genome.fa.s4.2.7.7.80.10.50.1000.113.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  113  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)
36084249--36084561	165	1.9	160	84	7	418	38	13	12	35	1.83
36092984--36093021	19	2.0	20	84	5	51	36	5	10	47	1.61
36101811--36101950	40	3.5	40	93	0	244	29	22	21	27	1.99
36102618--36102668	21	2.4	21	100	0	102	43	15	25	15	1.86
36106396--36106516	28	4.3	28	84	0	152	28	23	23	23	1.99
36106812--36106977	27	6.1	27	84	4	165	18	18	20	42	1.89
36106812--36106977	81	2.0	81	87	0	233	18	18	20	42	1.89
36106812--36106977	54	3.1	53	83	1	197	18	18	20	42	1.89
36120740--36120780	18	2.5	17	81	14	50	34	24	0	41	1.55
36121509--36121548	20	2.0	20	85	0	53	52	12	0	35	1.39
36122737--36122933	98	2.0	98	95	0	358	36	24	10	28	1.88
36125608--36125946	45	7.7	45	73	16	189	25	23	21	28	1.99
36125459--36125958	218	2.3	217	89	0	766	27	22	21	29	1.99
36137312--36137508	98	2.0	98	93	0	340	36	23	10	29	1.88
36140161--36140419	76	3.4	76	80	2	306	30	19	22	27	1.98
36144333--36145418	334	3.2	334	83	3	1312	32	13	16	37	1.88
36151629--36151706	27	2.9	28	83	7	90	24	8	14	52	1.69
36160538--36160698	33	4.9	33	86	0	223	27	19	22	31	1.98
36160538--36160698	66	2.4	66	90	2	252	27	19	22	31	1.98
36166478--36166516	16	2.4	16	86	0	51	20	0	5	74	1.01
36166605--36166643	11	3.5	11	85	3	51	17	0	10	71	1.12
36166995--36167162	87	1.9	88	85	1	230	29	4	15	51	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36170658--36171017	88	4.1	86	79	5	335	34	14	10	41	1.79
36170656--36170998	176	2.0	174	81	3	411	32	14	9	42	1.78
36173027--36173185	33	4.8	33	84	3	221	28	18	21	30	1.97
36173027--36173185	66	2.4	66	90	0	255	28	18	21	30	1.97
36180726--36180764	19	2.1	19	95	0	69	0	46	10	43	1.37
36183900--36183958	24	2.5	24	83	10	68	44	0	1	54	1.10
36184082--36184186	44	2.5	40	76	15	113	31	29	4	34	1.78
36184080--36184189	45	2.6	44	81	8	131	31	29	5	33	1.80
36184168--36184205	16	2.4	16	90	0	58	34	34	0	31	1.58
36195381--36195621	41	5.9	41	73	7	184	30	29	19	21	1.97
36195381--36195635	82	3.1	81	80	5	262	29	30	18	21	1.97
36195395--36195630	123	1.9	124	79	4	262	29	29	19	21	1.97
36198085--36198119	14	2.6	14	90	4	54	31	8	8	51	1.63
36204651--36204693	16	2.7	16	85	0	50	48	11	18	20	1.79
36206443--36206650	27	7.7	27	85	0	245	41	21	18	18	1.90
36206443--36207052	54	11.1	54	80	6	627	43	18	19	18	1.88
36206443--36207063	81	7.6	80	80	9	574	43	19	18	19	1.89
36206652--36207063	27	15.3	27	83	5	410	43	17	19	19	1.88
36207395--36207479	30	2.9	30	85	3	120	29	24	20	25	1.99
36208281--36208316	17	2.1	17	94	0	63	47	11	25	16	1.79
36213992--36214617	27	23.3	26	82	5	610	42	18	19	19	1.90
36214795--36214869	26	2.9	26	81	0	69	18	24	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36214975--36215065	28	3.1	28	83	7	110	26	25	20	27	1.99
36215003--36215063	30	2.0	30	93	0	104	26	27	21	24	1.99
36216135--36216192	28	2.0	29	80	9	66	18	6	18	55	1.65
36216135--36216195	29	2.1	29	82	11	72	19	6	18	55	1.63
36218371--36218411	21	1.9	22	85	5	57	56	14	0	29	1.39
36231612--36231653	16	2.7	15	85	7	57	52	0	2	45	1.13
36231715--36231776	30	2.1	30	84	6	81	50	11	8	30	1.67
36238099--36238160	27	2.3	26	83	2	70	43	19	17	19	1.88
36238326--36238392	22	3.1	21	74	16	73	14	20	19	44	1.86
36238368--36238482	46	2.5	46	88	0	167	17	20	21	40	1.92
36241316--36241362	20	2.4	19	82	10	58	53	10	4	31	1.55
36260876--36260937	28	2.2	28	94	2	106	29	22	24	24	1.99
36261043--36261119	26	3.0	25	81	7	91	37	18	23	20	1.94
36261311--36261733	27	15.7	27	84	1	499	16	18	20	43	1.88
36265787--36265837	21	2.4	22	83	6	61	7	21	1	68	1.25
36265799--36265856	24	2.6	21	79	17	64	6	20	0	72	1.07
36274004--36274037	7	4.7	7	85	7	50	14	2	0	82	0.79
36274927--36275032	41	2.6	41	83	5	151	19	28	17	33	1.95
36275202--36275276	37	2.0	37	100	0	150	29	5	22	42	1.75
36284812--36284921	41	2.7	41	88	4	152	21	30	14	32	1.93
36284853--36284943	41	2.2	41	84	3	112	23	26	15	35	1.94
36287097--36287309	106	2.0	106	85	1	284	30	18	13	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36292598--36292652	26	2.2	24	84	9	67	69	0	16	14	1.20
36298744--36298774	14	2.2	14	94	0	53	41	12	0	45	1.42
36304290--36304390	50	2.0	50	82	0	121	19	30	22	26	1.98
36320806--36320837	16	2.0	16	93	0	55	25	9	25	40	1.85
36320893--36320979	27	3.3	26	76	13	88	18	20	22	37	1.94
36325049--36325233	43	4.3	43	89	1	282	28	31	18	20	1.97
36325026--36325233	86	2.4	86	87	4	294	27	30	18	23	1.98
36328275--36328334	24	2.5	24	89	2	95	58	8	10	23	1.57
36329933--36329966	16	2.1	16	88	0	50	44	17	0	38	1.49
36330026--36330051	13	2.0	13	100	0	52	53	0	0	46	1.00
36330511--36330543	14	2.3	15	94	5	59	36	33	0	30	1.58
36330931--36331258	110	3.0	110	87	4	446	28	25	18	26	1.98
36331091--36331410	150	2.1	151	91	2	518	29	27	18	25	1.98
36331201--36331299	41	2.4	41	94	1	173	31	28	18	22	1.97
36331241--36331704	112	4.2	111	89	2	698	28	26	19	25	1.99
36330968--36331519	261	2.1	261	89	1	822	28	27	19	25	1.99
36330931--36331632	371	1.9	374	88	2	1083	28	26	19	26	1.99
36331231--36331704	111	4.3	111	88	2	684	27	27	19	25	1.99
36333832--36333890	23	2.6	22	82	10	75	44	20	3	32	1.68
36339056--36339114	23	2.6	22	82	10	75	44	20	3	32	1.68
36341083--36341297	99	2.2	99	83	5	265	34	18	21	26	1.96
36342871--36342968	50	2.0	50	95	0	178	28	25	5	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36346280--36346317	20	1.9	19	85	15	51	50	0	0	50	1.00
36346381--36346439	30	2.0	30	86	6	84	47	11	8	32	1.70
36353430--36353495	12	5.5	12	75	10	55	18	3	7	71	1.23
36359757--36359790	4	8.8	4	87	6	52	20	2	0	76	0.92
36359758--36359789	15	2.1	15	94	0	55	21	3	0	75	0.95
36361424--36361450	6	4.5	6	100	0	54	14	0	0	85	0.61
36365671--36365888	42	5.2	42	86	4	275	30	20	22	27	1.98
36375987--36376056	6	12.2	6	87	6	101	80	2	0	17	0.84
36377935--36377977	18	2.2	19	80	16	52	48	2	2	46	1.27
36377945--36377986	18	2.3	18	84	8	50	57	0	2	40	1.12
36378001--36378048	22	2.3	21	85	7	62	27	4	8	60	1.44
36380481--36380538	30	1.9	30	86	6	82	48	8	6	36	1.61
36384495--36384571	28	2.6	30	85	4	77	28	22	24	24	1.99
36384522--36384575	28	1.9	28	100	0	108	27	20	25	25	1.99
36384692--36384762	26	2.7	26	88	0	97	38	21	22	18	1.94
36384936--36385104	27	6.3	27	84	4	189	17	16	20	45	1.85
36384936--36385104	54	3.1	55	82	6	211	17	16	20	45	1.85
36384934--36385104	81	2.1	81	82	6	213	18	16	19	45	1.86
36388126--36388166	20	2.0	20	85	0	55	26	12	24	36	1.91
36390309--36390353	23	2.0	23	86	0	63	22	0	6	71	1.09
36393281--36393366	43	2.0	43	95	0	154	29	15	15	40	1.87
36395059--36395188	36	3.5	36	73	10	118	26	23	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36395018--36395318	76	4.0	75	82	6	288	30	22	21	25	1.99
36395062--36395318	75	3.4	75	85	4	329	31	22	22	24	1.99
36399101--36399144	23	1.9	22	82	17	54	38	22	0	38	1.55
36399243--36399364	23	5.3	23	86	0	172	32	23	21	22	1.98
36401886--36402009	49	2.6	49	80	5	155	32	28	13	25	1.94
36404037--36404080	23	1.9	22	82	17	54	38	22	0	38	1.55
36404178--36404299	23	5.3	23	95	0	217	32	26	21	19	1.97
36407302--36409194	334	5.7	334	86	3	2409	31	14	16	37	1.89
36414025--36414674	336	1.9	334	85	3	876	29	14	17	37	1.90
36416305--36416337	16	2.1	16	100	0	66	24	18	12	45	1.83

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