genome.fa.s12.2.7.7.80.10.50.1000.68.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  68  of  120  ( 14336 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)
20229647--20229697	15	3.3	15	81	5	57	11	7	23	56	1.61
20235025--20235393	103	3.6	103	93	1	614	18	19	29	32	1.95
20235131--20235385	33	7.5	33	67	25	122	17	18	29	34	1.94
20239033--20239309	51	5.2	52	83	12	321	30	21	6	41	1.78
20239137--20239310	58	3.0	57	90	3	269	29	22	5	41	1.77
20240779--20240865	32	2.8	31	75	8	88	44	6	12	35	1.69
20247175--20247367	63	3.1	63	85	0	242	27	20	20	31	1.98
20248952--20250206	644	1.9	644	92	1	2126	21	29	9	39	1.86
20262924--20262982	25	2.4	25	88	0	82	20	32	20	27	1.97
20262937--20262987	25	2.0	25	100	0	102	15	31	19	33	1.93
20272628--20272687	23	2.7	23	77	7	63	15	25	18	41	1.89
20275299--20275332	16	2.0	18	88	11	54	61	0	38	0	0.96
20280337--20280366	6	5.0	6	91	0	51	0	20	0	80	0.72
20280337--20280372	18	2.0	18	88	0	54	5	19	0	75	1.00
20294731--20294810	40	2.0	40	100	0	160	27	25	10	37	1.88
20297087--20297258	96	1.8	93	94	3	308	55	10	8	25	1.62
20299017--20299046	16	1.9	15	93	6	51	46	16	10	26	1.78
20300344--20300372	15	1.9	15	100	0	58	48	6	6	37	1.57
20307481--20307598	61	1.9	61	91	3	193	48	7	2	41	1.45
20311212--20311276	22	2.9	22	79	2	67	36	4	32	26	1.77
20322005--20322041	8	4.8	8	96	3	67	48	0	0	51	1.00
20323678--20323748	32	2.3	31	87	4	106	25	28	4	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20328360--20328444	40	2.1	41	82	6	102	31	8	17	42	1.79
20328651--20328751	45	2.2	45	82	3	114	23	16	16	42	1.88
20331237--20331272	7	5.0	7	96	3	63	13	41	0	44	1.44
20333490--20333597	11	10.4	11	69	22	56	60	0	3	36	1.15
20333463--20333613	40	3.7	41	88	6	218	62	0	2	33	1.14
20333523--20333586	30	2.1	29	83	11	76	62	0	3	34	1.11
20333513--20333575	10	6.4	10	76	18	53	68	0	1	30	0.99
20335465--20335562	10	10.0	9	70	13	52	51	3	4	41	1.36
20335542--20335624	32	2.7	31	73	19	84	60	7	2	30	1.37
20336374--20336412	17	2.3	17	90	0	60	23	2	7	66	1.30
20337551--20337839	140	2.1	140	89	0	443	24	19	24	31	1.98
20341970--20342190	120	1.8	122	94	1	392	44	1	4	50	1.29
20342403--20342461	16	3.7	16	95	0	109	20	37	5	37	1.75
20349208--20349521	125	2.5	123	92	2	520	30	14	19	35	1.91
20352273--20352656	114	3.4	114	90	1	574	34	20	19	25	1.96
20353072--20353136	21	3.1	21	70	22	55	20	1	40	38	1.62
20353914--20353961	21	2.3	20	82	7	51	58	0	8	33	1.28
20354273--20354651	190	2.0	190	90	1	598	18	25	12	43	1.86
20362284--20362343	30	2.0	30	86	3	84	43	0	36	20	1.52
20362642--20362669	9	3.1	9	100	0	56	46	21	10	21	1.81
20364114--20364145	13	2.6	12	90	9	55	25	12	18	43	1.85
20365344--20365543	70	2.8	71	78	7	201	23	17	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20365336--20365543	36	5.9	34	70	14	136	23	17	17	41	1.90
20365485--20365555	37	2.0	35	86	5	97	19	21	19	39	1.93
20366987--20367081	47	2.0	47	87	0	136	28	10	25	35	1.89
20371668--20371717	19	2.5	20	78	12	59	58	4	0	38	1.17
20375177--20375228	4	13.0	4	95	0	95	48	25	1	25	1.62
20386254--20386306	15	3.4	15	71	19	54	20	11	3	64	1.42
20386251--20386314	32	2.0	32	100	0	128	25	12	3	59	1.48
20392704--20392876	45	3.8	45	78	8	149	43	13	19	23	1.86
20392758--20393008	90	2.8	90	81	3	220	40	15	19	23	1.90
20392800--20393036	45	5.3	45	81	1	242	40	16	19	23	1.91
20392800--20393036	90	2.6	90	83	2	298	40	16	19	23	1.91
20399787--20399812	4	6.5	4	100	0	52	50	0	23	26	1.50
20411761--20411975	45	4.7	46	89	2	265	46	15	21	17	1.84
20413748--20413777	12	2.5	12	94	0	51	23	40	30	6	1.80
20420297--20420372	22	3.5	22	85	0	107	27	14	26	31	1.95
20421316--20421345	16	1.9	16	93	6	53	0	10	6	83	0.81
20429448--20429512	32	2.1	32	94	2	114	55	9	20	15	1.67
20431671--20431717	23	2.0	23	91	0	76	31	14	10	42	1.80
20431808--20431926	51	2.3	51	84	2	150	32	15	8	42	1.77
20445919--20446040	27	4.5	27	82	8	133	36	13	20	29	1.90
20445917--20446044	54	2.3	55	84	6	163	36	12	21	28	1.90
20449877--20449999	40	3.1	39	83	5	156	30	24	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20449891--20450019	40	3.2	39	82	4	109	33	24	14	27	1.94
20449867--20450017	80	1.9	82	83	2	198	31	24	17	27	1.97
20455481--20455722	50	4.7	50	77	9	170	24	25	21	28	1.99
20455630--20455738	56	2.0	54	89	3	164	25	27	17	29	1.97
20463866--20463917	3	17.3	3	100	0	104	32	0	0	67	0.91
20470630--20470785	45	3.5	45	79	3	154	26	26	17	29	1.98
20470630--20470978	44	8.0	43	72	10	183	28	24	17	30	1.97
20481591--20481639	16	3.1	16	93	0	89	34	6	36	22	1.79
20481619--20481708	45	2.0	44	91	6	146	32	6	28	32	1.83
20481619--20481727	45	2.6	42	85	11	136	33	6	29	30	1.82
20481892--20481997	22	4.8	22	86	0	140	32	14	26	27	1.94
20482136--20482342	38	5.3	37	70	18	127	51	4	1	42	1.30
20482115--20482306	56	3.3	55	72	19	190	52	4	1	42	1.27
20482003--20482333	120	2.8	120	94	0	572	51	5	1	42	1.32
20482233--20482268	18	2.0	18	100	0	72	66	0	0	33	0.92
20491726--20491764	17	2.4	17	82	4	53	71	5	0	23	1.05
20496444--20496544	42	2.3	43	78	9	109	40	3	5	49	1.46
20496510--20496568	22	2.6	22	84	10	66	38	5	5	50	1.46
20497063--20497093	16	1.9	16	93	0	53	16	16	19	48	1.81
20498743--20498775	17	1.9	17	93	0	57	45	3	0	51	1.16
20499185--20499254	11	6.4	11	72	0	59	70	10	2	17	1.28
20499185--20499263	22	3.5	22	77	1	77	69	11	3	15	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20499627--20499695	31	2.2	31	97	0	129	55	24	15	4	1.59
20501377--20501506	70	1.9	67	85	4	179	31	12	13	43	1.80
20506303--20506357	26	2.1	26	100	0	110	40	21	9	29	1.84
20512653--20512695	19	2.2	19	87	4	59	46	20	16	16	1.84
20513015--20513147	61	2.2	58	86	4	185	42	3	3	51	1.35
20513545--20513596	26	2.0	26	82	10	63	15	19	9	55	1.67
20524556--20524599	22	2.0	22	82	8	54	40	0	4	54	1.21
20524565--20524609	22	2.0	22	86	0	63	37	2	4	55	1.32
20527699--20527784	45	1.9	45	85	0	118	27	15	23	33	1.94
20537059--20537147	45	2.0	45	93	0	151	33	24	16	24	1.96
20537158--20537344	51	3.7	50	76	4	187	31	28	17	22	1.96
20539462--20539514	24	2.1	26	83	13	67	32	5	1	60	1.31
20539462--20539514	25	2.1	26	82	10	65	32	5	1	60	1.31
20544905--20544969	28	2.3	27	82	10	69	63	0	4	32	1.15
20545287--20545346	3	20.0	3	72	6	50	60	5	3	31	1.35
20545287--20545337	15	3.4	15	78	5	59	58	5	1	33	1.33
20545984--20546008	6	4.2	6	100	0	50	84	0	0	16	0.63
20549538--20549591	23	2.3	23	87	0	72	33	48	5	12	1.65
20550602--20550644	22	2.0	22	90	0	68	60	18	11	9	1.57
20550812--20550841	11	2.7	11	94	0	51	36	43	0	20	1.52
20551796--20551924	64	2.0	65	87	1	188	46	4	20	27	1.71
20551905--20551940	11	3.2	11	96	4	63	50	0	33	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20551904--20551949	17	2.6	18	89	6	76	52	0	30	17	1.45
20551904--20551949	6	7.8	6	92	4	76	52	0	30	17	1.45
20551905--20551949	23	2.0	23	95	0	81	51	0	31	17	1.46
20556452--20556534	41	2.0	41	88	4	123	24	32	18	25	1.97
20563494--20563622	50	2.6	51	81	10	158	22	27	20	28	1.99
20563581--20563663	41	2.0	41	92	0	139	22	32	18	26	1.97
20563590--20563816	97	2.3	97	98	0	436	25	29	18	25	1.98
20564814--20564855	19	2.2	19	87	8	59	73	0	2	23	0.94
20565051--20565076	10	2.6	10	100	0	52	23	7	0	69	1.14
20567264--20567297	16	2.1	16	94	0	59	61	0	0	38	0.96

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