genome.fa.s7.2.7.7.80.10.50.1000.97.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  97  of  204  ( 24458 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)
29467721--29467757	17	2.2	17	90	0	56	27	2	18	51	1.60
29468985--29469170	46	4.0	46	95	0	318	35	8	26	29	1.86
29472772--29472821	22	2.3	23	86	6	68	12	6	4	78	1.08
29472790--29472847	15	4.1	16	77	18	58	13	5	5	75	1.14
29472773--29472861	24	3.8	22	75	17	58	14	4	5	75	1.15
29472804--29472858	28	2.0	28	82	7	67	16	3	5	74	1.15
29472863--29472888	13	2.0	13	100	0	52	38	0	7	53	1.30
29472893--29472969	20	4.1	19	77	15	88	40	1	0	58	1.06
29472932--29472987	21	2.6	22	91	5	96	41	0	0	58	0.98
29472897--29472984	20	4.6	18	81	9	79	38	1	0	60	1.04
29472923--29472984	21	2.8	21	87	7	88	38	0	0	61	0.96
29472932--29472996	21	3.0	21	84	13	87	43	0	0	56	0.99
29473059--29473126	22	3.1	21	85	8	73	42	0	1	55	1.08
29477728--29477762	2	17.5	2	100	0	70	48	0	0	51	1.00
29479934--29480147	44	4.9	44	89	0	304	30	11	18	40	1.85
29480032--29480095	11	5.8	11	70	14	51	29	7	18	43	1.78
29479934--29480151	88	2.5	88	89	0	339	29	11	18	40	1.86
29479937--29480160	22	10.2	22	82	0	261	29	11	19	40	1.86
29484896--29484939	20	2.3	18	84	7	52	61	2	2	34	1.21
29485713--29485772	30	2.0	30	90	6	95	31	5	3	60	1.35
29485713--29485790	31	2.5	33	85	8	101	32	3	2	61	1.27
29485815--29485874	26	2.3	27	88	2	86	31	5	1	61	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29488627--29488689	27	2.3	28	83	5	76	31	20	23	23	1.98
29494637--29494731	44	2.2	44	88	0	136	36	23	12	27	1.91
29500451--29500475	7	3.6	7	100	0	50	12	0	44	44	1.41
29509929--29510906	501	1.9	499	87	2	1393	18	27	15	38	1.91
29509929--29510906	252	3.9	252	90	1	1435	18	27	15	38	1.91
29514711--29514751	21	2.0	20	85	4	55	51	4	2	41	1.36
29518881--29518937	29	2.0	29	100	0	114	14	15	14	56	1.68
29521255--29521281	2	13.5	2	100	0	54	51	0	0	48	1.00
29523321--29523369	2	24.5	2	87	8	64	44	0	6	48	1.27
29527544--29528252	231	3.1	231	97	0	1330	34	13	29	22	1.93
29527544--29528473	462	2.0	460	85	6	1238	35	13	29	22	1.92
29537057--29537089	13	2.4	14	90	10	59	30	39	6	24	1.79
29544340--29544566	124	1.8	124	92	0	382	29	15	23	31	1.95
29548661--29548698	20	1.9	20	84	10	51	55	7	2	34	1.43
29552237--29552299	24	2.6	24	82	0	81	50	17	7	23	1.72
29552809--29552871	28	2.3	27	83	8	74	30	17	12	39	1.87
29558258--29558725	129	3.7	126	94	2	812	30	14	21	33	1.93
29559135--29559185	25	2.0	25	96	0	93	54	9	7	27	1.60
29559187--29559460	9	28.6	10	64	27	62	24	0	24	50	1.49
29559185--29559489	29	10.7	29	90	2	465	24	0	24	50	1.50
29559185--29559489	57	5.3	57	92	1	495	24	0	24	50	1.50
29559185--29559489	86	3.6	87	90	3	492	24	0	24	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29559702--29559761	24	2.7	21	78	14	75	1	21	36	40	1.64
29559715--29559770	24	2.3	24	96	0	103	1	23	32	42	1.64
29559700--29559773	21	3.4	21	76	10	76	1	22	35	40	1.63
29560025--29560070	18	2.6	18	82	0	56	39	8	30	21	1.84
29560680--29560704	7	3.6	7	100	0	50	60	12	0	28	1.32
29561786--29561849	30	2.1	31	94	2	112	65	0	0	34	0.93
29561895--29561944	21	2.3	22	96	3	93	40	0	34	26	1.56
29563283--29563328	22	2.1	22	84	4	58	69	2	0	28	1.00
29570770--29570804	18	2.0	17	88	5	52	45	0	0	54	0.99
29570962--29571059	45	2.2	45	87	5	137	33	29	5	31	1.79
29571113--29571206	9	10.4	9	78	4	91	25	8	22	43	1.81
29571113--29571208	27	3.6	27	78	2	113	25	8	21	44	1.80
29572735--29572778	22	1.9	24	86	9	65	56	6	0	36	1.26
29573491--29573546	17	3.5	17	66	14	55	51	7	1	39	1.40
29575167--29575201	18	2.0	17	94	5	61	42	0	0	57	0.99
29577816--29577862	25	1.9	24	83	12	60	40	0	2	57	1.11
29577929--29578138	68	3.1	68	95	1	370	46	9	4	39	1.58
29578027--29578054	9	3.1	9	100	0	56	57	10	0	32	1.33
29578127--29578168	16	2.6	16	92	0	66	42	7	2	47	1.43
29578142--29578203	23	2.8	23	80	4	65	46	1	1	50	1.20
29580073--29580146	17	4.2	17	73	17	62	66	4	2	27	1.23
29585569--29585654	43	2.0	43	95	0	154	40	16	10	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29585903--29585978	24	3.1	24	83	5	91	35	23	23	17	1.95
29586687--29586720	2	17.0	2	100	0	68	50	0	0	50	1.00
29587239--29587342	9	11.4	9	88	6	138	40	26	10	22	1.86
29589108--29589164	28	2.0	28	100	0	114	29	21	24	24	1.99
29590046--29590315	43	6.3	43	86	2	310	30	23	22	23	1.99
29590051--29590329	129	2.2	130	85	1	373	30	22	22	24	1.99
29590763--29590817	21	2.6	21	97	0	101	3	43	16	36	1.65
29590687--29590900	108	2.0	108	86	5	299	10	31	18	39	1.85
29590768--29590834	21	3.2	21	89	0	71	2	38	19	38	1.67
29593742--29593769	11	2.5	11	100	0	56	57	0	17	25	1.41
29595089--29595156	15	4.9	14	74	16	61	41	33	0	25	1.56
29595652--29595970	41	7.8	41	75	4	178	36	22	22	17	1.94
29595652--29595970	82	3.9	82	83	1	336	36	22	22	17	1.94
29595733--29595971	123	1.9	123	83	3	311	37	23	23	16	1.94
29596049--29596124	40	1.9	40	83	5	100	15	30	25	28	1.96
29598342--29598407	22	3.3	22	64	27	65	31	7	16	43	1.76
29598344--29598418	37	2.0	37	100	0	150	33	8	16	42	1.77
29604110--29604151	18	2.5	16	82	17	50	42	4	2	50	1.36
29605509--29605540	15	2.1	16	94	5	57	65	0	0	34	0.93
29608499--29608875	114	3.3	114	84	4	456	25	23	24	27	2.00
29609347--29609383	16	2.3	16	100	0	74	37	5	37	18	1.74
29609598--29609644	15	3.3	15	82	11	55	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29609713--29609764	15	3.6	15	80	12	56	53	1	0	44	1.11
29610013--29610211	66	3.2	66	71	19	226	48	5	4	41	1.47
29610094--29610128	18	2.0	17	88	5	52	54	0	0	45	0.99
29610050--29610238	59	3.2	59	70	19	192	49	3	4	41	1.41
29609600--29610249	120	5.4	120	97	0	1142	48	6	2	42	1.42
29610292--29610350	28	2.2	28	84	6	77	50	3	0	45	1.18
29610297--29610440	47	3.1	46	65	23	113	49	4	2	44	1.33
29610265--29610472	91	2.3	91	92	2	337	45	4	3	46	1.41
29610292--29610432	44	3.1	43	67	16	115	48	3	2	46	1.31
29610315--29610453	47	3.0	47	68	17	137	49	4	2	43	1.34
29614802--29614867	22	3.0	22	93	0	105	31	15	27	25	1.95
29618375--29618540	87	1.9	87	88	0	251	40	19	26	13	1.88
29618505--29618550	21	2.2	21	84	0	56	34	21	36	6	1.80
29618375--29618577	87	2.3	87	82	1	210	40	19	27	12	1.87
29618903--29619177	43	6.4	43	85	4	358	32	17	26	23	1.97
29619781--29619843	10	6.5	10	78	10	60	69	0	4	25	1.07
29619783--29619842	28	2.1	28	82	11	70	68	0	5	26	1.10
29620092--29620203	10	11.1	10	69	11	59	31	1	4	62	1.25
29620092--29620154	19	3.3	19	73	4	63	31	1	3	63	1.19
29620078--29620152	29	2.6	30	72	10	75	29	2	5	62	1.31
29620092--29620258	9	17.2	9	68	16	59	30	2	4	62	1.26
29621845--29621875	15	2.1	15	93	0	53	61	0	6	32	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29630361--29630407	24	2.0	24	87	8	69	38	36	6	19	1.77
29636615--29636701	25	3.5	25	91	0	138	29	24	22	22	1.99
29636615--29636738	25	5.0	25	85	0	131	32	20	23	23	1.98
29639670--29639717	17	2.7	18	74	6	53	52	0	4	43	1.20
29640574--29640619	24	1.9	24	90	0	74	36	23	10	28	1.89
29640544--29641016	140	3.4	140	84	0	586	33	20	9	36	1.85
29641088--29641132	22	2.1	21	87	4	63	66	4	0	28	1.11
29644924--29645486	81	6.7	81	79	7	439	45	11	12	30	1.77
29644925--29645365	162	2.7	163	83	4	517	46	12	11	29	1.77
29645233--29645493	86	3.0	88	82	5	300	43	9	13	33	1.76

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