genome.fa.s12.2.7.7.80.10.50.1000.85.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  85  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)
25373810--25373960	40	3.7	40	84	4	187	41	19	23	15	1.90
25374045--25374088	21	2.1	21	87	8	63	34	34	0	31	1.58
25382540--25382579	13	3.1	13	86	10	55	55	12	15	17	1.70
25384594--25384637	22	2.0	22	82	8	54	27	2	11	59	1.44
25390596--25390665	9	8.0	9	81	9	65	48	18	0	32	1.48
25392219--25392416	43	4.6	43	84	2	209	22	16	30	29	1.96
25392238--25392416	86	2.1	86	86	0	241	21	15	31	31	1.94
25394079--25394103	11	2.3	11	100	0	50	76	0	0	24	0.80
25394669--25394739	20	3.5	20	94	0	124	15	46	18	19	1.84
25405538--25405603	22	3.0	21	82	8	60	33	3	1	62	1.20
25407119--25407180	27	2.3	28	86	5	83	35	8	27	29	1.85
25407266--25407426	54	3.0	54	83	3	173	35	10	27	26	1.89
25421712--25421751	21	1.9	21	84	0	53	22	5	0	72	1.04
25426380--25426414	18	1.9	18	88	0	52	28	17	11	42	1.83
25426549--25426587	10	3.9	10	100	0	78	51	28	0	20	1.48
25432311--25432472	73	2.2	73	89	4	247	28	17	19	34	1.95
25443913--25443960	20	2.5	19	75	18	55	60	2	16	20	1.46
25448467--25448528	20	3.1	20	67	17	56	37	22	27	12	1.91
25448470--25448556	40	2.2	40	85	0	111	34	22	27	14	1.94
25448496--25448622	68	1.9	68	81	0	155	34	16	27	21	1.95
25448564--25448694	40	3.3	40	85	2	174	33	15	29	21	1.94
25448468--25448664	108	1.8	108	79	0	232	34	17	28	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25451623--25451665	21	2.0	21	86	13	61	37	23	0	39	1.55
25487128--25487187	28	2.2	27	88	8	86	20	21	25	33	1.97
25489877--25489918	22	2.0	20	86	9	57	40	7	0	52	1.29
25490279--25490407	67	1.9	67	87	3	188	20	24	7	47	1.76
25495045--25495168	61	2.0	61	100	0	248	46	14	16	22	1.83
25499398--25499476	36	2.2	36	86	6	106	17	16	29	36	1.92
25500860--25500988	66	2.0	66	88	0	195	23	23	34	19	1.97
25500926--25501137	50	4.2	50	82	0	253	26	20	31	21	1.98
25500926--25501137	100	2.1	101	85	0	282	26	20	31	21	1.98
25508480--25508821	50	6.8	50	84	1	425	26	22	30	20	1.98
25508480--25508821	99	3.4	100	86	1	434	26	22	30	20	1.98
25508480--25508821	149	2.3	150	85	1	452	26	22	30	20	1.98
25512784--25512877	35	2.6	34	73	12	82	67	1	2	29	1.10
25513386--25513411	6	4.3	6	100	0	52	0	19	0	80	0.71
25516796--25516836	21	1.9	22	90	5	66	14	4	14	65	1.42
25517684--25517747	19	3.2	20	88	8	94	75	15	1	7	1.11
25521102--25521235	24	5.4	24	68	13	67	70	0	24	3	1.08
25521114--25521172	30	1.9	32	83	13	79	69	1	25	3	1.13
25521145--25521226	31	2.6	32	78	18	91	71	1	23	3	1.08
25521172--25521242	26	2.8	24	82	14	81	70	0	22	7	1.11
25521149--25521233	26	3.4	26	75	16	81	72	1	21	4	1.09
25538804--25538839	12	3.1	12	88	4	56	77	13	5	2	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25545729--25545769	19	2.2	19	100	0	82	48	17	14	19	1.81
25550876--25550916	20	2.0	20	85	0	55	39	24	2	34	1.69
25551971--25552062	21	4.3	21	68	5	67	46	18	20	14	1.83
25551994--25552102	42	2.5	42	89	2	155	48	17	19	14	1.81
25553994--25554083	2	45.0	2	100	0	180	50	50	0	0	1.00
25559084--25559202	32	3.8	30	69	10	87	40	16	10	32	1.82
25564578--25564692	38	3.0	38	90	1	176	3	26	10	60	1.46
25570613--25570736	44	2.7	46	70	18	107	45	2	3	49	1.31
25570928--25570969	15	2.8	15	85	7	59	45	0	2	52	1.13
25571047--25571088	15	2.7	16	82	14	52	45	0	2	52	1.13
25571038--25571079	15	2.9	15	82	10	52	47	0	0	52	1.00
25571216--25571320	44	2.5	40	76	18	115	32	29	3	34	1.76
25571214--25571323	45	2.6	44	81	11	133	32	29	4	33	1.78
25571302--25571355	16	3.4	16	92	0	90	27	35	1	35	1.68
25572242--25572277	17	2.1	18	89	5	56	66	11	2	19	1.35
25573025--25573058	12	2.8	12	90	0	50	58	5	2	32	1.37
25574400--25574500	51	2.0	51	84	0	130	31	23	13	30	1.94
25574661--25574758	51	1.9	51	87	0	142	29	22	16	31	1.96
25574535--25574761	123	1.8	123	82	1	294	27	23	16	32	1.96
25574787--25575336	51	11.3	51	75	9	486	28	23	17	31	1.97
25574787--25575365	97	6.0	97	88	1	804	28	23	17	30	1.97
25575676--25575733	24	2.4	24	88	0	89	31	22	10	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25585325--25585351	7	3.9	7	100	0	54	74	0	14	11	1.08
25591832--25591867	17	2.1	17	100	0	72	27	11	16	44	1.82
25592191--25592368	87	2.0	92	90	6	285	29	13	8	48	1.72
25592191--25592368	44	4.0	44	92	4	277	29	13	8	48	1.72
25593947--25593971	9	2.8	9	100	0	50	20	12	8	60	1.57
25601843--25601924	40	2.0	40	92	0	137	41	17	7	34	1.77
25604028--25604104	26	2.7	29	80	17	97	59	1	24	14	1.42
25604034--25604102	26	2.6	26	95	4	120	57	1	24	15	1.46
25606979--25607074	45	2.1	45	88	3	140	53	9	5	32	1.55
25615355--25615517	82	2.0	82	95	0	290	47	14	6	32	1.68
25618007--25618048	14	2.9	14	82	13	50	54	2	9	33	1.46
25634703--25634730	14	2.0	14	100	0	56	50	0	0	50	1.00
25639038--25639107	6	12.0	6	79	14	76	54	0	0	45	0.99
25639056--25639091	19	1.9	18	94	5	63	58	0	0	41	0.98
25639161--25639185	10	2.5	10	100	0	50	36	0	0	64	0.94
25640059--25640120	21	3.1	20	78	19	67	43	1	1	53	1.20
25655369--25655417	19	2.5	20	83	6	73	18	14	8	59	1.59
25668649--25669704	44	23.9	44	79	4	942	31	12	23	32	1.92
25668620--25668769	45	3.4	45	80	9	189	28	19	24	28	1.98
25668624--25669704	441	2.4	442	92	2	1782	31	12	23	32	1.92
25668649--25669696	88	11.9	88	88	1	1345	31	12	22	32	1.92
25670580--25670613	18	1.9	17	88	5	50	11	8	11	67	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25671559--25671613	16	3.5	15	75	22	51	38	7	0	54	1.28
25673294--25673384	20	4.6	19	72	11	67	20	15	14	49	1.79
25673349--25673458	40	2.8	39	75	15	109	23	10	10	55	1.64
25674519--25674592	20	3.7	20	75	5	69	18	21	2	56	1.54
25674519--25674573	21	2.7	21	77	2	67	20	20	0	60	1.37
25674412--25674571	81	2.0	80	79	9	173	22	20	6	50	1.71
25674581--25674630	20	2.5	20	83	0	64	18	16	10	56	1.67
25675040--25675122	20	4.1	20	67	13	53	49	13	20	16	1.79
25676047--25676144	48	2.0	48	90	3	153	16	17	11	55	1.69
25681081--25681133	3	17.7	3	100	0	106	67	0	0	32	0.91
25681742--25681827	30	2.9	30	87	1	120	47	6	3	41	1.47
25681759--25681827	30	2.3	30	95	2	122	47	8	4	39	1.54
25682374--25682402	2	14.5	2	100	0	58	51	0	0	48	1.00
25682402--25682496	2	47.5	2	100	0	190	50	0	49	0	1.00
25683947--25683991	23	2.0	23	91	4	74	46	17	4	31	1.68
25683973--25684025	19	3.0	17	73	10	52	33	18	9	37	1.83
25683944--25684001	22	2.6	22	86	7	82	43	18	3	34	1.68
25688335--25689018	345	2.0	344	93	0	1172	19	27	17	34	1.95
25690262--25690306	23	2.0	23	91	4	74	46	15	4	33	1.66
25690259--25690316	22	2.6	22	86	7	82	43	17	3	36	1.66
25690288--25690340	19	3.0	17	73	10	52	33	20	9	35	1.85
25690985--25691037	22	2.4	22	100	0	106	18	33	13	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25693763--25693993	123	1.9	121	87	8	348	49	14	2	33	1.57
25693977--25694034	28	2.1	28	78	6	75	60	18	0	20	1.36
25707302--25707410	41	2.6	41	92	1	173	24	22	27	24	2.00
25716828--25716853	13	2.0	13	100	0	52	23	0	0	76	0.78
25717956--25718020	16	4.4	16	70	16	52	76	0	1	21	0.86
25720459--25720492	17	2.0	17	94	0	59	38	2	11	47	1.55
25724787--25724868	38	2.1	39	90	2	130	64	0	1	34	1.01
25724819--25724898	30	2.7	30	90	0	115	63	1	2	32	1.15
25728028--25728080	25	2.1	25	100	0	106	24	32	11	32	1.91
25736629--25736675	23	2.0	23	83	4	58	23	17	31	27	1.96

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