genome.fa.s1.2.7.7.80.10.50.1000.89.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  89  of  187  ( 22383 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)
26579492--26579536	22	2.0	22	100	0	90	26	26	0	46	1.53
26581377--26581409	16	2.1	16	100	0	66	42	21	6	30	1.77
26584666--26584710	22	2.0	22	83	8	56	40	4	0	55	1.20
26587638--26587710	39	1.9	37	86	10	103	42	4	2	50	1.35
26587702--26587817	61	1.9	59	82	6	144	42	3	5	49	1.42
26593268--26593303	17	2.1	17	89	5	54	77	0	8	13	0.98
26593263--26593306	10	4.2	10	82	8	52	77	0	9	13	0.99
26593300--26593348	3	16.3	3	100	0	98	67	0	0	32	0.91
26593468--26593546	15	5.2	15	72	17	65	78	0	1	20	0.82
26593409--26593546	49	3.0	45	78	16	122	73	0	3	21	1.03
26593460--26593546	19	4.6	19	76	18	76	77	0	2	20	0.89
26593493--26593546	10	5.5	10	75	20	60	77	0	0	22	0.76
26593797--26593992	104	1.9	102	84	6	261	22	26	26	25	2.00
26596935--26596973	12	3.3	12	85	3	53	76	5	0	17	0.96
26597698--26597728	16	1.9	16	93	0	53	9	9	9	70	1.33
26599360--26599452	38	2.5	38	91	1	143	44	3	1	51	1.24
26599382--26599450	19	3.6	19	69	9	59	42	2	1	53	1.24
26617091--26617131	11	4.1	10	85	14	50	70	0	0	29	0.87
26617096--26617133	11	3.7	11	80	20	55	68	0	0	31	0.90
26617091--26617133	19	2.2	20	91	4	70	67	0	0	32	0.91
26621149--26621237	44	2.0	44	93	0	151	22	21	15	40	1.91
26622479--26622542	32	2.0	32	96	0	119	26	23	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26626381--26626577	25	7.6	25	74	10	126	26	13	24	35	1.92
26641500--26641642	40	3.6	39	86	1	178	19	28	18	33	1.95
26641493--26641642	80	1.9	80	87	0	219	20	27	18	34	1.96
26657547--26657585	15	2.6	15	84	12	53	35	0	10	53	1.35
26661248--26661402	64	2.4	64	83	1	177	26	23	29	21	1.99
26668158--26668200	17	2.5	17	88	0	59	44	2	23	30	1.66
26670033--26670078	19	2.6	17	80	19	58	8	10	2	78	1.05
26670704--26670829	63	2.0	64	88	1	191	29	23	23	23	1.99
26674407--26674788	190	2.0	189	95	0	683	32	10	20	35	1.87
26682628--26682718	45	2.0	44	85	2	119	34	27	6	31	1.83
26682697--26682734	16	2.4	16	95	0	67	28	31	2	36	1.71
26683422--26683455	9	3.7	9	84	7	50	26	2	0	70	1.01
26683403--26683441	16	2.4	17	91	4	62	28	0	2	69	1.02
26684007--26684046	18	2.2	19	90	4	64	10	15	0	75	1.05
26700278--26700337	30	2.0	31	86	3	86	40	0	40	20	1.52
26700551--26700587	9	4.1	9	92	0	65	29	10	13	45	1.77
26702291--26702344	18	2.8	18	86	8	63	68	1	0	29	1.00
26706169--26706277	28	3.9	27	80	8	112	25	15	15	43	1.86
26706167--26706277	56	2.0	56	85	3	152	26	15	15	43	1.86
26710175--26710239	27	2.4	27	89	2	94	27	26	20	26	1.99
26710411--26710449	19	2.1	19	100	0	78	17	15	10	56	1.66
26718537--26718725	27	7.0	27	80	1	173	19	17	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26718539--26718725	81	2.3	82	79	8	204	19	17	21	41	1.91
26721673--26721721	18	2.7	18	90	0	80	36	0	2	61	1.08
26722292--26722345	17	3.3	17	70	19	60	27	3	22	46	1.69
26738270--26738331	27	2.3	27	75	10	72	19	29	16	35	1.93
26741569--26741648	3	26.7	3	97	0	142	0	31	0	68	0.90
26742543--26742601	25	2.4	24	81	13	66	59	3	1	35	1.24
26750973--26751019	10	4.6	10	85	12	51	61	4	0	34	1.15
26752116--26752253	25	5.5	25	72	16	115	26	15	20	37	1.92
26752115--26752268	50	3.1	50	85	0	209	27	14	20	37	1.92
26754080--26754134	17	3.3	17	80	12	69	25	0	3	70	1.03
26757537--26757567	5	6.0	5	96	3	53	19	22	0	58	1.40
26758951--26758976	5	5.2	5	100	0	52	76	23	0	0	0.78
26761077--26761125	19	2.6	19	100	0	98	22	18	0	59	1.38
26763624--26763721	30	3.1	30	71	22	83	30	17	22	29	1.96
26764767--26764800	14	2.2	16	90	10	54	79	2	5	11	1.02
26768991--26769046	28	2.0	29	92	3	96	60	1	0	37	1.07
26769088--26769129	22	1.9	22	90	0	66	33	0	33	33	1.58
26769079--26769181	52	2.0	51	83	9	129	34	0	32	33	1.58
26769131--26769222	22	4.2	23	82	8	111	42	0	27	30	1.56
26769131--26769222	44	2.1	44	85	4	123	42	0	27	30	1.56
26771125--26771170	22	2.1	22	88	4	67	39	30	13	17	1.87
26771107--26771253	71	2.1	71	85	2	197	39	25	14	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26775036--26775211	39	4.6	38	80	7	176	15	30	18	34	1.93
26775036--26775133	19	5.1	20	66	7	67	17	33	18	30	1.94
26775036--26775211	77	2.3	77	84	4	212	15	30	18	34	1.93
26775308--26775412	19	5.5	19	71	10	79	15	33	19	32	1.92
26775327--26775419	19	4.8	20	73	16	97	13	34	20	31	1.92
26775306--26775478	39	4.5	39	84	1	204	15	31	19	34	1.93
26775306--26775478	77	2.2	78	84	1	213	15	31	19	34	1.93
26774975--26775506	267	2.0	267	93	0	902	21	22	16	40	1.91
26788947--26788989	22	2.0	22	85	0	59	16	25	25	32	1.96
26798507--26798580	38	1.9	38	91	0	121	37	17	13	31	1.89
26800796--26801103	81	3.8	81	82	0	384	18	16	22	42	1.89
26800796--26801105	27	11.5	27	83	1	334	18	16	21	43	1.88
26804006--26804066	27	2.2	27	82	8	70	21	19	19	39	1.93
26805329--26805384	2	28.5	2	92	3	96	50	0	1	48	1.11
26805407--26805444	3	12.7	3	94	0	67	68	0	0	31	0.90
26805972--26806055	21	4.1	21	92	6	145	39	14	8	38	1.76
26805972--26806055	40	2.0	40	93	4	141	39	14	8	38	1.76
26806224--26806487	27	9.8	27	84	2	282	17	18	21	42	1.89
26806225--26806491	107	2.5	108	83	6	312	17	17	20	43	1.88
26806903--26807175	27	10.2	27	84	1	244	17	19	22	40	1.91
26806875--26806997	54	2.3	54	81	5	142	20	21	17	40	1.91
26806905--26807171	54	5.0	54	86	1	349	16	19	22	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26808358--26808512	39	4.0	39	88	1	213	13	33	20	32	1.91
26808358--26808499	19	7.3	19	65	10	81	13	35	19	31	1.91
26808360--26808512	77	2.0	77	89	2	236	13	32	20	33	1.92
26808445--26808506	19	3.2	19	71	13	63	11	32	20	35	1.88
26808622--26808759	39	3.6	37	80	11	143	15	32	18	33	1.92
26808622--26808721	20	5.1	20	66	13	73	16	36	18	30	1.92
26820581--26820623	22	2.0	22	90	0	68	16	23	25	34	1.95
26826468--26826534	29	2.3	29	81	0	71	28	23	26	20	1.99
26829860--26829933	38	1.9	38	97	0	139	37	16	16	29	1.90
26832172--26832316	27	5.4	27	83	6	98	23	16	19	40	1.91
26832187--26832531	81	4.3	81	78	4	333	20	16	20	42	1.89
26832187--26832545	27	13.3	27	77	7	286	20	16	20	42	1.89
26835518--26835878	27	13.5	26	78	12	313	20	18	19	41	1.90
26835520--26835878	54	6.7	53	80	6	384	20	18	18	42	1.90
26835517--26835878	81	4.5	79	79	7	379	20	18	19	41	1.90
26835520--26835812	106	2.7	106	83	6	308	21	19	18	40	1.91
26835524--26835864	160	2.1	160	84	4	436	20	18	19	41	1.90
26836297--26836575	27	10.3	27	86	0	342	18	18	20	42	1.89
26836832--26836933	27	3.8	26	85	3	123	16	17	18	47	1.84
26836930--26837041	46	2.4	46	73	5	109	30	25	20	23	1.98
26839352--26839388	17	2.2	17	90	9	58	35	5	8	51	1.55
26847405--26847758	26	13.5	26	83	1	402	38	20	16	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26848390--26848437	24	2.0	24	100	0	96	20	4	12	62	1.46
26854875--26854987	26	4.3	27	89	4	153	40	21	15	23	1.90
26855142--26855192	27	1.9	27	88	4	77	15	25	19	39	1.91
26867854--26868063	107	2.0	107	85	0	285	44	19	14	21	1.86
26897060--26897170	54	2.1	54	94	0	195	34	27	10	27	1.90
26898080--26898193	43	2.8	40	76	7	120	31	28	14	24	1.95
26900145--26900194	26	1.9	26	83	0	64	20	18	24	38	1.93
26900154--26900218	26	2.5	26	82	0	76	20	18	21	40	1.92
26900329--26900386	28	2.1	27	90	3	89	24	22	24	29	1.99
26900961--26901053	43	2.2	42	88	1	132	26	19	23	30	1.98

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