genome.fa.s3.2.7.7.80.10.50.1000.145.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  145  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)
43750603--43750826	43	5.2	43	64	12	145	28	22	23	25	1.99
43750579--43751641	88	12.2	88	92	1	1255	26	22	25	25	2.00
43751648--43751769	44	2.8	44	77	5	113	30	17	22	29	1.97
43752007--43752241	41	5.4	43	74	11	126	28	22	22	27	1.99
43751734--43752156	130	3.2	130	92	4	720	26	22	23	27	1.99
43751779--43752241	46	10.5	44	74	9	205	27	22	22	27	1.99
43758823--43758881	26	2.3	26	79	5	66	47	0	5	47	1.24
43760010--43760047	13	3.0	13	84	3	51	52	0	0	47	1.00
43760942--43760999	29	2.1	28	84	9	75	39	3	0	56	1.16
43761720--43761762	6	6.8	6	81	7	50	44	16	20	18	1.87
43761731--43761878	45	3.2	49	81	15	147	41	20	18	19	1.90
43761746--43761878	45	3.0	44	87	10	191	42	21	17	19	1.90
43764666--43764697	13	2.5	13	100	0	64	9	37	0	53	1.34
43767449--43768694	210	5.9	210	82	3	1531	31	16	18	33	1.94
43767452--43768699	630	2.0	630	86	2	1727	31	16	18	33	1.93
43768703--43769196	144	3.4	144	83	2	634	25	20	21	32	1.98
43778908--43778983	25	2.8	28	90	9	113	46	9	21	23	1.80
43783604--43783679	25	3.0	25	96	0	134	50	6	18	25	1.71
43786590--43786627	17	2.4	16	86	8	51	28	7	13	50	1.69
43787346--43787404	31	1.9	31	92	0	100	40	5	15	38	1.69
43787950--43787978	11	2.5	12	88	11	51	58	0	0	41	0.98
43787953--43787978	11	2.4	11	100	0	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43788933--43788992	21	2.9	19	81	18	68	38	0	1	60	1.07
43788933--43788990	22	2.8	21	85	15	68	37	0	1	60	1.07
43788933--43788997	22	2.9	24	80	19	63	40	0	1	58	1.07
43789093--43789145	23	2.3	24	75	15	58	45	1	1	50	1.23
43789613--43789666	27	2.0	27	96	0	99	29	20	33	16	1.95
43790809--43790885	27	2.9	28	86	7	115	20	38	23	16	1.92
43790931--43790965	17	2.0	18	88	5	54	57	0	0	42	0.99
43791947--43792012	31	2.1	31	88	0	96	39	9	13	37	1.77
43794309--43794493	46	4.0	46	85	2	246	38	9	22	29	1.85
43795191--43795243	21	2.6	19	73	23	54	33	1	3	60	1.26
43796185--43796235	23	2.2	24	79	10	61	54	11	1	31	1.47
43796192--43796235	23	2.0	23	86	4	63	59	11	2	27	1.44
43796432--43796456	13	1.9	13	100	0	50	40	8	8	44	1.63
43796518--43796568	9	5.6	9	79	11	50	64	0	3	31	1.11
43797508--43797623	55	2.1	56	91	3	189	49	12	16	21	1.79
43798890--43798954	31	2.1	31	94	0	112	44	7	10	36	1.68
43803992--43804580	210	2.8	210	95	1	1049	29	17	19	33	1.95
43804967--43805288	142	2.3	143	88	5	458	26	22	20	30	1.98
43805031--43805368	142	2.4	144	86	4	438	26	21	18	32	1.97
43808885--43808939	29	2.0	27	89	7	83	29	0	7	63	1.21
43822524--43822592	29	2.3	30	80	7	68	53	2	2	40	1.31
43827062--43827089	6	4.7	6	100	0	56	85	0	0	14	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43833103--43833236	65	2.1	65	98	0	259	35	7	19	38	1.80
43835953--43835999	2	23.5	2	100	0	94	48	0	0	51	1.00
43836504--43836772	113	2.4	111	90	3	402	34	18	16	30	1.93
43836911--43836945	4	8.8	4	100	0	70	77	0	0	22	0.78
43836913--43836979	12	5.5	12	75	22	59	68	4	2	23	1.22
43837482--43837586	3	35.0	3	94	0	183	65	1	0	32	1.03
43841777--43841829	27	2.0	26	88	3	79	47	3	5	43	1.45
43842305--43842349	23	1.9	24	86	4	65	26	4	2	66	1.22
43858470--43858551	34	2.5	33	78	9	87	58	0	2	39	1.11
43867917--43867968	4	13.0	4	85	0	59	67	1	7	23	1.27
43869374--43869417	22	2.0	23	81	4	54	13	0	11	75	1.06
43873055--43873431	188	2.0	189	89	2	571	32	11	15	41	1.82
43876680--43876724	20	2.2	21	85	14	60	64	4	0	31	1.13
43878866--43878917	19	2.7	19	93	0	86	44	30	3	21	1.70
43880299--43880339	3	13.7	3	100	0	82	65	0	0	34	0.93
43884943--43885061	59	2.0	59	98	0	229	37	10	11	39	1.77
43889101--43889136	15	2.5	14	86	8	54	44	8	0	47	1.33
43891820--43891855	7	5.1	7	100	0	72	27	0	0	72	0.85
43894834--43894900	23	2.9	24	75	4	75	58	2	1	37	1.23
43894830--43894902	13	6.1	13	65	18	50	58	2	1	36	1.21
43897818--43897939	56	2.2	53	77	13	131	30	4	5	59	1.39
43899381--43899409	15	1.9	15	100	0	58	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43905232--43905266	19	1.9	18	88	11	54	57	5	8	28	1.52
43907102--43907140	18	2.2	18	86	4	53	61	2	0	35	1.10
43907551--43907611	27	2.2	27	85	8	79	50	1	1	45	1.21
43907554--43907590	20	1.9	19	89	10	58	56	0	2	40	1.13
43913484--43913569	29	2.9	29	83	10	95	47	13	4	33	1.64
43924840--43924884	19	2.3	20	92	3	74	71	20	4	4	1.21
43933064--43933240	55	3.2	55	90	1	266	50	18	7	23	1.72
43933165--43933338	18	9.7	18	64	19	69	48	18	8	24	1.75
43933141--43933324	89	2.1	89	89	0	278	49	19	8	22	1.75
43933230--43933353	55	2.3	55	85	0	158	48	16	9	25	1.77
43933086--43933353	144	1.9	144	87	0	392	49	18	8	23	1.75
43936353--43936451	42	2.4	42	93	6	166	14	37	28	20	1.91
43941730--43941779	2	25.0	2	95	0	91	48	2	0	50	1.12
43943544--43943585	22	1.9	22	85	0	57	40	4	0	54	1.21
43949017--43949133	58	2.0	58	100	0	234	23	11	25	38	1.89
43962338--43962379	19	2.3	18	88	12	59	42	0	11	45	1.41
43966018--43966090	36	2.0	36	97	0	137	36	13	19	30	1.90
43977496--43977547	24	2.2	24	89	0	77	36	3	9	50	1.54
43982769--43982810	19	2.2	19	87	8	59	33	11	0	54	1.37
43982832--43982869	11	3.5	11	85	7	51	31	2	0	65	1.06
43986490--43986538	25	1.9	27	84	12	68	20	20	8	51	1.73
43987199--43987250	12	4.3	12	82	0	50	71	5	9	13	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43988263--43988301	13	3.0	13	84	0	60	64	0	20	15	1.30
43990670--43990732	31	2.0	31	100	0	126	58	15	12	12	1.63
43994896--43994961	33	2.0	33	90	0	105	53	18	10	18	1.72
43995611--43995673	33	1.9	33	87	6	92	69	3	9	17	1.28
43997639--43997687	25	2.0	25	84	4	64	53	2	2	42	1.24
43999308--43999427	64	1.9	64	83	0	159	23	21	20	35	1.96
44000101--44000138	4	9.2	4	97	2	67	73	0	0	26	0.83
44002125--44002163	20	2.0	20	85	10	53	46	0	0	53	1.00
44002194--44002291	18	5.5	18	73	9	67	33	2	3	61	1.23
44011098--44011169	23	3.2	23	66	15	69	31	25	15	27	1.95
44011098--44011185	44	2.0	44	100	0	176	31	25	15	27	1.96
44021668--44022014	132	2.6	135	79	9	352	34	13	21	30	1.92
44021668--44022014	138	2.6	134	77	10	339	34	13	21	30	1.92
44032006--44032052	18	2.5	20	73	16	55	61	2	0	36	1.08
44032452--44032485	18	1.9	18	88	5	52	47	2	0	50	1.16
44033637--44033678	13	3.3	13	80	6	50	71	7	0	21	1.09
44037410--44037444	6	5.5	6	87	12	52	0	0	22	77	0.78
44038183--44038217	13	2.8	13	91	4	54	51	2	2	42	1.31
44042741--44042772	16	1.9	17	93	6	57	46	0	0	53	1.00
44043765--44043813	22	2.2	22	85	0	62	38	10	2	48	1.48
44054342--44054369	2	14.0	2	100	0	56	50	0	0	50	1.00
44054640--44054693	28	1.9	28	81	7	65	38	7	3	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44059823--44059894	26	2.8	26	93	0	117	37	23	22	16	1.94
44059826--44059911	26	3.3	26	88	3	111	40	23	18	17	1.91
44066042--44066075	17	2.0	17	88	0	50	47	11	11	29	1.76
44068182--44068208	14	1.9	14	100	0	54	29	7	25	37	1.83
44068581--44068747	83	2.0	83	100	0	334	38	15	22	22	1.92
44072313--44072351	17	2.2	19	90	9	64	69	5	0	25	1.09
44073125--44073236	60	1.9	57	82	15	140	41	10	11	36	1.76
44076227--44076254	5	5.6	5	100	0	56	17	0	0	82	0.68
44076334--44076363	10	3.0	10	90	0	51	33	0	0	66	0.92
44087062--44087094	13	2.4	14	90	10	50	63	0	3	33	1.10

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