genome.fa.s12.2.7.7.80.10.50.1000.24.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  24  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)
6292769--6292896	46	2.7	47	80	11	147	34	0	21	42	1.59
6295458--6295585	29	4.6	29	71	14	115	19	7	24	48	1.75
6296186--6296232	25	2.0	23	83	8	58	42	0	0	57	0.98
6296213--6296250	19	2.0	19	100	0	76	47	0	0	52	1.00
6296937--6296970	12	2.8	12	86	0	50	47	14	8	29	1.75
6296961--6297090	54	2.4	55	76	11	151	45	20	5	29	1.73
6296962--6297041	25	3.4	24	70	16	69	47	20	5	27	1.70
6297013--6297117	34	3.2	32	75	16	101	42	22	3	30	1.71
6297338--6297457	9	14.2	9	77	13	121	47	18	1	32	1.58
6297342--6297457	16	6.9	17	74	16	100	47	18	1	32	1.59
6297338--6297457	25	4.8	25	86	0	177	47	18	1	32	1.58
6297311--6297457	50	2.9	50	83	6	172	49	17	2	30	1.58
6303651--6303822	66	2.6	65	84	4	211	40	18	28	12	1.88
6303793--6303905	21	5.4	21	84	2	84	34	16	42	6	1.74
6303813--6303905	42	2.2	42	86	0	123	33	17	44	5	1.71
6304249--6304521	43	6.3	43	79	6	277	21	17	30	31	1.96
6304249--6304501	130	2.0	128	83	8	325	22	16	29	30	1.96
6304400--6304539	43	3.3	42	76	7	138	24	19	29	27	1.98
6304269--6304543	86	3.2	86	86	2	345	25	17	29	27	1.97
6304403--6304604	86	2.3	86	81	3	210	24	21	28	25	1.99
6304786--6304828	22	2.0	22	90	0	68	44	27	18	9	1.80
6312898--6313110	67	3.2	66	64	19	159	46	3	3	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6312854--6313275	137	2.9	138	82	8	436	47	4	3	44	1.42
6313002--6313036	18	2.0	17	88	5	52	45	0	0	54	0.99
6312888--6313102	70	3.1	69	66	18	176	46	3	4	46	1.38
6312978--6313305	156	2.1	156	97	0	620	46	6	3	42	1.46
6313158--6313206	15	2.9	18	80	20	61	44	0	0	55	0.99
6313158--6313212	15	3.4	16	80	16	53	43	0	1	54	1.10
6313357--6313447	45	2.0	45	85	2	121	37	28	6	27	1.82
6313428--6313480	16	3.2	16	94	5	97	37	37	0	24	1.56
6324738--6325029	50	5.9	50	84	6	335	28	21	28	21	1.99
6333389--6333424	6	6.0	6	96	0	63	66	2	0	30	1.06
6333960--6333998	20	2.0	20	90	10	62	71	5	0	23	1.05
6334079--6334153	20	3.5	21	74	7	62	61	6	0	32	1.22
6334099--6334157	20	3.0	19	80	7	64	66	3	0	30	1.08
6334509--6334552	22	2.0	22	81	0	52	31	2	0	65	1.05
6334943--6334977	2	17.5	2	100	0	70	51	0	0	48	1.00
6336562--6336590	3	9.7	3	100	0	58	65	0	0	34	0.93
6340125--6340186	33	1.9	33	83	6	83	30	4	3	61	1.33
6343646--6343670	12	2.1	12	100	0	50	48	0	0	52	1.00
6343741--6343795	12	4.3	13	75	17	53	50	3	3	41	1.37
6344520--6344553	16	2.2	16	89	5	52	50	2	0	47	1.16
6345324--6345361	12	3.2	12	88	0	58	10	5	5	78	1.06
6353636--6353678	18	2.4	18	88	0	68	9	39	4	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6362530--6362563	18	1.9	17	94	5	59	38	0	14	47	1.45
6365867--6366122	126	2.0	126	90	3	399	37	11	9	41	1.75
6370796--6370855	31	2.0	31	83	3	77	38	11	10	40	1.75
6372851--6372911	23	2.7	22	71	16	61	50	4	3	40	1.40
6373038--6373080	3	14.3	3	100	0	86	67	0	0	32	0.91
6373079--6373123	3	15.0	3	100	0	90	66	33	0	0	0.92
6375704--6375746	20	2.2	20	87	4	61	34	0	0	65	0.93
6378257--6378299	18	2.4	18	88	0	59	41	44	2	11	1.53
6378407--6378473	9	7.4	9	89	0	89	25	7	22	44	1.78
6378883--6378924	12	3.7	12	79	20	54	21	2	0	76	0.90
6379905--6379952	20	2.4	19	78	18	53	37	14	2	45	1.57
6396943--6397127	36	4.8	36	72	19	124	0	31	0	67	0.99
6396943--6397133	40	5.0	39	75	18	136	0	30	0	68	0.98
6397007--6397139	4	32.0	4	74	20	55	0	30	0	68	0.95
6396981--6397094	22	5.4	23	67	22	79	0	28	0	70	0.99
6396940--6397112	81	2.2	79	88	8	253	0	28	0	69	0.96
6397048--6397101	24	2.3	23	78	9	63	0	29	1	68	1.00
6397093--6397145	26	2.0	27	88	7	81	0	37	0	62	0.96
6396946--6397133	81	2.4	78	81	10	242	0	30	0	68	0.98
6397179--6397249	27	2.6	27	88	8	99	45	0	8	46	1.33
6397595--6397638	22	2.0	22	82	8	54	40	2	4	52	1.34
6397673--6397775	33	3.3	32	78	11	115	50	0	6	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6403016--6403172	43	3.7	43	88	3	219	26	17	24	31	1.97
6404906--6404990	29	3.1	29	59	25	67	24	25	0	49	1.51
6404769--6405106	52	6.3	52	90	4	469	23	22	0	52	1.52
6404769--6405106	159	2.1	162	91	1	538	23	22	0	52	1.52
6408125--6408341	113	1.9	111	90	2	346	31	20	14	32	1.93
6408391--6408537	58	2.5	57	84	6	181	18	23	20	38	1.94
6410082--6410128	21	2.2	21	85	7	60	51	6	8	34	1.58
6412923--6412961	19	2.1	19	85	4	53	64	5	5	25	1.35
6414970--6415029	29	2.1	29	100	0	120	25	18	40	16	1.91
6415844--6415885	4	10.0	4	80	19	50	23	0	2	73	0.94
6415842--6415885	9	5.1	9	86	13	58	25	0	2	72	0.96
6415836--6415882	21	2.2	21	85	7	60	25	0	2	72	0.96
6418170--6418232	25	2.5	25	100	0	126	30	33	0	36	1.58
6418786--6418812	12	2.2	12	100	0	54	44	0	7	48	1.31
6419286--6419313	14	2.0	14	100	0	56	28	21	14	35	1.92
6425718--6425774	29	1.9	30	85	3	80	28	12	17	42	1.85
6431790--6431842	19	2.7	19	85	8	63	60	5	1	32	1.31
6434621--6434696	40	1.9	40	86	5	109	22	28	26	22	1.99
6447752--6447795	23	1.9	23	86	9	63	68	2	20	9	1.28
6454554--6454585	15	2.1	15	100	0	64	31	18	31	18	1.95
6466704--6466738	6	5.8	6	100	0	70	17	68	0	14	1.21
6467948--6467992	23	2.0	23	86	0	63	28	13	17	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6469743--6469785	3	14.3	3	81	18	54	32	2	0	65	1.06
6469741--6469804	33	1.9	33	84	12	87	26	4	1	67	1.19
6472568--6472599	15	2.1	15	100	0	64	37	12	0	50	1.41
6481095--6481215	56	2.2	56	95	2	219	17	5	28	47	1.70
6486950--6486993	17	2.6	17	82	3	63	70	0	27	2	0.99
6487700--6487736	2	19.0	2	84	15	51	48	0	2	48	1.15
6487891--6487946	25	2.2	25	77	0	58	17	23	21	37	1.94
6487938--6487987	22	2.3	22	82	10	66	14	24	18	44	1.86
6491729--6491806	24	3.3	23	70	22	56	34	3	1	60	1.23
6493949--6493977	15	2.0	15	93	6	51	3	20	0	75	0.94
6505110--6505145	16	2.1	17	90	10	56	55	0	0	44	0.99
6505141--6505173	17	1.9	17	93	0	57	51	0	3	45	1.16
6505273--6505297	13	1.9	13	100	0	50	48	12	8	32	1.69
6505296--6505381	42	2.1	40	87	6	120	51	4	2	41	1.35
6505352--6505412	30	1.9	32	83	9	81	55	3	0	40	1.16
6507374--6507411	20	1.9	20	88	0	58	52	0	10	36	1.36
6508272--6508371	42	2.4	42	96	0	182	37	10	27	26	1.88
6508464--6508514	18	2.8	18	79	11	50	39	19	19	21	1.93
6508830--6508887	9	6.4	9	89	0	80	25	8	22	43	1.82
6509836--6509894	23	2.6	22	81	5	64	25	16	20	37	1.93
6509932--6509977	25	1.9	25	82	8	60	32	13	17	36	1.88
6510908--6510946	19	2.1	19	85	4	53	46	15	0	38	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6511407--6511465	31	1.9	30	89	3	91	32	20	0	47	1.50
6511567--6511733	25	6.9	25	85	6	202	34	16	27	21	1.95
6516711--6516740	1	30.0	1	93	0	51	0	96	3	0	0.21
6534062--6534194	33	3.7	34	73	17	126	30	27	21	21	1.98
6537348--6537390	20	2.2	20	95	0	77	48	0	11	39	1.40
6538731--6538787	2	28.5	2	100	0	114	0	0	49	50	1.00
6540294--6540339	22	2.1	22	84	8	58	43	0	4	52	1.21
6540307--6540351	22	2.1	21	84	12	56	44	0	0	55	0.99
6545824--6545857	18	1.9	17	88	5	50	55	2	0	41	1.15
6546426--6546475	10	5.1	10	75	4	57	30	6	12	52	1.62

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