genome.fa.s5.2.7.7.80.10.50.1000.99.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  99  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)
29633996--29634039	20	2.1	21	84	12	56	45	0	13	40	1.44
29633960--29634079	61	2.0	61	83	8	156	39	4	15	41	1.66
29634119--29634300	64	2.9	63	85	8	239	32	7	17	41	1.78
29634897--29634937	2	20.5	2	100	0	82	48	0	0	51	1.00
29639291--29639339	23	2.0	26	84	11	68	40	10	8	40	1.69
29639466--29639626	59	2.7	61	80	6	177	50	3	4	41	1.40
29642276--29642350	31	2.4	32	84	2	107	30	12	26	30	1.92
29646881--29646925	23	2.0	23	95	0	81	37	17	13	31	1.89
29655720--29655800	14	5.6	15	74	21	59	11	17	0	71	1.13
29655714--29655785	13	5.1	14	71	21	53	13	16	0	69	1.19
29655714--29655801	30	3.1	27	78	15	90	12	18	0	69	1.19
29655696--29655897	12	17.7	12	66	19	58	10	18	2	68	1.30
29655732--29655875	6	23.7	6	69	10	71	8	16	2	72	1.21
29658624--29658688	20	3.2	20	73	16	62	40	16	20	23	1.92
29658614--29658688	30	2.5	29	82	8	80	41	18	18	21	1.91
29665183--29665228	19	2.4	19	82	10	58	39	10	23	26	1.88
29666166--29666237	36	2.0	36	100	0	144	22	36	16	25	1.94
29668793--29668843	27	1.9	26	84	11	68	54	13	9	21	1.67
29669198--29669245	21	2.3	20	82	7	51	68	2	4	25	1.18
29671712--29671751	20	2.0	20	85	0	53	40	17	10	32	1.83
29675569--29675613	20	2.2	20	84	7	56	53	11	4	31	1.56
29676330--29676821	248	2.0	248	94	0	867	35	18	11	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29680833--29681227	203	1.9	203	94	0	700	23	22	21	33	1.97
29685229--29685435	108	1.9	107	90	4	328	32	15	6	45	1.71
29687888--29687939	27	2.0	26	84	3	68	65	1	0	32	1.04
29687937--29687961	8	3.1	8	100	0	50	36	0	0	64	0.94
29687949--29688003	19	2.9	19	81	10	60	32	1	1	63	1.15
29688100--29688268	82	2.0	82	81	8	194	34	7	18	39	1.78
29690884--29690990	50	2.2	50	86	1	144	42	19	14	23	1.87
29704669--29704715	16	3.0	15	84	9	58	74	2	8	14	1.15
29711324--29711356	15	2.3	15	89	5	50	78	3	9	9	1.05
29718119--29718168	22	2.3	22	83	13	59	36	46	2	16	1.58
29724019--29724065	20	2.3	20	85	0	58	25	29	19	25	1.98
29732776--29732819	20	2.2	20	87	0	61	25	15	18	40	1.90
29753476--29753607	51	2.6	50	86	5	169	27	14	28	30	1.95
29753476--29753614	49	2.7	51	85	6	176	28	14	27	30	1.95
29757498--29757535	20	1.9	19	89	5	58	34	18	23	23	1.96
29757607--29757651	12	4.0	11	83	13	56	68	13	2	15	1.30
29757687--29757724	12	3.0	12	85	14	58	57	0	18	23	1.40
29757687--29757725	14	3.0	13	89	10	62	58	0	17	23	1.38
29758777--29758822	18	2.5	18	85	3	56	63	2	23	10	1.38
29759008--29759033	9	2.9	9	100	0	52	46	7	34	11	1.69
29761659--29761698	13	3.0	13	92	7	71	60	0	17	22	1.37
29783705--29783756	14	3.8	13	92	7	86	21	7	1	69	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29783798--29783827	11	2.7	11	94	0	51	13	0	3	83	0.77
29787056--29787276	51	4.4	51	76	10	193	30	13	24	31	1.93
29793320--29793354	9	3.9	9	88	0	52	68	11	8	11	1.39
29802052--29802101	22	2.2	23	85	3	66	80	12	8	0	0.92
29802051--29802118	23	3.2	22	72	14	61	79	14	5	0	0.91
29807785--29807849	22	2.9	22	90	2	94	33	33	4	27	1.78
29810716--29810769	20	2.7	20	73	2	54	48	11	5	35	1.62
29814061--29814122	31	2.0	31	87	9	90	22	12	3	61	1.46
29819039--29819099	10	6.1	10	74	12	54	32	13	24	29	1.93
29819040--29819100	20	3.0	20	83	9	79	32	13	26	27	1.93
29819044--29819120	30	2.5	30	81	6	84	29	15	29	24	1.96
29822480--29822518	15	2.5	15	91	4	60	17	7	10	64	1.48
29823761--29823821	10	6.1	10	74	12	54	32	13	24	29	1.93
29823762--29823822	20	3.0	20	83	9	79	32	13	26	27	1.93
29826683--29826720	17	2.2	17	95	0	67	10	2	31	55	1.48
29829916--29830068	22	7.0	22	90	0	225	32	14	26	26	1.94
29831884--29831970	25	3.5	24	82	4	93	24	22	20	32	1.98
29831881--29831982	50	2.1	49	83	5	125	24	22	19	33	1.97
29831899--29831990	25	3.7	25	77	18	86	27	25	19	28	1.99
29834444--29834537	46	2.0	46	95	0	170	24	20	21	34	1.97
29847304--29847432	50	2.6	50	81	2	143	29	14	20	34	1.93
29847402--29847468	22	3.1	22	82	4	73	28	13	20	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29848182--29848227	21	2.2	21	100	0	92	15	8	43	32	1.77
29851176--29851223	24	2.0	24	88	8	71	45	0	43	10	1.38
29852276--29852377	33	3.2	33	72	13	124	15	3	15	64	1.43
29852279--29852377	28	3.4	28	68	22	85	16	4	16	63	1.45
29852272--29852392	61	2.0	61	100	0	242	15	3	16	64	1.42
29854703--29854727	11	2.3	11	100	0	50	36	12	24	28	1.91
29859886--29860133	137	1.8	137	86	3	365	33	25	20	20	1.97
29864164--29864280	11	11.3	11	71	22	67	59	0	3	36	1.14
29864187--29864259	10	7.3	10	74	21	64	67	0	1	31	1.00
29864137--29864270	40	3.2	42	78	15	129	61	0	2	35	1.08
29864171--29864270	51	2.0	51	93	0	173	61	0	2	37	1.08
29864211--29864290	40	2.1	38	85	4	106	58	0	3	37	1.16
29864320--29864347	11	2.5	11	100	0	56	0	46	53	0	1.00
29865728--29865773	22	2.1	22	100	0	92	26	13	4	56	1.55
29869938--29869988	8	6.6	8	80	13	54	41	1	0	56	1.10
29875135--29875176	22	1.9	22	90	0	66	61	9	9	19	1.53
29877673--29877714	20	2.2	19	87	12	59	45	0	0	54	0.99
29888014--29888053	20	2.0	20	90	0	62	42	22	27	7	1.80
29893465--29893503	19	2.1	19	95	0	69	43	23	7	25	1.80
29897020--29897085	26	2.5	26	90	0	96	24	25	25	24	2.00
29908315--29908370	25	2.2	26	79	17	73	62	1	1	33	1.16
29909037--29909078	22	2.1	19	86	13	57	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29926224--29926407	40	4.6	40	84	2	226	34	15	30	18	1.92
29926224--29926423	80	2.5	79	84	4	258	34	16	29	19	1.94
29926354--29926407	20	2.7	20	74	5	56	38	14	31	14	1.87
29929576--29929624	25	2.0	25	84	15	66	26	12	12	48	1.75
29930833--29930896	28	2.3	28	80	0	83	17	21	35	25	1.95
29941679--29941705	13	2.1	13	100	0	54	37	18	37	7	1.79
29942060--29942103	19	2.4	18	80	3	52	63	6	4	25	1.38
29945505--29945701	30	6.6	30	73	9	127	40	14	22	22	1.90
29945494--29945670	60	3.0	59	67	14	148	38	14	23	23	1.91
29945466--29945766	120	2.5	118	81	3	336	39	14	22	22	1.91
29955496--29955577	42	2.0	42	87	4	121	23	28	34	14	1.94
29960606--29960656	17	3.1	17	80	13	61	56	0	27	15	1.39
29961746--29961796	17	2.9	18	77	13	61	29	1	0	68	1.00
29976426--29976470	20	2.2	21	88	7	67	46	20	4	28	1.69
29977826--29978389	131	4.3	131	84	2	738	37	13	15	33	1.87
29983872--29983903	12	2.6	13	85	14	50	56	6	0	37	1.25
29992073--29992262	72	2.6	72	89	2	274	30	28	15	25	1.96
29996813--29996839	14	1.9	14	100	0	54	33	22	14	29	1.94
29997459--29997530	33	2.2	33	87	5	101	11	27	6	54	1.61
29999847--29999996	72	2.1	73	91	1	239	34	26	14	24	1.93
30005051--30005188	74	1.9	74	84	3	188	31	18	21	27	1.97
30005425--30005483	22	2.7	22	91	0	91	35	15	25	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30009332--30009447	58	2.0	58	91	0	187	19	15	19	44	1.86
30012488--30012560	26	2.9	24	80	13	85	32	21	26	19	1.97
30013000--30013041	21	2.0	21	90	0	66	40	23	0	35	1.55
30014849--30014909	21	2.9	22	79	15	76	4	19	3	72	1.18
30014849--30014909	22	2.9	22	79	15	67	4	19	3	72	1.18
30014849--30014906	20	2.8	20	77	17	55	5	20	1	72	1.13
30016124--30016156	12	2.6	13	90	4	50	75	0	0	24	0.80
30016651--30016702	23	2.3	22	75	21	54	9	23	1	65	1.32
30025991--30026033	18	2.2	20	92	8	72	37	0	18	44	1.50
30027623--30027786	44	3.6	46	81	8	174	31	22	18	27	1.97

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