genome.fa.s5.2.7.7.80.10.50.1000.132.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  132  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)
40424922--40424975	21	2.7	20	80	5	54	33	14	22	29	1.94
40440274--40440354	25	3.3	25	80	11	87	32	22	24	20	1.98
40443016--40443098	24	3.5	24	77	6	96	22	22	21	32	1.98
40443244--40443275	17	1.9	16	93	6	55	40	6	18	34	1.76
40448292--40448324	17	1.9	17	88	11	50	75	6	0	18	1.00
40454161--40454231	29	2.4	28	76	17	72	54	2	7	35	1.42
40457016--40457595	70	8.3	70	77	1	426	25	17	26	30	1.97
40456959--40457594	140	4.5	140	77	2	522	26	17	25	30	1.97
40457012--40457594	210	2.8	210	78	1	585	26	17	26	30	1.97
40458793--40458959	40	4.2	40	84	2	169	38	17	26	17	1.92
40461079--40461181	51	2.0	51	94	0	179	34	27	9	28	1.88
40461308--40461421	33	3.5	33	80	8	117	28	44	0	27	1.54
40462421--40462468	16	2.9	16	84	3	60	39	2	18	39	1.63
40462421--40462468	8	5.9	8	78	4	51	39	2	18	39	1.63
40466121--40466160	19	2.1	19	100	0	80	22	25	5	47	1.71
40467155--40467319	67	2.5	68	82	4	210	23	22	19	35	1.96
40468279--40468331	13	4.1	13	85	0	79	30	9	26	33	1.88
40475657--40475813	40	3.9	40	79	9	167	23	15	28	32	1.95
40475657--40475813	41	3.9	41	79	7	169	23	15	28	32	1.95
40475657--40475833	41	4.3	40	77	10	137	23	15	28	32	1.95
40478543--40478674	40	3.3	40	73	9	128	32	25	17	25	1.97
40479424--40479506	41	2.0	43	85	7	116	43	1	1	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40482505--40482540	14	2.6	14	91	4	56	86	0	13	0	0.58
40491542--40491814	85	2.9	95	72	14	271	42	1	14	41	1.56
40493284--40493340	29	2.1	26	87	9	78	56	0	1	42	1.10
40494750--40494791	20	2.1	20	86	0	57	47	0	7	45	1.30
40500764--40500805	22	1.9	22	95	0	75	40	7	0	52	1.29
40500764--40500808	11	4.1	11	82	0	54	40	6	0	53	1.27
40503077--40503191	42	2.7	42	86	0	158	24	16	21	37	1.93
40506871--40506916	23	2.0	23	86	0	65	13	10	28	47	1.76
40529719--40529769	25	2.0	25	100	0	102	25	15	19	39	1.91
40535939--40535971	17	1.9	18	88	11	52	42	9	0	48	1.35
40537968--40537998	16	1.9	16	93	0	53	35	35	0	29	1.58
40539673--40539734	22	2.8	22	87	4	81	46	6	6	40	1.55
40539754--40539783	16	1.9	15	93	6	51	63	3	0	33	1.11
40539895--40539923	14	2.0	15	93	6	51	31	0	0	68	0.89
40545040--40545078	19	2.1	19	95	0	69	46	25	7	20	1.77
40545211--40546338	246	4.6	246	91	1	1805	38	15	11	34	1.84
40545211--40546338	493	2.3	494	92	1	1838	38	15	11	34	1.84
40546789--40547978	247	4.8	247	90	3	1820	39	14	11	34	1.83
40548861--40562774	247	56.3	247	74	1	9404	34	13	9	31	1.78
40549381--40549409	13	2.1	14	93	6	51	34	13	10	41	1.79
40549874--40549904	13	2.3	14	94	5	55	35	12	12	38	1.82
40548861--40562774	740	18.8	741	72	1	9422	34	13	9	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40561748--40561776	13	2.1	14	93	6	51	34	13	10	41	1.79
40567055--40567091	17	2.1	18	90	5	58	27	0	16	56	1.40
40567205--40567287	41	2.0	41	97	0	157	48	13	12	26	1.77
40572801--40572838	17	2.2	17	90	0	58	55	13	2	28	1.51
40573184--40573278	48	2.0	48	91	0	154	41	21	18	18	1.91
40573500--40573553	17	2.9	19	76	20	69	46	18	11	24	1.81
40573483--40573553	36	2.0	36	94	0	124	46	16	11	25	1.80
40573482--40573546	17	3.7	17	76	15	69	46	16	10	26	1.80
40573799--40573845	24	2.0	24	86	0	67	17	27	8	46	1.76
40574699--40574981	126	2.3	125	87	3	399	30	14	21	33	1.94
40576136--40576251	29	4.1	29	91	2	173	32	0	20	46	1.51
40576537--40576592	24	2.3	24	90	0	85	17	16	37	28	1.91
40578418--40578451	15	2.3	15	90	5	52	67	5	0	26	1.13
40578550--40578606	30	1.9	29	86	10	80	63	1	0	35	1.05
40578643--40578690	21	2.2	22	92	3	80	39	0	31	29	1.57
40588278--40588409	17	7.8	17	69	16	62	15	20	32	31	1.93
40588437--40588507	22	3.8	18	81	15	81	15	21	30	32	1.94
40588442--40588485	22	2.0	22	100	0	88	13	22	31	31	1.93
40590777--40590906	43	3.2	42	72	24	136	16	22	32	29	1.95
40590830--40590888	17	3.5	17	86	4	84	11	22	33	32	1.90
40591434--40591488	27	2.0	27	82	6	67	49	0	3	47	1.19
40600039--40600209	40	4.3	40	82	7	168	28	21	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40600039--40600209	80	2.1	80	84	6	213	28	21	23	25	1.99
40600192--40600464	141	1.9	139	88	4	406	30	20	20	28	1.97
40600393--40600496	40	2.6	40	87	4	138	26	18	24	30	1.98
40600800--40600952	7	21.6	7	72	10	78	18	0	41	39	1.51
40600800--40600842	15	3.0	14	90	6	68	18	0	34	46	1.50
40600848--40600924	21	3.6	21	83	1	100	16	0	51	31	1.45
40603160--40603223	31	2.1	31	100	0	128	28	12	12	46	1.78
40606287--40606456	32	5.5	32	73	8	138	26	27	14	32	1.94
40606256--40606390	61	2.2	61	84	2	164	25	23	17	34	1.96
40626977--40627076	44	2.2	44	83	1	119	41	19	20	20	1.91
40627055--40627182	45	2.8	45	83	2	159	38	14	21	25	1.92
40631772--40631810	20	1.9	20	84	5	51	41	20	7	30	1.80
40633379--40633572	55	3.5	56	82	4	232	25	20	12	41	1.88
40640735--40640987	27	9.4	26	79	10	235	17	20	19	42	1.90
40640755--40640987	81	2.9	81	86	1	299	17	20	19	42	1.89
40641570--40641602	15	2.1	16	88	5	50	51	0	48	0	1.00
40641572--40641615	10	4.6	10	77	11	56	50	0	47	2	1.13
40644902--40644971	25	2.8	25	88	0	95	24	37	12	25	1.91
40644902--40644963	25	2.5	25	91	0	106	20	37	14	27	1.92
40645105--40645160	28	2.0	28	93	6	96	25	30	12	32	1.92
40645110--40645173	28	2.3	28	89	2	94	28	25	12	34	1.92
40654666--40654711	24	1.9	24	86	8	67	21	19	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40654654--40654762	49	2.2	49	81	4	130	24	22	19	33	1.97
40654659--40654762	25	4.2	25	76	13	72	25	23	20	31	1.98
40660980--40661049	25	2.8	25	81	10	65	30	24	18	27	1.98
40661004--40661051	25	1.9	25	87	8	71	27	22	20	29	1.99
40661220--40661281	31	2.1	30	82	17	76	46	8	16	29	1.75
40664617--40664676	32	1.9	31	82	3	75	23	16	11	48	1.79
40668743--40668795	26	2.0	28	85	7	74	66	5	26	1	1.25
40670781--40670813	11	2.9	12	91	8	52	6	15	0	78	0.93
40670850--40670876	2	13.5	2	100	0	54	48	0	0	51	1.00
40671067--40671104	17	2.2	17	95	0	67	42	13	15	28	1.85
40677587--40677636	22	2.4	19	81	18	64	14	32	4	50	1.61
40701917--40701959	21	2.0	21	100	0	86	30	13	9	46	1.75
40707054--40707086	11	2.8	12	90	4	50	33	3	12	51	1.54
40707574--40707646	38	1.9	38	91	0	119	31	1	32	34	1.67
40714925--40715001	38	2.0	38	89	0	118	33	1	33	31	1.66
40715765--40715831	23	2.8	23	86	4	62	29	17	31	20	1.96
40715776--40715831	23	2.4	23	93	0	94	26	14	37	21	1.92
40718086--40718192	46	2.3	47	87	4	146	32	20	21	25	1.97
40720535--40720576	20	2.1	20	86	0	57	47	0	7	45	1.30
40723879--40723938	21	2.8	22	75	12	63	73	3	18	5	1.16
40723879--40723938	11	5.6	10	74	18	50	73	3	18	5	1.16
40724281--40724318	20	1.9	20	84	10	51	52	0	15	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40724816--40724944	40	3.3	40	74	9	122	25	17	23	34	1.96
40725987--40726165	27	6.7	27	88	2	247	31	19	24	24	1.98
40726394--40726528	32	4.2	32	74	0	126	22	23	20	32	1.98
40726398--40726549	64	2.4	64	85	0	205	25	23	18	32	1.97
40734869--40734904	4	8.8	4	93	6	63	75	0	0	25	0.81
40735235--40735265	12	2.6	12	94	0	53	54	6	0	38	1.26
40735456--40736487	525	2.0	523	96	0	1895	39	20	16	23	1.92
40736837--40736867	9	3.4	9	90	0	53	25	12	22	38	1.90
40739150--40739656	169	3.0	169	90	1	813	27	26	17	28	1.97
40739675--40739851	44	4.0	44	87	0	237	29	26	18	25	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   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208