genome.fa.s16.2.7.7.80.10.50.1000.23.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  23  of  175  ( 20966 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)
6226923--6226962	13	3.1	13	88	0	53	42	22	7	27	1.80
6230041--6230071	14	2.2	14	94	0	53	16	0	38	45	1.47
6230033--6230108	34	2.2	34	83	4	91	21	6	34	38	1.79
6230889--6230960	11	6.4	11	72	12	56	40	4	0	55	1.19
6230874--6231009	38	3.3	41	75	20	129	36	2	0	61	1.08
6230974--6231022	11	4.3	12	75	19	52	40	0	0	59	0.98
6230983--6231022	21	1.9	21	94	0	71	40	0	0	60	0.97
6230982--6231029	21	2.2	20	82	13	60	35	0	4	60	1.16
6235266--6235359	44	2.2	43	81	9	102	29	22	18	29	1.97
6235544--6236609	89	12.0	89	89	1	1545	27	22	18	31	1.97
6240959--6241602	47	13.6	47	93	2	938	28	29	9	33	1.88
6243050--6243169	56	2.1	56	98	0	231	22	23	9	45	1.81
6250105--6250144	20	2.0	20	85	0	53	35	12	20	32	1.90
6255935--6256020	41	2.1	41	93	0	145	36	20	12	30	1.90
6257506--6257545	17	2.3	16	87	12	53	72	12	0	15	1.12
6259415--6259447	17	1.9	17	93	0	57	24	3	12	60	1.46
6263920--6264053	46	3.0	46	80	6	166	42	17	23	16	1.88
6264046--6264074	12	2.5	12	94	5	51	79	0	0	20	0.74
6265007--6265070	24	2.7	24	85	0	92	34	9	25	31	1.87
6265625--6265698	36	2.1	36	92	5	123	27	20	21	31	1.98
6265574--6265746	87	2.0	87	82	2	213	29	17	23	28	1.97
6265384--6266823	261	5.5	260	86	0	1919	30	16	24	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6265777--6265924	51	2.9	51	77	0	161	28	16	25	29	1.97
6265886--6265959	36	2.1	36	86	0	103	27	20	21	31	1.98
6265835--6266010	87	2.0	87	85	0	235	27	15	24	31	1.96
6265922--6266031	51	2.2	51	89	0	166	31	13	22	31	1.93
6266013--6266055	21	2.0	21	86	0	59	48	6	23	20	1.73
6266037--6266178	51	2.8	51	74	0	140	28	19	25	26	1.98
6266183--6266295	51	2.2	51	88	3	174	35	13	21	30	1.91
6265384--6266829	522	2.8	522	90	0	2174	30	16	24	28	1.96
6266357--6266532	87	2.0	87	84	4	230	28	17	22	31	1.96
6266535--6266575	21	2.0	21	90	0	64	41	7	29	21	1.80
6266484--6266625	72	2.0	72	81	0	167	33	14	25	26	1.94
6266618--6266793	87	2.0	87	83	2	219	28	18	22	30	1.97
6266705--6266817	51	2.2	52	89	6	169	31	14	23	30	1.94
6267455--6267538	3	28.0	3	83	0	60	26	2	10	60	1.42
6267619--6267656	20	1.9	20	84	10	51	34	5	2	57	1.35
6272586--6272620	19	1.9	17	88	11	52	74	0	5	20	1.02
6272586--6272621	18	1.9	19	88	5	56	75	0	5	19	1.00
6281855--6281921	27	2.4	28	90	5	109	41	41	4	11	1.62
6281857--6281908	7	7.6	7	80	4	52	44	44	1	9	1.48
6281857--6281908	20	2.5	20	78	3	59	44	44	1	9	1.48
6281875--6281921	14	3.4	14	79	5	60	40	40	4	14	1.66
6281967--6282004	13	2.8	14	84	4	51	26	7	26	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6281958--6282004	14	3.4	14	79	5	60	25	6	29	38	1.81
6284902--6284947	23	2.0	23	83	4	58	13	8	4	73	1.21
6287040--6287267	32	6.8	32	84	7	276	18	23	18	39	1.92
6287040--6287277	67	3.6	67	95	0	404	18	22	18	41	1.91
6289868--6290063	105	1.9	101	84	6	259	33	15	23	27	1.95
6289868--6290118	105	2.5	101	77	12	244	34	16	23	25	1.95
6290784--6290879	33	3.2	32	67	27	91	43	15	9	31	1.78
6292114--6292208	42	2.3	42	85	5	122	43	9	5	42	1.59
6301621--6301684	11	6.4	11	77	18	61	57	0	1	40	1.08
6301613--6301742	40	3.3	38	89	4	190	63	0	1	34	1.04
6302183--6302230	13	3.7	13	75	10	53	35	0	2	62	1.07
6304759--6304784	11	2.4	11	100	0	52	61	0	0	38	0.96
6305488--6305841	125	2.8	126	91	0	593	29	15	21	33	1.94
6306554--6306592	18	2.2	18	100	0	78	23	23	43	10	1.84
6308975--6308999	10	2.5	10	100	0	50	48	0	8	44	1.32
6309099--6309768	29	23.1	29	81	11	698	22	0	31	45	1.53
6309202--6309270	22	3.0	22	78	6	66	20	0	31	47	1.50
6309099--6309768	87	7.7	87	82	12	842	22	0	31	45	1.53
6309590--6309778	5	39.0	5	75	16	75	22	0	33	44	1.53
6309566--6309653	43	2.0	45	93	4	153	21	0	35	43	1.53
6309148--6309768	93	5.7	103	74	19	459	22	0	32	45	1.53
6309843--6309891	25	1.9	25	87	4	71	38	16	4	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6311901--6311930	14	2.1	14	93	6	51	66	6	0	26	1.16
6312022--6312069	10	4.8	10	76	0	51	66	0	0	33	0.92
6312022--6312084	30	2.1	30	96	0	117	63	0	0	36	0.95
6312574--6312868	68	4.5	66	71	12	223	35	26	2	34	1.71
6312590--6312828	129	1.8	131	80	7	290	33	27	2	35	1.72
6312838--6313186	58	6.0	57	71	12	235	39	18	3	38	1.68
6313317--6313469	67	2.4	63	80	6	166	36	18	5	39	1.73
6313479--6313523	23	2.0	23	86	0	63	44	17	2	35	1.62
6313879--6314489	65	9.6	63	76	10	449	35	26	3	35	1.73
6313947--6314458	264	2.0	261	82	6	624	34	26	3	35	1.73
6313882--6314461	196	3.0	187	79	8	565	34	26	3	35	1.73
6316330--6316374	3	14.7	3	90	4	72	33	4	0	62	1.15
6316681--6316732	6	8.7	6	95	0	95	50	0	0	50	1.00
6317165--6317306	72	2.0	72	92	0	239	28	17	19	34	1.95
6329282--6330270	50	19.7	50	77	4	726	33	20	19	27	1.97
6329277--6330065	100	7.9	100	85	1	1006	32	20	19	26	1.97
6329282--6330158	150	5.8	150	80	4	843	33	20	19	27	1.96
6329277--6330165	100	8.9	99	83	1	925	33	20	19	27	1.96
6330333--6330595	132	2.0	132	88	0	391	30	17	25	25	1.98
6330671--6330788	49	2.5	48	80	6	125	35	14	20	29	1.92
6330766--6330863	44	2.2	44	81	0	106	36	20	18	24	1.94
6330823--6330908	44	2.0	44	83	4	111	26	20	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6331987--6332062	38	2.0	38	97	0	143	22	26	17	34	1.96
6333437--6333578	72	2.0	72	91	0	230	28	17	15	38	1.91
6341795--6341878	30	2.7	31	82	14	102	33	2	0	64	1.07
6343006--6343073	31	2.2	31	83	0	91	47	16	8	27	1.76
6347337--6347417	33	2.7	30	75	16	78	60	2	11	25	1.43
6353232--6353277	23	2.0	23	100	0	92	26	0	17	56	1.41
6355861--6355920	29	2.0	30	84	9	79	48	0	3	48	1.18
6362582--6362617	19	1.9	19	94	5	65	66	0	0	33	0.92
6365460--6365574	27	4.3	27	79	2	115	30	14	37	17	1.90
6365457--6365574	54	2.2	54	78	3	139	30	14	37	17	1.90
6369049--6369098	21	2.4	22	80	16	61	28	2	4	66	1.21
6369065--6369109	21	2.2	20	84	11	56	35	2	4	57	1.31
6371243--6371299	27	2.1	27	83	0	69	29	21	21	28	1.98
6375110--6375159	19	2.5	20	83	3	57	68	2	4	26	1.18
6375212--6375266	26	2.2	25	84	15	69	40	0	0	60	0.97
6375205--6375256	23	2.2	24	86	6	70	40	0	1	57	1.10
6375247--6375290	9	4.6	10	77	11	56	29	2	0	68	1.02
6375250--6375286	19	1.9	19	88	0	56	27	2	0	70	1.01
6376539--6376582	20	2.2	20	84	8	54	63	4	0	31	1.14
6377896--6377920	2	12.5	2	100	0	50	52	0	0	48	1.00
6380430--6380547	61	1.9	61	83	6	150	40	8	14	36	1.76
6380436--6380570	61	2.2	60	79	7	137	44	8	11	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6381862--6381890	6	4.8	6	100	0	58	48	0	0	51	1.00
6382478--6382884	138	2.9	138	92	0	681	30	24	23	21	1.99
6386751--6386788	14	2.8	14	81	18	53	21	0	0	78	0.74
6390382--6390450	2	34.5	2	100	0	138	0	49	0	50	1.00
6392741--6392779	20	2.0	20	89	0	60	28	17	17	35	1.94
6394980--6395036	22	2.8	21	75	15	57	36	0	5	57	1.21
6396023--6396184	40	4.0	40	86	9	222	36	3	0	60	1.12
6396072--6396218	12	13.9	11	71	24	104	40	2	0	57	1.13
6396097--6396160	21	3.0	21	72	20	69	37	1	0	60	1.06
6396024--6396218	83	2.4	82	85	10	251	37	3	0	58	1.13

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