genome.fa.s4.2.7.7.80.10.50.1000.114.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  114  of  198  ( 23681 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)
36417661--36417731	35	2.0	35	100	0	142	32	11	16	39	1.84
36418910--36419119	99	2.1	99	84	3	280	33	15	22	28	1.95
36418950--36419162	99	2.2	99	85	3	277	31	19	22	26	1.97
36423066--36423091	8	3.2	8	100	0	52	34	0	23	42	1.54
36426221--36426251	16	1.9	16	100	0	62	45	9	6	38	1.63
36435536--36436414	335	2.7	335	81	5	936	31	13	15	38	1.87
36440278--36440402	27	4.6	27	81	0	133	44	16	20	20	1.87
36440278--36440402	54	2.3	54	81	0	151	44	16	20	20	1.87
36444785--36444817	16	2.1	16	100	0	66	24	12	0	63	1.28
36447946--36448008	31	2.1	31	96	3	119	46	12	9	31	1.74
36453927--36453991	32	2.1	32	94	2	114	32	9	10	47	1.70
36454561--36454588	12	2.3	12	100	0	56	71	14	14	0	1.15
36455842--36456076	99	2.4	99	80	5	244	36	17	18	27	1.94
36464479--36464741	76	3.5	76	76	2	242	33	20	19	26	1.97
36465760--36465785	12	2.2	12	100	0	52	30	19	0	50	1.48
36468680--36469918	335	3.7	334	82	2	1457	30	14	16	38	1.88
36474333--36474385	28	1.9	28	84	3	72	49	3	1	45	1.31
36474524--36474574	22	2.3	23	83	16	72	56	0	0	43	0.99
36476027--36476059	16	2.1	16	100	0	66	24	12	0	63	1.28
36479975--36480047	27	2.7	27	87	4	94	36	13	26	23	1.92
36479995--36480050	27	2.1	27	96	0	103	37	12	26	23	1.90
36488675--36488775	50	2.0	50	100	0	202	31	9	23	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36501187--36501633	146	3.0	144	82	7	522	42	9	4	43	1.56
36501384--36501427	20	2.1	21	87	4	63	50	9	0	40	1.34
36501958--36502032	3	24.7	3	89	2	96	58	0	5	36	1.21
36502053--36502087	10	3.4	10	96	4	61	74	0	17	8	1.06
36502476--36502780	42	7.3	42	83	0	349	38	22	17	22	1.93
36505214--36505391	50	3.6	50	80	3	191	21	26	23	29	1.99
36507105--36507438	148	2.2	148	87	4	469	41	9	6	42	1.62
36507812--36508088	106	2.6	106	81	6	310	33	21	17	27	1.96
36508266--36508326	24	2.7	22	75	9	59	65	4	8	21	1.38
36509085--36509142	3	19.7	3	77	13	50	65	5	0	29	1.14
36509917--36509960	22	2.0	22	90	4	70	4	9	15	70	1.30
36510605--36510827	43	5.2	43	67	18	124	21	19	23	35	1.96
36510536--36510800	128	2.1	128	87	4	383	23	18	23	34	1.96
36510749--36511127	43	9.2	43	69	13	158	22	22	22	32	1.98
36510834--36511170	40	8.1	40	72	13	243	24	22	22	29	1.99
36510647--36511170	167	3.2	167	81	10	607	23	21	22	32	1.98
36511167--36511298	43	3.1	43	64	16	110	24	25	23	27	2.00
36511177--36511311	42	3.2	42	64	19	107	22	25	22	28	1.99
36512555--36512589	6	5.7	6	96	3	61	14	14	0	71	1.15
36513771--36513827	25	2.3	25	84	6	80	56	10	12	21	1.65
36516948--36517226	106	2.6	104	80	5	308	32	21	17	27	1.96
36519096--36519139	22	2.0	22	86	4	61	4	11	15	68	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36519862--36519918	3	18.7	3	85	3	51	54	0	8	36	1.32
36526085--36526170	44	2.0	44	97	0	163	45	24	16	13	1.84
36527212--36527261	26	1.9	26	95	0	91	30	12	12	46	1.77
36533382--36533443	21	2.9	21	90	2	88	50	3	8	38	1.48
36533384--36533455	22	3.3	21	78	9	56	50	4	9	36	1.55
36533461--36533486	2	13.0	2	100	0	52	50	0	0	50	1.00
36535739--36535779	15	2.8	15	85	10	50	21	2	0	75	0.92
36535815--36535842	6	4.7	6	100	0	56	17	0	0	82	0.68
36542165--36542351	102	1.8	103	80	3	225	31	14	23	29	1.95
36542938--36542993	13	4.5	13	78	13	73	35	0	16	48	1.46
36542929--36542980	23	2.3	23	93	0	86	34	0	15	50	1.45
36543765--36543814	22	2.3	22	82	6	57	22	2	4	72	1.12
36548752--36548785	17	2.0	17	88	0	50	50	14	5	29	1.67
36549492--36549550	20	2.9	18	76	18	55	42	8	1	47	1.44
36551892--36551974	22	3.8	22	86	0	121	28	27	15	27	1.96
36553616--36553711	47	2.0	47	93	0	165	37	18	18	25	1.94
36563825--36563867	2	21.5	2	100	0	86	51	0	48	0	1.00
36568190--36568246	26	2.2	26	96	0	105	43	24	5	26	1.75
36568190--36568263	26	2.7	26	85	6	76	44	24	4	27	1.71
36572352--36572414	28	2.2	28	83	5	74	26	14	4	53	1.60
36573900--36574046	74	2.0	74	93	0	249	36	22	23	18	1.95
36574370--36574880	27	19.0	26	80	5	464	41	21	16	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36574363--36574880	54	9.6	53	83	3	545	41	21	16	20	1.90
36574363--36574880	81	6.4	80	83	3	545	41	21	16	20	1.90
36575114--36575163	26	1.9	26	91	0	82	18	18	24	40	1.91
36575275--36575441	28	6.0	28	90	1	237	26	21	21	30	1.98
36575276--36575443	55	3.0	56	88	1	248	25	21	22	30	1.98
36575276--36575443	83	2.0	84	90	1	266	25	21	22	30	1.98
36577505--36577671	26	6.4	26	83	2	183	26	17	25	30	1.97
36577506--36577685	78	2.3	78	84	3	220	27	16	23	32	1.96
36579667--36579719	24	2.3	23	81	12	63	56	13	18	11	1.66
36584437--36584564	26	5.1	26	79	14	128	16	22	22	38	1.93
36584437--36584564	52	2.5	51	81	10	147	16	22	22	38	1.93
36587514--36587546	2	16.5	2	100	0	66	48	0	0	51	1.00
36590318--36590386	29	2.3	30	85	2	86	40	14	10	34	1.80
36590487--36590559	10	7.9	10	79	11	52	63	2	0	34	1.09
36590487--36590562	19	4.2	19	71	21	65	61	2	0	35	1.10
36590937--36590982	19	2.3	20	88	3	67	67	0	2	30	1.03
36591099--36591201	19	5.3	19	70	18	70	33	3	4	58	1.38
36591131--36591202	21	3.5	21	76	16	71	36	4	4	55	1.38
36591160--36591209	21	2.4	22	83	12	70	36	0	6	58	1.23
36591174--36591290	50	2.4	49	76	18	120	34	0	3	62	1.12
36591217--36591258	21	2.0	20	86	4	57	28	0	2	69	1.01
36591217--36591280	21	3.4	19	74	10	51	29	0	4	65	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36595165--36595207	7	6.7	6	86	7	50	62	2	13	20	1.42
36595500--36595573	3	24.7	3	94	0	130	0	0	64	35	0.94
36595761--36595843	43	1.9	43	90	0	130	42	15	7	34	1.75
36597666--36597730	16	4.1	16	70	5	51	38	12	12	36	1.80
36597698--36597730	15	2.1	17	88	11	52	45	12	9	33	1.73
36600109--36600163	24	2.2	25	87	3	76	21	20	16	41	1.90
36607255--36607312	24	2.4	25	76	5	64	25	17	13	43	1.86
36616493--36616535	21	2.0	21	86	8	61	41	2	11	44	1.53
36616535--36616639	26	3.9	27	70	14	74	59	0	2	37	1.19
36616630--36616666	19	2.0	20	84	10	51	54	2	2	40	1.29
36616895--36616978	20	4.2	20	74	5	64	34	3	3	58	1.33
36616898--36616960	10	6.5	10	73	12	51	33	1	3	61	1.21
36617005--36617048	20	2.2	20	91	0	70	36	34	9	20	1.84
36617455--36617484	2	15.0	2	100	0	60	50	0	0	50	1.00
36622991--36623037	16	3.0	16	80	20	55	46	0	0	53	1.00
36639037--36639081	2	22.5	2	100	0	90	51	0	0	48	1.00
36639528--36639568	13	2.8	16	75	21	52	7	14	24	53	1.66
36641009--36641042	5	6.8	5	87	12	52	14	0	2	82	0.79
36642127--36642363	116	2.0	116	98	0	456	31	18	13	35	1.91
36642377--36642944	288	2.0	288	91	1	933	29	23	11	34	1.90
36647601--36648095	164	3.0	164	94	1	859	33	15	19	31	1.93
36655794--36655824	16	1.9	16	93	0	53	6	19	25	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36668936--36668980	17	2.6	17	82	13	56	46	0	4	48	1.22
36674098--36674516	158	2.6	159	80	3	495	20	13	23	42	1.87
36674098--36674566	161	2.9	156	77	7	478	21	12	24	41	1.88
36678790--36678859	35	2.0	35	100	0	140	42	25	11	20	1.85
36679504--36679551	15	3.3	15	76	23	57	12	33	33	20	1.90
36687847--36687901	19	2.9	19	88	0	83	45	16	25	12	1.83
36687856--36688037	21	8.9	21	76	7	124	46	15	19	18	1.85
36687925--36688033	42	2.6	42	86	0	146	47	14	19	18	1.82
36688006--36688054	21	2.3	21	82	0	62	48	14	22	14	1.79
36689285--36689350	33	2.0	33	100	0	132	30	27	21	21	1.98

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