genome.fa.s6.2.7.7.80.10.50.1000.147.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  147  of  168  ( 20060 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)
43352888--43352986	27	3.7	27	81	4	119	23	24	28	24	2.00
43354094--43354166	30	2.5	29	89	10	114	36	0	2	60	1.11
43354366--43354406	13	3.2	13	86	3	57	70	0	29	0	0.87
43355643--43355729	39	2.3	38	84	7	106	21	14	20	42	1.88
43355676--43355799	57	2.2	58	88	1	178	20	19	19	41	1.91
43355715--43355747	6	5.5	6	96	0	57	18	21	15	45	1.85
43356619--43356669	17	3.0	17	88	0	75	39	11	11	37	1.79
43358626--43358678	22	2.3	23	80	3	63	67	3	3	24	1.23
43366494--43366576	39	2.1	39	86	0	112	21	16	38	22	1.93
43372396--43372462	35	1.9	35	93	0	116	65	0	17	16	1.27
43375985--43376013	2	14.5	2	100	0	58	0	48	0	51	1.00
43378705--43378763	20	3.0	21	73	19	63	35	0	1	62	1.05
43378929--43379113	88	2.1	88	85	4	248	32	7	17	41	1.78
43378929--43379113	87	2.1	89	85	4	250	32	7	17	41	1.78
43380535--43380606	22	3.3	22	94	0	117	30	16	27	25	1.97
43399945--43399975	16	1.9	16	93	0	53	22	19	16	41	1.89
43409179--43409211	4	8.2	4	100	0	66	24	0	75	0	0.80
43421552--43421585	17	1.9	18	88	5	52	35	26	0	38	1.57
43426000--43426099	43	2.3	43	89	3	148	19	17	29	35	1.94
43426618--43426729	21	5.3	21	73	8	84	6	41	16	35	1.73
43426618--43426719	42	2.4	42	78	12	118	5	42	15	36	1.72
43426701--43426847	66	2.2	66	85	4	190	14	29	17	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43426744--43426870	66	1.9	66	87	3	184	15	25	18	40	1.89
43432319--43432771	9	52.8	9	66	25	200	32	0	22	44	1.59
43432319--43432492	43	4.2	42	78	13	148	31	1	21	45	1.62
43432356--43432771	25	16.1	26	79	14	301	32	0	21	44	1.57
43432437--43432464	13	2.2	13	100	0	56	35	0	25	39	1.56
43432428--43432517	22	4.1	22	74	21	82	34	1	21	43	1.60
43432492--43432540	19	2.6	19	83	0	62	32	2	22	42	1.65
43432691--43432774	43	2.0	43	85	0	114	26	0	25	48	1.51
43432894--43432974	12	7.5	11	68	28	50	51	2	0	45	1.14
43434671--43434770	50	2.0	50	100	0	200	38	6	30	26	1.80
43435315--43435396	41	2.0	42	86	9	116	34	21	13	30	1.92
43437861--43438421	114	4.9	112	81	7	564	27	25	23	24	2.00
43437867--43438419	229	2.4	223	82	9	636	27	25	23	24	2.00
43439159--43439236	40	1.9	41	85	12	108	55	0	5	39	1.22
43439151--43439229	20	4.0	20	73	17	67	56	0	3	39	1.17
43439172--43439239	20	3.4	19	68	28	52	57	0	5	36	1.23
43439232--43439293	19	3.3	19	80	17	83	62	0	3	33	1.11
43439549--43439589	20	2.1	19	86	4	55	34	0	2	63	1.08
43439549--43439598	19	2.4	21	77	19	59	38	0	2	60	1.09
43439653--43439690	18	2.1	18	90	5	58	31	0	0	68	0.90
43452563--43452591	14	2.0	15	93	6	51	6	17	6	68	1.34
43455496--43455525	4	7.5	4	100	0	60	50	23	0	26	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43456447--43456524	28	2.8	27	78	16	88	65	3	6	24	1.33
43456574--43456623	26	1.9	26	87	0	73	44	0	2	54	1.11
43461588--43461622	3	11.7	3	100	0	70	34	0	0	65	0.93
43462823--43462873	12	3.9	13	76	16	52	43	11	33	11	1.78
43473931--43473997	14	4.8	14	78	10	57	17	0	25	56	1.41
43480204--43480250	20	2.3	20	82	7	51	42	0	4	53	1.20
43480218--43480264	19	2.6	17	78	21	51	38	0	6	55	1.26
43480223--43480267	19	2.4	19	85	14	58	35	0	8	55	1.31
43502131--43502165	10	3.6	10	84	7	54	48	0	0	51	1.00
43511358--43511388	6	5.2	6	100	0	62	0	67	16	16	1.23
43527466--43527494	14	2.1	14	93	6	51	0	6	3	89	0.57
43533240--43533286	18	2.5	18	86	6	67	12	2	8	76	1.09
43536695--43536745	15	3.6	14	80	14	61	25	0	1	72	0.95
43542867--43543052	51	3.7	49	79	5	212	23	16	29	31	1.96
43543066--43543153	45	2.0	45	95	0	158	26	18	22	32	1.97
43547771--43547892	23	5.3	23	84	0	163	29	26	21	22	1.99
43547771--43547892	46	2.7	46	90	0	190	29	26	21	22	1.99
43548118--43548156	18	2.2	17	86	13	53	46	20	0	33	1.51
43550284--43550342	29	2.0	30	86	3	84	33	1	10	54	1.44
43550362--43550425	23	2.6	24	83	11	69	48	9	1	40	1.45
43556906--43556950	20	2.2	21	84	11	58	73	6	2	17	1.15
43557766--43557824	27	2.2	27	93	0	100	25	32	28	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43557877--43557922	19	2.3	20	85	10	60	17	2	6	73	1.14
43563978--43567304	637	5.3	637	87	4	4660	34	16	14	33	1.90
43565525--43567304	612	2.8	622	86	5	2368	34	16	15	33	1.90
43577779--43577820	18	2.3	18	80	8	50	50	0	0	50	1.00
43577879--43577907	2	14.5	2	100	0	58	51	0	0	48	1.00
43586913--43587017	3	34.7	3	74	16	74	62	4	4	27	1.35
43588166--43588199	14	2.3	15	95	5	61	5	0	32	61	1.20
43590514--43590838	51	6.5	51	86	5	405	29	22	15	32	1.94
43590563--43590838	95	2.8	95	87	3	354	29	22	15	32	1.95
43592811--43592879	36	1.9	36	82	11	88	56	5	2	34	1.38
43592956--43593005	3	17.3	3	77	8	50	64	4	2	30	1.23
43595982--43596089	46	2.4	44	87	6	146	37	27	5	28	1.79
43605771--43605813	16	2.7	16	85	0	59	46	4	0	48	1.22
43609356--43609401	24	1.9	24	90	0	74	36	28	15	19	1.92
43610774--43610813	9	4.4	9	93	0	53	40	22	10	27	1.86
43616527--43616601	23	3.0	23	77	19	71	28	0	0	72	0.86
43616524--43616587	22	3.0	20	74	24	58	28	0	0	71	0.86
43623027--43623067	18	2.3	18	84	12	50	36	0	4	58	1.20
43624046--43624075	2	15.0	2	100	0	60	50	0	0	50	1.00
43626145--43627548	402	3.5	396	83	5	1608	38	12	13	35	1.82
43626145--43631530	404	13.7	397	76	10	3442	38	12	14	35	1.83
43627250--43627896	355	1.8	351	83	4	854	39	12	13	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43628791--43633858	808	6.3	799	77	9	4318	37	12	14	35	1.84
43631220--43631895	365	1.9	365	84	2	928	38	12	12	36	1.82
43631540--43632473	404	2.3	403	87	2	1316	38	12	14	34	1.83
43632664--43632912	133	1.9	133	90	1	401	40	8	13	36	1.76
43632797--43633844	394	2.6	397	83	6	1263	37	11	14	36	1.83
43641585--43641643	29	2.0	30	90	3	93	47	15	8	28	1.74
43647931--43647961	14	2.2	14	100	0	62	35	0	29	35	1.58
43654298--43654341	19	2.4	18	81	7	52	59	2	6	31	1.36
43656766--43656835	23	3.0	23	80	2	86	28	11	17	42	1.83
43656795--43656854	23	2.6	23	76	5	68	33	10	16	40	1.82
43658092--43658130	20	1.9	21	85	15	55	43	28	5	23	1.75
43658437--43658469	17	1.9	17	93	0	57	48	12	3	36	1.56
43665192--43665252	2	30.5	2	100	0	122	50	0	0	49	1.00
43666566--43666685	53	2.2	55	86	5	165	49	17	8	25	1.74
43666635--43666716	31	2.5	31	80	11	94	48	18	8	24	1.75
43666746--43666810	34	1.9	34	87	0	94	46	21	10	21	1.82
43666766--43666894	55	2.3	55	85	0	177	52	17	6	22	1.68
43667368--43667409	7	6.1	7	91	5	68	26	0	0	73	0.83
43667370--43667409	13	3.0	13	92	7	71	25	0	0	75	0.81
43669346--43669394	17	2.7	17	78	9	53	44	2	0	53	1.12
43673144--43673362	38	5.6	39	77	9	221	27	16	21	33	1.96
43673144--43673362	78	2.8	78	92	0	348	27	16	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43675973--43676034	29	2.1	29	82	5	72	66	0	4	29	1.12
43675985--43676040	29	2.0	29	82	10	71	64	0	5	30	1.16
43688488--43688532	24	2.0	23	86	8	65	55	2	0	42	1.12
43694171--43694202	15	2.1	15	94	0	55	21	18	12	46	1.82
43702145--43702309	41	3.8	44	76	9	135	24	17	26	31	1.97
43703711--43703761	2	25.5	2	100	0	102	50	0	0	49	1.00
43703863--43703929	32	2.1	33	85	2	91	40	13	7	38	1.73
43705955--43705995	16	2.5	17	92	4	66	36	34	4	24	1.77
43706119--43706146	6	4.7	6	100	0	56	17	50	0	32	1.47
43706905--43706935	16	1.9	16	93	0	53	41	0	6	51	1.27

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