genome.fa.s5.2.7.7.80.10.50.1000.205.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  205  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)
62452335--62452395	32	1.9	32	100	0	122	32	19	11	36	1.88
62456335--62456395	31	2.0	31	90	6	97	39	9	9	40	1.72
62465922--62466001	39	2.1	39	100	0	160	28	17	22	31	1.97
62471447--62471664	82	2.7	82	89	2	323	34	17	20	27	1.95
62471447--62471686	81	3.0	81	88	3	331	35	17	20	26	1.95
62472306--62472383	20	4.0	20	75	8	88	37	1	0	61	1.04
62472305--62472429	29	4.2	28	75	16	94	40	0	0	58	1.04
62472312--62472425	38	3.0	36	84	7	129	38	0	0	60	1.03
62472387--62472430	22	2.0	22	90	4	70	47	0	0	52	1.00
62472360--62472434	39	1.9	38	86	2	105	45	0	0	54	0.99
62481630--62481824	107	1.8	106	87	3	293	33	15	13	36	1.88
62482013--62482054	19	2.3	18	84	8	50	28	0	11	59	1.33
62483146--62483187	14	3.0	14	80	13	59	30	7	26	35	1.83
62484999--62485074	27	2.8	27	86	4	100	18	23	36	21	1.95
62488513--62488579	6	11.2	6	96	0	125	0	34	34	31	1.58
62490711--62490793	23	3.6	21	73	23	69	57	13	1	27	1.43
62490683--62490851	48	3.4	48	84	9	214	54	13	0	31	1.43
62490745--62490991	19	12.5	19	67	22	127	54	12	0	32	1.41
62490804--62490989	22	9.0	21	72	20	133	55	12	0	32	1.37
62490804--62490989	41	4.5	41	73	17	170	55	12	0	32	1.37
62490809--62490990	83	2.2	84	77	13	198	55	12	0	32	1.37
62491160--62491201	3	14.3	3	90	5	68	0	35	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62491161--62491209	20	2.5	20	93	0	80	0	38	0	61	0.96
62492990--62493045	25	2.2	25	83	0	67	21	25	21	32	1.98
62505445--62505489	21	2.1	21	100	0	90	20	15	4	60	1.52
62506436--62506472	19	1.9	19	88	0	56	64	0	10	24	1.25
62510458--62510528	20	3.4	21	68	18	58	63	1	1	33	1.12
62510470--62510541	28	2.5	29	84	10	87	62	1	0	36	1.04
62510619--62510683	21	3.0	21	80	14	62	24	6	3	66	1.29
62510722--62510776	11	5.6	10	83	14	62	32	0	0	67	0.91
62510661--62510756	9	10.8	8	73	15	50	26	4	4	65	1.29
62510722--62510776	28	1.9	29	88	3	85	32	0	0	67	0.91
62510722--62510776	20	2.7	21	81	13	62	32	0	0	67	0.91
62511791--62511842	22	2.3	23	74	9	54	57	3	1	36	1.28
62515358--62515393	7	5.1	7	96	0	63	13	66	0	19	1.24
62516976--62517107	18	7.5	17	66	15	72	62	1	0	34	1.10
62516983--62517045	28	2.2	28	88	5	92	63	0	0	36	0.95
62516987--62517060	28	2.7	25	78	15	76	62	1	1	35	1.12
62517038--62517092	23	2.3	24	78	12	60	63	3	1	30	1.22
62516972--62517102	17	7.6	16	67	20	77	64	1	0	33	1.09
62516976--62517107	8	15.0	9	66	19	66	62	1	0	34	1.10
62517149--62517200	9	5.6	9	74	17	52	26	1	3	67	1.18
62517141--62517202	19	3.3	19	74	14	65	29	1	3	66	1.17
62517141--62517203	10	6.6	10	80	12	62	28	1	3	66	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62523028--62523138	55	2.0	55	98	0	213	44	14	11	29	1.81
62533882--62533929	23	2.0	24	92	4	80	58	18	8	14	1.61
62546474--62548041	787	2.0	778	98	1	3046	37	8	16	37	1.80
62549752--62549798	22	2.2	20	85	7	58	70	0	19	10	1.16
62558669--62558706	4	10.0	4	88	11	62	50	23	0	26	1.50
62558676--62558704	14	2.1	14	100	0	58	51	20	0	27	1.47
62558672--62558706	18	1.9	18	100	0	70	51	22	0	25	1.48
62570135--62570164	14	2.1	14	100	0	60	46	6	20	26	1.75
62571876--62571917	2	21.0	2	100	0	84	50	0	0	50	1.00
62573818--62573864	22	2.1	22	92	0	76	29	25	0	44	1.54
62575642--62575834	102	1.9	102	86	2	278	45	8	5	40	1.57
62576764--62577060	86	3.5	83	82	8	334	34	5	26	33	1.79
62579562--62579668	4	26.8	4	94	0	187	47	26	1	24	1.62
62580141--62580179	20	2.0	20	94	0	69	38	10	10	41	1.73
62587064--62587126	23	2.7	25	78	14	71	57	7	1	33	1.37
62606512--62606561	22	2.3	21	86	6	73	44	4	4	48	1.40
62606707--62606755	20	2.6	18	75	9	53	55	2	4	38	1.31
62607489--62607518	4	7.5	4	100	0	60	50	0	0	50	1.00
62613256--62613290	6	5.8	6	96	0	52	34	8	17	40	1.80
62614842--62614895	21	2.6	20	82	8	72	29	7	29	33	1.85
62618542--62618590	24	2.0	24	96	0	89	24	12	2	61	1.42
62627346--62627376	4	7.8	4	92	0	53	51	22	0	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62636087--62636124	2	19.0	2	94	0	67	50	47	0	2	1.15
62636122--62636212	4	22.8	4	97	0	164	48	25	2	24	1.62
62639379--62639439	3	20.3	3	96	0	113	63	0	1	34	1.04
62641247--62641273	2	13.5	2	100	0	54	51	0	0	48	1.00
62646726--62646754	15	2.0	15	93	6	51	20	24	27	27	1.99
62648147--62648180	17	2.0	18	88	11	54	20	0	14	64	1.28
62649333--62649377	16	2.9	16	80	3	56	55	15	2	26	1.52
62650281--62650333	20	2.7	19	85	5	70	50	5	0	43	1.25
62650281--62650336	19	2.9	19	86	2	76	53	5	0	41	1.24
62663438--62663497	4	15.0	4	100	0	120	25	0	25	50	1.50
62663637--62663777	4	34.2	4	83	5	102	17	4	31	46	1.67
62663671--62663704	2	17.0	2	100	0	68	0	0	50	50	1.00
62664156--62664186	4	7.8	4	100	0	62	51	25	0	22	1.48
62674913--62674938	9	2.9	9	100	0	52	0	11	0	88	0.52
62690372--62690424	26	2.0	26	85	0	70	28	15	15	41	1.87
62694204--62694287	41	2.0	41	93	0	141	50	8	1	40	1.40
62697992--62698069	38	2.1	38	100	0	156	33	25	7	33	1.84
62703644--62703675	2	16.0	2	100	0	64	50	0	0	50	1.00
62705326--62705367	18	2.3	18	87	0	57	40	7	4	47	1.52
62715007--62715047	21	1.9	22	85	5	57	48	17	0	34	1.47
62736379--62736581	103	2.0	103	98	0	388	43	19	17	19	1.88
62747218--62747248	16	2.0	16	93	6	55	54	12	12	19	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62751919--62751948	2	15.0	2	100	0	60	50	0	0	50	1.00
62770119--62770153	2	18.0	2	94	5	63	48	0	0	51	1.00
62770957--62770981	2	12.5	2	100	0	50	48	0	0	52	1.00
62771078--62771110	16	2.1	16	94	0	57	27	15	6	51	1.66
62771350--62771380	14	2.2	14	94	0	53	45	0	0	54	0.99
62771597--62771643	19	2.3	20	85	7	60	51	4	0	44	1.21
62772455--62772517	31	2.0	32	84	3	83	53	3	6	36	1.42
62773127--62773169	22	2.0	22	85	0	59	58	2	0	39	1.11
62774372--62774407	17	2.1	17	89	0	54	41	11	22	25	1.86
62775217--62775255	19	2.0	20	90	5	62	74	0	5	20	1.01
62776139--62776177	21	1.9	21	89	5	62	17	12	10	58	1.61
62776370--62776394	13	1.9	13	100	0	50	8	0	8	84	0.79
62777325--62777349	11	2.3	11	100	0	50	32	0	0	68	0.90
62787275--62787321	19	2.7	17	81	12	60	74	2	10	12	1.16
62796820--62796951	68	1.9	69	96	1	248	38	17	14	29	1.89
62799968--62800012	21	2.1	21	91	0	72	2	51	15	31	1.56
62807167--62807231	34	1.9	34	100	0	130	24	30	21	23	1.99
62808597--62808681	22	3.9	22	85	0	116	29	24	14	31	1.94
62811706--62811746	17	2.5	17	96	4	75	29	21	4	43	1.73
62812954--62812991	20	2.0	20	89	5	60	50	2	0	47	1.15
62818630--62819148	257	2.0	257	93	0	876	33	14	15	36	1.88
62823953--62824013	30	2.0	31	90	3	97	36	0	44	19	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62838242--62838287	23	2.0	23	87	8	67	54	2	2	41	1.25
62850846--62850879	10	3.5	10	88	8	52	79	0	0	20	0.73
62850846--62850890	19	2.3	20	81	11	58	75	2	0	22	0.91
62856468--62856510	18	2.3	18	80	4	50	53	2	2	41	1.26
62864672--62864701	14	2.2	13	94	5	51	33	0	0	66	0.92
62866623--62866663	22	1.9	21	90	5	64	34	0	0	65	0.93
62871928--62872067	69	2.0	69	100	0	280	30	15	24	30	1.95
62875134--62875215	31	2.6	30	73	7	83	24	12	14	48	1.78
62876675--62876713	20	2.0	20	84	0	51	43	0	10	46	1.37
62877080--62877114	17	2.0	18	88	5	54	60	5	5	28	1.43

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