genome.fa.s10.2.7.7.80.10.50.1000.12.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  12  of  202  ( 24201 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)
3988646--3988690	17	2.5	17	89	7	63	31	0	0	68	0.89
3990862--3990965	49	2.1	49	94	0	181	31	7	10	50	1.65
3992310--3992352	21	2.0	21	86	8	61	34	0	6	58	1.25
3992369--3992414	18	2.6	18	86	3	58	43	0	2	54	1.12
3992502--3992654	18	8.9	18	67	20	76	40	0	3	55	1.21
3992317--3992674	119	3.0	120	96	1	659	41	0	4	52	1.27
3992812--3992909	49	2.0	50	86	9	139	34	28	4	32	1.76
3992891--3992926	16	2.2	16	90	0	54	25	30	2	41	1.69
3995402--3995532	40	3.3	40	76	7	115	32	22	16	28	1.96
3995677--3995723	24	2.0	23	84	12	60	48	14	0	36	1.44
3999209--3999263	21	2.7	20	80	8	65	30	34	7	27	1.84
4005121--4005172	25	2.0	26	88	3	79	63	1	0	34	1.06
4006090--4006133	3	14.7	3	80	0	52	36	0	27	36	1.57
4006086--4006134	18	2.7	18	83	0	62	36	0	26	36	1.57
4006093--4006133	15	2.7	15	88	0	64	36	0	26	36	1.57
4007870--4008053	67	2.7	67	89	0	278	37	14	20	27	1.92
4011108--4011266	43	3.7	43	76	12	157	23	16	28	31	1.96
4013916--4013974	22	2.7	22	91	0	82	22	27	11	38	1.89
4022728--4022794	18	3.6	18	72	6	62	65	5	1	26	1.24
4022786--4022831	19	2.3	19	85	11	56	52	2	0	45	1.13
4022920--4022950	16	1.9	16	100	0	62	25	6	6	61	1.45
4026192--4026253	26	2.4	26	83	5	72	58	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4030868--4030900	2	16.5	2	100	0	66	48	0	0	51	1.00
4034451--4034730	140	2.0	140	99	0	551	42	10	10	36	1.73
4041082--4041137	28	2.0	28	86	6	78	57	8	0	33	1.30
4041127--4041159	17	1.9	17	88	11	50	87	9	3	0	0.63
4041898--4041947	15	3.1	15	85	8	64	42	0	14	44	1.44
4041916--4041953	18	2.1	18	90	0	58	47	0	13	39	1.42
4042217--4042248	16	1.9	17	93	6	57	9	6	15	68	1.36
4042255--4042313	26	2.2	27	93	3	102	52	0	6	40	1.28
4045176--4045241	19	3.4	19	82	2	78	33	3	1	62	1.20
4045176--4045237	9	6.6	9	80	10	70	32	3	1	62	1.20
4045306--4045351	19	2.4	20	75	17	53	32	0	2	65	1.05
4049236--4049368	45	3.0	43	80	11	139	24	18	26	30	1.98
4051170--4051204	2	17.5	2	93	0	61	48	0	2	48	1.16
4051959--4052046	46	1.9	46	84	9	117	27	19	22	30	1.98
4053855--4053978	40	3.1	40	81	5	151	25	21	17	35	1.95
4059921--4060035	59	1.9	59	85	0	158	26	14	14	43	1.85
4066960--4066989	2	15.0	2	100	0	60	50	0	0	50	1.00
4067573--4067622	26	1.9	26	83	0	64	62	6	2	30	1.31
4068465--4068506	22	1.9	22	95	0	75	9	21	28	40	1.84
4073446--4073503	22	2.7	21	82	12	66	34	39	0	25	1.56
4073471--4073512	15	2.9	15	82	3	50	35	45	0	19	1.50
4073778--4073833	21	2.6	22	83	8	71	37	41	0	21	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4074214--4074415	41	4.9	41	86	3	255	28	31	19	20	1.97
4074661--4074710	26	1.9	26	83	0	64	62	4	4	30	1.32
4092046--4092083	6	6.2	6	90	3	58	0	60	0	39	0.97
4092048--4092083	18	2.0	18	100	0	72	0	61	0	38	0.96
4093326--4093356	9	3.4	9	90	0	53	25	12	22	38	1.90
4093410--4093446	9	4.1	9	85	0	56	48	13	8	29	1.71
4095758--4095836	25	3.2	25	85	5	99	32	22	5	39	1.76
4096621--4096661	9	4.7	9	90	6	66	51	0	48	0	1.00
4096621--4096661	17	2.3	18	91	4	66	51	0	48	0	1.00
4096741--4096805	11	6.4	11	75	18	61	80	0	18	1	0.80
4096743--4096772	4	7.8	4	92	7	53	80	0	20	0	0.72
4096746--4096805	31	1.9	31	86	6	86	78	0	20	1	0.84
4096743--4096794	19	2.7	19	82	8	70	76	0	21	1	0.87
4096751--4096807	20	2.9	19	78	5	60	78	0	17	3	0.88
4097104--4097138	17	2.1	17	89	5	54	77	0	22	0	0.78
4097652--4097694	16	2.6	17	81	3	52	20	4	16	58	1.56
4097652--4097769	17	7.0	16	69	14	69	30	7	11	50	1.67
4097674--4097770	51	2.0	48	83	6	122	32	7	11	48	1.66
4100276--4100483	44	4.7	44	82	3	231	19	27	21	31	1.98
4100276--4100483	90	2.3	88	85	4	267	19	27	21	31	1.98
4104108--4104159	16	3.1	18	69	30	51	53	9	7	28	1.61
4118174--4118704	44	12.1	44	81	1	598	21	26	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4118174--4118704	88	6.0	88	93	0	819	21	26	20	31	1.98
4128642--4128785	71	2.0	71	98	0	279	45	15	14	25	1.84
4136396--4136431	8	4.5	8	89	10	56	86	0	2	11	0.68
4136396--4136424	15	1.9	15	100	0	58	89	0	0	10	0.48
4136421--4136484	22	2.9	21	81	9	65	71	0	21	6	1.07
4136931--4137004	37	2.0	37	100	0	148	37	16	16	29	1.90
4137486--4137576	47	2.0	45	84	4	119	43	19	20	15	1.87
4138855--4139265	143	2.9	143	82	2	502	30	18	21	30	1.97
4140714--4140798	22	3.8	22	76	10	75	34	5	3	56	1.41
4141069--4141101	16	2.1	16	88	11	50	33	3	0	63	1.10
4142619--4142687	25	2.7	25	82	6	77	43	13	11	31	1.79
4145735--4145768	16	2.1	17	88	5	52	52	11	20	14	1.73
4147022--4147161	27	5.4	27	72	9	112	33	19	22	24	1.97
4147234--4147328	24	4.0	24	76	9	70	24	6	23	46	1.75
4147261--4147342	24	3.4	24	79	0	92	21	8	23	46	1.79
4147492--4147693	32	6.4	32	77	5	169	22	16	19	41	1.91
4147492--4147678	64	2.9	63	80	5	207	22	16	19	40	1.91
4147685--4147758	22	3.3	21	75	5	67	17	16	20	45	1.85
4147878--4147951	30	2.5	29	88	2	103	21	21	21	35	1.96
4147885--4147965	29	2.7	30	81	7	94	23	23	24	28	2.00
4152654--4152692	12	3.2	12	86	13	62	33	5	0	61	1.18
4152783--4152818	17	2.1	17	89	0	54	36	5	2	55	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4154075--4154161	45	1.9	45	83	4	113	26	13	9	50	1.72
4154713--4155199	45	10.9	44	71	12	230	31	18	20	29	1.96
4154872--4154973	40	2.5	41	85	1	143	30	17	21	30	1.96
4159548--4159623	23	3.3	23	96	0	143	23	21	26	28	1.99
4160214--4160896	339	2.0	339	96	0	1251	35	6	23	34	1.81
4183000--4183065	27	2.4	27	80	5	71	34	1	1	62	1.14
4185726--4185783	29	1.9	29	86	6	80	36	0	36	27	1.57
4186963--4186997	18	2.0	18	94	5	63	11	28	45	14	1.79
4187950--4187997	18	2.7	18	80	0	51	43	2	14	39	1.57
4189271--4189513	119	2.0	119	95	0	441	41	16	18	23	1.89
4191162--4191200	20	1.9	19	90	10	60	61	5	5	28	1.39
4191188--4191252	22	3.0	22	86	4	78	69	0	24	6	1.11
4191213--4191254	10	3.8	11	81	12	59	73	0	26	0	0.83
4191560--4194054	830	3.0	832	91	1	3923	37	16	20	25	1.93
4194697--4194911	44	4.6	44	68	12	133	29	21	24	24	1.99
4194470--4195514	143	7.3	143	87	1	1371	31	19	21	27	1.97
4196878--4196911	17	2.1	17	88	5	52	26	2	0	70	1.01
4196975--4197053	22	3.5	24	76	11	85	35	6	2	55	1.39
4196993--4197081	22	4.1	22	80	12	87	33	4	4	57	1.39
4207239--4207322	25	3.3	25	78	8	82	40	15	11	32	1.84
4211684--4211836	54	2.9	53	83	1	182	29	18	23	28	1.98
4211673--4211761	27	3.3	27	82	0	115	30	15	25	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4211685--4211822	27	5.2	27	74	2	127	30	18	23	27	1.97
4211685--4211838	27	5.8	26	71	7	112	30	18	23	27	1.97
4211908--4211984	24	3.2	23	76	7	82	25	5	22	46	1.72
4211888--4211985	48	2.0	48	86	7	137	26	5	20	47	1.70
4211916--4211989	24	3.1	24	76	0	85	24	5	21	48	1.71
4212434--4212630	30	6.6	30	91	1	308	21	25	21	31	1.98
4213414--4213466	24	2.2	25	82	3	63	26	16	7	49	1.73
4216868--4216954	45	1.9	45	86	4	122	27	13	9	49	1.73
4217506--4217862	44	8.0	45	71	11	150	33	17	19	29	1.95
4217655--4217767	41	2.8	41	81	4	122	28	18	20	32	1.96

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