genome.fa.s5.2.7.7.80.10.50.1000.201.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  201  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)
61047004--61047045	18	2.5	18	81	11	54	33	0	4	61	1.17
61049577--61049607	10	3.1	10	100	0	62	51	0	0	48	1.00
61049834--61049903	27	2.5	28	88	6	99	38	10	1	50	1.45
61050079--61050273	3	66.0	3	88	7	301	66	0	32	1	1.03
61050272--61050345	3	24.7	3	100	0	148	33	0	33	32	1.58
61050344--61050412	6	11.5	6	73	0	57	62	0	36	1	1.04
61050344--61050411	18	3.9	18	73	11	70	61	0	36	1	1.05
61050344--61050408	24	2.7	24	85	0	76	61	0	36	1	1.05
61056655--61056722	28	2.4	29	88	7	106	47	0	10	42	1.37
61057060--61057085	13	2.0	13	100	0	52	23	15	23	38	1.92
61058169--61058207	13	2.9	14	80	7	53	35	0	0	64	0.94
61061104--61061142	17	2.3	17	100	0	78	35	20	5	38	1.75
61061409--61061474	29	2.2	30	79	10	73	59	4	3	33	1.33
61065707--61065741	18	1.9	18	94	0	61	60	0	2	37	1.12
61066296--61066551	128	2.0	128	94	1	451	42	7	12	37	1.71
61072119--61072236	24	4.9	24	75	7	96	31	21	27	20	1.98
61072119--61072360	24	9.9	24	68	15	77	30	21	26	21	1.98
61077274--61077310	15	2.5	15	90	0	56	21	16	10	51	1.74
61077875--61077915	2	20.5	2	100	0	82	48	0	0	51	1.00
61078854--61078888	17	2.0	18	88	5	54	42	5	2	48	1.41
61080567--61080591	13	1.9	13	100	0	50	40	0	8	52	1.31
61088006--61088046	14	3.0	14	80	13	50	56	4	26	12	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61094173--61094213	22	1.9	22	85	5	57	43	12	4	39	1.63
61099310--61099343	15	2.3	15	89	0	50	38	0	0	61	0.96
61103560--61103599	7	5.7	7	87	0	53	65	0	2	32	1.06
61103560--61103603	14	3.1	14	86	0	61	65	0	2	31	1.05
61103556--61103599	21	2.0	22	86	4	63	61	0	2	36	1.09
61106566--61106607	2	22.5	2	86	13	63	50	0	0	50	1.00
61112651--61112705	24	2.2	24	81	9	58	12	9	14	63	1.51
61116182--61116517	168	2.0	168	94	0	591	26	18	12	42	1.85
61117197--61117285	44	2.0	44	93	0	151	34	14	11	39	1.82
61117547--61117592	23	2.0	23	91	0	74	45	15	6	32	1.71
61141801--61141945	41	3.5	41	90	0	218	26	20	29	23	1.98
61152085--61152115	2	15.5	2	100	0	62	48	0	0	51	1.00
61153230--61153277	18	2.6	18	90	3	78	58	0	2	39	1.10
61153628--61153706	26	3.2	24	77	8	86	36	3	0	59	1.16
61153650--61153697	10	5.2	10	76	19	59	35	0	0	64	0.94
61153609--61153734	50	2.8	43	71	15	110	34	3	0	61	1.15
61153652--61153688	16	2.2	17	95	4	67	35	0	0	64	0.94
61153638--61153739	47	2.1	48	83	7	127	36	2	0	60	1.12
61153733--61153765	7	5.0	7	85	14	52	30	0	0	69	0.88
61153742--61153775	12	2.8	12	90	0	50	35	0	0	64	0.94
61158446--61158509	13	4.9	13	77	7	67	32	6	21	39	1.79
61158448--61158509	26	2.4	26	78	10	81	32	6	22	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61162899--61162938	19	2.0	21	85	9	57	35	0	2	62	1.09
61168700--61168796	44	2.2	44	94	1	167	36	15	16	31	1.90
61178599--61178676	28	2.7	29	76	13	88	15	7	16	60	1.57
61178650--61178772	31	4.0	31	70	4	115	22	18	14	43	1.87
61218102--61218135	14	2.5	13	86	13	50	0	8	2	88	0.62
61220835--61220870	2	18.0	2	94	0	63	47	0	0	52	1.00
61223756--61223783	4	7.0	4	100	0	56	75	0	0	25	0.81
61230910--61230949	21	1.9	21	89	0	62	12	35	7	45	1.70
61230920--61230948	15	1.9	15	100	0	58	13	34	6	44	1.71
61236075--61236111	16	2.4	16	86	8	51	35	2	2	59	1.26
61237161--61237215	20	2.7	21	83	8	69	45	3	0	50	1.19
61244521--61244585	18	3.4	18	78	12	67	69	0	4	26	1.08
61245261--61245304	22	2.0	22	90	0	70	38	6	0	54	1.27
61245649--61245767	53	2.3	51	81	10	132	26	5	4	63	1.33
61245649--61245767	52	2.2	52	80	12	127	26	5	4	63	1.33
61249657--61249704	25	2.0	22	81	18	53	47	0	2	50	1.12
61252201--61252254	10	5.3	10	79	16	58	33	1	1	62	1.16
61253572--61253607	16	2.2	16	90	0	54	44	0	8	47	1.33
61253763--61253823	3	18.3	3	83	9	50	65	0	3	31	1.09
61253765--61253823	21	3.1	18	77	20	57	66	0	3	30	1.08
61260405--61260473	28	2.4	29	81	15	74	36	1	7	55	1.37
61262637--61262796	42	3.8	42	95	0	293	33	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61266012--61266080	10	6.5	10	74	15	59	55	0	2	42	1.15
61266023--61266109	31	2.9	30	88	6	122	60	0	2	36	1.09
61265986--61266169	41	4.5	40	86	6	253	60	0	2	36	1.11
61269206--61269436	9	26.4	9	69	14	144	30	1	21	46	1.61
61269190--61269294	25	4.2	25	77	13	117	32	2	19	45	1.65
61269205--61269390	34	5.7	32	68	20	118	30	1	21	46	1.61
61269269--61269395	62	2.0	63	80	7	143	29	0	22	47	1.57
61269205--61269517	16	19.8	16	64	22	87	31	1	20	46	1.61
61270261--61270296	16	2.2	16	95	0	63	52	8	11	27	1.65
61274434--61274478	23	2.0	23	86	8	65	60	6	4	28	1.42
61274610--61274635	5	5.2	5	100	0	52	19	0	0	80	0.71
61286641--61286687	24	2.0	24	83	8	60	48	17	0	34	1.47
61288824--61288863	21	1.9	21	90	10	64	35	30	15	20	1.93
61294584--61294617	18	1.9	17	94	5	59	55	2	0	41	1.15
61301322--61301377	2	28.0	2	100	0	112	50	0	0	50	1.00
61303223--61303284	32	1.9	33	83	3	81	40	20	12	25	1.89
61307111--61307139	6	4.8	6	100	0	58	65	17	0	17	1.27
61307179--61307218	9	4.4	9	93	0	71	25	10	22	42	1.84
61309310--61309420	38	2.9	38	83	4	134	30	12	18	37	1.88
61309489--61309627	44	3.2	42	83	8	154	25	19	15	39	1.91
61330016--61330176	54	3.0	53	84	8	218	43	13	3	39	1.62
61335476--61335509	16	2.1	16	100	0	68	17	0	11	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61335729--61335770	16	2.6	16	92	0	66	42	7	2	47	1.43
61337181--61337235	15	3.9	15	79	13	71	25	32	14	27	1.95
61338310--61338360	20	2.5	21	83	3	68	35	0	0	64	0.94
61343506--61343543	15	2.5	16	79	12	53	44	15	31	7	1.75
61343565--61343604	21	1.9	21	84	0	53	30	22	32	15	1.94
61354171--61354323	70	2.2	70	83	2	180	42	9	18	28	1.83
61363452--61363531	20	4.0	20	98	0	151	26	10	23	40	1.86
61364559--61364602	17	2.6	17	75	3	54	34	4	0	61	1.16
61364971--61365016	18	2.3	20	85	10	60	50	15	2	32	1.56
61368691--61368717	2	13.5	2	100	0	54	48	0	0	51	1.00
61371812--61371850	11	3.6	11	83	16	55	41	2	0	56	1.13
61371833--61371872	20	2.0	20	90	0	62	40	2	0	57	1.12
61371836--61371879	20	2.2	20	83	0	52	38	2	2	56	1.24
61374797--61374842	21	2.1	22	88	4	67	8	10	10	69	1.37
61378120--61378161	5	8.8	5	86	5	52	78	0	2	19	0.86
61379204--61379373	50	3.4	50	73	3	162	24	27	19	28	1.98
61382230--61382298	25	2.9	25	91	6	108	40	17	18	23	1.91
61384501--61384539	17	2.3	17	95	0	69	15	15	15	53	1.73
61384519--61384677	61	2.6	61	97	0	309	13	28	11	45	1.79
61400359--61400405	22	2.1	23	88	4	69	53	21	6	19	1.67
61401234--61401268	16	2.2	16	89	0	52	28	0	2	68	1.04
61402827--61402861	9	4.0	9	85	7	54	65	2	0	31	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61402827--61402870	17	2.6	17	89	3	63	65	2	0	31	1.05
61402826--61402877	16	3.3	15	78	8	50	63	1	1	32	1.16
61403440--61403481	18	2.3	19	87	4	59	33	14	11	40	1.82
61409371--61409528	51	3.2	47	77	13	151	43	15	26	13	1.85
61410282--61410313	13	2.5	13	94	0	55	31	0	12	56	1.37
61410408--61410649	50	4.7	50	86	3	286	27	23	28	19	1.99
61410408--61410657	100	2.4	103	87	5	353	26	23	28	20	1.99
61413059--61413509	100	4.5	100	95	0	785	29	20	25	25	1.99
61413086--61413709	150	4.2	150	77	1	597	29	20	24	25	1.99
61413071--61413793	50	14.5	50	71	3	468	29	20	24	25	1.99

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