genome.fa.s7.2.7.7.80.10.50.1000.96.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  96  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)
29330193--29330238	17	2.7	17	82	0	56	39	0	0	60	0.97
29330233--29330296	30	2.1	30	82	5	76	34	3	0	62	1.11
29330222--29330329	11	10.4	11	71	17	63	35	2	0	62	1.10
29330204--29330338	41	3.3	40	86	9	202	33	2	0	64	1.06
29330868--29331170	65	4.9	57	73	19	225	29	1	23	45	1.61
29330925--29331170	65	3.8	64	87	2	357	28	1	24	45	1.63
29335322--29336057	365	2.0	366	98	0	1411	31	16	21	30	1.96
29336411--29336738	113	2.9	113	82	6	405	25	24	24	26	2.00
29337283--29337357	14	5.1	14	75	10	60	28	1	32	38	1.65
29337338--29337377	14	2.9	14	88	0	53	20	0	45	35	1.51
29337350--29337388	12	3.1	12	88	7	51	17	0	51	30	1.46
29337357--29337394	19	2.0	19	89	0	58	18	0	47	34	1.49
29337517--29337723	42	4.9	42	95	0	369	23	20	23	32	1.98
29338392--29338432	16	2.6	16	92	0	73	34	7	29	29	1.84
29340504--29340872	26	14.2	26	84	1	427	36	19	17	26	1.93
29341027--29341091	27	2.4	27	82	7	71	16	21	26	35	1.95
29348273--29348496	26	8.6	26	88	0	322	36	18	18	27	1.94
29348273--29348593	52	5.9	52	80	9	331	35	18	18	26	1.94
29348273--29348604	78	4.1	78	79	11	337	36	19	18	26	1.94
29348459--29348531	38	1.9	38	88	5	112	31	23	21	23	1.98
29348433--29348560	64	2.0	64	85	8	172	32	21	21	25	1.97
29348407--29348577	90	1.9	90	89	4	265	34	19	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29348381--29348603	116	1.9	116	86	5	317	35	20	18	26	1.95
29348497--29348604	26	4.2	26	92	2	173	36	21	17	25	1.95
29349357--29349400	21	2.0	22	87	12	65	36	20	4	38	1.73
29349841--29350122	146	2.0	146	87	4	412	28	5	18	47	1.70
29350137--29350189	26	2.0	26	96	0	97	56	5	20	16	1.60
29350765--29350810	24	2.0	24	86	4	67	45	0	2	52	1.13
29374589--29374638	25	2.0	25	100	0	100	28	12	44	16	1.83
29383202--29383564	182	2.0	181	92	0	600	32	9	20	36	1.85
29384539--29384723	70	2.7	70	82	2	230	37	20	21	21	1.94
29386944--29387004	13	4.7	13	75	4	61	24	8	27	39	1.84
29386944--29387007	26	2.5	26	81	0	83	28	7	26	37	1.84
29387264--29387291	8	3.5	8	100	0	56	50	0	0	50	1.00
29389060--29389234	72	2.4	73	82	6	230	53	13	6	26	1.64
29389656--29389720	18	3.7	18	89	2	105	41	12	13	32	1.82
29392177--29392253	19	4.1	19	91	0	109	49	20	23	6	1.72
29392228--29392322	25	3.8	25	82	8	122	49	22	23	5	1.70
29392209--29392346	44	3.0	44	73	15	134	48	21	23	6	1.73
29396403--29396489	29	3.0	29	75	12	88	47	22	9	20	1.79
29396524--29396593	29	2.4	30	82	2	88	38	27	14	20	1.91
29396628--29396685	30	1.9	30	89	0	89	41	25	15	17	1.89
29398147--29398195	20	2.5	20	83	3	64	57	4	0	38	1.18
29398426--29398466	18	2.3	18	100	0	82	24	21	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29411676--29411705	13	2.3	13	94	0	51	46	0	10	43	1.37
29413640--29413664	5	5.0	5	100	0	50	20	0	80	0	0.72
29413764--29413800	9	4.1	9	92	0	65	29	10	13	45	1.77
29413852--29413886	18	1.9	18	94	0	61	40	22	8	28	1.84
29417205--29418575	101	14.3	101	74	11	978	38	18	15	27	1.90
29417538--29417816	88	3.2	88	78	3	303	40	17	13	28	1.87
29417637--29420929	188	17.4	189	69	13	882	38	17	15	28	1.90
29417824--29417996	88	2.0	88	88	0	256	39	13	18	28	1.88
29418174--29418207	13	2.6	13	95	0	59	29	38	11	20	1.88
29417448--29418542	465	2.3	458	79	8	1082	39	17	15	28	1.90
29418188--29418369	87	2.1	88	83	3	233	41	16	15	26	1.89
29418495--29418812	87	3.6	87	78	6	286	39	14	14	31	1.86
29418917--29419206	101	2.9	101	78	5	291	35	18	16	28	1.93
29419292--29420528	101	12.7	101	74	11	940	38	18	15	28	1.90
29419820--29420037	88	2.5	87	80	3	224	39	13	13	33	1.84
29419532--29420427	477	1.9	477	82	3	1142	39	17	14	28	1.89
29420292--29420457	87	1.9	87	81	4	201	40	14	15	29	1.86
29420271--29420466	87	2.2	87	75	5	198	40	17	14	27	1.89
29420461--29420643	87	2.1	88	85	1	242	36	18	18	27	1.93
29420550--29421043	101	4.9	101	75	3	370	38	19	14	26	1.91
29421202--29421395	100	1.9	101	85	5	268	41	19	14	25	1.89
29421112--29422558	101	15.1	97	70	13	399	39	17	15	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29421037--29421869	464	1.8	461	85	3	1199	40	16	15	27	1.89
29421328--29421672	88	3.9	87	75	8	288	41	15	15	27	1.87
29421475--29421672	87	2.3	88	83	2	256	40	16	15	27	1.89
29421876--29422155	88	3.2	87	77	5	251	37	17	17	27	1.92
29422051--29422913	100	8.9	100	72	11	473	39	17	14	28	1.89
29422451--29422998	88	6.1	88	71	15	268	39	16	14	29	1.89
29421613--29422725	577	1.9	573	79	5	1226	39	18	15	27	1.90
29422367--29423023	278	2.4	275	83	4	844	39	16	15	28	1.89
29422833--29425566	188	14.4	186	67	17	566	38	17	16	27	1.91
29423190--29423460	88	3.1	86	78	7	278	36	16	17	29	1.92
29423554--29425722	100	22.5	101	73	11	1212	39	17	15	27	1.91
29424435--29424626	87	2.2	88	81	3	226	39	20	13	27	1.89
29423126--29424702	577	2.7	566	73	11	1352	38	17	16	27	1.91
29424722--29425166	88	5.1	87	75	6	360	38	15	16	28	1.90
29426947--29427322	101	3.7	101	82	3	470	38	19	15	26	1.92
29430019--29430382	101	3.8	101	77	14	336	39	18	15	26	1.91
29430127--29430287	87	1.9	86	83	6	209	39	14	18	27	1.90
29434324--29436708	101	24.1	101	78	7	2241	38	19	15	25	1.92
29434324--29439821	202	28.0	201	75	10	4259	39	18	15	26	1.91
29436012--29436036	13	1.9	13	100	0	50	36	48	8	8	1.62
29436428--29436864	87	4.9	86	77	10	272	39	16	16	27	1.90
29436634--29436886	87	2.9	86	81	2	308	39	18	15	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29436798--29439821	101	30.9	100	74	11	1951	39	18	15	26	1.90
29437008--29437183	88	2.0	88	84	4	230	38	15	15	29	1.89
29437077--29438364	100	12.9	99	79	5	1111	39	19	15	26	1.91
29435933--29439243	289	11.3	288	73	13	1737	39	18	15	26	1.91
29437564--29437600	13	2.8	14	84	12	51	43	35	8	13	1.74
29434446--29439821	390	13.7	384	74	12	2357	39	18	15	26	1.91
29438661--29438824	87	1.9	88	85	1	231	42	14	14	29	1.85
29438659--29438844	87	2.1	88	80	1	221	41	17	13	27	1.87
29439041--29439304	88	3.0	87	82	5	291	39	15	15	28	1.89
29439417--29439447	13	2.4	13	94	0	53	48	32	6	12	1.67
29439699--29439958	137	1.9	137	86	4	373	37	20	16	25	1.93
29439979--29440080	46	2.2	46	82	0	123	45	6	9	38	1.64
29439891--29440178	147	2.0	147	81	2	337	42	14	11	30	1.82
29440026--29440809	100	7.8	101	81	5	786	42	16	14	26	1.87
29440026--29440900	201	4.4	201	83	4	938	41	16	14	26	1.87
29440731--29440897	88	1.9	87	91	3	273	39	14	18	27	1.89
29440920--29441017	46	2.1	46	88	3	144	43	8	11	36	1.70
29440826--29441118	148	2.0	148	82	2	356	43	14	12	29	1.82
29440966--29441763	101	7.9	101	81	5	819	42	17	14	25	1.87
29441671--29442035	88	4.1	87	77	12	362	38	17	18	25	1.92
29441571--29443597	201	10.3	187	67	16	799	40	17	15	26	1.90
29441940--29442128	101	1.9	101	91	4	310	35	18	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29442298--29442395	46	2.1	46	84	3	126	46	8	9	35	1.65
29442205--29442484	148	1.9	147	87	2	409	42	16	12	29	1.84
29442351--29443538	100	11.8	100	80	2	1155	41	18	14	25	1.88
29442344--29443613	201	6.4	199	80	4	1293	41	17	14	26	1.88
29442344--29443516	402	2.9	402	91	2	1788	41	17	14	26	1.88
29443446--29443662	88	2.5	88	88	2	303	39	15	17	28	1.90
29460309--29460371	24	2.7	21	83	16	63	57	7	0	34	1.28
29463951--29464021	34	2.1	33	82	10	81	29	2	4	63	1.27
29465888--29465976	33	2.8	32	84	5	110	59	1	1	38	1.12
29465914--29465996	10	8.4	10	71	22	52	51	2	0	45	1.14

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