genome.fa.s5.2.7.7.80.10.50.1000.141.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  141  of  208  ( 24913 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)
43190097--43190500	174	2.3	174	89	0	583	27	24	15	32	1.95
43191810--43192006	88	2.2	89	97	0	369	15	19	10	54	1.69
43191948--43191972	12	2.1	12	100	0	50	24	0	0	76	0.80
43191965--43192094	46	2.9	44	82	4	154	17	24	16	41	1.89
43192995--43193037	11	3.9	11	90	0	68	0	20	0	79	0.74
43192993--43193036	17	2.6	17	85	3	63	0	22	0	77	0.77
43192993--43193037	6	8.0	6	78	14	51	0	22	0	77	0.76
43193000--43193057	21	2.7	21	82	15	57	5	18	0	75	0.98
43197979--43198037	26	2.3	26	91	5	93	42	37	5	15	1.69
43197979--43198050	26	2.8	25	85	6	74	40	41	4	13	1.64
43199371--43199441	4	17.8	4	100	0	142	50	23	0	25	1.49
43205006--43205056	8	6.6	8	84	11	63	72	0	13	13	1.12
43205014--43205055	13	3.0	13	86	13	57	71	0	14	14	1.15
43205015--43205064	13	3.5	13	81	13	55	72	0	14	14	1.14
43206379--43206538	50	3.2	50	71	10	164	35	20	18	25	1.95
43206603--43206675	36	2.0	36	100	0	146	43	20	16	19	1.88
43206674--43206782	50	2.2	50	83	3	139	31	21	23	23	1.98
43206368--43206920	100	5.9	93	77	11	513	36	20	19	22	1.95
43206884--43206956	36	2.0	36	97	0	137	45	20	15	19	1.86
43206468--43207018	281	2.0	278	94	1	978	36	21	19	22	1.95
43206513--43207056	136	4.0	129	78	14	610	37	21	19	21	1.94
43206920--43207446	100	5.3	100	91	0	761	33	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43206935--43207419	50	9.7	50	72	2	400	33	23	20	22	1.97
43207958--43207982	13	1.9	13	100	0	50	24	0	4	72	1.02
43208942--43209040	4	24.8	4	97	0	189	50	23	0	26	1.49
43210471--43210512	3	14.0	3	94	0	66	61	0	4	33	1.17
43210518--43210565	21	2.2	23	82	14	57	54	0	12	33	1.38
43216484--43216536	22	2.4	21	77	22	56	39	5	7	47	1.56
43216486--43216533	20	2.3	21	85	7	62	39	6	8	45	1.59
43219901--43219951	22	2.3	22	96	0	93	47	5	1	45	1.38
43225902--43226165	132	2.0	131	93	2	449	32	27	15	24	1.96
43230452--43230582	40	3.3	39	75	7	131	25	16	23	33	1.96
43230450--43230555	37	2.7	38	79	5	115	26	16	25	31	1.97
43230712--43230757	14	3.4	14	77	22	62	52	0	21	26	1.47
43230701--43230768	26	2.7	26	95	2	120	51	0	23	25	1.48
43230700--43230768	12	5.5	12	72	25	54	50	0	24	24	1.49
43233109--43233264	39	3.9	40	75	11	115	42	18	9	28	1.82
43233190--43233251	19	3.2	19	81	4	88	40	22	9	27	1.85
43233109--43233262	20	7.8	19	74	7	103	42	18	9	29	1.82
43234402--43234446	20	2.3	20	84	3	65	44	0	6	48	1.29
43236971--43236996	13	2.0	13	100	0	52	0	30	7	61	1.24
43240337--43240545	92	2.3	90	85	9	271	46	3	3	46	1.37
43240473--43240520	26	1.9	25	84	16	64	45	0	2	52	1.12
43240599--43240809	66	3.4	64	68	21	194	41	3	6	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43240568--43240853	120	2.4	120	93	3	479	42	3	5	48	1.42
43240686--43240737	15	3.6	15	80	12	56	44	0	1	53	1.11
43240815--43240856	15	2.7	16	82	14	52	45	0	2	52	1.13
43240806--43240847	15	2.9	15	82	10	52	47	0	0	52	1.00
43240959--43240993	17	2.1	16	89	5	52	40	0	0	60	0.97
43240790--43241104	155	2.0	157	94	1	553	47	5	3	43	1.42
43241228--43241277	16	3.2	16	83	8	59	40	38	0	22	1.54
43241865--43241921	21	2.7	21	80	0	60	36	24	7	31	1.82
43242063--43242101	20	2.0	20	89	0	60	20	0	33	46	1.51
43248752--43248779	14	2.0	14	100	0	56	42	28	0	28	1.56
43252803--43252854	24	2.2	24	89	0	77	50	5	3	40	1.45
43257202--43257253	24	2.2	24	85	0	68	50	7	3	38	1.50
43259408--43259542	66	2.0	67	82	5	166	38	6	8	45	1.62
43260477--43260502	2	13.0	2	100	0	52	50	0	0	50	1.00
43261389--43261415	2	13.5	2	100	0	54	48	0	0	51	1.00
43282653--43282693	21	2.0	21	85	4	57	53	2	2	41	1.27
43289713--43289907	51	3.8	50	82	2	219	32	26	15	25	1.95
43289712--43289905	102	1.9	102	84	2	264	32	26	15	24	1.95
43308697--43308811	56	2.1	56	94	0	203	26	10	20	43	1.83
43310466--43310543	28	2.8	28	82	3	95	21	19	26	32	1.97
43310757--43310819	14	4.5	14	70	7	56	19	20	30	30	1.97
43315056--43315080	9	2.8	9	100	0	50	24	0	8	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43320210--43320259	22	2.2	23	82	13	68	20	10	6	64	1.45
43320213--43320262	21	2.3	23	89	6	77	20	10	8	62	1.52
43325589--43325643	3	18.3	3	100	0	110	67	0	32	0	0.91
43325831--43325938	53	2.0	53	92	0	180	33	0	13	52	1.41
43326236--43326393	50	3.1	50	66	18	135	29	0	15	53	1.47
43326134--43326449	103	3.1	104	85	8	391	28	0	14	56	1.44
43326413--43326441	15	1.9	15	100	0	58	37	0	6	55	1.27
43328427--43328460	13	2.6	13	85	0	50	41	38	0	20	1.53
43328568--43328688	9	13.4	9	86	6	147	25	7	23	42	1.80
43329139--43329202	33	1.9	33	83	0	83	17	46	14	21	1.83
43329399--43329577	79	2.2	80	91	2	281	25	6	8	59	1.51
43345669--43345706	2	19.0	2	100	0	76	50	0	0	50	1.00
43346210--43346266	2	28.0	2	89	10	89	49	1	1	47	1.22
43348122--43348150	2	14.5	2	100	0	58	48	0	0	51	1.00
43348512--43348568	29	2.0	29	86	6	80	31	1	1	64	1.13
43349065--43349098	5	6.8	5	87	12	52	82	2	0	14	0.79
43350857--43350896	21	2.0	20	85	5	53	60	5	0	35	1.19
43352549--43352701	72	2.1	73	81	2	184	33	22	16	27	1.96
43359273--43359301	5	6.0	5	96	4	51	37	0	0	62	0.96
43359270--43359302	15	2.4	14	85	14	50	33	0	0	66	0.92
43376697--43376729	16	2.1	16	88	11	50	75	3	0	21	0.93
43376788--43376826	16	2.4	16	87	8	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43377330--43377362	3	11.0	3	100	0	66	0	33	0	66	0.92
43378005--43378046	16	2.6	16	84	0	57	11	0	33	54	1.37
43379651--43379799	43	3.5	43	81	5	162	30	14	24	30	1.95
43381621--43381783	46	3.6	46	78	6	188	27	3	19	49	1.65
43381781--43382010	29	7.9	28	73	6	129	27	16	19	36	1.93
43381781--43381915	59	2.3	59	84	3	166	27	17	20	35	1.94
43384434--43384483	20	2.5	21	81	12	54	32	8	8	52	1.60
43389445--43389512	22	3.1	22	81	8	84	41	19	23	16	1.90
43390615--43390715	13	7.7	13	70	16	75	55	2	0	40	1.22
43390625--43390715	5	18.6	5	72	18	68	56	3	1	39	1.23
43390992--43391029	18	2.0	19	85	10	51	42	15	0	42	1.47
43407784--43407815	12	2.6	13	85	14	50	71	0	0	28	0.86
43408084--43408140	7	7.9	7	75	21	55	70	3	0	26	1.03
43408083--43408139	22	2.6	22	86	13	82	70	3	0	26	1.03
43408084--43408140	29	2.0	29	83	13	73	70	3	0	26	1.03
43409005--43409041	17	2.2	16	90	4	56	48	5	16	29	1.68
43409187--43409215	2	14.5	2	100	0	58	0	48	0	51	1.00
43412159--43412191	17	1.9	17	93	0	57	45	6	24	24	1.75
43413815--43413920	28	3.8	28	77	5	106	61	3	12	22	1.47
43414938--43414979	21	2.0	21	81	9	50	35	9	2	52	1.47
43417854--43417882	14	2.0	15	93	6	51	27	0	6	65	1.18
43419189--43419222	6	5.7	6	100	0	68	0	14	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43419942--43420006	28	2.2	30	83	8	89	30	1	0	67	1.00
43424730--43424830	35	2.9	35	81	0	121	27	16	27	27	1.97
43427591--43427631	6	6.7	6	86	5	55	19	29	2	48	1.61
43427831--43427883	21	2.5	21	78	0	61	28	22	28	20	1.99
43427873--43427922	23	2.2	23	92	0	82	36	22	20	22	1.96
43429078--43429136	27	2.2	26	77	11	66	10	10	6	72	1.27
43429913--43430455	280	2.0	271	86	5	750	24	20	17	36	1.94
43430425--43430473	9	5.3	9	92	2	71	38	0	4	57	1.18
43435897--43435940	21	2.1	21	91	0	70	29	38	15	15	1.89
43436437--43436574	4	34.2	4	78	7	91	28	15	22	33	1.94

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208