genome.fa.s6.2.7.7.80.10.50.1000.137.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  137  of  168  ( 20060 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)
40085491--40085563	11	6.5	11	76	7	58	23	27	1	47	1.59
40085513--40085563	22	2.3	22	93	0	84	23	31	1	43	1.65
40085527--40085624	51	1.9	51	87	4	144	26	26	2	44	1.65
40085503--40085600	11	9.3	11	66	16	55	23	28	2	45	1.64
40087890--40088148	49	5.3	49	95	0	455	41	3	8	46	1.51
40089671--40089701	9	3.4	9	90	0	53	25	12	22	38	1.90
40090701--40090731	5	6.2	5	100	0	62	22	19	19	38	1.93
40090821--40090846	5	5.2	5	100	0	52	19	19	19	42	1.90
40092606--40093016	124	3.3	124	90	0	642	30	18	18	32	1.95
40093210--40093253	6	7.3	6	89	0	70	36	45	2	15	1.59
40105531--40105660	64	2.0	64	98	0	251	20	11	13	55	1.68
40108998--40109042	24	1.9	23	86	4	63	51	11	8	28	1.68
40119373--40119437	25	2.5	26	87	2	105	21	13	26	38	1.91
40127894--40127966	30	2.5	29	91	6	121	38	0	1	60	1.06
40127920--40127971	25	2.1	25	89	7	79	42	0	0	57	0.98
40127915--40127959	5	9.0	5	81	18	58	42	0	0	57	0.98
40128166--40128206	13	3.2	13	86	3	57	70	0	29	0	0.87
40129430--40129462	6	5.5	6	92	0	57	18	21	15	45	1.85
40129452--40129590	39	3.4	38	79	14	152	20	18	20	40	1.92
40129443--40129587	45	3.4	45	78	11	151	20	20	20	39	1.93
40130419--40130469	17	3.0	17	88	0	75	39	11	11	37	1.79
40132897--40133009	41	2.8	41	86	0	145	32	30	19	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40134057--40134155	42	2.4	42	87	0	135	28	26	9	36	1.87
40142319--40142343	9	2.8	9	100	0	50	24	0	8	68	1.16
40145810--40145869	28	2.1	30	81	15	81	60	0	10	30	1.30
40149738--40149764	4	6.8	4	100	0	54	25	48	0	25	1.52
40152453--40152536	25	3.4	25	90	1	125	40	2	0	57	1.12
40152499--40152541	13	3.5	13	78	12	54	48	0	0	51	1.00
40155327--40155479	22	7.0	22	90	0	225	32	14	26	26	1.94
40157019--40157075	28	2.1	28	83	3	71	17	7	10	64	1.46
40159650--40159715	20	3.2	20	71	25	50	40	3	7	48	1.47
40163346--40163385	18	2.2	19	86	4	55	27	0	27	45	1.54
40167428--40167466	2	19.5	2	100	0	78	48	0	0	51	1.00
40168352--40168396	17	2.6	19	76	20	53	31	0	0	68	0.89
40168904--40169163	80	3.2	81	79	4	290	38	5	12	43	1.66
40170071--40170102	12	2.7	12	95	0	55	34	40	0	25	1.56
40170071--40170102	15	2.1	15	94	0	55	34	40	0	25	1.56
40172911--40172943	16	2.0	17	88	5	50	48	0	6	45	1.27
40172995--40173111	55	2.1	54	96	0	198	48	3	5	41	1.44
40173017--40173101	25	3.2	25	66	26	66	48	2	4	44	1.36
40173021--40173115	31	3.3	31	64	19	87	50	3	5	41	1.41
40172995--40173091	32	3.3	32	68	25	104	49	3	7	40	1.46
40174090--40174117	5	5.6	5	100	0	56	0	17	0	82	0.68
40175142--40175209	34	2.0	34	100	0	136	20	11	26	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40184362--40184415	18	2.9	18	77	2	63	72	1	5	20	1.14
40184380--40184429	23	2.2	23	85	7	66	72	2	4	22	1.12
40184872--40184920	25	2.0	25	88	8	73	38	2	2	57	1.22
40187675--40187709	3	11.7	3	100	0	70	65	0	34	0	0.93
40188382--40188434	22	2.4	23	84	9	74	0	77	0	22	0.77
40188384--40188432	16	3.1	16	83	13	66	0	79	0	20	0.73
40188432--40188489	2	29.5	2	75	16	50	1	53	3	41	1.28
40192719--40192774	27	2.1	27	100	0	112	23	10	37	28	1.88
40196536--40196617	41	2.0	41	100	0	164	48	17	9	24	1.76
40197225--40197258	7	5.0	7	96	3	61	0	0	55	44	0.99
40198211--40198929	365	2.0	365	96	0	1332	38	15	14	32	1.87
40206723--40207210	222	2.2	225	81	6	565	37	18	9	34	1.84
40211905--40212535	326	1.9	329	85	2	858	34	19	11	34	1.88
40212736--40212792	14	4.2	13	77	16	55	56	21	1	21	1.52
40212734--40212793	21	2.9	20	75	5	57	58	20	1	20	1.48
40212763--40212793	14	2.2	14	100	0	62	61	19	0	19	1.35
40213027--40213068	17	2.5	17	96	0	75	52	0	2	45	1.13
40215057--40215109	26	2.1	24	83	13	63	33	20	28	16	1.95
40217638--40217674	14	2.6	15	83	8	51	62	0	5	32	1.18
40221305--40221491	91	2.0	92	91	1	304	45	15	12	25	1.82
40224397--40224433	16	2.2	17	90	4	58	81	0	2	16	0.81
40224399--40224433	11	3.3	11	88	4	54	82	0	2	14	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40225555--40226036	88	5.5	88	93	1	815	24	24	24	26	2.00
40227226--40227269	7	6.0	7	82	15	54	13	13	0	72	1.12
40227235--40227281	9	5.6	9	87	12	57	10	12	0	76	1.02
40227235--40227284	16	3.2	15	80	8	55	10	12	0	78	0.98
40227226--40227279	23	2.3	23	90	9	83	12	14	0	72	1.13
40228090--40228128	6	6.3	6	82	5	51	5	12	0	82	0.83
40228090--40228119	12	2.5	12	100	0	60	6	10	0	83	0.81
40228133--40228221	16	5.3	16	80	10	106	11	1	5	82	0.89
40228132--40228217	9	9.9	9	78	15	92	12	1	5	80	0.95
40228132--40228217	26	3.3	25	80	16	104	12	1	5	80	0.95
40228131--40228221	34	2.7	33	83	13	121	12	1	5	81	0.91
40228150--40228218	10	7.7	10	74	23	73	11	0	5	82	0.83
40231847--40231940	28	3.4	28	70	19	88	48	5	8	37	1.56
40238769--40238871	9	11.4	9	84	8	138	25	9	23	41	1.84
40241173--40241204	13	2.5	13	94	0	55	31	0	12	56	1.37
40241299--40241540	50	4.7	50	86	3	286	27	23	28	20	1.99
40241299--40241548	100	2.4	103	87	5	353	27	23	28	21	1.99
40253225--40253267	9	4.8	9	77	11	52	46	0	0	53	1.00
40253226--40253268	14	3.1	14	80	3	52	48	0	0	51	1.00
40259059--40259111	13	4.1	13	77	0	61	37	24	7	30	1.83
40263483--40263524	2	21.0	2	100	0	84	50	0	0	50	1.00
40264240--40264271	13	2.5	13	94	0	55	31	0	12	56	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40264366--40264564	50	3.8	50	85	4	245	26	23	28	21	1.99
40264378--40264564	101	1.8	103	86	8	272	26	22	28	21	1.99
40271139--40271186	22	2.2	22	100	0	96	37	18	4	39	1.70
40276821--40276862	18	2.4	18	80	15	52	54	4	7	33	1.49
40283735--40283840	37	2.7	38	81	5	115	33	25	16	24	1.96
40284661--40284697	11	3.5	11	82	17	51	0	27	0	72	0.84
40284660--40284703	17	2.4	18	85	11	63	0	27	0	72	0.85
40291958--40292017	26	2.2	28	79	5	70	28	11	1	58	1.43
40298997--40299038	9	4.7	9	82	8	50	59	0	7	33	1.25
40302345--40302380	16	2.2	16	95	0	63	41	13	19	25	1.88
40310288--40310320	7	4.7	7	100	0	66	30	15	0	54	1.41
40312513--40312565	20	2.6	20	76	8	54	64	7	0	28	1.21
40316157--40316213	29	1.9	29	85	3	78	56	7	10	26	1.59
40316933--40316972	9	4.4	9	96	0	62	25	10	25	40	1.86
40320071--40320103	2	16.5	2	100	0	66	48	0	0	51	1.00
40322780--40322899	62	1.9	62	83	3	152	43	15	4	37	1.66
40324918--40324980	27	2.4	27	89	2	92	66	1	0	31	1.01
40324922--40325009	39	2.2	40	86	6	126	68	1	1	29	1.04
40335572--40335648	34	2.3	34	86	6	104	25	19	14	40	1.89
40340736--40340768	16	2.0	17	88	5	50	12	18	12	57	1.64
40358644--40358670	8	3.4	8	100	0	54	51	0	0	48	1.00
40359093--40359171	38	2.1	39	82	2	97	36	10	7	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40361040--40361064	2	12.5	2	100	0	50	52	0	0	48	1.00
40363058--40363089	3	10.7	3	100	0	64	68	0	0	31	0.90
40365459--40365842	128	3.0	128	90	1	612	38	18	14	28	1.90
40367963--40368325	181	2.0	181	98	0	708	33	18	20	27	1.96
40376594--40376628	6	5.8	6	100	0	70	0	14	0	85	0.59
40387006--40387049	3	14.7	3	90	0	70	34	4	0	61	1.16
40389080--40389223	70	2.0	71	95	4	263	26	12	19	41	1.87
40392159--40392191	2	16.5	2	100	0	66	51	0	0	48	1.00
40394325--40394355	14	2.2	14	100	0	62	35	12	32	19	1.90
40396021--40396062	15	2.9	14	86	10	50	50	0	0	50	1.00

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