23	19	28	28	1.98
4966294--4966383	28	3.2	27	73	7	81	23	18	28	28	1.98
4969804--4970237	48	9.0	48	91	2	683	36	6	25	30	1.82
4969804--4970237	142	3.0	143	92	2	708	36	6	25	30	1.82
4973500--4973558	30	2.0	30	96	0	109	44	5	20	30	1.73
4973530--4973684	56	2.8	56	96	0	283	44	10	22	22	1.83
4974284--4974548	40	6.7	40	89	4	351	24	22	27	25	2.00
4974284--4974555	119	2.3	119	84	5	327	24	22	27	25	1.99
4981011--4981253	56	4.3	56	98	0	459	46	9	22	22	1.80
4981875--4982092	80	2.7	78	83	6	244	27	21	26	25	1.99
4981836--4982060	40	5.7	40	84	5	278	24	22	27	25	2.00
4984914--4984965	26	2.0	26	84	0	68	40	21	19	19	1.92
4984969--4985165	27	7.3	27	90	0	250	25	20	17	36	1.95
4986208--4986431	112	2.0	112	98	0	430	35	8	21	34	1.84
4987531--4987616	24	3.5	24	76	3	82	26	18	26	27	1.98
4990789--4990858	27	2.6	27	95	2	113	31	28	12	27	1.93
4990789--4990886	28	3.5	28	90	2	135	31	28	13	26	1.94
5002414--5002541	29	4.5	28	88	2	175	32	25	12	28	1.92
5002413--5002541	57	2.3	57	87	2	188	32	26	12	28	1.92
5007183--5007236	27	2.0	26	85	3	72	38	18	20	22	1.93
5007240--5007407	27	6.2	27	82	2	203	25	22	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5007240--5007407	54	3.1	53	87	3	237	25	22	17	34	1.96
5007255--5007407	81	1.9	81	87	0	225	24	20	19	35	1.96
5011587--5011662	39	1.9	39	94	0	134	27	32	23	15	1.95
5022423--5022481	10	5.9	10	84	7	66	23	8	1	66	1.29
5026240--5026279	15	2.5	16	92	8	64	25	2	0	72	0.97
5027083--5027262	100	1.8	100	86	2	263	32	16	23	28	1.96
5027251--5027299	6	8.5	6	78	13	50	83	2	14	0	0.73
5027251--5027299	23	2.1	23	88	7	73	83	2	14	0	0.73
5027250--5027299	10	5.0	10	76	13	50	84	2	14	0	0.72
5027250--5027299	17	3.0	16	85	11	57	84	2	14	0	0.72
5027922--5027980	10	5.9	10	78	7	57	23	10	1	64	1.34
5029970--5030004	3	11.7	3	100	0	70	68	0	0	31	0.90
5032682--5032725	23	2.0	22	81	4	52	31	27	4	36	1.77
5034762--5034829	33	2.1	33	88	5	102	25	33	8	32	1.86
5037118--5037158	19	2.2	19	95	0	73	39	4	12	43	1.63
5044539--5044575	13	2.9	13	84	15	51	21	0	0	78	0.75
5063939--5064402	47	9.7	47	95	0	775	32	8	29	29	1.87
5068651--5068675	4	6.2	4	100	0	50	76	0	24	0	0.80
5069500--5069937	218	2.0	218	99	0	867	38	9	12	39	1.76
5080834--5080875	12	3.4	12	86	3	57	9	28	38	23	1.86
5082560--5082668	54	2.0	55	85	5	150	29	18	10	42	1.83
5082649--5082707	29	2.0	29	80	6	66	37	16	5	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5085808--5085837	15	2.1	14	93	6	51	66	0	26	6	1.16
5095258--5095332	29	2.6	29	91	4	116	28	28	18	25	1.98
5096828--5097036	46	4.4	46	76	8	181	28	19	27	24	1.99
5096828--5097036	94	2.2	94	83	7	255	28	19	27	24	1.99
5100876--5100951	38	2.0	38	100	0	152	23	21	15	39	1.92
5102917--5102947	16	1.9	16	93	0	53	12	6	29	51	1.65
5106134--5106248	27	4.3	26	79	9	115	20	20	21	37	1.95
5113845--5113934	28	3.3	28	87	7	123	21	22	22	34	1.97
5113845--5113958	27	4.2	29	82	10	127	20	22	21	35	1.96
5117456--5117488	12	2.6	13	85	4	50	33	0	9	57	1.30
5119368--5119487	63	1.9	63	89	3	188	33	26	17	22	1.96
5120795--5120994	29	6.9	29	78	5	172	35	14	25	26	1.93
5127780--5127937	43	3.7	42	76	10	108	27	17	25	28	1.98
5127780--5127918	42	3.2	40	75	12	109	28	17	25	28	1.98
5130419--5130528	27	4.1	27	84	5	143	37	20	23	18	1.94
5130421--5130525	54	2.0	53	90	1	165	38	18	24	19	1.93
5131927--5132026	24	4.2	24	92	0	155	25	40	2	33	1.67
5133201--5133251	26	1.9	27	88	4	77	25	17	21	35	1.95
5135629--5135672	19	2.4	18	85	7	54	40	9	0	50	1.34
5137626--5137751	46	2.7	46	84	7	139	24	30	16	28	1.97
5144921--5145021	40	2.5	40	93	0	166	22	18	27	30	1.98
5152901--5153041	40	3.5	40	97	0	255	21	18	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5152901--5153059	80	2.0	80	88	0	237	22	20	28	28	1.98
5158245--5158454	40	5.3	40	92	0	314	24	20	28	26	1.99
5158192--5158454	80	3.3	80	85	2	316	24	20	27	26	1.99
5158192--5158454	120	2.2	120	83	3	325	24	20	27	26	1.99
5158245--5158489	80	3.1	80	85	2	253	25	20	28	25	1.99
5165023--5165325	40	7.6	40	87	4	335	26	28	21	24	1.99
5165257--5165334	40	1.9	41	82	10	97	26	28	20	24	1.99
5173013--5173360	40	8.7	40	96	0	642	22	27	20	30	1.98
5179492--5179664	43	4.1	43	76	6	165	32	23	15	27	1.95
5179497--5179653	86	1.8	85	82	4	199	31	24	16	26	1.96
5183960--5184001	22	2.0	22	95	4	77	21	28	40	9	1.84
5187603--5187778	46	3.8	46	77	5	185	21	19	29	29	1.98
5190718--5190773	15	3.7	15	88	7	87	12	16	10	60	1.58
5193168--5193343	46	3.8	45	81	10	212	21	21	29	28	1.98
5193164--5193335	93	1.8	93	94	0	308	20	21	30	27	1.98
5195721--5195776	29	1.9	29	96	0	103	46	16	16	21	1.84
5198079--5198273	98	2.0	98	98	0	381	37	9	21	31	1.86
5198677--5198883	53	3.8	53	75	4	182	38	16	24	20	1.92
5205067--5205251	79	2.3	82	84	7	238	25	27	22	24	2.00
5205048--5205251	40	5.1	40	82	8	238	25	27	22	25	2.00
5208008--5208171	40	4.1	39	78	4	159	25	27	22	24	2.00
5207976--5208171	80	2.4	81	80	6	195	25	27	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5208477--5208555	29	2.7	29	86	5	106	27	32	15	24	1.95
5224895--5224965	27	2.6	27	84	8	99	29	9	21	39	1.85
5227103--5227249	55	2.7	53	79	2	150	40	17	23	19	1.91
5227067--5227262	53	3.6	53	77	4	133	38	16	22	21	1.92
5253244--5253480	39	6.1	39	97	0	447	20	25	30	23	1.98
5270776--5270856	37	2.2	37	93	0	135	37	17	8	37	1.80
5280462--5280543	43	1.9	42	82	7	103	35	24	14	25	1.94
5287478--5287632	43	3.6	42	72	16	129	25	18	25	30	1.98
5290973--5291157	67	2.9	64	78	8	205	29	17	30	23	1.97
5294143--5294319	97	1.8	97	95	0	318	41	17	9	32	1.81
5301696--5302334	94	6.8	94	87	4	819	22	28	19	29	1.98
5302604--5302661	30	1.9	30	89	0	89	29	22	12	36	1.90
5307316--5307493	27	6.6	27	76	6	128	30	28	14	26	1.95
5321381--5321782	47	8.6	45	77	13	329	22	29	19	27	1.98
5321381--5321779	94	4.3	94	89	3	542	22	29	19	28	1.98
5322265--5322302	20	2.0	20	89	5	60	34	18	0	47	1.49
5324459--5324493	17	1.9	19	88	11	56	22	17	5	54	1.64
5327003--5327132	49	2.7	49	83	4	138	28	23	28	20	1.98
5327100--5327216	44	2.7	44	90	5	175	23	17	31	27	1.97
5346865--5346970	43	2.5	42	71	10	99	33	27	12	27	1.92
5346928--5347059	45	2.8	46	82	6	160	28	28	16	26	1.97
5350169--5350357	55	3.5	53	85	5	245	21	24	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5350344--5350465	47	2.6	47	97	0	226	25	24	13	36	1.93
5350602--5350688	44	2.0	44	86	4	122	24	26	13	35	1.93
5356022--5356134	55	2.1	55	82	0	136	14	26	27	31	1.94
5377598--5377678	34	2.5	33	81	4	92	24	24	25	24	2.00
5382471--5382794	40	8.2	40	85	5	435	29	23	21	25	1.99
5382488--5382794	158	1.9	158	88	3	458	29	23	21	25	1.99
5386538--5386609	28	2.6	28	82	4	92	29	31	13	25	1.94
5386538--5386627	28	3.2	28	80	9	78	27	32	14	25	1.95
5393062--5393179	44	2.7	44	81	2	130	20	18	31	29	1.96
5393014--5393328	49	6.7	47	70	13	168	25	18	30	25	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