genome.fa.s4.2.7.7.80.10.50.1000.115.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  115  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)
36690916--36691287	69	5.4	69	74	4	268	31	26	23	18	1.98
36690965--36691287	138	2.4	137	81	4	339	32	26	23	17	1.97
36691324--36691356	14	2.4	14	100	0	66	39	33	6	21	1.78
36695834--36695895	29	2.1	29	82	5	72	16	19	37	27	1.93
36699278--36699328	25	2.0	25	92	0	84	37	0	3	58	1.16
36699745--36699796	22	2.5	21	80	19	65	67	0	32	0	0.91
36699745--36699792	14	3.5	14	80	5	62	66	0	33	0	0.92
36701273--36701298	6	4.3	6	100	0	52	30	38	30	0	1.58
36701461--36701559	33	3.0	33	84	0	135	12	44	15	28	1.82
36701850--36701945	27	3.6	27	92	0	156	23	28	23	23	2.00
36709243--36709295	27	2.0	27	88	0	79	24	20	22	32	1.98
36710707--36710817	46	2.4	46	95	1	197	29	21	17	31	1.96
36710694--36710964	37	6.6	45	86	9	216	28	21	14	36	1.92
36710779--36710926	37	4.0	37	95	0	260	27	19	13	39	1.89
36718407--36718517	46	2.4	46	95	1	197	29	21	17	31	1.96
36718394--36718664	37	6.6	45	86	9	216	28	21	14	36	1.92
36718479--36718626	37	4.0	37	95	0	260	27	19	13	39	1.89
36725572--36725658	28	3.1	28	75	16	83	65	1	0	33	1.00
36725595--36725656	29	2.2	27	81	13	72	66	0	0	33	0.92
36744343--36744388	23	2.0	22	84	16	58	43	21	0	34	1.53
36744556--36744654	51	1.9	51	91	0	162	33	29	16	21	1.95
36748919--36748953	16	2.1	16	89	10	52	62	0	5	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36750322--36750354	17	1.9	17	88	11	50	24	0	3	72	0.98
36753624--36753678	16	3.4	16	80	5	58	40	5	23	30	1.77
36753887--36754023	57	2.3	58	76	9	134	55	4	0	39	1.25
36754001--36754043	21	2.0	21	86	9	59	62	2	0	34	1.08
36764069--36764102	3	11.3	3	93	0	50	5	0	61	32	1.20
36764056--36764090	15	2.3	15	95	0	61	11	2	54	31	1.51
36764069--36764105	12	3.1	12	88	0	56	8	0	59	32	1.27
36764122--36764257	27	5.0	27	96	0	245	11	21	28	38	1.87
36764143--36764242	12	7.6	12	69	18	65	12	23	27	38	1.90
36767776--36767947	48	3.6	48	90	0	227	22	29	21	26	1.99
36773301--36773341	21	2.0	21	85	0	55	24	36	9	29	1.87
36782158--36782193	18	2.0	18	100	0	72	50	11	5	33	1.61
36782291--36782342	22	2.3	23	83	9	63	50	5	0	44	1.26
36782521--36782568	24	2.0	24	91	0	78	60	2	0	37	1.09
36782961--36783014	22	2.5	22	78	6	65	61	0	0	38	0.96
36787073--36787112	21	2.1	19	86	13	55	72	2	17	7	1.19
36787894--36788157	131	2.0	132	92	2	442	23	24	21	30	1.99
36787983--36788157	44	4.0	43	68	9	129	22	24	21	32	1.98
36801426--36801472	22	2.2	21	88	3	67	65	8	21	4	1.37
36806074--36806106	8	4.0	8	96	4	57	63	0	0	36	0.95
36811251--36811284	2	17.0	2	100	0	68	50	0	0	50	1.00
36811359--36811419	30	2.1	29	82	14	72	22	9	3	63	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36816638--36816697	31	2.0	30	87	9	86	50	1	1	46	1.21
36817369--36817396	3	9.3	3	100	0	56	35	32	0	32	1.58
36817363--36817677	153	2.1	154	93	1	544	28	20	19	31	1.97
36819097--36819136	21	2.0	19	90	9	62	75	2	2	20	1.04
36822859--36822904	23	2.0	23	86	0	65	39	23	13	23	1.90
36823490--36823587	48	2.0	48	90	3	153	25	37	5	31	1.78
36827876--36828007	50	2.6	50	83	2	149	25	23	28	22	2.00
36834121--36834153	12	2.6	13	90	4	50	60	12	18	9	1.57
36834957--36834985	14	2.1	14	93	6	51	58	0	6	34	1.25
36835363--36835389	14	1.9	14	100	0	54	74	7	7	11	1.23
36846088--36846229	35	4.1	35	82	0	167	39	29	11	19	1.87
36849243--36849298	25	2.2	25	87	0	76	62	7	0	30	1.22
36849323--36849397	11	6.8	11	75	6	62	42	0	34	22	1.54
36849709--36849766	26	2.2	24	77	16	62	58	0	6	34	1.25
36857349--36857513	87	1.9	86	83	3	215	26	15	21	36	1.93
36865309--36865353	18	2.4	18	88	3	63	57	0	2	40	1.11
36865382--36865433	20	2.7	20	72	3	61	55	3	3	36	1.36
36866270--36866377	2	54.0	2	100	0	216	50	0	0	50	1.00
36866372--36866437	18	3.5	19	74	15	57	31	4	0	63	1.14
36866379--36866436	9	6.0	10	76	13	59	27	5	0	67	1.12
36876947--36876971	12	2.1	12	100	0	50	60	0	8	32	1.26
36877344--36877368	12	2.1	12	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36878709--36878773	21	3.0	21	80	13	62	40	1	1	56	1.18
36879367--36879400	15	2.2	16	89	5	52	67	0	0	32	0.91
36883693--36883724	15	2.1	15	94	0	55	15	6	9	68	1.36
36891988--36892151	43	3.9	42	81	4	159	28	26	15	28	1.96
36893965--36893997	17	1.9	17	100	0	66	30	18	24	27	1.98
36893967--36894004	17	2.2	17	90	0	58	28	23	26	21	1.99
36899724--36899760	2	18.0	2	88	5	56	45	0	5	48	1.25
36900506--36900569	31	2.1	31	88	5	94	53	10	12	23	1.70
36900522--36900589	29	2.3	28	83	16	84	55	8	10	25	1.62
36901211--36901278	32	2.1	32	94	0	118	25	20	8	45	1.80
36901607--36901719	59	1.9	59	83	3	145	50	14	14	21	1.77
36905183--36905229	23	1.9	23	83	12	58	55	6	4	34	1.45
36905303--36905328	3	8.7	3	100	0	52	69	30	0	0	0.89
36905327--36905375	3	16.3	3	100	0	98	67	0	0	32	0.91
36908297--36908346	21	2.4	21	80	6	57	48	0	6	46	1.27
36909063--36909100	2	19.0	2	89	10	60	47	2	0	50	1.15
36910017--36910186	41	4.1	41	89	3	252	25	20	24	30	1.99
36921642--36921709	7	9.9	7	83	3	84	13	47	0	39	1.43
36921955--36921990	6	5.8	6	90	3	54	19	0	13	66	1.24
36922062--36922316	128	2.0	128	96	0	465	27	12	14	45	1.80
36922636--36922690	28	2.0	28	96	0	101	29	12	27	30	1.93
36924676--36924730	26	2.1	26	89	0	83	45	7	27	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36925771--36925808	2	19.0	2	100	0	76	50	0	0	50	1.00
36928253--36928310	27	2.1	27	81	12	66	39	1	0	58	1.08
36928754--36928795	19	2.2	19	95	0	75	28	11	35	23	1.91
36932758--36932784	3	9.0	3	100	0	54	33	0	33	33	1.58
36934965--36935105	72	1.9	73	81	9	173	16	17	18	47	1.83
36935877--36935907	10	3.0	10	95	4	53	22	9	0	67	1.19
36936465--36936511	24	1.9	25	91	4	78	59	14	14	10	1.61
36938337--36938369	14	2.4	14	85	15	50	72	0	15	12	1.12
36939660--36939733	30	2.3	32	84	13	107	52	8	13	25	1.67
36939674--36939738	30	2.1	31	97	2	123	47	6	15	30	1.70
36947063--36947197	72	1.9	72	81	9	168	46	17	18	17	1.84
36948514--36948561	19	2.4	21	89	6	73	45	18	25	10	1.81
36948514--36948578	21	3.2	21	80	4	62	43	16	23	16	1.88
36954081--36954163	26	3.2	26	61	16	62	40	9	15	33	1.80
36954061--36954169	53	2.1	53	100	0	218	42	9	17	31	1.80
36969224--36969285	25	2.5	25	91	0	97	27	11	24	37	1.89
36972273--36972309	20	1.9	18	89	10	56	54	8	2	35	1.44
36975274--36975339	32	2.1	32	94	0	114	34	18	18	28	1.94
36978004--36978071	35	1.9	35	82	11	86	16	7	7	69	1.35
36980054--36980126	23	3.0	23	79	15	76	68	12	9	9	1.39
36987051--36987146	31	3.1	31	95	0	165	28	20	25	26	1.99
36987069--36987128	18	3.6	18	72	21	67	28	18	26	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36987256--36987311	27	2.1	26	86	3	76	46	12	10	30	1.76
36987290--36987332	21	2.0	22	90	4	70	46	6	20	25	1.76
36987857--36987911	27	2.0	27	85	0	74	32	30	12	23	1.92
36987875--36987950	27	2.8	26	82	7	73	34	35	11	18	1.87
36987901--36987964	27	2.4	27	81	0	74	34	35	14	15	1.88
36989943--36989983	21	2.0	21	95	0	73	34	0	14	51	1.43
36989949--36989992	21	2.1	21	91	0	70	38	0	9	52	1.33
36992928--36992990	30	2.1	30	96	0	117	50	20	9	19	1.74
36995820--36996647	140	6.0	140	83	6	1035	30	21	20	27	1.98
36996374--36996635	126	2.1	126	86	2	375	30	22	20	26	1.98

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