genome.fa.s1.2.7.7.80.10.50.1000.166.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  166  of  187  ( 22383 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)
48982330--48982389	25	2.4	25	97	2	111	33	0	16	50	1.46
48989403--48989432	15	1.9	16	93	6	53	6	23	0	70	1.11
48989349--48989438	36	2.6	34	75	20	91	11	27	1	60	1.38
48991292--48991345	13	4.1	13	78	4	63	35	11	14	38	1.82
48991299--48991356	27	2.1	27	93	0	98	32	13	15	37	1.87
48992844--48992910	26	2.6	26	85	0	89	29	23	25	20	1.99
48995269--48995299	14	2.1	15	94	5	55	9	0	12	77	0.99
49001634--49001705	22	3.3	22	94	0	117	30	16	27	25	1.97
49004612--49004680	24	2.8	25	73	18	74	49	10	7	33	1.64
49006353--49006690	44	7.7	44	88	0	473	22	27	20	29	1.99
49007943--49007986	15	2.7	16	89	10	63	13	9	0	77	0.99
49007969--49008026	30	1.9	30	89	0	89	13	8	8	68	1.37
49007970--49008039	29	2.4	29	81	9	81	11	11	7	70	1.35
49012470--49012538	24	2.8	25	80	6	79	52	7	5	34	1.53
49028608--49028642	17	2.1	16	89	5	52	37	14	25	22	1.92
49036754--49036795	20	2.1	20	86	0	57	47	0	7	45	1.30
49047061--49047812	114	6.8	114	75	10	745	26	22	25	25	2.00
49047403--49047584	91	2.0	91	91	2	294	27	20	24	27	1.99
49047289--49047698	205	2.0	205	90	0	640	26	21	25	26	2.00
49047175--49047884	319	2.2	319	98	0	1366	25	22	25	25	2.00
49048228--49048258	15	2.1	15	93	0	53	19	0	45	35	1.51
49048506--49048551	15	3.1	15	81	6	58	32	0	28	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49048578--49048616	7	5.4	7	81	6	51	17	0	46	35	1.49
49048574--49048616	15	2.9	15	86	3	61	18	0	46	34	1.50
49049415--49049563	49	3.2	48	63	14	121	48	8	11	31	1.70
49049496--49049628	68	2.0	68	89	3	205	50	10	8	30	1.66
49049555--49049607	24	2.2	25	83	6	65	66	9	1	22	1.31
49049691--49049885	106	1.8	107	90	3	313	49	11	11	28	1.73
49049959--49050008	26	1.9	26	100	0	100	70	6	0	24	1.10
49052827--49053274	23	19.7	23	74	13	338	29	6	24	39	1.80
49052829--49053274	46	9.8	46	76	9	396	29	6	24	39	1.80
49052829--49053274	137	3.3	137	93	1	770	29	6	24	39	1.80
49053218--49053304	23	3.8	22	84	11	79	29	9	24	36	1.86
49054214--49054463	43	5.8	43	87	1	324	20	18	32	28	1.96
49056835--49056943	20	5.4	20	75	4	76	11	33	20	34	1.88
49079751--49079810	29	2.1	28	84	9	77	16	11	25	46	1.81
49080459--49080574	57	2.0	57	96	0	214	30	23	17	29	1.97
49105327--49105403	32	2.4	32	82	2	91	49	7	11	31	1.68
49105817--49106253	233	1.8	238	84	3	596	32	18	19	29	1.96
49106110--49106502	189	2.1	189	89	2	603	29	20	21	28	1.98
49107101--49107155	22	2.5	21	91	2	65	30	3	29	36	1.75
49107107--49107155	22	2.2	22	96	0	89	30	4	30	34	1.76
49107695--49107749	24	2.2	25	87	9	78	20	43	1	34	1.62
49109139--49109171	15	2.2	15	94	0	57	39	3	3	54	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49109211--49109292	24	3.2	24	67	29	71	46	6	3	43	1.46
49109209--49109334	52	2.4	52	100	0	252	45	4	3	46	1.43
49109292--49109353	21	3.0	21	70	23	51	41	4	4	48	1.46
49109368--49109400	15	2.2	15	94	0	57	39	3	3	54	1.31
49109077--49109496	229	1.8	227	96	0	716	43	5	4	46	1.48
49109551--49109604	25	2.2	25	86	0	72	53	16	1	27	1.53
49109550--49109820	9	32.1	8	69	17	101	47	20	2	29	1.62
49109563--49109616	25	2.2	25	82	0	63	51	16	1	29	1.55
49109601--49109821	25	8.7	25	81	4	264	46	21	2	29	1.64
49109548--49109819	16	16.1	18	71	13	168	47	20	2	29	1.62
49110612--49110701	21	4.3	21	85	0	117	33	21	42	3	1.69
49111187--49111491	42	7.2	42	82	4	303	27	20	20	31	1.98
49111570--49111612	22	2.0	22	90	0	68	48	27	13	9	1.73
49112865--49112905	11	3.7	11	80	0	55	19	14	9	56	1.66
49112942--49113006	30	2.2	30	94	0	112	23	4	15	56	1.57
49117410--49117448	4	9.8	4	100	0	78	76	0	0	23	0.78
49123890--49123938	18	2.6	19	78	18	57	73	2	2	22	1.04
49131944--49132076	40	3.3	39	85	4	158	11	12	28	48	1.75
49133743--49133780	18	2.1	18	95	0	67	10	23	57	7	1.58
49139098--49139141	9	4.9	9	85	0	52	22	36	0	40	1.54
49140677--49140711	18	2.0	17	88	5	52	25	25	0	48	1.51
49140958--49140997	19	2.1	19	90	0	62	55	2	0	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49141983--49142029	22	2.1	22	96	0	85	53	4	6	36	1.46
49144723--49144774	24	2.2	24	82	6	61	65	1	3	28	1.21
49171270--49171379	55	2.0	55	98	0	211	27	21	11	39	1.88
49173275--49173314	20	1.9	20	85	10	53	37	5	7	50	1.53
49173552--49173596	23	1.9	24	86	4	65	42	26	13	17	1.86
49174807--49174850	21	2.1	21	82	0	52	43	20	13	22	1.87
49177774--49177839	13	5.1	13	87	7	89	27	6	28	37	1.80
49179016--49179048	12	2.6	13	85	9	50	57	0	3	39	1.14
49179422--49179500	33	2.4	33	93	0	131	24	49	11	15	1.77
49184950--49184980	12	2.6	12	94	0	53	29	41	22	6	1.78
49188534--49188613	34	2.4	32	81	4	88	68	1	17	12	1.27
49191357--49191381	12	2.1	12	100	0	50	52	0	0	48	1.00
49202037--49202234	21	9.4	21	69	4	130	46	15	20	16	1.83
49202066--49202234	42	4.0	42	86	3	241	47	15	20	15	1.83
49202037--49202234	84	2.4	84	82	1	254	46	15	20	16	1.83
49202080--49202275	21	9.5	21	66	12	102	49	15	19	15	1.79
49202210--49202286	38	2.0	38	94	0	136	57	16	16	9	1.64
49207012--49207045	6	5.7	6	96	0	59	55	0	26	17	1.42
49209254--49209554	146	2.2	138	86	7	403	42	3	9	43	1.55
49209498--49209542	22	2.0	22	87	8	65	35	0	11	53	1.37
49210066--49210117	21	2.5	21	80	0	50	21	11	1	65	1.34
49224994--49225056	12	5.0	12	90	9	99	23	0	19	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49226316--49226366	26	1.9	27	96	4	95	21	11	17	49	1.79
49234859--49234898	18	2.2	18	86	8	55	60	0	5	35	1.19
49235067--49235167	52	1.9	52	88	4	150	43	1	34	19	1.63
49237879--49237936	29	1.9	29	86	6	80	62	12	20	5	1.49
49242669--49242714	13	3.4	13	85	8	56	41	0	10	47	1.38
49243028--49243065	19	1.9	20	84	10	51	44	5	5	44	1.49
49247546--49247602	25	2.2	26	93	6	107	36	38	0	24	1.56
49247697--49247730	17	2.0	17	100	0	68	35	5	5	52	1.50
49251496--49251589	19	4.7	21	89	9	135	38	8	12	40	1.74
49251495--49251589	40	2.4	38	87	5	136	37	8	13	40	1.75
49252968--49253158	98	1.9	98	96	0	355	27	9	24	38	1.86
49255223--49255311	39	2.2	41	84	7	112	56	2	2	39	1.24
49256088--49256250	88	1.9	88	85	5	231	32	27	25	14	1.95
49261333--49261374	2	21.0	2	100	0	84	50	0	0	50	1.00
49261961--49262063	41	2.5	41	87	0	134	27	20	26	26	1.99
49262506--49262531	2	13.0	2	100	0	52	50	0	0	50	1.00
49262820--49262861	10	4.5	10	82	14	54	38	0	0	61	0.96
49263238--49263277	2	20.5	2	84	5	55	45	0	0	55	0.99
49263707--49265027	440	3.0	440	96	0	2381	35	17	19	27	1.94
49268053--49268089	18	2.0	19	89	5	58	13	18	0	67	1.23
49272091--49272169	35	2.3	35	91	2	133	20	15	18	45	1.85
49272305--49272402	52	1.9	50	85	8	135	31	15	10	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49272305--49272402	25	3.8	25	87	10	135	31	15	10	42	1.80
49275318--49275351	2	17.0	2	100	0	68	50	0	0	50	1.00
49275404--49275528	45	2.8	45	88	1	180	21	22	23	32	1.98
49275777--49276753	484	2.0	484	93	0	1686	32	9	16	40	1.82
49276940--49277097	78	2.0	78	100	0	316	32	7	11	48	1.67
49280665--49280783	42	2.8	42	79	11	127	31	25	18	25	1.98
49283138--49283174	19	1.9	19	89	10	58	2	8	18	70	1.25
49284736--49284771	17	2.1	18	89	5	56	19	2	13	63	1.41
49284833--49284924	47	2.0	47	95	0	166	42	6	5	45	1.53
49284914--49284964	21	2.4	21	96	0	93	58	9	0	31	1.30

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