genome.fa.s5.2.7.7.80.10.50.1000.21.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  21  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)
6096267--6096325	21	2.8	20	73	9	55	74	5	1	18	1.09
6097733--6097790	25	2.2	25	84	9	80	31	5	1	62	1.27
6103211--6103308	51	1.9	51	82	0	124	34	12	29	23	1.91
6103482--6103546	33	2.0	33	90	0	103	46	21	10	21	1.82
6105780--6105926	13	10.8	13	72	13	64	34	18	2	44	1.61
6105792--6105852	29	2.1	28	85	8	79	32	14	4	47	1.66
6105780--6105890	42	2.6	42	89	0	177	36	17	2	44	1.63
6105866--6105926	26	2.3	26	85	0	77	36	21	0	42	1.53
6115986--6116041	28	2.0	28	82	6	69	26	7	16	50	1.70
6125296--6125362	31	2.2	31	100	0	134	20	14	13	50	1.77
6133108--6133203	48	2.0	48	100	0	192	31	20	18	29	1.97
6136462--6136509	17	2.8	16	78	12	51	37	0	16	45	1.48
6141414--6141456	19	2.1	21	83	8	54	41	0	0	58	0.98
6142249--6142278	15	2.0	15	93	0	51	56	0	10	33	1.32
6146241--6146266	10	2.6	10	100	0	52	7	11	15	65	1.46
6146374--6146431	12	5.1	12	83	8	59	1	12	12	74	1.16
6146397--6146432	6	6.0	6	100	0	72	0	16	16	66	1.25
6148092--6148134	17	2.4	18	84	3	52	4	27	4	62	1.35
6148106--6148148	17	2.5	17	85	7	52	4	27	4	62	1.35
6148738--6148781	20	2.2	20	87	0	61	29	36	20	13	1.91
6163493--6163533	17	2.4	17	87	0	55	53	4	0	41	1.22
6165633--6165662	2	15.0	2	92	0	51	46	0	3	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6166430--6166477	17	2.9	17	79	17	57	29	20	12	37	1.90
6177881--6177905	2	12.5	2	100	0	50	48	0	0	52	1.00
6182279--6182337	17	3.4	17	71	17	57	57	6	1	33	1.35
6182284--6182336	19	2.9	18	71	17	56	56	5	1	35	1.34
6182425--6182473	20	2.5	19	84	12	64	32	0	36	30	1.58
6182374--6182533	75	2.2	71	85	6	205	39	0	33	26	1.61
6185016--6185094	25	3.2	24	84	13	106	31	22	24	21	1.98
6190868--6190912	22	2.0	22	100	0	90	31	0	33	35	1.58
6196898--6196979	41	2.0	41	100	0	164	24	4	29	41	1.75
6199313--6199368	21	2.7	21	71	0	58	55	16	5	23	1.61
6203775--6203818	23	1.9	22	82	17	54	36	25	0	38	1.56
6203863--6203951	45	2.0	45	93	0	151	31	24	19	24	1.98
6216348--6216433	41	2.1	41	89	4	129	27	9	12	50	1.71
6219044--6219145	31	3.4	31	84	10	156	26	12	8	51	1.69
6219067--6219171	29	3.6	29	83	11	151	25	12	9	52	1.69
6219044--6219171	60	2.2	59	98	1	247	26	12	9	51	1.70
6220523--6220654	72	1.9	72	88	3	205	22	21	7	48	1.75
6226098--6226137	2	20.5	2	94	5	73	50	0	0	50	1.00
6227424--6227496	33	2.2	34	82	7	87	56	0	10	32	1.34
6229340--6229899	44	12.6	44	67	14	182	28	20	19	31	1.97
6229580--6229894	87	3.6	86	75	10	289	27	20	20	30	1.98
6229526--6229900	44	8.6	44	73	6	201	28	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6243644--6243668	13	1.9	13	100	0	50	60	8	0	32	1.26
6243881--6243938	30	1.9	30	89	0	89	31	24	3	41	1.71
6246295--6246367	33	2.2	34	82	7	87	56	0	10	32	1.34
6255298--6255376	38	2.1	39	82	2	97	59	3	0	36	1.16
6255347--6255386	9	4.3	10	78	18	50	62	7	0	30	1.23
6255295--6255410	47	2.5	47	72	10	112	56	3	0	39	1.16
6256876--6257282	18	22.7	17	69	16	191	44	11	11	32	1.76
6256882--6257282	35	11.2	35	71	13	255	45	11	11	31	1.76
6256850--6257191	71	4.9	70	74	12	230	45	11	11	32	1.76
6257154--6257280	57	2.3	55	84	9	159	46	9	14	29	1.76
6257124--6257275	17	8.1	20	72	17	82	44	9	13	32	1.76
6257378--6257424	17	2.8	17	84	9	69	46	10	14	27	1.78
6258217--6258283	9	7.4	9	77	14	59	2	13	1	82	0.86
6258246--6258285	9	4.2	10	87	12	66	0	20	0	80	0.72
6258230--6258289	20	3.1	19	79	11	59	1	18	0	80	0.80
6258225--6258279	8	6.5	8	82	12	56	3	12	0	83	0.77
6258238--6258285	18	2.7	18	87	9	71	0	18	0	81	0.70
6258801--6258961	30	5.4	29	86	3	205	40	3	19	36	1.68
6258801--6258960	59	2.7	58	84	4	212	40	3	20	36	1.68
6260631--6260677	20	2.3	21	78	14	53	65	2	0	31	1.04
6260634--6260677	19	2.2	20	80	4	54	65	2	0	31	1.05
6260761--6260798	2	19.0	2	94	0	67	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6261018--6261076	3	19.7	3	100	0	118	67	0	0	32	0.91
6262952--6263017	26	2.5	26	80	9	89	25	28	21	24	1.99
6263135--6263175	16	2.5	17	96	4	75	31	4	14	48	1.65
6263471--6263507	18	2.1	18	90	10	58	32	0	5	62	1.18
6263678--6263711	17	2.0	17	100	0	68	58	0	5	35	1.22
6265304--6265365	26	2.4	26	89	5	90	25	29	20	24	1.99
6266586--6266646	27	2.3	25	81	10	68	55	1	3	39	1.26
6266589--6266644	26	2.1	28	83	6	71	58	1	3	35	1.26
6269373--6269602	100	2.3	98	96	1	424	34	13	11	40	1.80
6272189--6272264	39	1.9	39	81	5	91	60	3	0	35	1.15
6272232--6272307	27	2.8	26	75	13	73	61	2	0	35	1.10
6276214--6276249	3	12.0	3	100	0	72	66	0	0	33	0.92
6277869--6278402	50	10.7	50	65	12	213	25	25	21	27	1.99
6277869--6278454	100	5.9	100	93	0	940	25	25	21	27	1.99
6280938--6280973	3	12.0	3	100	0	72	33	0	0	66	0.92
6292835--6293206	50	7.4	50	67	9	238	26	21	26	25	2.00
6292882--6293414	50	10.7	49	66	12	271	26	21	26	26	1.99
6292829--6293414	100	5.9	100	93	0	958	26	21	26	25	1.99
6296207--6296283	13	5.9	13	92	0	127	25	6	28	38	1.81
6299420--6299480	30	2.0	30	87	6	88	44	14	36	4	1.67
6300840--6300939	23	4.3	23	86	5	139	32	26	20	22	1.98
6304078--6304177	52	1.9	52	87	0	146	36	14	22	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6304151--6304369	37	6.0	37	95	1	356	36	15	21	25	1.93
6305594--6305653	26	2.3	26	85	0	84	30	31	15	23	1.95
6305607--6305659	26	2.0	26	96	0	97	28	28	18	24	1.98
6310821--6310870	14	3.6	14	83	0	55	50	10	2	38	1.48
6317059--6317091	17	1.9	17	100	0	66	48	0	9	42	1.35
6317914--6317956	22	2.0	22	81	9	52	20	9	9	60	1.55
6319671--6319779	52	2.1	53	84	8	143	32	6	3	57	1.41
6321507--6321805	46	6.6	46	93	1	489	30	21	14	34	1.93
6331583--6331624	22	2.0	21	85	4	57	64	0	0	35	0.94
6333066--6333140	31	2.3	32	86	6	107	42	4	8	45	1.52
6343860--6343903	3	14.7	3	100	0	88	34	0	0	65	0.93
6343929--6343959	16	1.9	16	93	0	53	77	3	16	3	1.03
6346875--6346943	30	2.2	32	79	7	79	55	4	7	33	1.47
6348550--6348595	13	3.5	13	80	14	58	15	15	15	54	1.72
6352826--6352866	20	2.0	21	85	4	57	36	0	2	60	1.10
6352825--6352866	22	2.0	21	85	4	57	38	0	2	59	1.10
6355949--6355988	19	2.2	18	95	4	71	42	15	2	40	1.60
6364360--6364393	17	1.9	18	88	5	52	38	0	2	58	1.13
6364737--6364793	3	19.0	3	100	0	114	33	0	0	66	0.92
6365164--6365240	41	1.9	39	82	10	93	18	9	35	37	1.82
6376666--6376704	14	2.8	13	85	14	51	28	7	2	61	1.37
6376669--6376718	15	3.5	15	81	10	52	24	10	2	64	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6377373--6377406	17	1.9	18	88	5	52	44	2	2	50	1.32
6379423--6379465	21	2.0	22	86	13	63	58	0	0	41	0.98
6380936--6380970	6	5.8	6	100	0	70	65	17	0	17	1.27
6381002--6381050	9	5.4	9	92	0	80	24	10	26	38	1.87
6386774--6386827	14	3.7	15	78	11	58	16	38	1	42	1.59
6386761--6386843	30	2.8	30	92	1	141	21	38	1	38	1.62
6386761--6386843	16	5.5	15	73	13	73	21	38	1	38	1.62
6386763--6386844	15	5.3	15	68	22	55	21	40	1	36	1.62
6386898--6386950	28	1.9	28	92	3	90	22	39	0	37	1.54
6392577--6392630	27	2.0	28	92	3	92	22	24	27	25	2.00

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