genome.fa.s5.2.7.7.80.10.50.1000.131.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  131  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)
40164530--40164576	17	2.7	17	90	3	58	61	0	6	31	1.21
40164706--40164819	33	3.3	33	70	17	113	66	2	11	19	1.34
40164688--40164834	72	2.1	69	94	3	258	63	2	11	21	1.39
40164708--40164821	34	3.2	34	73	11	122	66	2	11	19	1.34
40164732--40164842	34	3.1	34	68	14	98	64	2	10	21	1.37
40164908--40164941	17	2.0	17	94	0	59	55	5	14	23	1.61
40164734--40165173	124	3.5	121	80	11	398	60	3	12	24	1.49
40165031--40165147	48	2.4	48	78	7	121	57	3	9	29	1.47
40165084--40165120	19	1.9	19	88	0	56	67	0	2	29	1.04
40166465--40166708	88	2.7	88	84	4	276	57	10	6	26	1.55
40167220--40167325	52	2.0	52	88	0	158	48	16	16	18	1.82
40170068--40170105	11	3.4	11	83	16	51	39	2	0	57	1.12
40175814--40175854	20	2.0	20	100	0	82	46	24	24	4	1.72
40178502--40178563	31	2.0	31	100	0	124	25	12	19	41	1.87
40191100--40191156	25	2.3	25	84	3	80	42	14	10	33	1.79
40191342--40191391	23	2.2	23	88	0	73	40	16	20	24	1.91
40197043--40197094	25	2.0	25	85	3	68	17	7	9	65	1.45
40197265--40197299	18	2.0	17	88	5	52	60	0	5	34	1.21
40197279--40197400	39	3.2	40	75	12	112	60	1	6	31	1.32
40197334--40197396	29	2.1	31	85	5	85	60	3	4	31	1.33
40198028--40198060	12	2.7	13	86	13	52	33	0	0	66	0.92
40198538--40198585	17	2.6	18	87	9	62	39	0	2	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40198538--40198594	19	3.1	19	82	12	64	38	1	1	57	1.19
40198675--40198721	20	2.4	19	82	10	58	44	0	2	53	1.12
40202818--40202843	2	13.0	2	100	0	52	50	0	0	50	1.00
40205251--40205801	43	12.9	43	86	1	628	38	23	17	20	1.93
40219543--40219621	25	3.2	25	81	1	79	22	26	20	30	1.98
40225533--40225560	2	14.0	2	100	0	56	50	0	0	50	1.00
40230903--40230956	25	2.2	25	83	12	67	48	1	3	46	1.30
40232327--40232366	22	1.9	21	90	10	64	45	25	12	17	1.83
40232844--40232897	25	2.3	23	81	15	65	25	24	22	27	2.00
40256400--40256450	19	2.7	19	81	9	59	52	3	1	41	1.31
40259019--40259157	73	1.9	73	89	2	219	28	18	5	46	1.72
40260165--40260199	17	2.1	17	100	0	70	37	5	11	45	1.64
40260168--40260205	17	2.2	17	90	0	58	34	7	10	47	1.67
40262528--40262561	11	3.0	11	83	8	50	41	2	8	47	1.50
40263835--40263874	12	3.4	12	89	3	64	50	0	2	47	1.14
40263794--40263875	29	2.8	29	76	10	76	48	1	4	45	1.31
40273445--40274043	72	8.4	71	77	3	466	35	22	16	26	1.94
40273448--40273903	143	3.2	142	81	1	482	35	21	17	26	1.95
40273446--40273993	215	2.5	215	80	5	581	35	21	16	27	1.94
40273445--40274043	287	2.1	287	79	5	620	35	22	16	26	1.94
40274426--40274508	27	3.1	27	75	5	87	26	20	25	27	1.99
40280141--40280183	19	2.3	19	80	15	54	48	4	0	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40281904--40281953	24	2.0	25	84	7	66	38	6	16	40	1.73
40283477--40283549	21	3.7	21	75	7	55	65	2	1	30	1.15
40283568--40283620	24	2.2	25	79	6	63	60	1	7	30	1.35
40283664--40283709	20	2.4	20	86	13	62	65	0	8	26	1.21
40284165--40284262	28	3.5	27	74	17	85	29	2	1	67	1.09
40284164--40284238	17	4.2	17	81	17	66	30	2	0	66	1.05
40284096--40284336	9	25.7	9	69	17	118	33	2	1	62	1.20
40284474--40284548	38	2.0	38	94	5	134	36	5	21	37	1.76
40289182--40289206	2	12.5	2	100	0	50	48	0	0	52	1.00
40301948--40302128	47	3.9	47	79	2	177	25	22	17	34	1.96
40303460--40303502	21	2.0	21	83	16	54	16	9	2	72	1.21
40306755--40306791	16	2.2	18	90	9	60	35	0	2	62	1.10
40307068--40307115	22	2.2	22	81	11	62	43	6	0	50	1.27
40307071--40307115	21	2.1	21	87	4	63	44	6	0	48	1.29
40316739--40316783	19	2.3	19	96	3	81	35	31	0	33	1.58
40321078--40321185	53	2.0	53	83	3	137	35	28	12	24	1.91
40327907--40328354	44	10.3	43	69	12	166	27	21	21	29	1.98
40327907--40328095	89	2.1	87	87	1	261	29	21	20	29	1.98
40327975--40328395	130	3.3	130	90	2	641	27	21	21	29	1.99
40328577--40328982	44	9.4	41	69	11	150	28	18	21	30	1.97
40328524--40329072	45	12.6	43	70	11	224	28	20	20	30	1.98
40328496--40328982	130	3.7	130	86	4	635	28	19	21	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40328498--40328982	260	1.9	260	87	3	717	28	19	21	31	1.97
40331339--40331380	18	2.4	18	92	4	68	61	4	16	16	1.50
40333475--40333509	16	2.2	16	89	0	52	45	17	17	20	1.85
40338101--40338162	25	2.5	25	89	0	88	27	29	16	27	1.97
40345610--40345665	25	2.2	25	90	6	87	19	28	21	30	1.98
40352855--40352909	25	2.2	24	75	15	58	18	25	5	50	1.67
40352854--40352910	26	2.2	25	75	9	62	17	24	5	52	1.65
40354710--40354771	18	3.2	18	76	24	72	59	11	1	27	1.41
40354690--40354771	40	2.0	40	100	0	164	56	12	2	29	1.49
40355276--40355352	23	3.3	24	80	5	77	57	5	2	35	1.35
40355287--40355367	24	3.5	24	77	11	71	55	4	3	35	1.39
40357111--40357359	134	1.9	131	84	4	338	26	24	19	29	1.98
40356882--40358030	178	6.5	178	80	6	752	27	23	18	30	1.98
40357109--40358030	445	2.1	442	88	1	1346	27	23	19	30	1.98
40357287--40357852	267	2.1	266	88	0	837	27	22	19	30	1.98
40357287--40357942	267	2.5	267	83	4	662	26	23	19	30	1.98
40360194--40360236	11	3.8	11	87	6	68	0	25	0	74	0.82
40360190--40360236	6	8.2	6	79	6	53	0	27	0	72	0.85
40360241--40360265	6	4.2	6	100	0	50	16	16	0	68	1.22
40360250--40360306	27	2.1	27	87	3	80	24	3	0	71	1.01
40365994--40366045	23	2.4	21	79	14	61	59	5	3	30	1.39
40365994--40366088	24	4.2	23	77	9	81	56	5	5	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40375089--40375117	12	2.3	13	94	5	51	13	3	0	82	0.79
40375974--40376015	10	4.7	9	81	18	52	19	2	0	78	0.86
40376404--40376846	107	4.1	107	86	4	615	32	16	16	34	1.91
40376404--40376806	219	1.9	216	90	2	646	32	15	17	34	1.91
40377397--40377461	17	3.8	17	95	0	103	7	32	44	15	1.75
40378730--40378904	42	4.2	42	82	4	183	42	17	23	16	1.89
40378749--40378857	21	5.2	21	63	8	51	44	19	22	13	1.86
40378739--40378903	84	2.0	84	85	2	224	42	18	23	15	1.89
40378821--40378880	21	2.9	21	69	0	66	48	20	16	15	1.81
40380999--40381028	4	7.5	4	100	0	60	26	0	0	73	0.84
40384219--40384258	20	2.0	20	90	0	62	50	10	10	30	1.69
40384207--40384273	34	1.9	35	87	3	100	46	11	8	32	1.72
40386345--40386390	21	2.2	21	84	0	56	56	4	15	23	1.57
40392241--40392276	18	2.0	18	100	0	72	38	27	16	16	1.90
40392358--40392397	5	8.0	5	100	0	80	20	0	60	20	1.37
40396787--40396837	3	17.7	3	78	8	52	1	25	1	70	1.08
40396787--40396848	26	2.5	24	82	7	72	3	20	1	74	1.05
40397175--40397200	2	13.0	2	100	0	52	50	0	0	50	1.00
40401583--40401654	18	3.7	18	74	25	74	48	1	27	22	1.59
40401568--40401653	42	2.0	42	95	0	154	47	2	25	24	1.64
40401572--40401639	21	3.2	20	69	29	52	47	2	26	23	1.66
40402161--40402205	23	1.9	22	86	13	63	22	11	28	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40406901--40406940	20	2.0	21	85	5	55	32	20	27	20	1.97
40408514--40408684	45	3.8	45	84	4	220	37	18	19	24	1.94
40408515--40408687	90	1.9	90	88	2	258	37	17	20	24	1.93
40408518--40408706	90	2.1	90	83	3	238	39	17	18	24	1.92
40408695--40408863	45	3.7	45	83	1	203	46	14	21	17	1.83
40411791--40411844	24	2.2	24	90	0	90	37	14	22	25	1.93
40412820--40412881	29	2.1	29	82	5	72	20	8	12	58	1.60
40413433--40413470	20	1.9	20	88	0	58	13	2	15	68	1.32
40415050--40415120	37	1.9	37	100	0	142	21	14	21	43	1.87
40419181--40419220	20	2.0	20	85	0	53	47	0	2	50	1.14

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