genome.fa.s11.2.7.7.80.10.50.1000.183.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  183  of  210  ( 25152 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)
54267511--54267540	12	2.5	12	100	0	60	23	0	13	63	1.29
54275504--54275570	29	2.3	28	82	10	80	23	16	16	43	1.87
54277131--54277268	52	2.7	52	97	0	258	40	10	10	39	1.73
54277281--54277334	22	2.3	24	84	6	67	29	18	7	44	1.77
54277490--54277534	19	2.5	19	85	7	67	48	13	0	37	1.42
54277490--54277533	18	2.5	17	82	10	61	50	11	0	38	1.39
54294732--54294864	62	2.1	62	82	8	155	45	10	12	31	1.75
54294763--54294862	31	3.2	30	69	12	76	49	9	10	32	1.68
54297922--54298075	47	3.4	45	69	16	118	46	1	3	48	1.32
54297834--54298055	91	2.4	91	87	2	311	45	2	4	47	1.35
54297869--54298030	44	3.6	43	69	16	123	46	1	3	48	1.27
54297970--54298030	28	2.2	28	85	5	81	45	0	3	50	1.17
54298205--54298259	24	2.2	26	81	12	71	45	0	1	52	1.11
54298381--54298488	45	2.6	43	80	11	118	31	25	5	37	1.79
54300626--54300674	22	2.2	22	85	7	64	36	0	4	59	1.17
54301405--54301430	12	2.2	12	100	0	52	30	7	19	42	1.79
54303560--54303607	20	2.4	19	79	6	51	60	0	10	29	1.30
54314351--54314388	13	2.8	14	80	19	53	65	5	5	23	1.34
54314798--54314845	23	2.1	23	85	11	64	60	4	2	33	1.27
54314798--54314845	24	2.0	24	92	4	80	60	4	2	33	1.27
54314865--54314905	12	3.2	13	83	13	50	73	0	4	21	1.02
54314982--54315025	17	2.6	17	85	3	63	47	0	11	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54315149--54315178	3	10.0	3	92	0	51	66	3	0	30	1.07
54315487--54315531	23	2.0	22	86	4	63	40	17	6	35	1.76
54315510--54315580	19	3.6	19	87	7	97	38	18	8	35	1.81
54322902--54322938	8	4.4	8	87	12	56	10	2	2	83	0.84
54322884--54322938	26	2.1	27	83	10	69	10	7	3	78	1.08
54322884--54322943	24	2.3	26	81	13	63	10	8	3	78	1.07
54325554--54325870	159	2.0	159	90	1	501	36	14	29	19	1.92
54332537--54332758	121	1.8	119	85	1	309	29	9	15	45	1.78
54335597--54335632	18	1.9	19	94	5	65	66	8	0	25	1.19
54337065--54337132	33	2.1	33	100	0	136	25	17	14	42	1.87
54339777--54339812	18	2.0	18	94	0	63	47	11	8	33	1.69
54344574--54344600	14	1.9	14	100	0	54	51	7	18	22	1.70
54347783--54347834	25	2.0	26	96	3	97	51	7	5	34	1.54
54348045--54348091	2	23.5	2	100	0	94	51	0	0	48	1.00
54348729--54348771	22	2.0	22	81	9	52	6	23	2	67	1.27
54353075--54353220	21	7.0	21	78	0	148	16	22	17	43	1.88
54353077--54353222	42	3.5	42	83	0	175	17	22	17	43	1.88
54355842--54356264	211	2.0	211	96	0	774	42	7	30	19	1.80
54360918--54360980	33	1.9	33	93	0	108	39	12	17	30	1.87
54363572--54363604	11	3.2	11	91	8	52	18	0	18	63	1.31
54366760--54366817	29	2.0	28	84	15	75	24	13	8	53	1.68
54367211--54367242	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54375611--54375670	25	2.4	25	80	5	68	51	5	1	41	1.33
54375761--54375802	18	2.4	18	80	4	50	50	0	2	47	1.14
54375813--54375852	14	2.9	14	85	10	55	47	0	0	52	1.00
54376665--54376894	118	1.9	118	95	0	415	42	11	15	30	1.83
54377087--54377130	18	2.4	18	88	0	61	40	43	2	13	1.57
54377232--54377289	9	6.4	9	85	0	80	25	12	24	37	1.90
54377232--54377289	18	3.2	18	90	0	89	25	12	24	37	1.90
54378376--54378508	72	1.9	68	86	10	171	42	3	3	51	1.32
54379911--54379954	20	2.2	20	83	4	52	4	40	4	50	1.43
54380294--54380370	2	38.5	2	97	0	145	0	48	1	50	1.09
54381231--54381413	89	2.1	89	97	0	357	27	14	14	43	1.84
54391174--54391233	27	2.2	27	100	0	120	21	31	36	10	1.87
54398870--54398905	16	2.2	16	100	0	72	25	0	36	38	1.56
54399141--54399175	18	2.0	17	88	5	52	54	0	0	45	0.99
54399363--54399660	120	2.5	121	91	5	489	50	4	2	42	1.37
54399484--54399535	15	3.6	15	80	12	56	53	1	0	44	1.11
54399701--54399748	26	1.9	25	84	16	64	52	2	0	45	1.12
54403301--54403471	25	7.1	25	77	15	198	35	8	6	50	1.58
54403305--54403471	23	7.0	24	77	14	184	34	8	6	50	1.59
54403289--54403471	48	3.8	48	100	0	366	36	7	6	50	1.56
54404430--54404468	2	19.5	2	100	0	78	51	0	0	48	1.00
54408090--54408123	18	1.9	18	94	5	61	50	0	8	41	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54408090--54408125	19	1.9	18	88	5	54	52	0	8	38	1.32
54408542--54408602	23	2.6	23	80	10	70	54	6	0	39	1.27
54411689--54411727	21	2.0	19	85	14	53	51	5	23	20	1.67
54414400--54414497	11	8.9	11	67	18	53	53	4	2	40	1.32
54414403--54414495	37	2.8	31	77	19	105	53	4	2	39	1.32
54414803--54414840	19	2.0	19	94	0	67	23	21	7	47	1.77
54415687--54415815	63	2.0	64	96	1	242	40	17	13	28	1.87
54421979--54422105	43	3.0	41	79	14	150	34	25	17	22	1.96
54421982--54422094	41	2.7	40	82	10	147	34	26	17	21	1.95
54422124--54422299	51	3.5	49	81	12	187	31	28	16	23	1.96
54422111--54422298	101	1.9	102	85	4	256	32	27	16	23	1.96
54424902--54424927	13	2.0	13	100	0	52	53	0	0	46	1.00
54426569--54426686	39	3.0	39	80	11	143	34	17	21	26	1.95
54426570--54426706	39	3.4	41	77	8	131	37	18	19	24	1.93
54426738--54426898	41	3.9	40	81	4	187	18	18	30	32	1.95
54426744--54426898	82	1.9	82	86	2	222	19	19	28	32	1.96
54431296--54431329	15	2.2	15	89	5	50	52	0	5	41	1.25
54431399--54431555	43	3.7	43	93	0	260	24	17	30	27	1.97
54437138--54437223	43	1.9	45	83	6	113	34	5	2	56	1.36
54437921--54438220	46	6.6	46	92	1	473	31	22	12	34	1.91
54442938--54443055	50	2.4	50	86	2	157	22	27	16	33	1.95
54442941--54443019	25	3.2	25	63	13	63	16	27	17	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54442999--54443080	25	3.3	26	76	10	64	26	24	18	30	1.98
54444063--54444087	6	4.2	6	100	0	50	16	0	64	20	1.30
54444095--54444133	15	2.6	15	100	0	78	5	0	69	25	1.09
54444068--54444123	21	2.7	21	91	0	94	8	0	67	23	1.18
54446472--54446589	6	18.2	6	72	20	53	10	0	65	23	1.29
54446482--54446559	21	3.4	21	79	19	93	10	0	65	24	1.23
54446492--54446592	27	3.9	26	87	8	136	8	0	66	24	1.20
54446478--54446592	27	4.6	26	81	11	127	9	0	65	25	1.23
54448646--54448709	30	2.1	32	88	5	96	18	3	17	60	1.48
54466452--54466500	17	2.6	19	75	12	57	28	14	18	38	1.90
54471777--54471844	14	4.9	14	77	8	50	52	0	13	33	1.40
54471791--54471845	21	2.7	20	86	5	74	52	0	12	34	1.40
54471853--54471917	28	2.3	29	84	7	89	47	0	30	21	1.51
54478516--54478894	44	8.5	44	79	5	350	29	21	17	32	1.96
54478514--54478894	136	2.8	136	80	3	389	29	21	17	32	1.96
54486479--54486531	19	2.8	20	82	5	65	43	5	22	28	1.76
54493323--54493352	15	2.0	15	93	0	51	63	0	13	23	1.29
54493974--54494009	18	1.9	18	88	5	54	63	0	2	33	1.08
54494617--54494659	19	2.3	18	81	18	52	27	4	4	62	1.35
54498143--54498336	63	3.1	63	85	4	187	21	19	30	28	1.97
54502366--54502455	15	5.6	16	67	16	60	46	5	12	35	1.65
54502359--54502457	33	3.0	33	96	0	189	47	6	13	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54502386--54502440	18	3.2	18	66	23	55	47	5	12	34	1.65
54502613--54502657	19	2.4	18	75	10	54	33	0	35	31	1.58
54503930--54503974	18	2.5	19	78	10	58	35	0	8	55	1.31
54510339--54510370	17	1.9	17	93	6	57	34	0	3	62	1.11
54511803--54512120	43	7.6	42	75	12	219	30	30	17	22	1.96
54511901--54511950	18	2.8	18	96	0	91	28	32	16	24	1.96
54513093--54513129	10	3.7	10	100	0	74	51	10	18	18	1.75
54514005--54514097	7	13.0	7	75	7	53	37	39	2	20	1.65
54514078--54514106	14	2.0	15	93	6	51	34	48	0	17	1.47
54514064--54514103	21	1.9	21	85	10	55	32	50	0	17	1.47

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   
          209   210