genome.fa.s25.2.7.7.80.10.50.1000.188.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  188  of  214  ( 25680 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)
55173384--55173450	34	1.9	35	90	3	109	46	13	8	31	1.74
55180295--55180392	23	4.3	23	93	2	171	32	26	20	20	1.97
55180295--55180392	45	2.2	46	92	3	171	32	26	20	20	1.97
55181580--55181610	9	3.4	9	95	0	53	25	9	25	38	1.86
55182976--55183014	3	13.0	3	100	0	78	66	0	0	33	0.92
55184235--55184285	24	2.1	24	85	0	66	50	7	3	37	1.50
55184806--55184856	24	2.1	24	85	0	66	50	7	3	37	1.50
55186849--55186903	8	6.8	8	76	12	58	36	0	1	61	1.06
55187104--55187144	13	3.2	13	86	3	57	70	0	29	0	0.87
55187874--55188023	45	3.3	45	88	0	210	22	18	18	41	1.90
55188003--55188041	18	2.1	19	85	4	53	23	20	12	43	1.86
55199870--55199899	6	4.8	6	95	4	51	83	0	3	13	0.77
55210404--55210460	30	1.9	29	85	3	78	42	1	24	31	1.65
55210673--55210703	13	2.4	13	94	0	53	32	0	12	54	1.38
55210838--55210904	33	2.0	33	94	0	116	29	26	25	17	1.98
55216327--55216519	50	3.8	50	90	0	296	20	30	23	26	1.98
55216614--55216644	13	2.4	13	94	0	53	54	12	0	32	1.38
55216857--55216914	30	1.9	30	89	0	89	31	24	3	41	1.71
55219782--55219822	22	1.9	22	90	5	66	24	12	4	58	1.53
55219859--55219890	15	2.1	16	88	11	50	31	0	0	68	0.90
55220177--55220206	2	15.0	2	100	0	60	50	0	0	50	1.00
55224599--55224633	3	11.7	3	100	0	70	68	0	31	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55225823--55225874	27	2.0	26	81	11	61	30	3	13	51	1.58
55237108--55237176	30	2.3	29	80	11	77	52	1	4	42	1.30
55244607--55244668	30	2.1	30	100	0	124	40	3	19	37	1.68
55244617--55244676	30	2.2	27	85	14	79	38	3	20	38	1.69
55251479--55251521	18	2.4	18	92	7	70	44	0	0	55	0.99
55252462--55252529	22	3.1	22	73	0	64	13	13	14	58	1.63
55254245--55254306	29	2.2	28	81	15	76	46	3	0	50	1.17
55255544--55255630	28	3.0	29	91	3	131	62	1	0	36	1.03
55255614--55255656	11	3.9	11	85	8	52	67	0	4	27	1.10
55255548--55255641	29	3.3	28	87	3	116	62	1	2	34	1.14
55255585--55255663	10	7.5	11	77	16	71	63	0	2	34	1.08
55256005--55256039	16	2.2	16	94	0	61	40	0	8	51	1.33
55258569--55258601	10	3.3	10	95	0	57	42	9	12	36	1.74
55258796--55259023	32	6.8	32	86	6	276	18	24	17	39	1.92
55258796--55259033	67	3.6	67	84	6	320	18	23	17	40	1.91
55258795--55259023	102	2.3	100	90	2	370	18	24	17	39	1.91
55261833--55261877	20	2.1	22	84	12	58	13	11	8	66	1.44
55266457--55266517	21	2.9	21	77	0	68	18	24	21	36	1.95
55267727--55267769	23	1.9	22	85	4	59	16	9	11	62	1.53
55273823--55273859	19	1.9	19	88	0	56	51	2	0	45	1.15
55276329--55276357	11	2.5	12	94	5	51	20	0	0	79	0.74
55276418--55276454	3	12.3	3	100	0	74	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55283450--55283509	29	2.0	30	87	3	86	40	15	5	40	1.68
55283455--55283520	29	2.2	29	83	2	78	43	13	4	37	1.65
55289406--55289433	13	2.2	13	100	0	56	7	7	0	85	0.73
55290655--55290705	27	1.9	26	84	11	68	23	9	11	54	1.66
55291896--55291975	9	9.0	9	72	14	51	32	3	1	62	1.21
55296755--55296808	26	2.1	26	85	0	72	48	7	12	31	1.69
55298386--55298580	40	4.7	41	77	8	171	23	22	22	32	1.98
55298247--55298624	131	2.9	129	84	5	487	22	20	22	34	1.97
55298254--55298667	131	3.2	128	82	5	363	23	20	22	33	1.97
55298614--55299430	132	6.2	132	94	0	1377	26	24	19	29	1.99
55298425--55299430	44	23.0	44	66	13	358	26	23	19	30	1.98
55299415--55300037	44	14.2	44	74	7	489	30	26	15	28	1.96
55299415--55300042	132	4.8	132	91	0	997	30	25	15	28	1.96
55298614--55299523	396	2.3	395	87	2	1139	26	24	19	29	1.98
55301051--55301087	18	2.0	20	84	10	51	0	10	13	75	1.04
55305009--55305036	12	2.3	12	100	0	56	42	0	7	50	1.30
55305334--55305387	26	2.1	26	85	0	72	48	7	12	31	1.69
55308538--55308569	16	2.1	16	94	5	57	59	0	0	40	0.97
55308530--55308582	24	2.1	26	86	10	74	56	0	0	43	0.99
55308540--55308597	24	2.4	22	78	16	53	55	0	3	41	1.17
55308730--55308761	3	10.7	3	100	0	64	34	0	0	65	0.93
55308794--55308835	19	2.2	19	87	12	59	66	7	19	7	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55311585--55311712	46	2.8	46	85	4	186	28	26	7	36	1.84
55316055--55316407	104	3.4	103	90	2	548	19	20	29	31	1.97
55318076--55318158	42	2.0	42	83	4	105	34	21	12	31	1.90
55318118--55318245	49	2.6	49	91	2	204	29	28	16	25	1.97
55323530--55323577	22	2.2	22	100	0	96	29	4	18	47	1.67
55323607--55323662	25	2.4	22	81	16	76	21	16	48	14	1.81
55323613--55323666	25	2.2	25	96	0	99	22	14	48	14	1.81
55325149--55325319	27	6.3	27	78	6	150	44	15	13	26	1.84
55325125--55325321	54	3.6	53	78	4	205	44	15	13	26	1.84
55325125--55325324	27	7.4	27	72	13	126	43	16	13	27	1.85
55326419--55326470	25	2.1	25	100	0	104	26	23	26	23	2.00
55351290--55351349	23	2.8	21	69	18	52	61	3	5	30	1.33
55352616--55352941	132	2.5	132	92	0	537	24	27	19	28	1.98
55353011--55353576	89	6.4	89	88	0	729	22	25	24	27	2.00
55353095--55353576	45	10.8	44	66	16	235	22	24	24	27	2.00
55353693--55353803	55	2.0	55	98	0	213	21	17	18	43	1.88
55358063--55358097	18	1.9	18	88	0	52	28	5	5	60	1.43
55367186--55367300	16	5.6	23	67	28	80	64	0	2	33	1.07
55367186--55367299	40	2.9	40	94	2	196	64	0	2	33	1.08
55367218--55367329	49	2.3	47	83	13	145	66	0	1	31	1.02
55367262--55367310	10	4.6	10	78	14	53	63	0	2	34	1.06
55367294--55367326	17	2.0	16	94	5	57	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55369230--55369254	13	1.9	13	100	0	50	32	0	12	56	1.36
55372667--55372691	12	2.1	12	100	0	50	8	8	20	64	1.46
55373659--55373727	22	3.0	24	68	23	76	40	10	4	44	1.58
55374357--55374420	13	4.9	13	92	0	110	39	26	9	25	1.86
55381396--55381448	24	2.2	25	86	3	72	26	22	5	45	1.74
55384167--55384218	1	52.0	1	76	0	50	88	7	1	1	0.66
55384166--55384210	12	3.8	12	87	0	63	86	11	0	2	0.65
55384167--55384218	24	2.3	23	86	6	70	88	7	1	1	0.66
55384657--55384737	6	13.5	6	77	12	69	80	0	13	6	0.89
55384647--55384737	17	5.1	18	70	10	62	81	0	12	6	0.87
55384650--55384733	13	6.4	12	74	14	60	80	0	11	7	0.88
55385471--55385511	16	2.7	15	85	7	64	43	21	2	31	1.66
55385815--55386478	50	13.4	49	69	9	236	33	22	18	25	1.97
55385787--55386272	100	4.9	100	85	1	562	34	22	18	24	1.96
55386132--55386415	143	2.0	143	88	0	424	35	19	20	25	1.95
55386273--55386486	100	2.1	100	90	0	329	32	21	20	24	1.98
55386030--55386479	243	1.9	243	88	1	679	34	20	20	25	1.96
55386273--55386538	100	2.7	98	85	5	315	32	20	21	25	1.98
55390387--55390411	11	2.3	11	100	0	50	32	0	0	68	0.90
55394475--55394511	19	1.9	19	88	0	56	24	0	10	64	1.25
55411857--55411895	16	2.5	15	88	12	53	2	5	12	79	1.00
55413301--55413367	31	2.2	30	82	10	82	38	8	8	43	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55439987--55440057	34	2.1	34	97	0	133	39	15	11	33	1.83
55446031--55446093	2	31.5	2	100	0	126	0	0	49	50	1.00
55454568--55454606	18	2.2	17	86	13	53	33	0	20	46	1.51
55454832--55454929	23	4.3	23	90	2	162	20	21	26	31	1.98
55454834--55454922	45	2.0	45	95	0	160	19	22	26	31	1.97
55460937--55460975	20	1.9	21	84	5	53	43	7	33	15	1.75
55461048--55461086	18	2.2	17	86	13	53	33	0	20	46	1.51
55461312--55461409	23	4.3	23	90	2	162	20	21	26	31	1.98
55461314--55461402	45	2.0	45	95	0	160	19	22	26	31	1.97
55465179--55465243	32	2.1	32	97	2	123	47	12	9	30	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