genome.fa.s12.2.7.7.80.10.50.1000.100.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  100  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)
29494548--29494639	48	1.9	48	86	0	130	29	20	16	33	1.94
29495476--29495538	31	2.0	31	100	0	126	41	6	12	39	1.69
29499590--29499629	20	1.9	20	85	10	53	62	5	0	32	1.17
29502635--29502677	22	2.0	22	86	9	61	62	0	4	32	1.15
29502648--29502689	22	2.0	21	85	4	57	66	0	7	26	1.17
29503445--29503491	9	5.0	9	78	16	51	34	0	12	53	1.39
29503614--29503753	40	3.5	40	74	8	117	26	16	24	32	1.96
29508808--29508935	43	3.0	43	79	15	156	32	30	16	21	1.95
29513076--29513129	25	2.1	27	89	6	85	31	22	22	24	1.98
29513093--29513147	25	2.2	25	83	0	65	36	20	21	21	1.95
29513817--29513848	5	6.2	5	92	7	55	40	18	0	40	1.51
29524364--29524400	16	2.3	16	90	0	56	48	0	5	45	1.25
29534340--29534372	17	1.9	17	100	0	66	48	0	9	42	1.35
29535444--29535539	45	2.1	46	88	3	140	47	3	6	42	1.44
29540012--29540046	15	2.4	15	90	4	54	48	0	8	42	1.33
29541687--29541749	4	15.5	4	78	18	60	23	1	0	74	0.90
29541687--29541753	31	2.2	29	84	10	82	23	2	0	73	0.97
29542955--29543002	20	2.2	20	82	10	51	81	0	4	14	0.84
29543557--29543591	15	2.4	15	90	4	54	48	0	8	42	1.33
29544738--29544854	40	3.0	39	81	2	137	37	23	20	18	1.94
29544910--29545148	41	5.8	41	81	5	252	20	23	25	30	1.98
29544910--29545148	82	2.9	81	83	6	286	20	23	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29544914--29545148	123	1.9	123	85	3	321	20	22	25	31	1.98
29556206--29556376	66	2.6	65	85	4	218	41	18	27	12	1.87
29556347--29556459	21	5.4	21	84	2	84	35	17	42	4	1.70
29556358--29556459	42	2.4	42	85	0	123	35	17	43	3	1.68
29556805--29557116	43	7.3	43	81	3	315	21	19	31	27	1.97
29556825--29557116	86	3.4	86	85	0	361	22	19	31	26	1.98
29557044--29557139	43	2.3	42	87	5	131	23	30	25	20	1.99
29557044--29557158	42	2.7	43	82	4	108	21	29	26	22	1.99
29561444--29561476	14	2.4	14	94	0	57	60	0	0	39	0.97
29565069--29565108	20	2.0	20	90	0	62	55	20	25	0	1.44
29565303--29565536	104	2.3	103	81	4	263	20	29	23	26	1.99
29565340--29565575	104	2.3	104	81	1	249	22	30	22	24	1.99
29565527--29565620	42	2.2	42	80	9	102	17	34	22	26	1.96
29565415--29565767	146	2.4	145	83	1	440	20	32	23	24	1.98
29565653--29565761	41	2.7	41	82	7	123	17	36	24	21	1.94
29568957--29568982	6	4.3	6	100	0	52	15	0	46	38	1.46
29569165--29569572	125	3.3	125	91	0	638	31	17	19	31	1.95
29572769--29572987	49	4.5	49	96	0	375	46	8	2	42	1.48
29573408--29573450	18	2.4	18	84	0	50	44	9	25	20	1.81
29575218--29575266	22	2.2	22	82	10	64	48	0	28	22	1.50
29575218--29575266	11	4.5	10	78	16	53	48	0	28	22	1.50
29577762--29577822	19	3.3	19	77	11	63	70	1	1	26	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29578073--29578157	27	3.1	27	91	0	125	17	21	37	23	1.94
29581599--29581723	33	3.8	33	78	10	112	26	12	44	16	1.83
29582851--29582892	15	2.9	14	77	16	50	71	7	0	21	1.09
29582847--29582882	19	1.9	18	88	5	54	66	5	0	27	1.13
29582889--29583179	104	2.8	105	88	6	425	54	16	0	28	1.45
29583754--29583835	27	3.0	27	89	3	121	18	35	29	17	1.93
29600358--29600413	28	2.0	28	85	0	76	66	5	3	25	1.29
29607961--29607999	19	2.0	19	85	5	51	58	2	0	38	1.12
29608907--29608940	15	2.3	15	90	10	52	55	0	2	41	1.15
29611553--29611673	54	2.2	54	95	0	215	42	3	13	40	1.60
29621219--29621253	15	2.5	13	86	13	52	25	0	0	74	0.82
29621237--29621290	26	2.2	23	78	18	56	31	1	1	64	1.14
29621885--29622011	58	2.2	58	88	2	184	31	19	11	37	1.87
29622288--29622327	18	2.2	18	100	0	80	35	20	15	30	1.93
29624764--29624809	6	7.7	6	95	0	65	52	34	4	8	1.52
29634514--29634685	72	2.4	72	83	5	231	55	12	5	26	1.58
29643364--29643394	3	10.3	3	92	0	53	32	0	3	64	1.09
29652458--29652492	16	2.2	16	89	0	52	71	14	8	5	1.29
29653240--29653275	13	2.8	13	95	0	63	27	8	25	38	1.84
29653502--29653551	20	2.6	20	81	6	59	56	0	2	42	1.11
29656676--29656998	46	7.0	46	92	0	502	29	25	8	36	1.86
29663554--29663931	78	4.9	78	87	5	502	37	3	15	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29664528--29664784	41	6.2	41	87	2	338	29	20	26	24	1.99
29675548--29675575	4	7.0	4	100	0	56	25	0	0	75	0.81
29678931--29679065	67	2.0	67	97	0	252	28	33	18	20	1.96
29680030--29680063	16	2.1	16	100	0	68	41	5	0	52	1.25
29682865--29682906	21	2.0	21	100	0	84	28	23	9	38	1.86
29685541--29685578	19	2.1	18	85	14	51	44	0	2	52	1.14
29690376--29690450	31	2.4	31	97	0	141	22	14	20	42	1.88
29690505--29690543	20	2.0	20	90	10	62	25	25	20	28	1.99
29697800--29697824	12	2.1	12	100	0	50	24	36	24	16	1.94
29697985--29698024	9	4.4	9	100	0	80	35	30	10	25	1.88
29700730--29700793	19	3.2	19	70	24	51	53	0	4	42	1.22
29701156--29701203	19	2.5	20	76	10	55	33	14	8	43	1.75
29701639--29701664	3	8.7	3	100	0	52	30	0	0	69	0.89
29704538--29704586	3	16.3	3	100	0	98	32	0	0	67	0.91
29704803--29704843	18	2.2	20	87	12	61	53	4	0	41	1.22
29710389--29710469	40	2.0	40	100	0	162	30	22	7	39	1.81
29710566--29710634	23	3.0	23	89	0	111	31	24	21	21	1.98
29717797--29717984	51	3.7	51	86	2	245	32	26	15	25	1.96
29724617--29724685	23	3.0	23	84	0	102	33	27	18	20	1.96
29726526--29726582	10	5.6	10	77	10	53	26	3	3	66	1.24
29726536--29726582	20	2.4	19	86	10	67	27	4	2	65	1.22
29726851--29726915	33	2.0	33	90	0	103	24	21	33	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29728311--29728639	163	2.0	163	92	0	550	31	15	11	41	1.83
29729387--29729420	16	2.2	15	89	5	50	32	0	0	67	0.91
29729586--29729619	15	2.3	15	89	0	50	29	17	0	52	1.45
29729674--29729698	5	5.0	5	100	0	50	80	0	0	20	0.72
29729793--29729845	2	27.0	2	96	3	99	49	0	0	50	1.00
29732960--29733007	21	2.2	21	85	3	60	50	2	2	45	1.25
29733037--29733069	9	3.9	9	84	15	52	33	0	9	57	1.30
29733034--29733073	16	2.5	16	91	0	71	37	0	7	55	1.29
29734978--29735028	22	2.3	22	81	15	61	68	0	0	31	0.90
29734978--29735026	11	4.4	12	79	20	54	67	0	0	32	0.91
29737031--29737071	20	2.0	20	86	9	57	65	2	0	31	1.05
29738564--29738615	27	1.9	27	92	0	86	17	21	34	26	1.95
29740502--29740529	2	14.0	2	100	0	56	0	50	0	50	1.00
29742338--29742363	2	13.0	2	100	0	52	50	0	0	50	1.00
29743044--29743110	29	2.3	29	80	16	77	56	2	8	31	1.45
29743349--29743382	17	2.0	17	88	0	50	35	0	20	44	1.52
29746787--29746880	44	2.1	44	92	0	152	37	12	5	44	1.65
29748592--29748636	21	2.1	21	95	0	81	31	11	11	46	1.74
29751106--29751153	24	2.0	24	88	8	71	27	2	10	60	1.41
29751665--29752029	193	1.9	194	86	2	529	39	12	20	27	1.88
29758666--29758720	19	2.9	19	89	5	76	56	7	0	36	1.27
29762031--29762071	2	20.5	2	100	0	82	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29770533--29770580	24	2.0	24	88	4	71	70	16	4	8	1.27
29771206--29771238	11	2.9	11	95	4	57	45	0	33	21	1.52
29773168--29773306	42	3.3	42	73	6	120	23	26	23	25	2.00
29780666--29780775	53	2.1	53	98	0	211	38	19	15	27	1.91
29782118--29782181	33	2.0	32	84	6	85	26	12	7	53	1.66
29782889--29782979	41	2.2	41	100	0	182	20	9	39	29	1.85
29784147--29784294	31	4.8	31	75	11	124	43	16	10	29	1.81
29784184--29784704	31	16.9	31	76	9	404	43	17	7	31	1.76
29784410--29784612	61	3.3	60	72	11	178	44	17	6	32	1.74
29784353--29784589	125	1.9	125	98	0	456	44	16	5	33	1.71

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