genome.fa.s12.2.7.7.80.10.50.1000.46.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  46  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)
12469025--12469078	15	3.4	16	80	19	53	53	0	0	46	1.00
12469044--12469078	18	2.0	17	88	5	52	54	0	0	45	0.99
12468963--12469293	120	2.8	120	97	0	626	50	4	1	43	1.31
12468963--12469249	59	4.8	60	70	11	212	50	4	1	42	1.34
12469145--12469198	15	3.4	16	80	19	53	53	0	0	46	1.00
12469164--12469198	18	2.0	17	88	5	52	54	0	0	45	0.99
12469190--12469219	15	1.9	16	93	6	53	50	6	0	43	1.28
12472459--12472498	20	2.0	20	90	0	62	27	10	12	50	1.72
12472444--12472510	34	1.9	35	87	3	100	31	10	13	44	1.77
12474572--12474623	25	2.1	25	92	7	88	38	9	26	25	1.86
12474976--12475041	33	2.0	33	93	0	114	37	4	18	39	1.71
12475255--12475291	19	1.9	19	94	0	65	35	0	21	43	1.53
12475491--12475545	26	2.1	27	96	3	103	45	0	1	52	1.11
12475530--12475564	18	1.9	18	88	0	52	37	0	5	57	1.23
12476187--12476219	15	2.2	15	100	0	66	69	0	12	18	1.18
12477385--12477415	9	3.6	9	91	8	55	32	22	9	35	1.87
12483120--12483223	35	3.0	35	92	2	165	36	8	11	43	1.72
12486115--12486162	24	2.0	24	91	0	78	31	14	22	31	1.94
12495871--12495935	28	2.3	28	97	0	121	23	27	15	33	1.95
12501486--12501529	12	3.8	12	81	3	54	40	0	0	59	0.98
12503175--12503207	14	2.4	14	94	0	57	24	24	15	36	1.93
12505808--12506185	125	3.0	124	91	2	578	32	21	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12510410--12510435	13	2.0	13	100	0	52	15	0	7	76	0.99
12510756--12510785	6	4.8	6	95	4	51	16	13	0	70	1.18
12524586--12524612	11	2.5	11	100	0	54	22	7	18	51	1.70
12525356--12525550	93	2.1	92	88	4	286	44	4	4	47	1.41
12525583--12525616	17	2.0	17	94	0	59	44	5	0	50	1.26
12525583--12525621	17	2.4	16	87	8	53	43	5	0	51	1.24
12525587--12525626	17	2.3	18	83	12	57	47	5	0	47	1.24
12525717--12525840	15	8.1	15	67	24	64	43	2	3	50	1.31
12525582--12525800	120	1.8	119	88	8	338	40	4	5	49	1.45
12525808--12525849	15	2.7	16	82	14	52	45	0	2	52	1.13
12525799--12526096	154	1.9	156	95	2	546	47	5	3	44	1.40
12525949--12525983	18	2.0	17	88	5	52	45	0	0	54	0.99
12526216--12526254	16	2.4	16	86	0	51	28	33	2	35	1.71
12526229--12526285	16	3.6	16	95	0	87	33	36	0	29	1.58
12544750--12544774	13	1.9	13	100	0	50	48	4	16	32	1.64
12548922--12549308	27	14.3	27	85	1	452	19	18	20	41	1.90
12551812--12551898	28	3.1	27	83	9	113	32	22	22	21	1.98
12552282--12552340	27	2.2	27	84	0	73	27	18	20	33	1.96
12552292--12552684	27	14.5	27	78	2	358	20	17	20	41	1.90
12556881--12556914	18	1.9	18	94	5	61	8	41	32	17	1.80
12560026--12560100	26	2.9	26	88	2	107	41	24	18	16	1.90
12560577--12560601	5	5.0	5	100	0	50	40	20	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12568010--12568044	12	2.9	12	95	0	61	25	20	22	31	1.98
12569460--12569501	18	2.3	18	91	0	66	23	9	26	40	1.85
12571775--12571821	24	2.0	24	82	0	58	17	8	10	63	1.49
12572676--12572714	7	5.6	7	96	0	69	51	0	2	46	1.14
12584908--12584955	23	2.0	25	88	8	73	37	20	0	41	1.53
12585159--12585280	23	5.3	23	89	3	192	29	26	22	22	1.99
12585159--12585280	46	2.7	46	94	0	217	29	26	22	22	1.99
12598437--12598515	31	2.6	30	82	6	79	43	10	10	36	1.72
12599403--12599429	8	3.4	8	100	0	54	55	0	0	44	0.99
12601517--12601572	28	2.0	28	100	0	112	42	17	14	25	1.87
12601906--12601954	19	2.7	18	84	12	57	55	0	0	44	0.99
12602199--12602256	8	7.1	8	81	16	57	17	6	0	75	1.01
12602196--12602256	16	3.8	16	80	20	72	19	6	0	73	1.04
12602189--12602256	25	2.7	25	86	6	93	20	5	0	73	1.04
12602189--12602308	9	13.4	9	73	12	79	22	5	0	72	1.04
12602229--12602292	20	3.4	19	80	18	71	26	1	0	71	0.94
12602199--12602309	17	6.4	16	74	13	69	20	5	0	73	1.02
12604935--12604959	2	12.5	2	100	0	50	48	0	0	52	1.00
12610513--12610676	59	2.8	59	84	9	201	42	1	3	51	1.30
12610857--12610897	16	2.6	16	88	0	55	24	29	7	39	1.82
12611140--12611184	14	3.1	15	81	9	58	46	4	0	48	1.22
12611144--12611184	2	22.0	2	80	14	52	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12611238--12611375	23	5.9	23	67	17	72	52	3	3	40	1.36
12611314--12611415	23	4.6	23	74	16	99	52	2	2	41	1.31
12615940--12616199	51	5.3	51	86	6	383	29	23	15	31	1.95
12615940--12616206	95	2.7	95	90	4	392	29	23	15	31	1.95
12623217--12623247	3	10.7	3	93	6	55	32	0	0	67	0.91
12624140--12624171	3	10.7	3	100	0	64	68	0	0	31	0.90
12628773--12628805	17	1.9	17	93	0	57	57	6	15	21	1.59
12629223--12629273	21	2.4	21	86	0	66	21	35	7	35	1.83
12635707--12635747	16	2.6	16	88	0	55	39	2	34	24	1.69
12635720--12635755	16	2.2	16	95	0	63	38	0	30	30	1.58
12635734--12635824	45	2.0	44	85	2	119	31	5	27	35	1.80
12637904--12637936	16	2.0	17	94	5	59	21	30	0	48	1.50
12639457--12639681	47	4.9	46	70	19	184	47	3	2	47	1.32
12639567--12639758	101	2.0	92	76	13	174	46	3	3	47	1.34
12639423--12639681	91	2.8	91	97	0	482	47	3	2	47	1.30
12639831--12639876	16	2.9	16	78	12	51	45	0	2	52	1.13
12639566--12639973	221	1.8	225	84	7	571	44	2	4	48	1.35
12639766--12639981	107	2.0	109	95	1	391	43	1	5	49	1.35
12639938--12639979	15	2.7	16	82	14	52	45	0	2	52	1.13
12639929--12639970	15	2.9	15	82	10	52	47	0	0	52	1.00
12640113--12640217	44	2.5	40	76	15	113	31	29	4	34	1.78
12640111--12640220	45	2.6	44	81	8	131	31	29	5	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12640201--12640252	16	3.2	16	94	0	86	34	36	0	28	1.58
12645583--12645645	23	2.7	23	83	16	94	53	22	7	15	1.67
12649959--12649991	14	2.4	14	85	14	50	57	6	6	30	1.47
12659876--12659918	22	2.0	22	81	4	52	74	6	11	6	1.21
12668652--12668721	25	2.8	25	88	0	95	25	24	15	34	1.95
12668704--12668741	19	2.0	19	89	0	58	23	26	15	34	1.95
12668678--12668765	44	2.0	44	86	0	122	22	25	17	35	1.95
12668735--12668821	22	3.8	22	82	10	86	17	26	19	36	1.94
12669075--12669115	11	3.4	12	86	6	57	65	0	24	9	1.22
12682618--12682678	30	2.0	30	96	0	113	42	27	0	29	1.56
12696277--12696332	24	2.3	25	84	9	80	28	10	51	8	1.66
12700036--12700064	7	4.3	7	95	4	51	58	0	41	0	0.98
12704789--12704862	29	2.5	29	86	4	94	50	14	14	20	1.78
12708348--12708385	15	2.4	16	87	12	53	73	2	10	13	1.19
12710660--12710720	26	2.4	26	88	2	88	34	16	6	42	1.74
12710673--12710733	26	2.4	25	83	8	77	36	16	8	39	1.78
12714706--12714838	62	2.2	58	82	6	160	39	3	3	53	1.34
12718576--12718609	13	2.6	13	100	0	68	32	20	5	41	1.76
12719512--12719537	2	13.0	2	100	0	52	50	0	0	50	1.00
12722653--12722687	18	1.9	18	94	0	61	5	5	45	42	1.51
12727299--12727365	24	2.8	24	71	8	64	70	4	1	23	1.14
12727791--12727841	24	2.1	24	82	7	59	33	3	0	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12727809--12727852	17	2.4	18	88	11	63	34	0	0	65	0.93
12732774--12732895	62	2.0	61	82	7	149	39	4	7	48	1.53
12735940--12735969	15	1.9	16	93	6	53	40	0	0	60	0.97
12736325--12736508	22	8.1	22	83	7	224	15	23	19	41	1.90
12736314--12736506	47	4.2	46	90	3	291	16	24	19	40	1.91
12736337--12736508	69	2.5	66	81	8	209	15	23	19	41	1.89
12743364--12743411	21	2.3	21	92	0	78	20	31	16	31	1.95
12743377--12743419	21	2.0	21	86	0	59	23	25	18	32	1.97
12745053--12745567	126	4.1	126	89	1	764	27	17	16	38	1.91
12745665--12745771	34	3.2	32	80	12	117	45	14	0	38	1.52

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