genome.fa.s25.2.7.7.80.10.50.1000.22.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  22  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)
6188199--6188245	23	2.0	24	87	4	69	34	21	0	44	1.52
6188391--6188419	3	9.7	3	100	0	58	65	0	0	34	0.93
6190034--6190058	10	2.5	10	100	0	50	28	0	0	72	0.86
6191181--6191232	22	2.3	22	83	9	61	21	7	11	59	1.56
6207514--6207555	22	1.9	22	85	9	59	42	4	7	45	1.52
6209337--6209593	40	6.5	40	88	3	326	25	28	23	22	1.99
6211615--6211666	27	1.9	27	100	0	104	30	7	11	50	1.67
6240736--6240794	26	2.5	24	84	13	70	37	23	0	38	1.55
6240759--6240801	21	2.0	22	86	4	61	37	23	0	39	1.55
6240930--6240958	3	9.7	3	100	0	58	65	0	0	34	0.93
6242572--6242596	10	2.5	10	100	0	50	28	0	0	72	0.86
6247314--6247338	13	1.9	13	100	0	50	32	0	0	68	0.90
6251110--6251135	6	4.3	6	100	0	52	38	0	0	61	0.96
6256419--6256454	15	2.5	15	95	4	65	58	5	2	33	1.36
6257780--6258031	128	2.0	129	80	5	287	28	21	19	29	1.98
6257924--6258031	44	2.5	44	81	6	130	30	21	20	27	1.98
6258338--6258757	44	9.7	44	82	6	500	27	24	19	28	1.98
6258344--6258758	214	1.9	214	93	0	715	27	24	19	28	1.99
6258757--6259256	88	5.7	87	88	2	694	21	24	26	28	1.99
6258768--6259006	45	5.4	45	67	8	148	19	26	25	27	1.99
6258922--6259066	45	3.3	44	66	4	121	21	22	31	24	1.98
6258757--6259256	177	2.8	177	89	0	761	21	24	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6258757--6259256	265	1.9	264	87	0	739	21	24	26	28	1.99
6259091--6259224	43	3.1	42	66	8	106	20	23	27	29	1.99
6266160--6266194	15	2.4	15	95	4	63	57	5	2	34	1.37
6266868--6266900	13	2.5	13	90	9	50	84	0	0	15	0.61
6266868--6266896	13	2.1	14	93	6	51	82	0	0	17	0.66
6269707--6269746	19	2.1	19	86	9	55	57	0	2	40	1.12
6271745--6271805	29	2.0	31	84	6	81	62	4	0	32	1.17
6275794--6275831	20	1.9	20	88	0	58	36	13	5	44	1.66
6280722--6280748	13	2.1	13	100	0	54	40	22	14	22	1.90
6281112--6281243	67	2.0	67	87	0	192	33	20	9	37	1.84
6284518--6284664	41	3.6	42	83	5	194	25	28	17	28	1.97
6285130--6285372	114	2.1	115	92	3	404	39	14	3	42	1.62
6286784--6286810	11	2.5	11	100	0	54	22	29	7	40	1.81
6288276--6288325	26	1.9	26	84	8	66	34	6	6	54	1.50
6288854--6288898	20	2.2	20	88	7	65	37	2	0	60	1.09
6289472--6289574	6	16.5	6	71	18	50	3	21	1	72	1.10
6290114--6290261	63	2.3	63	85	0	188	24	19	28	27	1.99
6290173--6290296	63	2.0	63	80	3	142	25	20	29	25	1.99
6291508--6291534	4	6.8	4	100	0	54	51	22	0	25	1.48
6292568--6292634	11	6.6	11	70	19	56	46	1	0	52	1.09
6300629--6300666	17	2.2	18	86	13	53	60	15	23	0	1.35
6301147--6301197	26	2.0	26	92	0	84	27	19	7	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6303149--6303191	21	2.1	21	83	12	54	18	4	20	55	1.60
6303196--6303736	273	2.0	273	93	0	920	28	13	12	46	1.79
6304384--6304474	42	2.1	43	82	6	105	21	20	24	32	1.98
6313097--6313121	12	2.1	12	100	0	50	60	16	0	24	1.36
6314024--6314081	19	3.1	19	75	9	64	36	31	18	13	1.90
6314024--6314206	39	4.8	38	75	2	150	31	25	22	19	1.98
6314045--6314206	77	2.1	77	89	0	243	30	24	23	20	1.99
6314045--6314206	19	8.4	19	68	9	87	30	24	23	20	1.99
6317944--6317985	11	3.9	11	84	6	59	78	0	16	4	0.91
6319138--6319606	45	10.5	44	72	6	302	25	23	19	31	1.98
6319136--6319606	89	5.3	89	89	2	669	25	23	19	31	1.98
6327271--6327418	43	3.4	43	89	0	215	31	23	17	27	1.97
6327528--6327636	31	3.5	31	91	2	166	45	15	8	30	1.75
6331861--6331925	6	11.3	6	77	9	64	75	6	0	18	1.00
6331861--6331924	23	2.8	23	80	2	67	75	6	0	18	1.01
6333760--6333791	12	2.7	12	90	0	55	90	0	9	0	0.45
6333751--6333792	21	2.0	21	90	4	66	85	2	11	0	0.68
6337729--6337757	15	1.9	15	100	0	58	34	3	6	55	1.44
6337776--6337800	13	1.9	13	100	0	50	32	0	0	68	0.90
6340899--6340963	32	2.1	32	97	2	123	47	12	9	30	1.72
6341726--6341780	16	3.6	15	75	15	51	67	0	3	29	1.08
6346424--6346477	22	2.5	22	93	3	92	18	16	27	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6347694--6347817	63	2.0	63	86	0	176	26	16	25	31	1.96
6351258--6351301	23	1.9	23	86	9	63	25	0	0	75	0.81
6351358--6351416	27	2.2	27	81	6	66	45	1	5	47	1.34
6351393--6351432	17	2.4	17	88	12	57	50	2	0	47	1.14
6352399--6352435	17	2.2	17	95	0	65	24	2	21	51	1.61
6353662--6353801	46	3.0	46	96	0	253	35	7	26	30	1.85
6360936--6360968	17	1.9	17	88	11	50	39	0	3	57	1.14
6361092--6361296	19	10.7	19	71	20	144	33	0	13	53	1.40
6361163--6361296	27	4.9	27	75	12	112	32	0	14	52	1.41
6361165--6361351	39	4.7	38	76	15	152	32	0	14	52	1.46
6361233--6361322	8	10.4	8	69	19	56	35	1	15	47	1.53
6361195--6361343	73	2.0	72	86	7	203	33	0	14	51	1.48
6361175--6361344	71	2.5	65	79	15	200	32	0	14	51	1.47
6361482--6361525	16	2.8	16	82	0	61	56	2	2	38	1.24
6361558--6361638	38	2.2	37	95	2	144	39	2	3	54	1.32
6361671--6361792	60	2.0	60	87	3	174	54	13	0	31	1.46
6361807--6361943	8	15.4	8	69	19	76	49	15	0	34	1.50
6361833--6362157	27	12.8	27	72	20	249	53	14	0	32	1.43
6361854--6362157	46	6.2	47	70	20	180	53	14	0	31	1.43
6362086--6362156	21	3.1	21	78	20	79	57	12	0	29	1.35
6362226--6362292	27	2.5	27	97	0	125	11	32	23	31	1.91
6364003--6364051	24	2.0	24	100	0	98	28	8	28	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6366760--6366787	4	7.0	4	100	0	56	75	0	25	0	0.81
6368287--6368352	29	2.2	29	97	2	123	27	16	16	39	1.90
6368453--6368485	16	2.0	17	88	5	50	15	42	0	42	1.46
6372011--6372047	18	2.1	18	94	0	65	48	5	8	37	1.56
6376166--6376197	15	2.2	15	94	5	57	65	0	0	34	0.93
6376674--6376724	20	2.8	17	75	16	57	43	1	3	50	1.31
6382055--6382122	34	2.0	34	83	11	86	27	23	27	20	1.99
6384890--6384988	17	5.8	17	69	25	59	53	5	2	39	1.34
6388170--6388202	14	2.4	14	94	0	57	54	12	0	33	1.37
6390511--6390566	27	2.0	29	82	10	71	41	12	8	37	1.74
6403122--6403146	6	4.2	6	100	0	50	36	0	16	48	1.46
6404537--6404583	2	23.5	2	82	0	58	42	48	8	0	1.33
6406300--6406348	9	5.4	9	92	0	80	38	26	10	24	1.87
6406513--6406590	38	2.0	39	92	2	131	16	2	28	52	1.57
6406572--6406609	17	2.2	18	90	4	60	7	0	47	44	1.32
6406590--6406621	13	2.5	13	95	5	57	15	0	40	43	1.47
6406571--6406634	30	2.1	31	88	2	94	15	0	40	43	1.47
6407247--6407283	9	4.1	9	85	0	56	48	13	8	29	1.71
6413975--6414235	124	2.1	125	90	1	418	30	16	22	30	1.96
6420841--6420877	16	2.2	17	90	9	58	75	0	16	8	1.02
6431445--6431502	27	2.1	27	80	0	62	24	1	15	58	1.46
6437972--6438014	13	3.3	13	78	9	52	48	0	6	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6437968--6438020	27	2.0	26	82	13	65	49	1	5	43	1.37
6438885--6439009	43	2.9	42	81	9	144	20	20	30	29	1.97
6444379--6444418	18	2.2	18	86	0	53	65	2	25	7	1.32
6446841--6446870	10	3.1	10	95	4	53	0	10	0	90	0.47
6446841--6446880	9	4.4	9	84	9	55	2	10	0	87	0.63
6446848--6446880	17	1.9	17	93	0	57	3	9	0	87	0.63
6452637--6452714	13	6.3	13	73	19	60	28	7	1	62	1.30
6452635--6452686	23	2.3	23	80	3	70	28	7	1	61	1.34
6452899--6452928	16	1.9	15	93	6	51	20	6	3	70	1.25
6454529--6454586	30	1.9	31	85	3	82	13	31	41	13	1.84

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