genome.fa.s5.2.7.7.80.10.50.1000.200.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  200  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)
60788258--60788383	39	3.2	36	81	16	114	39	19	19	20	1.92
60788634--60788720	40	2.2	40	83	8	106	42	20	6	29	1.78
60795260--60795340	40	2.0	41	86	11	114	24	20	24	29	1.99
60796060--60796106	15	3.0	16	79	14	62	48	0	17	34	1.47
60802447--60802487	20	2.1	20	90	4	66	19	7	4	68	1.32
60802426--60802493	11	6.4	11	71	6	50	19	8	4	67	1.35
60802654--60802695	18	2.3	18	88	8	59	33	4	2	59	1.31
60805986--60806014	2	14.5	2	100	0	58	48	0	0	51	1.00
60811047--60811317	25	10.8	25	77	6	136	32	18	28	20	1.96
60811183--60811264	27	3.1	26	78	16	89	37	19	26	15	1.92
60811183--60811321	52	2.7	52	79	8	142	36	17	28	17	1.93
60811251--60811327	25	3.1	24	85	7	100	33	14	33	18	1.91
60838308--60838362	26	2.2	25	90	3	83	63	0	1	34	1.05
60847609--60847804	98	2.0	98	97	0	374	37	21	14	26	1.92
60852999--60853055	30	1.9	30	96	0	105	49	21	5	24	1.70
60854354--60854417	31	2.1	31	90	0	101	51	10	15	21	1.74
60860847--60860898	15	3.6	15	80	12	56	53	1	0	44	1.11
60860755--60861006	120	2.1	120	93	4	429	50	5	2	41	1.40
60865759--60865792	15	2.3	15	89	0	50	35	5	0	58	1.22
60870594--60870627	16	2.1	17	88	5	52	50	0	2	47	1.16
60871985--60872023	17	2.2	18	90	4	62	48	5	2	43	1.38
60872262--60872317	8	6.3	9	78	13	55	42	1	0	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60872979--60873075	33	2.8	35	72	20	89	50	1	3	45	1.24
60877379--60877442	19	3.3	19	75	12	51	50	4	4	40	1.44
60877440--60877471	16	2.1	16	88	11	50	37	0	0	62	0.95
60881681--60881780	52	1.9	52	89	0	155	35	14	22	29	1.93
60881754--60881863	37	3.0	37	90	2	170	35	15	22	26	1.94
60889577--60889612	5	7.0	5	93	6	63	0	0	80	19	0.71
60889577--60889612	16	2.3	16	95	4	65	0	0	80	19	0.71
60890942--60890984	22	2.0	22	85	0	59	11	16	27	44	1.82
60891047--60891271	43	5.2	43	90	2	299	29	32	17	20	1.96
60891965--60892016	23	2.3	23	79	0	59	34	7	30	26	1.85
60895255--60895289	6	6.0	6	86	6	54	82	2	0	14	0.77
60895287--60895402	30	3.9	29	85	7	144	35	23	3	37	1.72
60896011--60896081	24	3.0	24	91	0	115	22	40	33	2	1.69
60896035--60896102	24	3.4	19	78	13	66	22	45	30	1	1.61
60896012--60896109	48	2.2	42	87	10	133	23	43	30	2	1.65
60896341--60896370	5	6.0	5	100	0	60	20	0	0	80	0.72
60896754--60896892	20	7.2	20	70	11	74	35	12	10	41	1.76
60896729--60896892	56	2.9	54	80	8	159	34	12	10	42	1.78
60896828--60896874	22	2.2	21	84	3	58	48	8	8	34	1.64
60896661--60897033	17	21.1	17	73	11	234	30	13	11	44	1.79
60903088--60903186	11	8.9	11	78	17	66	81	9	9	0	0.87
60903085--60903189	12	8.9	11	74	18	70	82	8	8	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60903087--60903180	16	5.6	17	72	19	74	81	9	8	0	0.86
60903102--60903183	27	3.2	25	77	19	80	82	9	7	0	0.83
60903085--60903172	33	2.7	33	80	13	101	82	10	6	0	0.82
60903143--60903189	22	2.1	22	92	7	78	85	4	10	0	0.74
60904490--60905125	78	8.2	78	88	4	855	25	18	21	34	1.96
60905327--60905475	30	5.0	30	85	8	171	33	25	5	35	1.79
60905812--60905891	13	5.9	14	75	17	71	72	0	26	1	0.92
60905812--60905891	17	4.9	16	79	8	81	72	0	26	1	0.92
60905814--60905892	20	4.0	20	74	11	74	73	0	25	1	0.91
60906014--60906050	19	1.9	19	88	0	56	81	5	13	0	0.86
60906066--60906136	24	3.0	24	93	0	124	21	40	35	2	1.68
60906064--60906157	24	4.5	19	72	22	73	22	43	31	2	1.65
60906390--60906414	5	5.0	5	100	0	50	20	0	0	80	0.72
60906705--60907078	17	21.1	17	72	11	236	30	12	11	44	1.78
60906798--60906936	20	7.2	20	70	11	92	35	10	10	43	1.73
60906872--60906918	22	2.2	21	84	3	58	48	8	8	34	1.64
60908066--60908111	21	2.2	21	88	7	67	26	0	50	23	1.50
60908822--60908872	18	2.7	19	88	8	70	25	0	5	68	1.12
60908880--60908904	13	1.9	13	100	0	50	80	4	0	16	0.87
60908909--60908979	28	2.5	29	93	6	119	39	9	0	50	1.36
60908980--60909022	16	2.5	17	88	7	61	83	6	4	4	0.89
60908981--60909022	17	2.4	18	88	11	61	85	4	4	4	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60910421--60910449	12	2.4	12	100	0	58	24	44	24	6	1.77
60911323--60911351	14	2.1	14	100	0	58	37	6	0	55	1.27
60913731--60913768	18	2.1	18	90	0	58	15	44	5	34	1.69
60913734--60913775	18	2.3	18	83	0	57	21	47	2	28	1.63
60914514--60914584	3	23.7	3	100	0	142	66	0	0	33	0.92
60914895--60914975	27	3.0	27	90	0	126	9	40	23	25	1.85
60915041--60915110	28	2.5	29	86	6	101	47	1	10	41	1.46
60916853--60916882	2	15.0	2	100	0	60	50	0	0	50	1.00
60937859--60937938	26	3.1	26	88	0	124	38	23	5	32	1.77
60941130--60941175	24	1.9	24	100	0	92	47	4	8	39	1.54
60941765--60941981	96	2.2	96	82	2	256	41	4	17	37	1.68
60945874--60945916	18	2.4	18	84	0	50	46	9	25	18	1.79
60947748--60947804	12	5.0	12	79	14	59	43	0	31	24	1.54
60947748--60947804	11	5.0	11	78	20	55	43	0	31	24	1.54
60947747--60947807	23	2.8	21	81	16	70	47	0	29	22	1.52
60947760--60947807	12	4.4	10	82	17	60	50	0	29	20	1.49
60948678--60948732	22	2.5	21	88	11	76	60	7	0	32	1.24
60949199--60949436	28	8.6	27	67	20	93	34	1	3	60	1.23
60949188--60949436	10	26.8	9	68	17	109	33	1	4	61	1.23
60949207--60949405	37	5.4	36	69	21	92	34	1	3	61	1.21
60949359--60949450	10	9.9	10	69	22	51	34	0	3	61	1.12
60949346--60949449	19	5.9	18	71	24	71	34	0	2	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60949241--60949449	37	5.7	36	68	17	119	34	0	3	60	1.20
60949402--60949478	20	4.0	20	74	19	65	31	1	6	61	1.30
60949713--60949774	26	2.3	26	91	5	97	50	6	3	40	1.44
60952903--60952935	13	2.5	14	90	9	52	33	0	6	60	1.21
60954584--60954620	2	18.5	2	94	0	65	48	0	0	51	1.00
60957957--60958001	17	2.7	17	82	3	56	66	4	0	28	1.11
60961871--60961927	27	2.1	27	87	9	82	59	10	15	14	1.60
60962395--60962457	29	2.1	30	88	2	92	42	34	3	19	1.67
60974136--60974235	44	2.3	44	81	6	105	32	17	25	26	1.97
60974247--60974653	44	8.8	44	70	15	194	31	19	21	26	1.98
60974463--60974643	98	1.8	98	82	4	231	33	19	19	27	1.96
60974575--60974696	44	2.8	44	83	2	138	32	18	19	28	1.96
60974604--60974812	98	2.1	98	93	0	355	33	16	20	29	1.95
60974288--60974751	142	3.3	142	94	0	793	32	18	21	27	1.97
60975178--60975239	29	2.1	29	87	3	88	45	33	1	19	1.60
60975178--60975255	30	2.6	29	85	4	93	43	35	2	17	1.63
60975193--60975255	29	2.1	29	88	2	90	42	34	3	19	1.67
60978392--60978417	7	3.7	7	100	0	52	57	0	0	42	0.98
60978389--60978426	14	2.8	14	88	4	51	57	5	0	36	1.21
60981473--60981581	41	2.6	41	89	1	164	25	22	27	23	2.00
60989181--60989293	51	2.2	51	93	0	190	34	14	22	29	1.93
60989304--60989442	48	2.9	48	88	4	199	22	13	30	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60995133--60995268	68	2.0	68	91	0	218	33	16	14	34	1.90
61003481--61003565	43	2.0	44	86	6	120	40	4	8	47	1.54
61005801--61005843	2	21.5	2	100	0	86	51	0	0	48	1.00
61010449--61010477	2	14.5	2	100	0	58	48	0	0	51	1.00
61013217--61013259	19	2.1	22	87	12	65	41	0	2	55	1.12
61023413--61023437	12	2.1	12	100	0	50	40	24	0	36	1.55
61032952--61032976	6	4.2	6	100	0	50	32	0	0	68	0.90
61037691--61037752	30	2.1	30	100	0	124	22	6	12	58	1.58
61043671--61043718	20	2.4	21	76	13	57	54	0	0	45	0.99
61046777--61046831	19	3.1	17	74	23	51	67	0	5	27	1.12

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