genome.fa.s3.2.7.7.80.10.50.1000.66.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  66  of  150  ( 17918 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)
19782874--19782922	20	2.4	20	86	3	62	51	8	8	32	1.61
19784709--19784768	30	2.0	30	84	9	79	35	10	8	46	1.67
19793093--19793135	3	14.3	3	80	9	52	69	0	0	30	0.88
19793566--19793655	21	4.2	24	74	18	74	37	13	7	41	1.73
19793592--19793667	21	3.7	21	84	7	111	36	10	10	42	1.74
19793605--19793668	19	3.3	19	88	4	92	37	12	9	40	1.75
19796230--19796346	39	3.0	38	92	3	189	49	27	3	19	1.64
19796349--19796403	27	2.0	27	96	0	101	34	23	3	38	1.73
19796568--19796625	9	6.4	9	85	0	53	25	8	24	41	1.83
19806599--19806660	29	2.1	29	79	8	72	25	9	17	46	1.79
19811329--19811385	15	3.5	15	71	17	51	49	0	1	49	1.11
19811331--19811367	19	1.9	19	88	0	56	48	0	0	51	1.00
19814449--19814485	19	2.0	19	89	5	58	54	0	18	27	1.44
19822224--19822267	19	2.3	19	88	0	61	52	22	9	15	1.71
19822240--19822384	74	2.0	72	86	5	202	59	15	8	15	1.60
19822455--19822496	22	1.9	22	90	0	66	64	26	0	9	1.24
19828622--19828675	26	2.1	26	96	0	99	25	22	20	31	1.98
19829569--19829609	21	1.9	22	95	5	75	58	0	12	29	1.34
19837958--19837993	19	1.9	18	88	5	54	30	5	5	58	1.44
19842599--19842667	21	3.3	21	77	0	75	55	2	8	33	1.46
19845070--19845118	18	2.6	19	84	12	66	55	2	0	42	1.11
19846220--19846252	17	2.0	17	94	5	59	51	0	6	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19848446--19848730	69	4.1	69	77	1	277	16	35	11	37	1.85
19848446--19848730	138	2.1	138	81	4	324	16	35	11	37	1.85
19850001--19850030	15	2.0	15	93	0	51	83	0	6	10	0.81
19850676--19850723	24	2.0	24	100	0	96	37	12	33	16	1.86
19854298--19854357	31	1.9	31	86	6	86	30	0	33	36	1.58
19854870--19854903	17	2.1	17	88	5	52	23	5	11	58	1.55
19858915--19858960	24	2.0	24	91	4	76	47	8	26	17	1.76
19864470--19864678	96	2.2	96	83	3	251	14	21	33	30	1.93
19864470--19864693	48	4.7	48	80	4	218	14	20	34	30	1.93
19865539--19865590	15	3.2	15	73	19	50	44	0	1	53	1.11
19865570--19865640	24	2.7	27	74	14	76	45	0	2	52	1.15
19865600--19865634	15	2.2	16	95	5	63	37	0	0	62	0.95
19865621--19865704	18	4.7	18	68	19	59	52	0	0	47	1.00
19867095--19867172	21	3.7	21	76	17	81	34	8	17	38	1.82
19867094--19867149	21	2.8	19	87	10	85	33	10	19	35	1.87
19874052--19874370	44	7.2	44	68	8	200	22	22	27	26	1.99
19874049--19874462	88	4.7	88	88	0	578	24	22	26	25	2.00
19874422--19874875	45	10.3	44	86	5	479	30	15	24	28	1.96
19874425--19874897	133	3.6	133	84	4	598	31	15	24	29	1.95
19874516--19874923	45	9.2	45	84	4	348	31	15	24	28	1.96
19875270--19875325	21	2.8	19	87	10	85	33	10	19	35	1.87
19875522--19875551	15	2.0	15	93	0	51	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19876979--19877036	30	1.9	29	82	6	71	34	6	6	51	1.55
19885383--19885976	50	11.9	50	69	3	338	26	21	21	30	1.99
19885411--19885976	100	5.7	99	84	2	758	25	21	22	29	1.99
19885411--19885976	199	2.8	198	88	1	846	25	21	22	29	1.99
19887417--19887459	21	2.0	21	100	0	86	11	9	9	69	1.36
19887889--19887938	8	6.0	8	77	9	55	0	6	16	78	0.95
19888497--19888532	16	2.2	16	90	5	54	52	0	2	44	1.15
19888898--19888927	14	2.1	15	93	6	53	33	0	3	63	1.11
19889063--19889097	15	2.3	15	90	0	52	74	0	5	20	1.02
19896653--19896704	16	3.2	16	97	0	95	25	0	34	40	1.56
19896920--19896961	15	2.7	16	82	14	52	52	2	0	45	1.13
19897039--19897090	15	3.6	15	80	12	56	53	1	0	44	1.11
19906044--19906097	28	1.9	28	85	7	74	9	14	7	68	1.38
19911010--19911066	18	3.1	18	76	2	60	63	1	1	33	1.15
19911568--19911618	13	3.9	13	78	0	57	33	0	0	66	0.92
19911563--19911620	6	8.8	6	76	16	53	36	0	0	63	0.94
19912045--19912104	2	29.5	2	96	3	111	50	0	1	48	1.11
19914820--19914854	18	1.9	18	94	0	61	48	0	0	51	1.00
19914835--19914929	38	2.6	38	80	12	101	47	1	1	50	1.15
19930097--19930155	22	2.7	23	78	7	68	13	8	13	64	1.49
19935897--19935953	6	9.5	6	100	0	114	15	17	15	50	1.78
19936820--19936852	11	3.0	11	91	8	50	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19936784--19936908	22	5.7	21	70	22	80	53	0	0	44	1.11
19936815--19936931	55	2.1	55	84	7	148	53	2	0	43	1.14
19936815--19936947	55	2.4	56	81	10	132	53	3	0	42	1.21
19937233--19937391	77	2.1	77	98	0	309	40	10	8	41	1.68
19943147--19943301	42	3.7	42	83	0	177	43	18	23	14	1.86
19943178--19943241	21	3.0	21	71	8	58	40	18	25	15	1.90
19943252--19943301	20	2.4	21	86	3	66	46	18	20	16	1.85
19943252--19943302	21	2.5	20	87	3	66	45	17	19	17	1.86
19945738--19945788	23	2.2	23	92	0	84	13	5	33	47	1.67
19948297--19948344	13	3.5	13	83	10	69	52	8	22	16	1.71
19948304--19948351	15	3.3	15	82	11	73	50	8	20	20	1.74
19948297--19948351	28	2.0	28	96	0	101	50	9	21	18	1.74
19963086--19963136	22	2.5	21	81	9	61	72	1	3	21	1.11
19965892--19965974	28	2.8	29	75	10	80	59	3	4	32	1.36
19966176--19966204	3	9.7	3	100	0	58	65	0	0	34	0.93
19966765--19966816	19	2.8	19	77	13	63	76	0	11	11	1.01
19978059--19978110	3	17.3	3	100	0	104	67	0	32	0	0.91
19979151--19979221	21	3.4	21	78	0	70	12	7	39	40	1.70
19981350--19981410	20	2.9	19	76	13	59	45	11	9	32	1.73
19984297--19984328	2	16.0	2	93	0	55	46	0	3	50	1.17
19985582--19985631	3	17.0	3	87	4	75	66	2	2	30	1.14
19986933--19986978	22	2.0	23	88	12	69	13	2	13	71	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19987210--19987845	44	14.4	44	74	8	335	25	23	19	30	1.98
19987190--19987813	89	7.1	88	76	8	409	25	22	20	31	1.98
19987299--19987636	133	2.5	132	78	8	373	26	22	19	31	1.98
19987303--19987863	134	4.2	134	79	4	444	26	23	19	30	1.98
19987421--19987860	179	2.5	178	80	5	444	26	24	19	30	1.98
19987303--19987845	45	12.2	45	75	6	387	26	24	18	30	1.98
19996704--19996730	10	2.7	10	100	0	54	22	22	11	44	1.84
19997892--19997931	12	3.1	13	82	10	55	15	0	15	70	1.18
19997892--19997944	25	2.1	25	86	6	72	13	1	15	69	1.27
20002174--20002208	9	3.8	9	96	3	61	77	2	0	20	0.90
20002170--20002217	9	5.2	9	85	9	53	75	6	2	16	1.11
20002227--20002261	6	5.7	6	86	6	52	71	11	0	17	1.14
20002227--20002268	13	3.3	13	90	3	59	71	11	0	16	1.14
20003136--20003173	15	2.5	15	83	8	51	71	0	13	15	1.16
20004221--20004261	19	2.2	19	100	0	82	41	21	4	31	1.74
20004376--20004606	44	5.2	44	78	6	261	32	19	25	22	1.97
20004379--20004606	88	2.6	88	92	0	375	32	19	25	21	1.97
20006378--20006479	41	2.5	41	91	3	161	26	19	25	28	1.99
20014049--20014150	41	2.5	41	90	3	152	27	18	25	28	1.98
20015106--20015384	88	3.2	88	93	0	468	30	21	25	21	1.98
20015107--20015384	44	6.3	44	87	0	385	30	21	25	21	1.99
20015377--20015539	88	1.9	88	84	2	220	25	23	28	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20015395--20015532	44	3.1	45	68	8	120	24	23	28	23	1.99
20025370--20025410	21	1.9	22	85	5	57	68	0	19	12	1.21
20036358--20036452	41	2.3	41	83	0	118	32	21	20	26	1.97
20047561--20047617	21	2.8	21	89	5	82	12	24	17	45	1.83
20048537--20048630	42	2.2	42	90	0	143	21	34	25	19	1.96
20048808--20048841	11	2.8	12	91	8	52	44	8	11	35	1.72
20049940--20050223	33	7.8	33	69	19	172	21	17	26	34	1.96
20049973--20050183	42	5.5	41	71	19	202	21	17	27	34	1.95
20049936--20050221	75	3.8	75	95	0	500	21	17	26	33	1.96
20057873--20057930	21	2.9	21	82	12	68	13	31	17	37	1.89

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