genome.fa.s3.2.7.7.80.10.50.1000.26.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  26  of  150  ( 17918 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)
6777225--6777921	289	2.4	281	89	3	1056	39	19	18	21	1.92
6780493--6780518	3	8.7	3	100	0	52	34	0	30	34	1.58
6787179--6787483	152	2.0	152	98	0	583	39	12	18	29	1.88
6793391--6793468	31	2.6	30	81	4	86	21	19	7	51	1.72
6796234--6796316	30	2.7	31	78	14	91	57	6	2	33	1.36
6796457--6796500	17	2.6	17	85	3	63	47	0	11	40	1.39
6796518--6796579	3	20.3	3	96	3	115	66	0	0	33	0.92
6796669--6796699	3	10.3	3	92	0	53	67	3	0	29	1.06
6796671--6796700	15	2.0	15	100	0	60	66	6	0	26	1.16
6797050--6797099	21	2.5	20	93	6	84	38	14	12	36	1.83
6797271--6797609	43	7.9	43	82	3	324	25	27	21	25	1.99
6797271--6797593	129	2.5	129	82	1	396	25	27	21	25	1.99
6797798--6797835	19	2.0	19	94	0	67	57	0	13	28	1.36
6797939--6797991	21	2.5	21	87	0	70	3	43	15	37	1.64
6797939--6798008	21	3.3	21	83	0	68	4	41	15	38	1.67
6798002--6798125	66	1.9	66	89	3	196	15	26	18	39	1.90
6798008--6798148	66	2.1	66	84	5	178	15	26	19	38	1.92
6803629--6803813	9	21.3	9	74	11	163	30	2	21	45	1.64
6803621--6803669	25	2.0	25	91	0	80	30	2	22	44	1.64
6803635--6803862	25	8.8	25	74	15	162	29	2	21	46	1.65
6803646--6803768	62	2.0	62	84	6	160	30	1	21	46	1.61
6803659--6803893	130	1.8	130	80	5	287	31	3	20	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6805527--6805580	16	3.4	16	81	0	63	25	12	44	16	1.84
6805798--6806076	84	3.4	80	81	8	253	30	25	18	25	1.98
6805842--6806121	84	3.3	83	85	3	348	31	24	17	26	1.97
6806336--6806434	47	2.1	45	83	9	119	46	1	7	45	1.37
6806906--6806936	14	2.1	15	94	5	55	38	32	0	29	1.57
6807198--6807248	25	2.0	25	81	7	59	41	29	0	29	1.57
6807224--6807261	14	2.7	15	88	12	62	42	31	0	26	1.56
6807638--6807944	41	7.4	41	73	11	178	38	26	17	17	1.92
6807662--6807904	83	2.9	82	79	3	252	38	25	19	16	1.92
6807639--6807944	42	7.4	41	76	6	242	38	26	17	17	1.92
6807766--6807938	83	2.1	82	79	5	179	41	24	16	17	1.90
6811123--6811173	21	2.4	21	90	0	75	31	35	7	25	1.85
6814951--6815091	48	2.9	49	76	17	150	37	2	2	58	1.22
6814976--6815090	50	2.5	43	72	20	99	33	1	2	61	1.20
6815065--6815125	28	2.2	27	85	2	77	37	0	4	57	1.20
6815234--6815279	12	3.8	13	80	11	53	32	2	0	65	1.05
6815505--6815557	27	2.0	26	85	3	70	18	3	9	67	1.33
6815520--6815557	13	2.8	14	80	19	53	21	5	7	65	1.38
6822066--6822101	2	18.5	2	94	5	65	47	0	0	52	1.00
6822586--6822683	49	2.0	50	91	2	162	45	6	17	30	1.72
6824621--6824692	36	2.0	35	91	2	117	31	8	27	31	1.86
6829748--6829819	36	2.0	35	86	2	99	31	8	27	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6830552--6830584	17	2.0	17	88	5	50	15	12	3	69	1.30
6830659--6830705	18	2.7	17	84	12	60	27	2	2	68	1.13
6836079--6836692	44	13.6	44	72	9	344	31	16	21	31	1.95
6836268--6836692	88	4.8	88	80	5	410	30	16	21	31	1.96
6836279--6836612	179	1.9	179	85	0	470	31	16	21	30	1.95
6843879--6843923	17	2.4	19	82	13	58	64	13	4	17	1.44
6848371--6848429	29	2.0	29	93	0	100	35	27	22	15	1.94
6851691--6851962	134	2.0	134	95	0	490	31	9	17	42	1.80
6853319--6853380	27	2.3	27	94	0	106	35	0	38	25	1.56
6853298--6853378	16	5.4	16	82	14	91	32	0	37	30	1.58
6853357--6853466	45	2.6	44	77	12	122	34	5	28	31	1.80
6853360--6853466	44	2.6	40	73	16	117	35	5	28	30	1.80
6853588--6853642	25	2.2	25	84	9	69	52	1	0	45	1.11
6853817--6853877	28	2.2	28	85	5	81	50	3	0	45	1.17
6853817--6853959	44	3.2	42	70	20	119	48	2	2	46	1.28
6853792--6853999	91	2.3	90	88	4	308	46	3	3	46	1.37
6853824--6853980	47	3.4	47	68	15	128	49	3	1	44	1.31
6858013--6858071	11	5.2	11	74	8	55	42	13	1	42	1.54
6859899--6859974	30	2.7	29	85	6	93	53	0	40	5	1.23
6859899--6860041	78	1.9	76	80	2	169	50	0	46	2	1.21
6859952--6860047	21	4.8	20	73	18	74	48	1	48	1	1.15
6859976--6860042	18	3.6	18	72	18	64	46	1	52	0	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6859971--6860022	27	1.9	27	84	0	68	46	1	51	0	1.12
6866009--6866108	49	2.0	49	98	0	191	25	20	20	35	1.96
6866371--6866417	21	2.3	21	88	3	69	17	27	23	31	1.96
6867026--6867092	9	7.4	9	80	6	73	26	8	20	43	1.82
6891189--6891236	16	3.1	16	76	11	55	33	0	10	56	1.34
6896615--6896656	19	2.2	19	83	8	50	45	2	4	47	1.36
6900448--6900758	108	2.9	107	89	4	457	33	18	16	31	1.93
6901047--6901111	2	33.0	2	93	3	114	52	0	0	47	1.00
6901254--6901324	3	23.3	3	73	13	56	64	2	4	28	1.26
6901254--6901320	18	3.7	17	77	13	62	64	2	4	28	1.28
6902576--6902680	41	2.5	41	93	1	174	22	28	20	27	1.99
6903549--6903586	20	1.9	20	88	0	58	39	13	0	47	1.42
6905784--6906110	44	7.4	44	66	9	164	28	25	16	29	1.96
6905723--6906323	132	4.6	132	90	2	892	29	24	18	28	1.98
6906074--6906252	38	4.2	43	68	20	124	32	21	18	26	1.97
6907761--6907804	15	2.9	15	80	10	54	4	9	2	84	0.85
6912067--6912382	109	2.9	109	91	1	485	34	17	17	31	1.93
6912502--6912574	37	2.1	33	82	10	83	69	8	4	17	1.29
6912666--6912750	2	44.0	2	84	6	113	51	1	0	47	1.08
6912915--6912956	19	2.3	18	88	12	59	71	2	2	23	1.10
6912915--6912965	12	4.4	12	78	9	52	72	1	1	23	1.05
6914668--6914703	16	2.2	16	90	9	56	36	0	5	58	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6914900--6914939	14	2.9	14	84	0	53	32	7	17	42	1.77
6914923--6914962	20	2.0	20	90	0	62	27	10	12	50	1.72
6914908--6914974	34	1.9	35	87	3	100	32	8	11	46	1.72
6918717--6918746	6	5.0	6	100	0	60	83	0	0	16	0.65
6923811--6923835	11	2.3	11	100	0	50	60	0	16	24	1.36
6924296--6924333	2	19.0	2	94	0	67	50	2	0	47	1.15
6949294--6949372	27	2.9	27	73	0	77	20	26	29	24	1.99
6952570--6952610	18	2.3	18	91	4	66	31	12	19	36	1.89
6953550--6953596	21	2.2	22	81	11	53	40	21	8	29	1.83
6954381--6954508	63	2.0	63	98	0	247	25	21	27	26	1.99
6956846--6956886	18	2.3	18	91	4	66	31	12	19	36	1.89
6957031--6957065	17	2.1	17	89	5	54	48	5	14	31	1.67
6957716--6957905	41	4.6	41	92	1	292	22	20	23	33	1.97
6957713--6957956	41	6.0	41	84	7	253	20	19	26	33	1.96
6960190--6960357	62	2.7	62	91	0	255	35	5	9	49	1.58
6961565--6961592	14	2.0	14	100	0	56	35	7	21	35	1.81
6963899--6963934	6	6.2	6	93	6	56	2	11	16	69	1.29
6963899--6963934	17	2.1	17	89	5	54	2	11	16	69	1.29
6965175--6965360	23	7.9	23	79	11	198	16	6	20	56	1.61
6965210--6965349	45	3.1	45	81	13	196	16	6	20	56	1.62
6965175--6965385	91	2.4	86	89	4	314	15	6	20	57	1.60
6965365--6965406	21	2.1	20	86	8	59	14	7	19	59	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6965452--6965493	21	2.1	20	91	8	68	16	4	19	59	1.54
6966244--6966805	131	4.3	131	93	3	941	45	4	2	47	1.36
6966492--6966531	16	2.5	16	87	0	62	27	0	2	70	1.01
6966244--6966805	136	4.3	135	93	4	925	45	4	2	47	1.36
6966630--6966663	16	2.1	16	100	0	68	23	0	0	76	0.79
6966244--6966805	267	2.1	260	93	2	962	45	4	2	47	1.36
6966755--6966792	15	2.5	16	87	12	62	26	0	0	73	0.83
6966755--6966792	16	2.5	15	83	8	51	26	0	0	73	0.83
6969125--6969228	49	2.1	49	92	0	172	30	8	10	50	1.67
6970615--6971015	120	3.3	120	93	0	696	42	0	5	51	1.31

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