genome.fa.s2.2.7.7.80.10.50.1000.133.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  133  of  206  ( 24623 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)
40427730--40427851	49	2.5	49	83	4	147	16	29	25	28	1.97
40431996--40432026	16	1.9	16	93	0	53	19	32	6	41	1.77
40439337--40439370	14	2.4	14	95	5	59	11	11	23	52	1.70
40447754--40447852	51	1.9	52	88	10	150	41	12	14	32	1.82
40452506--40452553	22	2.3	22	85	7	64	62	6	4	27	1.38
40452567--40452646	18	4.3	19	71	17	69	46	0	0	53	1.00
40452564--40452637	37	2.0	36	94	2	130	51	0	0	48	1.00
40452751--40452797	24	1.9	25	83	12	62	38	19	10	31	1.86
40462909--40462952	22	2.0	21	83	12	54	40	0	0	59	0.98
40466279--40466494	33	5.5	41	70	19	185	22	16	27	33	1.95
40466252--40466531	75	3.8	74	89	5	417	22	17	27	32	1.97
40466252--40466531	152	1.9	144	89	5	434	22	17	27	32	1.97
40468691--40468723	14	2.5	13	90	9	50	24	12	6	57	1.57
40474609--40474799	51	3.8	50	81	8	235	31	25	15	27	1.95
40474713--40474795	26	3.2	26	65	27	68	32	25	12	30	1.92
40476140--40476187	22	2.3	22	85	7	64	60	8	4	27	1.44
40478654--40478697	22	1.9	22	86	9	61	38	15	2	43	1.60
40486034--40486077	22	1.9	22	86	9	61	38	15	2	43	1.60
40488868--40488933	25	2.6	25	72	25	59	27	24	21	27	1.99
40489054--40489090	19	1.9	20	94	5	67	54	18	0	27	1.44
40492421--40492467	22	2.1	22	92	0	76	25	10	23	40	1.87
40499903--40500155	50	5.1	50	85	5	296	22	30	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40500132--40500177	22	2.1	22	100	0	92	26	39	19	15	1.91
40517087--40517262	88	2.0	88	88	0	262	24	14	22	38	1.92
40554725--40554824	38	2.7	38	90	3	159	8	25	10	57	1.59
40558363--40558424	26	2.4	26	97	0	115	46	0	1	51	1.10
40558599--40558653	24	2.2	26	81	12	71	45	0	1	52	1.11
40558777--40558881	44	2.5	40	76	15	113	31	29	4	34	1.78
40558775--40558884	45	2.6	44	81	8	131	31	29	5	33	1.80
40558865--40558916	16	3.2	16	94	0	86	34	36	0	28	1.58
40563835--40563871	19	1.9	19	100	0	74	27	16	13	43	1.85
40568283--40568346	32	2.0	32	96	3	121	46	12	9	31	1.73
40574044--40574070	13	2.1	13	100	0	54	85	0	14	0	0.61
40574231--40574262	3	10.7	3	100	0	64	68	0	0	31	0.90
40574563--40574627	32	2.1	32	97	2	123	47	12	9	30	1.72
40576045--40576103	20	3.0	20	76	0	64	42	16	5	35	1.71
40576287--40576406	23	5.1	23	77	10	102	34	17	25	22	1.96
40576308--40576406	24	4.2	23	77	10	85	35	19	24	21	1.96
40576270--40576388	45	2.6	46	80	6	125	34	16	25	23	1.95
40576557--40576942	67	5.8	67	89	2	564	41	19	2	37	1.63
40579779--40579911	27	5.1	27	79	16	147	30	24	22	22	1.99
40579799--40579898	49	2.1	49	90	5	159	31	24	23	22	1.99
40580022--40580122	26	3.9	26	86	0	130	34	23	21	19	1.96
40580292--40580577	27	10.3	27	79	5	266	20	17	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40580436--40580502	34	2.0	34	87	0	98	26	25	13	34	1.93
40581278--40581324	24	2.0	22	84	12	58	25	38	2	34	1.68
40583094--40583330	40	5.9	40	82	4	291	39	18	25	16	1.92
40583141--40583322	20	9.1	20	64	4	80	38	18	26	16	1.92
40583094--40583329	80	3.0	78	87	3	337	38	18	25	16	1.92
40583094--40583329	120	2.0	120	88	3	350	38	18	25	16	1.92
40586467--40586496	15	2.0	15	93	0	51	33	26	16	23	1.96
40596156--40596186	2	15.5	2	93	0	53	48	0	0	51	1.00
40602803--40602853	26	1.9	27	88	11	79	7	13	15	62	1.52
40607719--40607769	26	1.9	27	88	11	79	7	13	15	62	1.52
40615062--40615097	15	2.4	15	100	0	72	36	0	22	41	1.54
40628266--40628318	25	2.1	25	92	0	88	41	20	13	24	1.88
40630630--40630943	156	2.0	157	93	0	540	33	22	12	31	1.91
40631774--40631817	19	2.2	20	92	4	72	29	11	9	50	1.69
40635052--40635089	16	2.4	16	90	0	58	44	2	7	44	1.47
40635061--40635092	16	2.0	16	100	0	64	43	0	6	50	1.27
40636573--40636632	25	2.4	26	86	5	88	53	20	8	18	1.70
40646737--40646780	3	14.7	3	85	0	61	63	2	0	34	1.07
40646918--40646959	18	2.4	18	96	4	77	23	21	4	50	1.68
40647482--40647521	17	2.4	18	84	16	59	22	5	0	72	1.04
40647518--40647568	5	10.2	5	95	0	84	60	3	0	35	1.15
40649997--40650031	17	2.1	17	89	5	54	42	8	5	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40664209--40664579	105	3.6	104	93	1	611	19	20	29	30	1.97
40673863--40673957	28	3.4	28	85	0	127	30	25	23	21	1.99
40674062--40674138	26	3.0	26	82	0	91	38	23	22	15	1.92
40674316--40674392	27	2.9	27	88	0	109	14	20	22	42	1.88
40674404--40674454	23	2.2	23	92	0	84	41	21	9	27	1.84
40677424--40678061	50	12.6	50	90	3	886	26	21	30	22	1.98
40679589--40679632	23	1.9	23	90	0	70	45	25	2	27	1.65
40685126--40685160	16	2.1	17	89	5	54	31	40	0	28	1.57
40696237--40696272	18	2.0	18	100	0	72	44	11	11	33	1.75
40699354--40699394	16	2.6	15	84	7	55	43	0	2	53	1.13
40722812--40722995	50	3.5	51	75	6	156	23	27	20	28	1.99
40735554--40735604	20	2.6	20	90	3	77	25	27	19	27	1.99
40735783--40735913	41	3.2	41	94	0	226	30	18	17	33	1.94
40747489--40747682	50	3.9	49	77	3	183	28	21	28	21	1.99
40754565--40754806	50	4.7	50	78	4	209	26	21	28	23	1.99
40756303--40756419	32	3.6	31	86	6	153	17	19	24	37	1.94
40756303--40756483	32	5.7	31	79	5	141	17	19	24	38	1.93
40768502--40768571	29	2.4	29	85	0	104	37	7	24	31	1.82
40768559--40768729	29	5.9	29	84	2	200	38	13	26	21	1.90
40768559--40768760	58	3.5	56	80	7	208	39	13	24	22	1.91
40768553--40768759	29	7.1	29	81	7	105	38	14	24	22	1.91
40768559--40768759	88	2.3	88	82	5	203	38	13	24	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40777467--40777650	51	3.7	50	75	5	158	23	17	27	31	1.97
40782235--40782457	20	11.2	20	66	7	123	17	32	17	32	1.93
40782235--40782520	40	7.2	40	79	4	312	17	32	17	32	1.93
40782234--40782490	79	3.3	79	91	2	401	17	32	17	32	1.93
40782234--40782520	79	3.6	79	88	3	391	17	32	17	32	1.94
40791347--40791396	23	2.1	25	78	17	61	74	0	22	4	0.99
40791343--40791396	12	4.7	11	82	13	56	74	0	22	3	0.98
40794048--40794095	13	3.7	13	81	18	64	54	0	4	41	1.20
40794045--40794100	12	4.5	12	77	22	62	50	0	3	46	1.19
40794045--40794100	25	2.2	25	100	0	112	50	0	3	46	1.19
40794051--40794097	12	3.8	13	81	18	64	53	0	4	42	1.20
40805068--40805242	50	3.4	50	86	2	233	26	23	30	20	1.98
40805074--40805257	103	1.8	100	83	3	242	27	21	30	20	1.98
40807141--40807436	50	5.9	50	87	0	403	22	32	19	25	1.98
40807093--40807436	100	3.5	100	85	2	433	22	31	20	26	1.98
40811748--40812319	50	11.7	50	86	3	779	21	33	20	25	1.97
40811863--40811948	40	2.2	40	95	0	154	23	36	20	19	1.95
40821393--40821587	50	3.9	49	87	2	239	27	21	29	21	1.98
40821339--40821487	50	2.7	58	81	10	145	26	19	30	24	1.98
40821393--40821587	100	2.0	100	85	2	266	27	21	29	21	1.98
40821836--40821874	12	3.2	12	85	0	51	51	5	23	20	1.67
40823340--40823398	11	5.5	11	74	9	50	38	1	37	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40832856--40832886	16	1.9	16	100	0	62	38	0	0	61	0.96
40832880--40833007	68	1.9	66	82	6	159	53	1	0	43	1.15
40836230--40836459	60	3.8	60	78	0	219	36	19	28	14	1.92
40836448--40836490	20	2.2	20	86	0	59	34	20	37	6	1.80
40840416--40840445	16	1.9	16	93	6	53	50	20	0	30	1.49
40841619--40841676	25	2.4	24	82	8	64	27	20	27	24	1.99
40844702--40845070	27	13.7	27	84	1	353	36	20	18	23	1.95
40845111--40845192	24	3.5	23	83	5	92	20	7	24	47	1.75
40845293--40845366	26	2.8	26	91	0	121	13	24	27	35	1.93
40845284--40845375	26	3.5	26	80	2	87	17	23	25	33	1.96

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