genome.fa.s11.2.7.7.80.10.50.1000.171.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  171  of  210  ( 25152 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)
51304854--51304931	38	2.0	39	92	2	131	20	2	25	51	1.60
51306220--51306274	20	2.7	22	73	23	57	60	0	0	40	0.97
51306659--51306705	22	2.3	22	85	10	64	27	0	0	72	0.85
51311531--51311573	22	2.0	22	95	0	77	9	20	27	41	1.83
51311597--51311691	41	2.2	44	85	9	126	33	27	20	18	1.96
51312040--51312094	21	2.6	21	85	0	83	5	43	12	38	1.66
51312040--51312141	42	2.4	42	76	9	100	5	41	15	37	1.72
51312101--51312144	21	2.1	21	86	0	61	2	43	20	34	1.64
51312108--51312151	21	2.1	21	91	0	70	2	43	18	36	1.63
51312123--51312269	66	2.2	66	84	4	181	13	30	17	38	1.89
51312167--51312292	66	1.9	66	86	3	182	15	25	17	41	1.89
51316746--51317145	9	45.8	9	67	22	187	33	1	22	43	1.60
51316755--51316782	13	2.2	13	100	0	56	35	0	25	39	1.56
51316746--51316835	22	4.1	22	74	21	82	34	1	21	43	1.60
51316810--51317041	19	12.5	19	63	21	82	34	1	20	43	1.60
51316768--51316988	81	2.9	81	92	6	354	34	1	20	42	1.63
51316910--51317060	25	5.8	25	89	5	203	34	0	21	43	1.57
51317065--51317148	43	2.0	43	85	0	114	26	0	25	48	1.51
51316746--51317145	27	15.3	26	76	15	245	33	1	22	43	1.60
51317268--51317348	12	7.5	11	68	28	50	51	2	0	45	1.14
51321441--51321686	114	2.2	111	81	10	275	25	25	25	23	2.00
51322932--51322988	13	4.4	13	78	8	62	40	1	1	56	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51322936--51322988	26	2.1	25	89	3	79	39	1	1	56	1.21
51323674--51323855	17	10.3	17	75	8	141	43	12	13	30	1.81
51323671--51323732	20	3.2	20	75	9	74	37	8	12	41	1.73
51323695--51323877	35	5.2	34	78	8	147	46	13	11	28	1.77
51324111--51324170	30	1.9	33	87	12	92	50	3	0	46	1.18
51324891--51324945	20	2.7	22	73	23	57	60	0	0	40	0.97
51324890--51324961	23	3.3	23	71	21	57	62	0	0	37	0.95
51327562--51327633	22	3.3	22	94	0	117	25	27	16	30	1.97
51334557--51334786	110	2.1	112	87	2	329	24	19	24	31	1.98
51337871--51337984	22	5.2	22	66	12	81	50	10	1	36	1.47
51337871--51338022	44	3.5	44	96	0	268	50	11	1	36	1.50
51337885--51337995	22	5.0	22	66	12	84	51	10	0	36	1.43
51338179--51338266	36	2.4	36	90	1	131	20	32	29	17	1.95
51338352--51338467	12	10.0	12	71	21	72	58	0	14	26	1.37
51338359--51338467	17	6.2	17	75	13	89	59	0	13	26	1.35
51338354--51338467	24	5.0	23	73	19	80	59	0	14	26	1.35
51338352--51338424	5	13.2	5	74	18	56	57	0	15	27	1.38
51338556--51338599	12	3.8	12	78	6	54	56	0	22	20	1.42
51338555--51338606	23	2.2	24	89	3	79	53	0	23	23	1.46
51343530--51343657	58	2.2	58	88	2	186	51	14	7	26	1.69
51343588--51343776	90	2.1	90	89	2	281	53	12	5	28	1.60
51343588--51343798	90	2.3	90	85	1	244	54	12	5	27	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51348809--51348839	13	2.3	14	94	5	55	41	6	0	51	1.27
51350856--51350909	12	4.6	12	79	2	56	20	5	3	70	1.23
51350862--51350907	24	1.9	24	86	0	65	19	6	4	69	1.28
51359901--51360413	155	3.3	154	79	7	464	30	10	21	37	1.87
51367397--51367527	68	1.9	68	87	0	190	42	12	9	34	1.77
51379971--51380040	29	2.6	27	80	8	72	55	2	4	37	1.34
51380895--51381055	42	3.8	42	95	0	277	32	22	23	21	1.98
51380984--51381266	42	6.8	42	80	9	285	22	21	21	34	1.97
51380900--51381264	84	4.4	83	81	4	315	25	22	21	30	1.99
51381028--51381260	81	2.8	81	84	7	290	21	21	20	35	1.96
51381026--51381261	123	1.9	124	86	6	336	21	22	21	35	1.96
51381581--51381652	21	3.5	20	79	9	81	4	44	19	31	1.70
51385262--51385322	14	4.4	14	75	8	70	34	18	13	34	1.89
51386540--51386599	15	3.9	15	80	4	57	41	36	3	18	1.67
51386538--51386599	8	8.3	7	72	13	52	43	35	3	17	1.66
51387012--51387086	14	5.3	14	74	3	69	46	41	0	12	1.41
51387398--51388105	115	6.2	114	77	5	644	27	23	18	30	1.98
51387546--51388102	229	2.4	225	82	4	638	28	23	17	30	1.97
51387928--51388308	205	1.9	204	82	6	493	27	21	18	32	1.97
51389935--51389990	23	2.4	23	76	5	69	37	14	16	32	1.88
51390139--51390210	19	3.5	19	70	20	56	54	5	0	40	1.24
51390139--51390177	18	2.1	19	85	4	53	58	2	0	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51390166--51390211	23	2.0	24	91	4	76	50	6	0	43	1.28
51390190--51390246	29	2.0	29	86	6	82	59	5	0	35	1.20
51392094--51392188	41	2.3	40	94	3	172	61	14	1	23	1.40
51393446--51393482	19	2.0	19	89	5	58	29	2	2	64	1.21
51398136--51398416	95	3.0	95	83	2	339	29	21	16	32	1.95
51398276--51398828	139	4.0	139	77	9	570	29	21	16	31	1.96
51398179--51398720	44	11.7	45	69	11	256	29	21	16	31	1.95
51398288--51398828	278	1.9	282	83	4	709	29	21	17	31	1.96
51398650--51398736	44	2.0	44	84	8	115	31	24	16	28	1.96
51398338--51398972	285	2.3	273	78	7	605	31	21	16	31	1.95
51398838--51398971	44	3.0	44	81	0	151	33	20	14	32	1.92
51410422--51410507	9	9.4	9	85	7	120	22	9	29	39	1.85
51411330--51411413	41	2.0	41	90	4	134	36	8	19	35	1.82
51413148--51413172	6	4.2	6	100	0	50	16	0	0	84	0.63
51413529--51413575	15	3.1	15	90	0	76	55	0	12	31	1.38
51415292--51415338	24	2.0	24	83	8	60	34	6	0	59	1.23
51415435--51415467	15	2.1	16	88	5	50	30	6	0	63	1.18
51419661--51419795	29	4.6	30	80	7	152	31	24	3	40	1.73
51419659--51419795	59	2.3	56	84	10	168	32	24	3	40	1.72
51420346--51420408	21	3.0	20	84	11	74	76	0	17	6	0.99
51420702--51420757	24	2.3	24	84	6	69	25	39	26	8	1.85
51426034--51426175	31	4.6	31	84	4	180	42	18	9	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51426040--51426214	93	1.9	93	82	4	219	45	16	7	30	1.74
51435010--51435054	22	2.0	22	100	0	90	33	26	17	22	1.96
51436457--51436491	16	2.2	16	94	0	61	34	28	5	31	1.81
51440337--51440377	10	4.1	10	87	9	57	53	2	0	43	1.13
51440337--51440377	21	2.1	19	86	9	55	53	2	0	43	1.13
51440337--51440397	17	3.3	19	81	11	56	57	3	0	39	1.15
51440291--51440371	36	2.2	37	78	8	85	56	3	0	39	1.17
51440338--51440398	9	6.6	9	80	14	54	57	3	0	39	1.15
51440273--51440401	27	4.7	28	67	18	85	58	3	0	37	1.14
51440377--51440456	20	4.1	20	76	10	85	65	3	1	30	1.18
51440273--51440461	27	6.8	27	67	17	84	59	3	0	36	1.17
51440426--51440479	28	2.0	28	85	3	74	57	3	5	33	1.40
51440404--51440456	19	2.8	19	94	0	97	67	3	0	28	1.07
51440655--51440719	29	2.2	29	88	2	94	33	1	4	60	1.27
51440657--51440772	9	12.7	9	65	20	53	33	1	2	62	1.19
51442913--51442946	17	1.9	18	88	5	52	50	8	20	20	1.75
51443951--51443979	6	4.8	6	100	0	58	65	17	0	17	1.27
51444017--51444049	9	3.7	9	91	0	57	27	9	18	45	1.79
51444783--51444820	20	1.9	20	88	0	58	21	2	15	60	1.47
51445974--51446022	15	3.3	14	83	11	53	24	16	6	53	1.66
51449704--51449788	42	2.0	42	100	0	170	41	11	9	37	1.74
51452915--51452956	14	2.9	14	82	3	57	50	0	19	30	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51457181--51457220	21	1.9	21	84	0	53	75	2	2	20	1.04
51477959--51477988	11	2.6	11	94	5	51	90	0	10	0	0.47
51477959--51477988	15	2.0	15	93	0	51	90	0	10	0	0.47
51479697--51479737	7	5.7	7	88	5	55	56	0	2	41	1.13
51479683--51479733	21	2.5	21	72	15	52	54	0	5	39	1.24
51481941--51481996	25	2.3	25	80	14	64	62	5	0	32	1.18
51482087--51482150	10	6.4	10	71	10	51	60	1	0	37	1.06
51482095--51482134	21	1.9	21	89	0	62	62	0	0	37	0.95
51482087--51482151	31	2.1	31	88	5	96	61	1	0	36	1.05
51482147--51482180	17	1.9	18	88	5	52	64	0	11	23	1.26

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   
          209   210