genome.fa.s6.2.7.7.80.10.50.1000.157.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  157  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)
46824974--46824998	7	3.6	7	100	0	50	28	0	12	60	1.32
46825650--46825684	18	1.9	18	88	0	52	25	34	8	31	1.86
46826203--46826320	28	4.1	28	90	3	182	48	26	0	25	1.52
46832018--46832087	31	2.3	31	80	5	79	52	12	11	22	1.71
46834549--46834646	28	3.0	35	78	20	138	39	6	24	29	1.79
46878583--46878681	45	2.2	45	94	1	171	43	11	14	31	1.80
46881197--46881328	65	2.0	65	95	0	237	32	13	7	46	1.72
46881203--46881303	33	3.1	33	67	23	95	30	12	8	47	1.72
46881451--46881642	62	3.1	60	83	5	224	13	30	14	41	1.84
46886962--46886989	4	7.0	4	100	0	56	50	25	0	25	1.50
46895234--46895273	18	2.1	18	86	9	53	25	0	0	75	0.81
46895237--46895340	51	2.0	52	96	1	192	32	3	0	63	1.12
46899447--46899503	24	2.4	24	82	8	71	47	1	12	38	1.51
46900751--46900779	9	3.2	9	100	0	58	0	10	0	89	0.48
46903954--46904047	12	8.4	11	69	24	54	57	0	4	38	1.18
46903963--46904036	19	4.0	19	70	22	68	58	0	2	39	1.13
46903954--46904016	30	2.2	30	91	5	103	60	0	3	36	1.13
46903926--46904055	67	2.0	64	89	4	197	60	0	3	36	1.18
46903983--46904062	37	2.2	36	80	10	90	62	0	3	33	1.13
46903980--46904072	48	1.9	47	80	8	107	63	0	3	33	1.10
46912892--46912978	21	4.0	21	78	18	97	32	1	12	54	1.46
46912941--46912991	8	6.1	8	76	14	50	37	0	11	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46912901--46913004	27	4.1	27	85	10	125	35	0	11	51	1.45
46912818--46912951	19	6.7	19	71	20	89	32	0	12	54	1.43
46913190--46913233	16	2.8	16	82	0	61	56	2	2	38	1.24
46914769--46914947	92	2.0	89	82	5	216	35	20	11	32	1.88
46914982--46915023	19	2.2	19	83	8	50	54	2	2	40	1.26
46914977--46915037	30	2.0	32	84	9	83	55	1	3	39	1.26
46916160--46916475	51	6.2	51	93	0	542	28	23	15	31	1.95
46922558--46922875	51	6.2	51	91	0	501	29	23	15	30	1.96
46923778--46923832	26	2.1	26	80	12	60	21	3	5	69	1.25
46928520--46928566	19	2.5	19	79	3	51	25	6	4	63	1.36
46933283--46933307	3	8.3	3	100	0	50	68	0	0	32	0.90
46935634--46935666	16	2.1	16	94	0	57	45	9	6	39	1.61
46941905--46941939	3	11.7	3	100	0	70	0	31	0	68	0.90
46942441--46942484	21	2.1	21	86	0	61	31	11	18	38	1.86
46945017--46945059	19	2.3	18	80	7	50	34	0	9	55	1.32
46946505--46946712	46	4.6	46	93	1	332	30	22	14	32	1.94
46948739--46948780	21	2.0	21	85	0	57	40	11	9	38	1.75
46950237--46950331	44	2.1	46	84	11	124	60	1	2	36	1.16
46956690--46956754	30	2.2	29	84	10	87	24	12	10	52	1.71
46971112--46971178	34	1.9	35	87	3	100	31	8	14	44	1.76
46972472--46972536	27	2.4	28	94	2	114	41	10	0	47	1.38
46973454--46973554	20	5.2	20	70	12	93	51	0	10	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46973471--46973536	19	3.4	19	77	4	78	50	0	10	39	1.37
46973457--46973554	39	2.5	39	96	1	180	52	0	11	36	1.38
46973447--46973545	19	5.1	19	69	7	65	51	0	9	39	1.34
46973646--46973709	18	3.5	18	82	4	92	46	0	12	40	1.42
46973630--46973725	37	2.6	37	100	0	192	48	0	12	38	1.41
46973630--46973725	19	5.2	19	79	5	124	48	0	12	38	1.41
46973872--46973948	27	2.9	26	84	3	91	15	33	19	31	1.93
46973877--46973942	26	2.5	27	87	2	89	15	31	22	30	1.95
46973999--46974054	27	2.1	27	93	6	98	51	0	7	41	1.29
46981817--46981921	32	3.4	29	74	8	77	40	12	12	34	1.80
46983384--46983416	14	2.3	15	89	5	50	48	0	3	48	1.17
46983372--46983416	15	3.1	15	80	6	56	46	0	4	48	1.22
46986600--46986645	17	2.8	16	80	6	56	65	2	13	19	1.37
46999405--46999449	23	1.9	24	86	4	65	37	11	2	48	1.51
47000237--47000261	13	1.9	13	100	0	50	28	0	0	72	0.86
47009260--47009316	28	2.0	28	86	6	80	52	0	3	43	1.18
47010087--47010133	24	2.0	24	84	16	62	31	0	17	51	1.46
47010286--47010422	40	3.5	40	74	10	131	25	14	24	35	1.94
47014739--47014786	25	1.9	25	87	8	71	54	0	0	45	0.99
47022862--47022910	21	2.3	20	82	6	53	67	10	14	8	1.42
47031391--47031438	13	3.7	13	82	0	51	37	25	8	29	1.85
47038060--47038102	21	2.0	21	100	0	86	13	39	32	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47052768--47052869	52	2.0	51	86	5	143	36	22	10	30	1.88
47072194--47072238	25	1.9	24	82	13	58	40	2	0	57	1.11
47080089--47080149	15	4.1	16	73	25	62	24	11	24	39	1.88
47085672--47085700	2	14.5	2	100	0	58	48	0	0	51	1.00
47085877--47085915	11	3.5	11	89	0	60	23	2	5	69	1.21
47088265--47088301	18	2.1	18	89	0	56	37	0	2	59	1.12
47089961--47090005	18	2.5	18	89	7	65	55	0	0	44	0.99
47091644--47091706	20	3.2	19	72	16	56	31	3	3	61	1.27
47094228--47094296	29	2.3	29	85	5	84	47	13	17	21	1.81
47095445--47095478	17	2.0	17	88	0	50	35	17	11	35	1.87
47096290--47096383	25	4.0	22	81	9	80	40	22	21	15	1.91
47096313--47096395	25	3.3	26	88	3	109	39	22	20	16	1.92
47097438--47097516	40	2.0	41	94	2	142	1	27	10	60	1.36
47097533--47097580	8	6.0	8	77	18	55	60	0	0	39	0.97
47097527--47097583	5	11.2	5	77	22	57	59	0	0	40	0.97
47097529--47097592	24	2.6	24	78	11	69	60	1	0	37	1.06
47097527--47097597	32	2.2	33	83	11	87	59	1	0	39	1.06
47108965--47109184	109	2.1	104	86	6	298	21	11	22	44	1.84
47112321--47112350	2	15.0	2	92	0	51	50	46	0	3	1.18
47116231--47116609	66	5.7	66	91	1	589	40	12	23	23	1.89
47116618--47116669	21	2.5	21	83	0	68	30	19	19	30	1.96
47116660--47116808	66	2.3	66	93	0	253	42	14	20	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47116482--47116846	174	2.1	174	87	1	525	39	15	22	23	1.91
47116792--47116841	21	2.4	21	86	0	73	34	14	24	28	1.93
47117585--47117713	33	3.9	33	93	0	213	41	14	15	27	1.86
47117663--47118503	348	2.4	348	95	0	1502	31	17	19	31	1.95
47122461--47122528	34	2.0	34	97	0	127	17	27	5	48	1.70
47137344--47137387	3	14.7	3	100	0	88	68	0	0	31	0.90
47137695--47137797	36	2.9	35	81	8	127	18	5	25	50	1.69
47137719--47137781	20	3.3	20	69	24	64	17	4	25	52	1.64
47137977--47138022	23	2.0	24	86	4	67	26	21	6	45	1.76
47138423--47138478	21	2.6	22	75	8	62	17	10	39	32	1.84
47138476--47138526	21	2.4	21	83	6	68	13	11	39	35	1.82
47139198--47139247	25	2.0	25	84	3	66	50	8	8	34	1.61
47142303--47142447	65	2.2	65	88	0	209	35	22	19	22	1.96
47143410--47143469	30	2.0	30	83	6	77	20	16	0	63	1.31
47149068--47149133	25	2.6	27	81	13	86	36	21	21	21	1.95
47149175--47149317	65	2.2	65	89	0	214	34	20	20	23	1.96
47151765--47151822	18	3.2	18	87	0	80	62	12	5	20	1.49
47151765--47151804	6	6.7	6	94	0	71	65	15	2	17	1.39
47151765--47151834	18	3.9	18	84	0	77	60	10	7	22	1.53
47151756--47151828	12	6.1	12	88	0	83	58	10	6	23	1.55
47152278--47152317	21	1.9	21	94	0	71	22	30	20	27	1.98
47152557--47152642	31	2.8	31	84	8	79	37	13	8	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47152590--47152651	31	2.1	28	82	11	72	30	14	6	48	1.69
47152570--47152642	31	2.4	31	86	9	96	36	16	6	39	1.75
47165277--47165306	11	2.8	11	95	5	53	33	0	0	66	0.92
47181540--47181580	2	20.5	2	84	0	55	46	2	2	48	1.28
47182375--47182418	4	11.0	4	90	9	72	47	25	2	25	1.63
47189671--47189708	18	2.1	18	90	5	58	68	0	2	28	1.03
47205090--47205142	28	1.9	28	92	3	90	47	11	20	20	1.81
47208904--47208930	3	9.0	3	100	0	54	66	0	33	0	0.92
47212979--47213043	31	2.1	31	100	0	130	27	13	18	40	1.89
47219843--47219910	28	2.4	28	87	5	91	36	2	0	60	1.12

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