genome.fa.s20.2.7.7.80.10.50.1000.138.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  138  of  199  ( 23844 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)
40148294--40148345	16	3.3	16	76	10	54	61	0	23	15	1.33
40148303--40148347	16	2.9	16	80	3	56	62	0	22	15	1.33
40150310--40150343	12	2.8	12	95	0	59	50	5	26	17	1.69
40153300--40153334	12	2.8	12	91	4	52	45	2	0	51	1.16
40163575--40163651	38	2.0	38	100	0	154	22	33	5	38	1.76
40168948--40169446	44	10.7	44	67	16	225	33	19	19	27	1.96
40168933--40169460	142	3.7	142	93	0	867	34	18	19	27	1.95
40169119--40169305	98	1.9	98	83	2	241	32	19	20	27	1.97
40172366--40172404	7	5.6	7	96	0	69	23	30	0	46	1.53
40172359--40172411	21	2.5	21	81	0	70	16	32	0	50	1.46
40175621--40175668	23	2.1	23	88	7	71	18	8	35	37	1.81
40180437--40180470	15	2.3	15	100	0	68	29	5	32	32	1.81
40184680--40184854	6	29.2	6	97	0	332	49	17	0	32	1.51
40186445--40186479	16	2.1	17	89	5	54	11	2	5	80	1.00
40186857--40186907	20	2.5	20	81	6	59	29	13	13	43	1.83
40191503--40191666	79	2.1	79	100	0	328	34	8	21	35	1.84
40212361--40212406	22	2.1	22	95	0	83	36	8	19	34	1.83
40214584--40214635	15	3.3	15	76	23	61	55	5	28	9	1.55
40216259--40216306	24	2.0	24	95	0	87	22	0	18	58	1.39
40225496--40225548	19	2.9	19	76	15	58	37	1	1	58	1.20
40235926--40236005	36	2.2	36	79	2	88	18	12	22	46	1.83
40243769--40243912	30	4.8	30	92	0	225	29	23	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40243900--40243972	29	2.5	29	90	2	110	16	28	12	42	1.84
40243963--40244033	31	2.3	30	80	4	88	21	21	12	45	1.84
40243769--40244035	30	8.9	31	82	4	221	25	22	14	37	1.92
40253398--40253437	4	10.0	4	84	10	55	27	0	0	72	0.85
40257531--40257567	9	4.1	9	89	0	56	29	8	13	48	1.71
40257621--40257651	9	3.4	9	90	0	53	38	22	12	25	1.90
40259569--40259598	11	2.7	11	94	0	51	46	0	0	53	1.00
40259585--40259638	25	2.2	25	83	6	67	31	0	3	64	1.11
40261424--40261646	40	5.6	40	88	3	263	24	20	28	26	1.99
40261500--40261681	79	2.3	80	82	1	215	25	20	28	25	1.99
40269335--40269556	40	5.6	39	86	3	248	25	20	27	26	1.99
40269335--40269556	79	2.8	79	84	4	259	25	20	27	26	1.99
40269409--40269591	79	2.3	80	82	1	226	25	20	27	25	1.99
40277227--40277448	40	5.6	40	86	4	193	24	20	27	26	1.99
40277227--40277450	80	2.8	79	82	4	236	24	20	28	26	1.99
40277279--40277448	40	4.3	40	90	0	234	24	21	28	26	1.99
40277301--40277482	79	2.3	80	81	2	217	25	20	28	25	1.99
40278998--40279031	18	1.9	18	88	5	52	32	20	0	47	1.51
40279880--40280006	66	1.9	66	91	3	211	29	23	18	27	1.98
40282698--40282744	25	2.0	23	83	8	58	34	6	4	55	1.45
40283934--40284051	38	3.1	37	73	16	107	29	23	16	29	1.97
40296341--40296563	40	5.7	40	83	7	233	25	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40296394--40296561	79	2.1	78	85	3	221	25	21	27	25	1.99
40296417--40296596	79	2.3	80	80	4	197	26	21	27	24	1.99
40304287--40304508	40	5.6	40	86	4	245	25	20	27	26	1.99
40304287--40304510	79	2.8	79	83	4	263	25	20	28	26	1.99
40304362--40304543	79	2.3	80	83	1	224	25	20	28	25	1.99
40312236--40312458	40	5.6	40	88	3	263	24	20	28	26	1.99
40312312--40312493	79	2.3	80	82	1	215	25	20	28	25	1.99
40315422--40315531	50	2.2	50	98	0	211	24	21	5	48	1.71
40323498--40323532	17	1.9	19	88	11	56	8	25	0	65	1.21
40323496--40323545	18	2.7	18	81	12	57	8	24	0	68	1.16
40327070--40327161	37	2.5	37	96	0	166	25	8	31	34	1.86
40336564--40336592	14	2.0	15	93	6	51	68	0	13	17	1.20
40336832--40337016	51	3.6	51	75	7	189	24	18	27	29	1.98
40346851--40346891	20	2.0	20	85	0	55	19	12	14	53	1.72
40349577--40349697	58	2.1	58	89	3	181	24	22	4	47	1.71
40352028--40352107	20	4.1	19	73	19	67	66	1	6	26	1.23
40352012--40352055	19	2.2	20	84	4	54	63	0	4	31	1.14
40352005--40352098	10	9.7	10	70	14	54	63	1	4	30	1.20
40352110--40352180	19	3.5	21	74	12	60	57	4	8	29	1.47
40352218--40352251	16	2.1	17	88	5	52	14	5	2	76	1.09
40352405--40352451	20	2.3	21	92	7	80	36	0	0	63	0.94
40352474--40352674	89	2.2	88	81	7	237	28	9	22	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40355200--40355307	56	1.9	56	86	0	153	30	22	18	28	1.97
40362529--40362586	27	2.1	27	96	0	107	32	15	15	36	1.89
40363465--40363505	21	1.9	22	85	5	57	41	4	9	43	1.59
40365138--40365186	23	2.2	23	82	13	59	18	16	30	34	1.93
40370063--40370107	23	2.0	23	90	0	72	55	17	11	15	1.68
40370848--40370886	15	2.5	16	87	4	53	53	10	0	35	1.35
40373310--40373335	12	2.2	12	100	0	52	46	0	0	53	1.00
40377620--40377656	19	1.9	19	100	0	74	37	8	10	43	1.69
40380360--40380400	21	2.0	21	85	9	57	31	9	14	43	1.78
40388347--40388376	14	2.1	14	100	0	60	33	46	13	6	1.69
40393473--40393502	14	2.1	14	100	0	60	33	46	13	6	1.69
40413004--40413430	66	6.4	69	81	8	431	22	24	22	30	1.99
40430214--40430445	116	2.0	116	100	0	464	37	18	22	21	1.94
40456666--40456728	31	2.0	31	84	0	81	47	9	6	36	1.62
40459228--40459290	16	4.1	16	88	12	105	38	28	0	33	1.58
40459231--40459300	29	2.4	28	93	6	122	42	22	1	32	1.63
40461561--40461755	51	3.9	50	76	6	196	29	28	17	24	1.97
40465225--40465518	113	2.6	113	82	3	324	27	21	19	30	1.98
40465567--40466367	259	3.0	266	89	3	1253	32	18	19	29	1.96
40466947--40466996	15	3.4	14	77	5	55	32	2	26	40	1.67
40466947--40467003	22	2.6	21	86	5	60	33	1	26	38	1.67
40466917--40466999	29	2.9	29	77	10	89	31	2	28	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40466954--40467002	15	3.3	15	74	8	55	32	2	26	38	1.68
40466963--40467015	22	2.5	22	96	3	99	32	3	26	37	1.74
40467553--40467631	40	2.0	40	87	2	115	16	43	5	35	1.70
40469245--40469290	22	2.0	23	83	4	58	26	13	15	45	1.82
40469568--40469713	32	4.7	32	65	17	99	38	3	5	52	1.41
40469622--40469654	15	2.2	15	94	0	57	39	3	3	54	1.31
40469568--40469858	93	3.2	92	75	14	352	40	3	5	50	1.42
40469799--40469831	15	2.2	15	100	0	66	39	0	6	54	1.25
40469973--40470027	24	2.2	26	87	6	78	58	18	0	23	1.39
40470117--40470333	9	25.8	9	71	13	131	46	19	3	30	1.66
40470159--40470272	16	7.0	16	74	11	106	46	21	1	30	1.61
40470118--40470272	41	3.8	41	80	7	163	48	19	1	30	1.60
40470113--40470333	25	8.8	25	77	7	109	47	19	3	30	1.65
40470160--40470294	41	3.3	40	82	6	146	45	21	2	30	1.64
40471643--40471691	21	2.3	21	92	0	80	36	20	40	2	1.64
40471656--40471715	12	5.2	12	76	11	63	40	20	38	1	1.62
40472137--40472300	42	3.9	42	88	4	226	26	21	21	31	1.98
40472390--40472432	22	2.0	22	90	0	68	48	27	13	9	1.73
40476475--40476752	138	2.0	138	99	0	547	39	9	9	41	1.70
40476722--40476776	22	2.5	22	84	0	83	43	3	12	40	1.60
40478132--40478185	20	2.6	20	82	5	63	50	12	0	37	1.41
40483273--40483332	30	2.0	30	87	6	86	48	10	6	35	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40495105--40495202	41	2.4	41	85	0	133	28	27	23	20	1.99
40500282--40500325	17	2.5	17	79	17	54	43	4	20	31	1.72
40505136--40505382	50	4.8	51	79	6	209	23	27	21	28	1.99
40512505--40512572	21	3.4	20	84	12	86	33	4	36	25	1.76
40512515--40512554	18	2.2	18	100	0	80	30	5	37	27	1.78
40512521--40512578	18	3.1	18	79	13	62	37	3	34	24	1.72
40515910--40516058	67	2.2	67	87	1	217	30	10	16	42	1.80
40515991--40516034	15	2.8	16	86	6	54	25	2	22	50	1.61
40517280--40517315	17	2.1	18	89	5	56	27	0	16	55	1.42
40522085--40522133	22	2.2	22	85	0	62	44	18	2	34	1.61

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