genome.fa.s5.2.7.7.80.10.50.1000.122.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  122  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)
37298307--37298351	18	2.5	18	92	0	72	31	20	8	40	1.83
37314381--37314424	22	2.0	22	100	0	88	40	9	9	40	1.68
37321747--37321892	28	5.2	28	73	8	118	31	23	13	32	1.92
37321747--37321892	55	2.6	56	80	2	168	31	23	13	32	1.92
37328894--37328927	9	3.9	9	92	3	52	8	0	2	88	0.62
37330483--37330548	18	3.5	19	73	20	59	25	3	6	65	1.30
37331403--37331464	15	4.1	15	78	15	65	0	24	8	67	1.17
37331426--37331459	13	2.7	13	95	4	61	0	29	8	61	1.26
37331421--37331478	30	1.9	30	96	0	107	0	27	10	62	1.28
37331421--37331472	17	3.3	17	79	20	76	0	28	11	59	1.32
37333606--37333653	18	2.8	18	74	22	50	43	0	0	56	0.99
37333596--37333674	15	5.1	16	74	17	60	45	0	1	53	1.08
37333752--37333793	15	2.7	16	82	14	52	45	0	2	52	1.13
37333743--37333784	15	2.9	15	82	10	52	47	0	0	52	1.00
37334010--37334061	16	3.2	16	94	0	86	34	36	0	28	1.58
37340269--37340345	38	2.1	37	95	2	136	44	16	10	28	1.81
37340554--37340594	21	2.0	21	85	9	57	43	2	7	46	1.44
37345281--37345366	22	3.9	22	90	0	118	27	15	27	29	1.96
37345826--37345971	41	3.6	40	79	9	136	24	19	27	28	1.99
37347535--37347706	88	2.0	88	94	0	299	30	27	5	36	1.79
37347753--37347851	27	3.6	27	83	6	121	30	20	16	33	1.94
37353541--37353643	27	3.8	27	76	2	89	29	20	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37357077--37357117	21	1.9	22	90	5	66	43	2	36	17	1.62
37364949--37365036	43	2.0	44	88	2	133	21	25	3	50	1.64
37366669--37366804	57	2.4	57	94	0	236	25	17	32	25	1.97
37366762--37366952	48	4.0	48	90	1	258	27	19	28	24	1.98
37368173--37368216	3	14.3	3	80	4	52	29	0	6	63	1.20
37368395--37368457	26	2.4	26	81	2	72	42	7	0	49	1.32
37370555--37370613	29	2.0	29	100	0	118	40	28	13	16	1.87
37374629--37374802	44	4.0	44	91	0	251	25	17	25	31	1.97
37374804--37375115	168	1.9	168	95	0	561	29	18	25	26	1.98
37374803--37375154	168	2.1	167	89	2	544	29	19	25	25	1.99
37375439--37375596	50	3.2	49	62	7	120	33	20	20	25	1.97
37374971--37375522	267	2.1	268	87	1	793	28	21	23	25	1.99
37375387--37375695	100	3.1	100	89	0	447	32	20	22	24	1.98
37375515--37375669	50	3.1	50	65	0	130	26	21	25	26	2.00
37377201--37377256	3	18.7	3	83	7	69	30	1	3	64	1.21
37377201--37377256	19	2.9	19	87	10	71	30	1	3	64	1.21
37378658--37378724	27	2.5	27	85	0	107	43	8	7	40	1.64
37383795--37383975	48	3.8	48	89	0	236	29	18	25	25	1.98
37386107--37386145	19	2.0	19	85	14	53	7	10	5	76	1.13
37390609--37390695	43	2.0	44	90	2	140	22	25	2	49	1.62
37390982--37391059	22	3.5	22	89	0	102	30	26	15	26	1.96
37399886--37399947	32	2.0	31	84	9	81	11	24	1	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37399997--37400037	10	4.0	10	81	6	55	12	12	0	75	1.05
37399998--37400037	21	2.0	20	90	5	62	12	12	0	75	1.06
37400007--37400051	21	2.1	21	84	8	56	11	17	2	68	1.29
37402746--37402795	21	2.4	21	86	0	64	30	28	10	32	1.89
37405188--37405235	24	2.0	24	84	12	62	37	8	25	29	1.85
37417002--37417046	18	2.5	18	85	0	54	37	0	53	8	1.32
37419869--37419916	12	4.1	12	75	24	57	50	0	2	47	1.12
37424221--37424365	23	6.2	23	74	9	107	44	33	2	19	1.65
37425791--37425838	9	5.8	9	72	18	50	31	2	0	66	1.03
37426341--37426387	23	2.2	22	85	11	62	63	4	2	29	1.25
37426496--37426534	3	12.7	3	94	5	69	66	0	0	33	0.92
37426704--37426728	12	2.1	12	100	0	50	24	0	0	76	0.80
37427713--37427780	12	5.5	12	75	6	64	44	1	0	54	1.09
37427709--37427780	25	2.9	25	93	0	117	44	1	0	54	1.08
37427753--37427788	17	2.2	16	90	5	54	44	0	0	55	0.99
37431307--37431337	2	15.5	2	100	0	62	51	0	0	48	1.00
37443986--37444021	9	3.8	9	89	10	54	83	0	13	2	0.76
37446593--37446639	24	2.0	24	87	4	69	42	2	42	12	1.55
37447218--37447261	16	2.8	15	83	10	52	45	0	13	40	1.44
37448026--37448208	80	2.3	80	83	3	217	16	26	15	40	1.89
37448019--37448208	40	4.8	40	82	0	182	17	25	16	40	1.90
37448143--37448223	40	2.0	40	80	4	92	20	23	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37448485--37448522	19	2.0	19	94	0	67	31	5	18	44	1.72
37449923--37450021	50	2.0	50	86	4	137	31	31	18	19	1.95
37451982--37452144	82	2.0	82	97	0	308	35	7	21	34	1.83
37453887--37454044	23	6.8	23	78	1	145	39	8	17	34	1.80
37453886--37453939	24	2.3	23	83	3	63	40	1	14	42	1.57
37453890--37454044	69	2.2	69	84	5	197	39	9	16	34	1.80
37458894--37458930	19	2.0	18	89	5	56	48	13	2	35	1.57
37460014--37460119	52	2.0	52	94	0	185	33	19	16	31	1.94
37460735--37460910	39	4.5	39	87	2	228	42	22	6	28	1.78
37473406--37473488	26	3.2	26	89	1	123	39	7	19	33	1.79
37480746--37480808	28	2.2	28	78	18	69	28	26	15	28	1.96
37483400--37484084	275	2.5	274	88	4	1045	43	5	9	41	1.59
37483400--37484084	138	5.0	137	89	3	1036	43	5	9	41	1.59
37486181--37486230	18	2.7	19	75	9	50	44	16	32	8	1.76
37490539--37490821	136	2.1	137	89	1	433	45	6	7	40	1.58
37492179--37492277	29	3.4	29	90	0	144	40	12	23	24	1.88
37492201--37492467	29	9.1	29	73	9	134	40	13	23	22	1.89
37495753--37495802	24	2.1	24	100	0	100	12	26	24	38	1.90
37498096--37498172	26	3.0	26	78	0	73	41	22	18	18	1.90
37498363--37498795	27	16.1	27	86	3	482	18	21	18	41	1.90
37498349--37498810	54	8.6	54	83	3	531	18	20	17	42	1.89
37509256--37509299	21	2.1	21	91	0	70	25	18	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37511166--37511193	12	2.3	12	100	0	56	21	7	28	42	1.79
37524738--37524771	18	1.9	17	94	5	59	29	0	0	70	0.87
37532953--37533163	46	4.6	46	80	3	228	29	21	22	26	1.99
37562905--37562968	29	2.2	30	80	5	76	35	7	23	32	1.84
37562912--37562968	29	2.0	29	85	0	78	38	8	22	29	1.85
37567942--37568010	26	2.6	26	86	2	93	40	14	21	23	1.90
37568069--37568135	27	2.5	27	87	0	89	35	13	28	22	1.92
37568478--37568511	15	2.1	17	89	10	54	38	8	29	23	1.85
37572323--37572353	16	1.9	16	93	0	53	22	16	0	61	1.34
37572572--37572772	51	4.0	51	77	8	221	30	29	16	23	1.96
37572572--37572764	102	1.9	102	87	3	273	30	28	17	23	1.97
37575259--37575298	18	2.2	18	95	0	71	45	12	0	42	1.42
37585012--37585204	29	6.7	29	72	11	130	39	13	22	23	1.91
37585046--37585230	86	2.1	87	87	3	257	40	14	22	22	1.90
37585075--37585248	87	2.0	86	89	3	269	39	14	24	21	1.91
37585107--37585306	29	6.9	29	76	10	151	37	15	26	21	1.92
37593982--37594023	20	2.2	19	87	12	59	16	21	4	57	1.58
37594784--37594861	25	3.2	25	83	5	79	25	17	26	29	1.98
37594800--37594907	25	4.3	26	79	9	100	27	19	25	27	1.99
37602497--37602530	16	2.1	17	94	5	61	47	20	5	26	1.73
37603796--37603868	30	2.4	28	80	14	83	43	0	8	47	1.33
37604647--37604687	8	4.9	8	82	11	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37604709--37604779	31	2.3	29	79	13	79	35	5	2	56	1.38
37606149--37606199	6	9.2	6	87	12	65	0	19	0	80	0.71
37606152--37606198	5	8.8	5	90	4	58	0	19	0	80	0.70
37606149--37606198	11	4.5	11	85	9	57	0	20	0	80	0.72
37606661--37606911	133	1.9	130	84	9	334	37	19	11	31	1.87
37609353--37609387	18	2.0	17	88	5	52	40	0	5	54	1.24
37613514--37614616	551	2.0	548	94	0	1938	35	16	18	30	1.93
37617538--37617677	45	3.1	45	77	0	136	43	14	22	20	1.87
37618770--37618827	28	2.0	29	83	9	75	24	18	20	36	1.95
37618839--37618942	28	3.8	28	83	1	84	27	22	11	38	1.88

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