genome.fa.s12.2.7.7.80.10.50.1000.86.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  86  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)
25736842--25736875	15	2.4	14	90	5	50	26	2	0	70	1.01
25745396--25745440	19	2.3	20	88	3	65	24	35	0	40	1.56
25756936--25756971	17	2.1	18	89	5	56	63	0	0	36	0.94
25757124--25757164	20	2.0	20	85	0	55	56	0	9	34	1.32
25758312--25758342	15	2.1	15	93	0	53	19	19	29	32	1.96
25768707--25768740	18	1.9	18	88	5	52	29	20	2	47	1.65
25769280--25769315	17	2.1	17	94	0	63	72	8	0	19	1.10
25769730--25769772	11	4.2	10	85	11	52	16	0	9	74	1.06
25769730--25769769	20	2.0	20	85	9	55	15	0	7	77	0.98
25771035--25771274	123	2.0	123	97	1	455	28	16	22	32	1.96
25774143--25774573	30	14.6	30	81	12	493	29	0	23	46	1.59
25774143--25774571	124	3.7	120	84	11	570	29	0	23	46	1.59
25774343--25774522	23	6.9	23	72	23	126	30	0	23	46	1.53
25774209--25774552	82	4.0	83	86	8	444	29	0	23	46	1.58
25775773--25775817	7	6.4	7	94	0	72	66	13	0	20	1.24
25776752--25776807	25	2.3	25	80	14	64	62	5	0	32	1.18
25776898--25776964	31	2.2	31	94	0	116	65	0	1	32	1.02
25776898--25776949	10	5.1	10	74	4	50	69	0	1	28	0.99
25776998--25777048	22	2.3	21	90	9	84	35	0	35	29	1.58
25777020--25777078	30	2.0	30	93	0	100	35	1	35	27	1.67
25776997--25777099	52	2.0	52	96	0	188	35	0	33	29	1.64
25777052--25777099	22	2.2	22	92	0	78	39	2	35	22	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25778476--25778521	7	6.7	7	97	2	85	45	39	0	15	1.46
25795058--25795174	51	2.3	51	82	8	134	23	24	11	41	1.87
25803886--25803937	25	2.1	25	96	0	95	42	5	7	44	1.57
25818775--25818899	26	4.9	25	76	7	108	58	6	8	27	1.51
25818775--25818963	26	7.5	24	73	15	105	59	4	7	27	1.46
25818898--25818964	28	2.6	27	83	9	86	64	1	7	26	1.29
25818916--25818982	28	2.5	28	85	9	86	62	0	5	31	1.19
25818818--25818982	26	6.4	27	71	15	88	60	3	7	28	1.42
25819109--25819149	15	2.8	16	82	10	52	70	2	0	26	0.99
25828704--25828742	2	19.5	2	100	0	78	48	0	0	51	1.00
25844450--25844482	5	6.6	5	100	0	66	18	21	18	42	1.89
25844716--25844750	16	2.2	16	90	5	54	40	8	17	34	1.80
25852989--25853031	18	2.4	18	80	7	52	30	4	0	65	1.13
25864134--25864166	14	2.5	14	90	9	52	66	0	15	18	1.25
25865435--25865963	44	11.3	44	70	18	338	33	19	21	26	1.97
25865435--25865957	98	5.6	95	68	19	305	33	19	21	26	1.97
25865444--25866014	142	4.0	142	93	0	964	33	19	20	26	1.97
25872993--25873100	31	3.5	30	79	12	103	42	12	9	36	1.74
25874722--25874767	18	2.6	18	89	0	65	43	8	8	39	1.66
25875650--25875722	30	2.4	29	79	16	78	41	8	5	45	1.57
25880794--25880830	5	7.4	5	100	0	74	18	0	0	81	0.70
25880783--25880821	15	2.5	15	87	4	51	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25885487--25885520	7	4.7	7	89	7	50	14	38	0	47	1.45
25885487--25885520	15	2.4	14	90	5	50	14	38	0	47	1.45
25890279--25890311	2	16.5	2	93	0	57	45	3	0	51	1.16
25890464--25890505	14	3.1	14	83	10	52	76	11	0	11	1.03
25890464--25890506	13	3.1	14	78	21	54	76	11	0	11	1.02
25890464--25890512	15	3.3	15	77	13	57	73	14	0	12	1.10
25891760--25891807	20	2.4	21	80	16	57	22	8	2	66	1.29
25891809--25891849	15	2.7	16	81	11	50	21	9	2	65	1.34
25891985--25892009	12	2.1	12	100	0	50	24	8	0	68	1.16
25902875--25902945	35	2.0	35	97	0	133	18	25	28	28	1.98
25903256--25903316	25	2.3	26	81	10	63	34	4	3	57	1.36
25903296--25903331	12	2.9	12	88	8	54	33	8	0	58	1.28
25906667--25906712	11	4.3	10	79	15	56	76	0	10	13	1.03
25906681--25906721	12	3.6	11	87	12	57	73	0	12	14	1.11
25906670--25906721	22	2.3	23	90	3	79	71	0	13	15	1.15
25908046--25908421	50	7.5	50	72	5	330	34	23	18	23	1.96
25908032--25908491	200	2.3	200	89	1	656	33	23	19	23	1.97
25908031--25908422	100	3.9	100	96	0	703	33	23	19	23	1.97
25909950--25909999	12	3.9	12	82	10	55	30	10	2	58	1.42
25909951--25910010	25	2.3	27	80	13	72	31	8	3	56	1.45
25913377--25913421	23	2.0	23	90	0	72	31	33	6	28	1.83
25913397--25913483	44	2.0	44	88	0	129	32	20	18	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25913405--25913659	138	1.8	138	79	0	294	30	20	21	28	1.98
25913813--25913858	14	3.3	14	77	22	60	78	10	0	10	0.97
25913813--25913859	15	3.3	15	76	11	62	78	10	0	10	0.96
25915240--25915300	3	20.7	3	96	3	115	31	0	0	68	0.89
25915432--25915456	12	2.1	12	100	0	50	24	8	0	68	1.16
25916177--25916219	17	2.6	16	82	7	59	11	11	4	72	1.27
25917134--25917197	3	21.3	3	93	0	110	32	1	0	65	1.02
25919554--25919653	19	5.3	19	73	7	87	33	26	22	19	1.97
25919559--25919653	38	2.5	38	79	3	111	33	26	21	18	1.96
25925438--25925471	10	3.4	10	91	0	50	47	14	2	35	1.60
25926311--25926342	2	16.0	2	100	0	64	50	0	0	50	1.00
25929715--25929802	9	9.6	9	75	3	77	28	3	1	67	1.14
25940106--25940189	15	5.8	14	72	12	71	52	29	1	16	1.52
25940106--25940188	7	11.4	7	75	5	58	51	30	1	16	1.52
25940114--25940189	29	2.6	29	83	4	82	52	28	1	17	1.52
25941276--25941613	168	2.0	168	99	0	667	44	11	13	30	1.78
25948343--25948389	20	2.5	20	86	6	62	40	0	29	29	1.57
25951607--25951644	2	19.0	2	100	0	76	50	0	0	50	1.00
25954143--25954320	72	2.5	71	81	7	198	35	19	22	22	1.95
25967189--25967274	45	1.9	45	90	0	136	40	19	22	17	1.91
25967936--25967993	24	2.4	24	97	0	107	32	10	25	31	1.89
25968282--25968449	51	3.4	51	81	8	220	32	17	23	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25968292--25968434	46	3.0	46	80	9	178	30	18	21	29	1.97
25969219--25969259	14	2.9	14	88	0	55	19	2	0	78	0.87
25969221--25969259	18	2.2	18	85	0	51	20	2	0	76	0.90
25971229--25971293	24	2.8	23	76	4	69	38	13	12	35	1.83
25971262--25971344	23	3.6	23	79	11	80	36	19	9	34	1.84
25974138--25974176	11	3.4	12	82	10	55	61	0	0	38	0.96
25978364--25978588	111	2.0	111	93	1	389	46	15	11	27	1.79
25981216--25981258	15	2.9	15	80	13	52	6	0	9	83	0.80
25981697--25981750	10	5.9	9	78	20	58	62	1	0	35	1.06
25981699--25981760	20	3.3	19	76	19	58	61	3	1	33	1.22
25981702--25981761	19	3.3	17	75	17	50	60	3	1	35	1.23
25984253--25984464	106	2.0	106	93	0	361	38	11	21	28	1.88
25985159--25985725	126	4.5	124	88	2	805	29	17	23	29	1.97
25985159--25985725	250	2.3	250	89	3	829	29	17	23	29	1.97
25988896--25989609	22	33.0	22	78	8	686	25	0	27	45	1.59
25988896--25989609	195	3.7	194	86	4	908	25	0	27	45	1.59
25989483--25989535	16	3.5	16	80	7	58	22	0	30	47	1.52
25990111--25990154	18	2.4	18	84	0	61	47	9	27	15	1.76
25991778--25991974	98	2.0	98	93	0	340	26	10	25	37	1.89
25995943--25996126	44	4.2	44	67	12	135	30	20	23	25	1.98
25995941--25996195	131	1.9	132	95	0	458	30	20	25	24	1.99
25996300--25996639	44	7.7	44	64	17	114	30	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25996296--25996762	132	3.5	132	90	2	733	29	19	25	25	1.98
25998613--25998809	98	2.0	98	92	0	331	27	10	25	37	1.88
25999227--25999251	7	3.6	7	100	0	50	60	12	0	28	1.32
26000393--26000490	51	1.9	51	87	4	144	43	3	26	26	1.69
26000452--26000506	11	4.9	11	71	20	51	43	1	29	25	1.65
26000452--26000506	22	2.5	22	85	11	76	43	1	29	25	1.65
26002749--26002799	23	2.3	22	90	6	84	17	19	11	50	1.76
26004607--26004730	58	2.1	60	83	7	173	43	2	2	51	1.27
26004611--26004750	59	2.4	58	84	8	187	44	2	2	50	1.31
26007673--26007700	14	2.0	14	100	0	56	7	28	0	64	1.20

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