genome.fa.s12.2.7.7.80.10.50.1000.81.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  81  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)
24334507--24334809	23	12.7	23	76	18	282	45	24	0	29	1.56
24334539--24334667	29	4.9	29	89	8	156	48	21	0	30	1.51
24334615--24334818	96	2.1	94	89	3	302	45	24	0	29	1.60
24334815--24335031	116	1.9	116	92	2	366	39	9	9	41	1.70
24338060--24338412	126	2.8	126	88	2	530	32	22	15	29	1.95
24338060--24338438	125	3.0	125	87	2	553	32	22	15	30	1.94
24340060--24340121	23	2.5	26	72	22	60	50	1	1	46	1.20
24346064--24346100	2	18.5	2	100	0	74	48	0	0	51	1.00
24352946--24352997	25	2.0	26	85	3	70	36	13	11	38	1.81
24355765--24355817	20	2.6	21	76	11	56	33	0	11	54	1.36
24368096--24368136	19	2.2	19	95	0	73	41	17	4	36	1.71
24368848--24368889	17	2.5	17	96	0	75	50	23	4	21	1.68
24370593--24370632	20	2.0	20	85	0	53	40	2	15	42	1.60
24370672--24370720	22	2.1	24	85	7	66	48	10	14	26	1.75
24372997--24373032	11	3.2	11	88	4	54	16	33	0	50	1.46
24372996--24373044	22	2.2	23	82	10	57	20	32	0	46	1.51
24373012--24373134	51	2.4	51	84	2	167	30	25	0	43	1.60
24375349--24375462	25	4.7	25	68	20	98	40	2	14	42	1.59
24375462--24375789	29	11.4	29	90	2	484	48	29	0	20	1.56
24375787--24375963	55	3.2	55	97	0	336	40	10	5	42	1.63
24375862--24376035	92	1.9	92	97	0	330	41	11	4	41	1.61
24375917--24376000	37	2.3	37	100	0	168	40	13	4	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24375807--24376066	147	1.8	147	89	4	422	42	10	5	41	1.61
24379062--24379411	124	2.8	125	93	2	607	32	21	16	29	1.95
24389589--24389719	42	3.1	42	79	0	145	38	15	25	19	1.91
24389652--24389730	21	3.8	21	66	6	61	41	16	21	20	1.90
24389589--24389736	42	3.5	41	78	1	134	39	14	25	20	1.91
24389821--24389912	24	3.8	24	86	2	139	22	27	8	41	1.83
24393715--24393740	13	2.0	13	100	0	52	30	0	23	46	1.53
24394897--24395008	43	2.6	43	83	5	129	25	17	25	30	1.98
24399679--24399725	24	2.0	24	91	0	76	48	0	29	21	1.50
24410698--24410761	24	2.7	24	82	0	74	48	1	32	17	1.56
24414761--24414797	9	4.1	9	92	0	65	45	13	10	29	1.77
24414974--24415007	14	2.4	14	95	0	59	41	23	0	35	1.55
24415777--24415802	5	5.2	5	100	0	52	19	19	19	42	1.90
24416240--24416342	51	2.0	51	94	0	179	43	22	19	14	1.87
24420643--24420704	12	5.1	12	77	16	65	79	0	1	19	0.82
24420643--24420715	5	13.8	5	78	18	69	79	0	2	17	0.85
24420645--24420714	34	2.0	37	83	13	94	78	0	2	18	0.87
24424649--24424687	20	2.1	17	86	13	51	35	7	0	56	1.28
24429388--24429447	17	3.6	17	71	24	56	45	1	0	53	1.10
24435339--24435395	25	2.3	25	88	8	89	21	21	19	38	1.93
24436826--24436855	13	2.4	13	94	5	53	53	26	20	0	1.46
24438365--24438428	25	2.6	25	78	4	69	40	15	18	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24446430--24446472	21	2.0	21	86	8	61	62	0	4	32	1.15
24446551--24446607	30	1.9	30	82	13	73	47	3	0	49	1.18
24455557--24455586	6	5.0	6	95	0	51	30	0	0	70	0.88
24459564--24459602	16	2.6	14	81	14	51	66	0	2	30	1.05
24459571--24459602	16	2.0	16	93	0	55	68	0	3	28	1.04
24483018--24483084	20	3.2	21	72	10	57	44	10	13	31	1.77
24483421--24483452	9	3.8	9	84	16	50	43	0	0	56	0.99
24486389--24486434	8	5.5	8	80	10	56	17	30	36	15	1.91
24486389--24486434	17	2.7	17	86	0	65	17	30	36	15	1.91
24486830--24486881	25	2.1	25	100	0	104	32	23	7	36	1.83
24486887--24486937	15	3.4	15	97	0	93	41	9	0	49	1.36
24487127--24487168	17	2.5	17	100	0	84	33	9	0	57	1.31
24490073--24490209	17	7.4	17	66	19	69	32	3	14	48	1.61
24490059--24490123	22	3.2	22	68	20	68	32	6	13	47	1.68
24490064--24490215	37	4.1	37	89	8	220	32	4	15	47	1.66
24490216--24490305	9	9.6	9	83	9	117	22	7	31	38	1.82
24490216--24490294	29	2.7	29	98	0	149	22	7	30	39	1.82
24490216--24490306	38	2.4	37	85	8	130	21	7	30	39	1.82
24491919--24491955	16	2.3	16	86	13	58	40	0	0	59	0.97
24491941--24492026	18	4.7	18	67	26	56	53	0	0	46	1.00
24492092--24492116	9	2.8	9	100	0	50	44	0	8	48	1.32
24493106--24493144	21	1.9	20	89	5	60	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24497915--24497948	15	2.2	16	90	10	54	23	0	8	67	1.18
24501278--24501323	20	2.2	21	88	7	76	47	17	0	34	1.48
24501278--24501324	11	4.5	11	84	12	64	46	17	0	36	1.48
24501305--24501360	27	2.1	27	89	0	85	53	7	5	33	1.51
24501284--24501357	11	7.0	11	75	14	50	50	10	2	36	1.52
24501983--24502017	17	2.1	16	89	5	52	60	5	0	34	1.21
24504416--24504472	20	2.8	20	83	0	69	10	31	21	36	1.87
24506417--24506480	24	2.6	25	81	16	80	21	20	21	35	1.96
24506417--24506505	25	3.7	23	79	13	81	25	20	21	32	1.97
24506639--24506663	9	2.8	9	100	0	50	44	12	12	32	1.78
24508893--24508974	40	2.0	40	100	0	164	21	4	21	51	1.67
24510031--24510067	2	18.5	2	94	0	65	48	0	0	51	1.00
24514842--24514967	63	2.0	63	96	0	234	47	15	16	19	1.83
24515885--24515946	26	2.4	26	94	2	108	14	24	14	46	1.82
24517740--24517819	25	3.2	25	76	0	79	32	17	26	23	1.97
24525975--24526060	9	9.4	9	85	7	102	39	25	10	24	1.87
24530126--24530241	40	2.9	41	77	7	114	32	23	26	17	1.96
24530299--24530618	41	7.8	41	85	3	297	16	25	24	34	1.95
24531061--24531098	15	2.5	15	86	0	58	21	0	42	36	1.53
24531786--24531822	2	18.5	2	100	0	74	51	0	0	48	1.00
24532427--24532517	38	2.4	37	83	12	105	17	1	47	34	1.55
24532465--24532517	23	2.3	24	74	6	56	16	0	49	33	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24535644--24535697	22	2.3	22	87	9	72	46	11	1	40	1.50
24535659--24535704	22	2.1	22	95	0	83	47	10	0	41	1.38
24535635--24536085	56	7.8	56	89	5	713	47	11	2	39	1.52
24535700--24535753	22	2.3	22	87	9	72	46	11	1	40	1.50
24535715--24535760	22	2.1	22	95	0	83	47	10	0	41	1.38
24535756--24535809	22	2.3	22	87	9	72	46	11	1	40	1.50
24535771--24535816	22	2.1	22	95	0	83	47	10	0	41	1.38
24535874--24535926	22	2.3	22	87	9	70	45	11	1	41	1.51
24535635--24536085	174	2.6	172	94	2	784	47	11	2	39	1.52
24535889--24535934	22	2.1	22	92	8	76	45	13	0	41	1.43
24535635--24536085	118	3.9	112	90	5	713	47	11	2	39	1.52
24535930--24535983	22	2.3	22	87	9	72	46	11	1	40	1.50
24535945--24535990	22	2.1	22	95	0	83	47	10	0	41	1.38
24536039--24536189	9	17.3	9	66	21	63	44	17	1	35	1.61
24536123--24536178	25	2.2	25	90	0	85	44	17	0	37	1.49
24536157--24536189	16	2.1	16	94	0	57	51	18	0	30	1.46
24537987--24538033	21	2.2	22	77	11	53	40	8	25	25	1.84
24541694--24541864	66	2.6	65	84	4	209	40	18	28	12	1.88
24541890--24541947	21	2.8	21	94	0	107	37	12	46	3	1.58
24542274--24542566	43	6.8	43	78	6	272	25	20	29	24	1.99
24542278--24542613	43	7.8	43	77	5	250	24	21	28	25	1.99
24542715--24542757	22	2.0	22	90	0	68	44	27	18	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24547768--24547810	22	2.0	22	90	0	68	48	16	23	11	1.78
24549385--24549430	22	2.1	21	84	4	56	23	13	0	63	1.30
24549382--24549430	21	2.3	20	76	10	53	28	12	0	59	1.34
24554173--24554251	5	15.6	5	75	18	58	58	3	0	37	1.16
24554171--24554233	19	3.4	19	79	14	69	60	1	0	38	1.07
24554185--24554252	24	2.8	24	80	10	68	60	4	0	35	1.17
24558033--24558079	20	2.3	20	82	7	51	21	2	6	70	1.20
24558295--24558391	48	2.0	48	100	0	194	38	10	8	43	1.69
24561262--24561290	7	4.1	7	100	0	58	27	17	27	27	1.97
24565865--24566023	29	5.5	29	80	3	176	35	24	15	24	1.94

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