genome.fa.s12.2.7.7.80.10.50.1000.91.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  91  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)
27072718--27072749	15	2.1	15	100	0	64	46	0	6	46	1.27
27076733--27076812	30	2.7	30	82	1	99	38	20	16	25	1.92
27080334--27080432	26	3.8	26	89	0	135	28	14	13	44	1.82
27080581--27080619	6	6.5	6	93	0	69	17	30	0	51	1.46
27090604--27090657	20	2.6	20	88	5	72	37	0	0	62	0.95
27093841--27093928	28	3.2	26	73	19	81	29	22	4	43	1.73
27094685--27094715	16	1.9	16	93	0	53	32	3	0	64	1.09
27095657--27095681	3	8.3	3	100	0	50	68	0	32	0	0.90
27101942--27102055	41	2.8	39	84	10	140	18	22	28	30	1.97
27102152--27102202	26	2.0	26	84	0	66	58	5	11	23	1.55
27102687--27102890	89	2.3	89	95	0	365	27	1	25	44	1.65
27103349--27103392	2	22.5	2	95	4	81	52	0	0	47	1.00
27103639--27103693	23	2.5	22	80	8	60	49	7	0	43	1.30
27105867--27105929	33	1.9	33	93	0	108	20	0	14	65	1.27
27106976--27107806	9	92.1	9	67	22	190	45	13	1	39	1.51
27107011--27107043	16	2.1	16	100	0	66	45	24	0	30	1.53
27106977--27107074	47	2.0	49	86	5	137	47	15	1	35	1.52
27107043--27107789	65	11.5	65	75	15	486	46	12	1	39	1.50
27107043--27107787	34	21.9	34	73	16	559	46	12	1	39	1.50
27107343--27107533	50	3.5	50	70	19	157	42	15	1	40	1.54
27107290--27107598	115	2.7	115	97	0	591	44	14	1	39	1.54
27107393--27107498	25	4.0	25	68	27	58	47	16	0	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27107467--27107498	16	2.0	16	100	0	64	43	25	0	31	1.55
27107505--27107570	31	2.2	28	77	12	60	46	12	1	39	1.50
27107773--27107805	16	2.1	16	100	0	66	45	24	0	30	1.53
27111135--27111300	66	2.5	65	87	4	226	40	19	26	13	1.89
27111303--27111388	21	4.1	21	81	0	100	32	16	44	6	1.74
27111287--27111385	42	2.4	42	84	0	117	35	17	41	6	1.74
27111720--27111855	43	3.1	43	83	1	164	25	16	30	28	1.96
27112017--27112088	31	2.3	31	95	0	126	34	25	22	18	1.96
27112073--27112116	22	2.0	22	91	8	72	40	27	20	11	1.86
27115362--27115392	9	3.4	9	90	0	53	25	12	22	38	1.90
27115445--27115481	9	4.1	9	92	0	65	45	13	10	29	1.77
27121596--27121627	5	6.4	5	100	0	64	21	0	18	59	1.38
27124407--27124593	53	3.5	52	81	6	207	31	19	24	25	1.98
27127324--27127374	22	2.3	22	83	6	59	11	11	47	29	1.76
27127808--27127868	28	2.1	29	85	11	81	26	8	0	65	1.20
27127808--27127882	24	2.9	27	77	16	79	26	6	0	66	1.16
27130860--27131029	56	3.1	54	68	6	135	28	17	18	35	1.93
27132893--27132923	9	3.4	9	90	0	53	25	12	22	38	1.90
27132976--27133021	9	5.1	9	87	10	67	45	10	8	34	1.70
27136346--27136385	19	2.1	19	90	0	62	62	0	2	35	1.09
27137624--27137666	10	4.6	9	81	18	52	32	0	2	65	1.06
27137626--27137662	18	2.0	19	89	5	58	32	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27141814--27141879	34	1.9	34	90	6	107	33	9	10	46	1.70
27148066--27148100	2	17.5	2	93	0	61	48	2	0	48	1.16
27154982--27155015	2	17.0	2	87	0	50	2	52	0	44	1.16
27156588--27156642	2	27.5	2	100	0	110	50	49	0	0	1.00
27156642--27156666	2	12.5	2	100	0	50	52	0	0	48	1.00
27156696--27156753	2	29.0	2	100	0	116	50	0	0	50	1.00
27167594--27167637	20	2.2	20	88	4	63	4	22	6	65	1.35
27168132--27168192	25	2.4	25	91	0	95	14	6	22	55	1.62
27168133--27168174	13	3.3	13	75	18	52	11	9	21	57	1.63
27169757--27169816	29	2.0	32	81	15	74	20	23	5	51	1.66
27177886--27177950	32	2.1	32	97	2	123	47	12	9	30	1.72
27181220--27181262	19	2.3	18	76	7	50	20	2	6	69	1.23
27186818--27186926	41	2.6	41	91	1	164	25	21	29	23	1.99
27187998--27188030	15	2.2	15	89	10	50	27	3	0	69	1.03
27193817--27194024	91	2.3	91	91	0	326	45	2	3	48	1.35
27193817--27193955	47	3.0	44	68	18	122	45	2	5	46	1.39
27193928--27193999	26	2.6	28	84	8	85	41	0	4	54	1.20
27193849--27193992	47	3.1	47	69	16	138	43	1	4	51	1.29
27193857--27193999	44	3.2	43	68	16	119	44	1	3	50	1.27
27194632--27194726	45	2.1	44	88	1	136	33	27	6	32	1.82
27194705--27194774	16	4.4	16	92	0	95	34	34	0	31	1.58
27195479--27195608	60	2.1	61	97	1	244	43	16	21	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27197173--27197365	95	2.0	96	92	3	327	29	25	15	30	1.96
27199258--27199293	18	2.0	18	88	0	54	25	8	11	55	1.62
27200847--27200888	14	2.9	15	82	3	50	50	2	0	47	1.14
27214780--27214815	17	2.3	15	90	9	54	69	8	0	22	1.15
27214780--27214816	16	2.2	17	90	4	58	70	8	0	21	1.13
27221173--27221218	10	4.5	10	86	2	56	47	2	4	45	1.34
27221705--27221748	20	2.2	19	84	8	52	27	2	2	68	1.14
27233140--27233164	13	1.9	13	100	0	50	20	0	16	64	1.30
27237084--27237132	15	3.0	15	73	21	53	46	0	2	51	1.12
27237094--27237137	19	2.4	19	84	3	54	50	0	2	47	1.13
27241772--27241822	18	2.9	17	77	11	50	62	1	0	35	1.06
27242125--27242154	4	7.5	4	100	0	60	76	0	0	23	0.78
27243949--27244299	125	2.8	123	89	1	540	29	15	21	33	1.94
27247312--27247493	54	3.2	54	66	15	152	44	4	8	41	1.57
27247425--27247492	17	3.8	17	71	16	57	48	1	5	44	1.36
27247549--27248133	45	13.1	46	76	12	440	26	0	25	48	1.52
27247548--27248130	23	26.1	23	74	16	344	26	0	25	48	1.52
27247605--27247735	38	3.2	38	74	17	129	22	0	29	47	1.52
27247628--27247659	15	2.2	15	94	5	57	21	0	21	56	1.43
27247580--27248133	136	4.2	133	82	9	478	25	0	26	47	1.52
27247779--27248080	155	1.9	158	84	9	413	25	0	26	48	1.52
27247641--27248130	68	7.2	68	78	11	396	25	0	26	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27248656--27248691	18	2.0	18	94	0	63	38	8	27	25	1.84
27249530--27249567	20	1.9	20	89	10	60	55	5	2	36	1.37
27250505--27250546	11	3.8	11	93	0	66	50	7	23	19	1.72
27255545--27255607	20	3.3	19	86	4	83	58	3	0	38	1.14
27255545--27255629	39	2.1	42	83	14	108	56	4	0	38	1.20
27270906--27270954	24	2.0	23	81	14	55	67	4	6	22	1.30
27275606--27275630	10	2.5	10	100	0	50	64	8	0	28	1.22
27275615--27275673	30	2.0	28	84	12	75	55	1	1	40	1.20
27275852--27275901	20	2.5	20	90	0	82	28	4	22	46	1.70
27277361--27277416	29	1.9	29	85	7	78	53	8	0	37	1.32
27279139--27279177	18	2.1	19	86	13	55	28	17	12	41	1.87
27286702--27286728	2	13.5	2	100	0	54	0	48	0	51	1.00
27288556--27288584	12	2.5	12	94	5	51	65	0	13	20	1.26
27290551--27290597	18	2.8	18	84	9	64	31	4	4	59	1.36
27290558--27290617	18	3.2	18	85	4	75	21	6	8	63	1.45
27294708--27294833	66	1.9	66	83	6	166	14	25	16	43	1.86
27299942--27301391	45	31.6	45	69	15	484	29	20	17	32	1.96
27300134--27300425	137	2.1	138	80	5	315	29	19	18	32	1.96
27300222--27301393	228	5.1	225	73	14	840	29	20	17	32	1.96
27301101--27301217	44	2.6	45	80	6	123	28	21	19	30	1.98
27301054--27301393	181	1.9	180	85	1	475	29	20	17	32	1.96
27302229--27302296	20	3.2	21	83	12	86	4	14	0	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27302229--27302286	25	2.2	26	87	6	82	3	15	0	81	0.83
27302229--27302285	5	10.8	5	88	3	69	3	15	0	80	0.84
27302229--27302294	25	2.7	23	80	11	71	4	15	0	80	0.87
27315563--27315594	5	6.6	5	92	7	57	59	0	0	40	0.97
27321618--27321701	21	3.9	23	80	12	106	38	23	20	17	1.93
27321618--27321701	44	2.0	41	86	6	114	38	23	20	17	1.93
27322595--27322630	17	2.1	18	89	5	56	5	13	5	75	1.17
27322597--27322638	17	2.5	17	84	7	50	7	11	2	78	1.04
27322824--27322855	5	6.6	5	92	7	57	59	0	0	40	0.97
27327108--27327168	22	2.8	22	75	7	54	55	11	16	16	1.68

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