genome.fa.s5.2.7.7.80.10.50.1000.166.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  166  of  208  ( 24913 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)
50622718--50624314	798	2.0	798	96	0	2915	35	16	23	24	1.95
50628784--50628829	24	1.9	24	100	0	92	47	13	4	34	1.62
50631130--50631987	133	6.5	131	92	1	1195	26	24	19	28	1.99
50633327--50633431	49	2.1	49	85	3	140	13	29	13	43	1.82
50633346--50633446	49	2.0	49	83	5	123	11	27	14	45	1.80
50636139--50636184	19	2.4	19	85	7	58	47	10	19	21	1.80
50639968--50640826	133	6.5	132	91	1	1192	26	24	19	28	1.99
50639968--50640826	264	3.2	265	89	3	1223	26	24	19	28	1.99
50639968--50640859	397	2.2	397	85	2	1263	27	24	19	28	1.99
50642162--50642266	49	2.1	49	85	3	140	14	28	13	43	1.83
50644959--50645004	19	2.4	19	85	7	58	47	10	19	21	1.80
50653430--50653491	29	2.1	29	81	0	70	41	0	4	53	1.22
50653454--50653500	21	2.3	20	85	3	58	34	0	4	61	1.15
50661042--50661105	22	2.9	22	78	2	65	37	4	31	26	1.77
50664189--50664219	16	1.9	16	100	0	62	58	0	3	38	1.15
50664379--50664694	10	33.0	9	66	17	113	34	1	4	60	1.24
50664408--50664605	106	1.9	104	81	8	240	35	1	5	58	1.27
50664561--50664709	28	5.1	28	70	16	92	33	1	3	61	1.21
50664580--50664644	27	2.4	28	82	12	73	36	3	1	58	1.23
50664645--50664702	29	2.0	30	89	3	91	34	0	5	60	1.19
50664682--50664722	21	2.0	21	85	0	55	43	0	0	56	0.99
50664829--50664884	20	2.8	19	78	5	58	33	3	1	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50667238--50667264	2	13.5	2	100	0	54	48	0	0	51	1.00
50667754--50667802	24	2.0	24	96	0	89	24	8	18	48	1.75
50667763--50667814	24	2.2	24	83	10	63	28	7	13	50	1.69
50667909--50667942	17	1.9	18	88	5	52	32	2	17	47	1.63
50669735--50669773	18	2.4	16	87	12	53	38	0	5	56	1.22
50674057--50674083	14	1.9	14	100	0	54	74	7	0	18	1.05
50677233--50677261	10	2.9	10	100	0	58	37	0	0	62	0.96
50677557--50677600	23	1.9	22	82	17	54	36	25	0	38	1.56
50677645--50677733	45	2.0	45	93	0	151	31	24	19	24	1.98
50677743--50677871	51	2.5	50	81	8	136	32	26	16	24	1.96
50677742--50677926	101	1.8	102	85	8	261	31	26	15	25	1.96
50691878--50691997	22	5.5	22	88	0	168	33	14	25	26	1.94
50693555--50693622	35	1.9	35	93	0	118	48	8	19	23	1.76
50694198--50694869	44	15.3	44	61	6	158	26	24	26	23	2.00
50694704--50694913	44	4.8	43	68	12	140	23	24	29	22	1.99
50694197--50694954	88	8.6	88	88	0	1003	25	24	26	22	2.00
50694987--50695283	44	6.8	44	80	9	317	28	19	25	26	1.99
50694989--50695197	84	2.4	85	89	3	312	27	19	26	26	1.99
50694989--50695283	88	3.4	87	86	4	359	28	19	25	26	1.99
50695070--50695329	132	2.0	132	78	6	276	30	19	25	25	1.98
50695361--50695746	88	4.4	88	86	0	495	25	24	26	23	2.00
50695587--50695725	44	3.2	44	66	15	115	25	25	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50695768--50695850	43	1.9	44	90	2	132	25	22	28	22	1.99
50695772--50695925	43	3.5	43	77	8	123	28	19	24	27	1.99
50695980--50696077	44	2.2	45	81	5	110	29	18	27	24	1.98
50696988--50697012	13	1.9	13	100	0	50	68	0	32	0	0.90
50701138--50701213	37	2.1	38	82	9	95	23	22	19	34	1.97
50703071--50703104	2	17.0	2	100	0	68	50	0	0	50	1.00
50704663--50704724	17	3.4	17	71	16	61	33	3	0	62	1.11
50704660--50704783	40	3.2	40	96	2	225	33	3	0	63	1.10
50704739--50704799	31	2.0	31	90	6	97	40	1	0	57	1.08
50705240--50705287	8	6.1	7	81	15	51	66	2	0	31	1.03
50705240--50705287	15	3.1	14	80	19	51	66	2	0	31	1.03
50705240--50705304	16	3.9	16	84	11	78	64	3	0	32	1.09
50711150--50711190	14	2.9	15	82	17	52	43	7	12	36	1.70
50722727--50722769	19	2.3	19	84	8	52	67	2	13	16	1.33
50725811--50725951	8	18.1	8	67	8	67	58	4	1	36	1.27
50725887--50725958	33	2.2	33	83	11	96	63	2	0	33	1.08
50727654--50727750	45	2.2	45	86	0	140	23	23	20	31	1.98
50727758--50728181	217	1.9	218	87	1	618	28	24	17	29	1.97
50727627--50728139	44	11.7	45	67	13	137	27	23	19	30	1.98
50740002--50740083	35	2.3	35	93	0	137	57	4	3	34	1.38
50740066--50740145	28	3.0	27	82	7	101	62	3	0	33	1.13
50742516--50742558	23	1.9	22	90	4	68	55	2	6	34	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50742576--50742631	2	29.5	2	77	10	55	50	1	1	46	1.22
50746047--50746209	24	6.6	25	66	15	81	38	19	24	17	1.93
50756952--50756991	20	2.0	20	90	0	62	25	10	2	62	1.39
50759238--50759271	13	2.7	12	86	13	50	79	0	0	20	0.73
50759238--50759271	6	5.3	6	89	10	50	79	0	0	20	0.73
50760177--50760205	3	9.7	3	100	0	58	68	0	0	31	0.89
50760568--50760611	23	1.9	23	85	0	61	13	22	36	27	1.92
50766106--50766141	18	1.9	19	88	5	56	50	38	5	5	1.49
50766471--50766514	14	3.3	14	84	6	56	18	2	0	79	0.83
50766473--50766515	18	2.4	18	84	3	52	20	2	0	76	0.89
50779535--50779952	51	8.5	50	74	13	332	29	16	24	29	1.97
50779544--50779791	97	2.6	96	84	5	329	27	17	24	30	1.97
50779596--50779927	147	2.3	147	91	0	538	28	17	24	29	1.97
50779744--50779925	96	1.9	97	81	5	226	29	18	23	29	1.97
50780725--50780761	14	2.7	15	88	12	53	24	5	0	70	1.08
50780781--50780842	26	2.4	26	97	0	115	43	9	14	32	1.78
50785069--50785159	47	2.0	46	86	2	128	57	16	17	8	1.64
50786449--50786584	71	1.9	71	89	0	209	25	27	18	28	1.98
50786836--50786966	48	2.7	48	88	2	192	35	19	6	38	1.77
50787218--50787341	49	2.5	48	80	7	126	30	29	12	26	1.93
50803699--50803738	19	2.1	19	100	0	80	50	20	0	30	1.49
50806124--50806184	24	2.5	25	84	7	72	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50810042--50810082	19	2.0	19	86	13	55	43	0	0	56	0.99
50812654--50812705	25	2.1	25	100	0	104	28	7	15	48	1.73
50816557--50816616	33	1.9	32	86	10	88	40	15	15	30	1.87
50822324--50822382	28	2.2	28	81	6	68	16	23	20	38	1.92
50828631--50828665	18	1.9	18	88	0	52	37	2	11	48	1.54
50831279--50831320	22	1.9	22	85	9	59	30	9	0	59	1.29
50832704--50832768	31	2.1	31	100	0	130	32	9	12	46	1.73
50835842--50835871	11	2.7	11	100	0	60	16	10	6	66	1.41
50847104--50847165	31	2.0	31	100	0	124	32	9	22	35	1.87
50853615--50853838	72	3.1	72	86	3	290	51	8	1	37	1.44
50853782--50853819	20	2.0	20	89	5	60	57	2	0	39	1.12
50854706--50854764	21	2.7	22	82	12	61	54	3	6	35	1.44
50857308--50857349	19	2.3	18	84	12	50	47	4	4	42	1.45
50861835--50861876	21	2.0	21	85	0	57	64	4	4	26	1.33
50862732--50862766	18	1.9	18	88	0	52	0	17	17	65	1.27
50863482--50863748	50	5.3	50	69	7	193	24	17	24	32	1.97
50863473--50863753	100	2.8	100	86	2	404	24	17	24	32	1.97
50864989--50865035	17	2.6	17	81	15	51	8	12	0	78	0.95
50870914--50870950	3	12.3	3	88	0	56	62	2	2	32	1.23
50871961--50872013	27	2.0	27	85	7	74	9	5	39	45	1.60
50876860--50876916	30	1.9	30	100	0	114	52	17	7	22	1.68
50882481--50882540	31	1.9	31	86	0	84	48	10	15	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50888771--50888812	22	1.9	22	85	9	59	54	2	0	42	1.13
50888790--50888828	19	2.1	19	85	9	53	58	5	0	35	1.20
50889093--50889120	12	2.3	12	100	0	56	60	0	7	32	1.24
50889579--50889677	48	2.0	49	88	1	146	38	11	6	44	1.65
50890346--50890405	16	3.8	16	78	10	61	50	1	1	46	1.21
50892266--50892401	39	3.5	39	85	2	184	44	20	5	29	1.73
50894280--50894356	39	2.0	39	82	5	93	29	7	12	49	1.69
50898670--50898710	22	1.9	21	90	5	64	34	19	7	39	1.80
50899603--50899653	22	2.4	22	86	3	68	64	3	0	31	1.11
50901564--50901620	27	2.2	26	87	6	87	68	3	0	28	1.06

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