genome.fa.s5.2.7.7.80.10.50.1000.152.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   199   200   201   202   203   204   205   206   207   208   

This is table  152  of  208  ( 24913 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)
46281229--46281260	11	2.9	11	95	0	55	34	34	0	31	1.58
46283091--46283133	18	2.4	18	88	0	59	18	30	9	41	1.82
46283360--46283390	14	2.2	14	100	0	62	29	0	6	64	1.18
46283368--46283568	49	4.1	49	95	0	330	42	3	6	47	1.47
46286775--46287060	124	2.3	124	90	0	464	29	19	19	31	1.96
46287341--46287416	40	1.9	40	84	7	102	22	30	27	19	1.98
46288073--46288123	19	2.5	20	81	15	61	54	0	0	45	0.99
46289580--46289618	21	1.9	19	85	10	51	35	10	0	53	1.35
46290984--46291030	9	5.5	8	81	18	51	19	2	0	78	0.85
46290984--46291028	15	2.8	16	83	16	58	17	2	0	80	0.82
46293696--46293728	17	1.9	17	93	0	57	54	9	3	33	1.47
46294044--46294082	3	13.0	3	100	0	78	66	0	0	33	0.92
46294735--46294773	21	1.9	20	84	5	51	46	12	15	25	1.81
46294735--46294772	20	1.9	20	84	10	51	44	13	15	26	1.83
46295836--46296018	37	5.0	37	95	1	316	24	21	16	37	1.93
46295982--46296355	46	7.6	46	75	16	295	28	22	14	35	1.93
46296029--46296349	46	6.2	52	85	9	378	27	23	14	35	1.93
46296071--46296197	59	2.2	58	94	2	218	25	24	12	37	1.91
46298485--46298516	16	2.0	16	93	0	55	3	0	12	84	0.74
46298804--46298879	36	2.1	37	90	9	120	36	5	21	36	1.76
46300588--46300628	20	2.0	20	95	0	73	43	46	0	9	1.36
46303438--46303501	30	2.2	28	84	13	78	43	0	1	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46320319--46320383	21	3.1	22	81	14	77	38	9	16	35	1.81
46320319--46320374	19	2.8	19	94	5	94	37	10	16	35	1.83
46320418--46320482	16	4.1	16	95	0	121	38	6	35	20	1.77
46324180--46324222	23	1.9	22	90	4	68	32	6	4	55	1.47
46329111--46329139	12	2.4	12	100	0	58	41	6	31	20	1.79
46331820--46331900	42	1.9	42	82	0	99	16	27	14	41	1.87
46340643--46340744	29	3.5	30	86	5	138	31	21	17	29	1.96
46340643--46340791	28	5.2	28	82	1	154	36	20	15	28	1.93
46340643--46340753	57	1.9	57	83	5	143	34	19	18	27	1.95
46343238--46343302	22	3.0	22	69	0	67	32	16	24	26	1.96
46349097--46349289	41	4.6	41	77	8	183	35	25	16	21	1.94
46349129--46349290	84	1.9	85	89	1	254	36	24	16	22	1.94
46350148--46350184	17	2.3	17	90	9	60	54	24	0	21	1.45
46351209--46351482	41	6.6	40	79	7	287	35	26	16	22	1.95
46351204--46351441	84	2.8	84	92	0	404	35	26	16	21	1.95
46351209--46351489	125	2.3	125	81	8	324	35	26	16	22	1.94
46354400--46354662	53	4.9	53	82	2	269	26	22	13	36	1.92
46354400--46354661	106	2.5	106	82	3	303	27	22	13	36	1.92
46356995--46357052	29	2.0	29	96	0	107	22	24	5	48	1.71
46362775--46362835	30	2.0	30	100	0	122	32	22	3	40	1.70
46364560--46364634	33	2.3	33	81	4	80	28	24	17	30	1.97
46372344--46372389	24	1.9	24	86	0	65	45	15	26	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46383411--46383435	13	1.9	13	100	0	50	24	24	4	48	1.68
46384601--46384625	13	1.9	13	100	0	50	24	32	0	44	1.54
46385110--46385239	45	2.9	44	82	6	129	26	19	15	38	1.91
46385132--46385284	45	3.4	44	79	8	141	27	18	13	41	1.87
46392512--46392553	22	1.9	22	85	0	57	4	16	7	71	1.26
46393176--46393233	22	2.7	23	79	17	70	17	25	27	29	1.97
46396943--46396971	6	4.8	6	100	0	58	68	0	0	31	0.89
46397109--46397186	5	14.6	5	70	21	52	73	1	2	23	1.03
46409005--46409034	12	2.5	12	94	0	51	6	23	40	30	1.80
46410037--46410178	30	4.7	30	77	1	124	26	22	12	38	1.90
46410043--46410178	60	2.3	60	83	2	157	27	22	13	37	1.91
46410441--46410483	17	2.6	15	80	20	50	46	11	0	41	1.40
46414911--46414942	16	2.0	16	100	0	64	31	0	31	37	1.58
46418221--46418297	15	5.1	15	71	12	59	44	7	19	28	1.78
46418213--46418297	30	2.8	30	92	0	134	44	7	21	27	1.77
46422861--46422932	15	4.8	15	73	11	58	45	6	19	27	1.76
46422853--46422936	30	2.8	30	92	0	132	45	5	21	27	1.75
46429120--46429202	35	2.4	35	89	0	121	40	19	15	24	1.90
46438326--46438433	49	2.2	50	80	4	114	25	16	22	35	1.95
46447399--46447442	21	2.0	23	86	8	65	56	4	2	36	1.32
46452764--46452798	18	1.9	18	88	0	52	28	25	14	31	1.95
46458481--46458658	88	2.0	88	88	0	266	20	20	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46462918--46463003	33	2.5	34	77	7	86	15	8	37	39	1.77
46467919--46467961	17	2.7	15	76	13	50	23	2	0	74	0.93
46474050--46474096	21	2.3	21	74	3	51	51	2	2	44	1.25
46477493--46477642	41	3.6	41	84	5	194	32	18	24	25	1.97
46477493--46477674	83	2.2	83	83	3	215	32	15	24	27	1.96
46477493--46477765	41	6.6	41	75	8	153	28	15	24	31	1.96
46481194--46481241	18	2.7	17	78	9	51	43	4	14	37	1.65
46481465--46481511	22	2.1	22	84	0	58	19	27	17	36	1.93
46488495--46489471	489	2.0	489	95	0	1765	30	18	23	27	1.98
46490251--46490292	16	2.7	15	85	7	57	45	2	0	52	1.13
46506072--46506134	31	2.0	31	100	0	126	38	19	9	33	1.84
46517347--46517379	14	2.3	15	94	5	59	0	15	0	84	0.61
46517720--46517769	13	3.6	14	78	10	50	56	0	2	42	1.11
46527165--46527221	27	2.1	27	86	0	78	38	1	17	42	1.60
46527035--46527401	184	2.0	184	98	0	716	32	9	22	35	1.87
46527346--46527495	27	5.6	27	84	4	178	36	2	24	36	1.67
46531523--46531674	45	3.4	45	83	3	173	23	20	17	38	1.93
46533258--46533375	43	2.8	42	75	13	109	25	21	26	27	1.99
46534836--46534876	2	20.5	2	100	0	82	48	0	0	51	1.00
46535960--46536017	26	2.2	26	96	0	107	50	15	12	22	1.77
46541538--46541622	3	28.3	3	87	0	116	4	31	1	62	1.23
46550454--46550679	55	3.9	55	78	10	254	50	13	9	26	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46559022--46559048	7	3.9	7	100	0	54	70	0	0	29	0.88
46568692--46568732	20	2.0	20	90	0	64	21	17	7	53	1.67
46571651--46571687	9	4.3	9	83	13	51	72	0	0	27	0.84
46573498--46573530	17	1.9	17	88	11	50	30	21	0	48	1.50
46573720--46573820	51	2.0	51	100	0	202	35	22	0	41	1.54
46574873--46574971	39	2.5	39	91	0	153	44	20	5	30	1.73
46575216--46575247	14	2.3	14	100	0	64	40	9	21	28	1.84
46577202--46577245	16	2.7	15	86	10	52	4	20	0	75	0.98
46582747--46582800	22	2.4	22	87	9	74	29	7	16	46	1.74
46583158--46583226	18	3.8	18	74	0	57	27	8	20	43	1.81
46583931--46584005	17	4.4	16	73	9	51	30	12	14	42	1.82
46583897--46584005	51	2.1	51	88	3	157	29	11	15	44	1.81
46585473--46585676	101	2.0	101	92	1	338	33	13	13	39	1.84
46586121--46586200	30	2.7	27	76	18	72	13	23	17	45	1.84
46585943--46586242	90	3.3	89	79	9	302	19	21	18	40	1.91
46586102--46586311	90	2.3	90	79	6	221	16	20	20	43	1.88
46586261--46586345	30	2.9	29	82	5	98	15	17	24	42	1.88
46586425--46586488	29	2.2	30	86	8	87	18	18	17	45	1.86
46586753--46586896	78	1.8	78	82	2	182	21	10	21	46	1.81
46586786--46586960	79	2.2	77	79	3	197	22	13	19	44	1.85
46588689--46588740	24	2.2	24	85	0	68	53	5	3	36	1.43
46589080--46589110	16	2.0	15	93	6	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46589973--46590037	32	2.0	32	100	0	130	35	9	33	21	1.85
46590795--46590829	16	2.3	15	95	5	61	42	5	25	25	1.77
46598513--46598564	14	3.5	15	76	7	52	75	1	1	21	1.00
46599236--46599286	10	5.1	10	80	7	59	72	1	1	23	1.05
46598372--46599827	724	2.0	726	94	1	2546	40	12	15	30	1.85
46599887--46599923	14	2.6	14	95	0	65	48	13	0	37	1.43
46607756--46607795	2	20.0	2	100	0	80	50	0	0	50	1.00
46608588--46608670	30	2.9	29	85	3	105	30	21	25	22	1.99
46608777--46608874	26	3.8	26	76	4	108	38	20	21	19	1.93
46609054--46609272	27	8.2	27	86	3	257	17	17	21	42	1.89

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   199   200   201   202   203   204   205   206   207   208