genome.fa.s16.2.7.7.80.10.50.1000.128.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  128  of  175  ( 20966 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)
39981290--39981534	46	5.6	46	69	13	160	27	18	20	33	1.96
39994955--39994984	15	2.1	15	93	6	53	76	0	13	10	1.01
39997102--39997147	16	2.8	17	83	6	67	41	21	2	34	1.66
39998397--39998501	51	2.1	51	94	0	183	26	11	28	33	1.91
40003782--40003931	36	3.9	36	78	16	165	28	20	12	38	1.89
40003818--40003972	46	3.6	46	78	16	204	28	21	12	36	1.91
40003732--40003972	82	3.0	82	93	2	398	28	21	13	36	1.91
40007401--40008052	300	2.2	298	82	6	773	40	10	13	35	1.79
40008006--40008049	18	2.3	19	85	14	56	61	0	6	31	1.22
40009287--40009330	23	1.9	23	81	9	54	54	9	0	36	1.32
40015058--40015112	24	2.3	24	83	0	65	23	30	18	27	1.97
40015259--40015350	24	3.8	24	86	1	121	19	30	20	29	1.97
40015259--40015351	49	1.9	49	86	2	134	19	30	21	29	1.97
40015259--40015364	24	4.3	24	84	5	97	19	29	21	29	1.98
40020265--40020298	16	2.1	17	88	5	52	38	0	8	52	1.33
40025085--40025236	41	3.7	41	80	0	169	24	17	30	27	1.97
40026949--40026981	2	16.5	2	93	0	57	54	0	0	45	0.99
40027256--40027396	40	3.5	40	91	0	219	28	21	19	30	1.98
40029238--40029290	22	2.4	23	75	9	58	24	0	39	35	1.56
40029259--40029318	14	4.1	14	82	4	66	26	0	38	35	1.57
40029356--40029403	25	1.9	25	91	0	78	35	0	4	60	1.16
40029559--40029596	14	2.7	15	84	12	53	26	2	28	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40029591--40029662	21	3.4	21	82	5	74	22	1	44	31	1.61
40029615--40029654	20	2.0	20	90	0	62	22	2	47	27	1.64
40042555--40042596	12	3.5	12	86	0	57	28	19	35	16	1.93
40044663--40044702	21	1.9	22	85	10	57	65	2	2	30	1.19
40051232--40051278	21	2.2	21	84	0	58	29	34	8	27	1.87
40054762--40054810	6	8.3	6	80	17	50	79	0	18	2	0.83
40054765--40054808	5	8.8	5	87	7	63	81	0	15	2	0.78
40054762--40054816	10	5.3	11	77	16	55	78	0	20	1	0.85
40057581--40057794	45	4.8	45	81	5	161	40	15	21	23	1.91
40061199--40061264	11	5.7	11	76	7	51	63	3	1	31	1.19
40061206--40061264	23	2.6	22	75	5	64	61	3	1	33	1.23
40062482--40062613	41	3.2	40	77	8	133	16	18	25	39	1.91
40063711--40063742	7	4.7	7	96	3	57	56	0	28	15	1.40
40066544--40066576	17	1.9	17	100	0	66	12	15	18	54	1.71
40067306--40067373	21	3.2	20	69	19	57	23	11	23	41	1.87
40067308--40067375	22	3.1	21	68	19	59	23	10	23	42	1.84
40068048--40068334	120	2.4	120	93	1	495	43	3	4	49	1.37
40068049--40068334	63	4.8	59	66	21	157	43	3	4	49	1.37
40068487--40068573	43	2.0	45	84	8	117	37	25	4	32	1.76
40069469--40069519	18	2.8	18	85	5	59	45	5	1	47	1.38
40069729--40069777	21	2.4	20	86	6	71	67	0	4	28	1.09
40092241--40092299	31	1.9	31	86	6	84	49	10	0	40	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40092418--40092479	32	1.9	32	96	0	115	37	17	12	32	1.88
40092800--40093061	113	2.3	112	83	5	325	49	19	3	27	1.65
40098619--40098644	4	6.5	4	100	0	52	53	0	23	23	1.46
40100510--40100597	44	2.0	45	82	6	110	40	1	1	56	1.14
40108544--40108868	51	6.3	51	85	6	420	28	24	14	32	1.95
40114382--40114435	13	3.9	13	79	13	54	24	1	1	72	1.05
40114401--40114430	8	3.8	8	100	0	60	33	0	0	66	0.92
40114460--40114516	26	2.2	26	83	0	69	35	0	1	63	1.05
40115681--40115768	23	3.6	23	78	13	79	55	6	1	36	1.34
40116754--40116833	21	4.0	21	85	9	114	36	15	10	38	1.80
40117131--40117156	4	6.5	4	100	0	52	50	0	0	50	1.00
40118397--40118427	15	2.1	15	100	0	62	35	19	12	32	1.90
40119172--40119262	21	4.3	21	90	8	132	43	0	0	56	0.99
40119172--40119262	42	2.1	42	92	6	148	43	0	0	56	0.99
40119308--40119337	9	3.2	9	95	4	51	40	0	0	60	0.97
40119349--40119410	21	3.1	21	86	6	85	32	0	3	64	1.09
40119356--40119430	28	2.6	28	85	8	89	38	0	1	60	1.06
40119476--40119513	17	2.2	17	90	4	58	34	0	0	65	0.93
40119519--40119553	11	3.1	11	91	4	52	48	0	0	51	1.00
40119519--40119556	12	3.2	12	85	7	51	47	0	0	52	1.00
40119494--40119561	30	2.3	30	80	10	77	47	0	0	52	1.00
40122890--40122993	30	3.5	30	86	2	129	26	21	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40125276--40125312	9	4.1	9	89	0	56	29	8	13	48	1.71
40125361--40125398	18	2.1	18	95	0	67	36	18	10	34	1.85
40126867--40126916	19	2.6	19	81	12	75	32	0	0	68	0.90
40126928--40126976	22	2.3	21	83	13	57	30	4	2	63	1.24
40127023--40127067	22	2.0	22	86	0	63	55	0	4	40	1.20
40127201--40127241	22	1.9	22	95	5	75	60	0	0	39	0.96
40127201--40127254	13	4.5	13	72	25	55	61	1	0	37	1.07
40127201--40127277	35	2.2	35	95	2	136	61	1	0	37	1.05
40127318--40127400	9	9.5	8	71	16	58	75	3	3	16	1.08
40127305--40127352	13	3.9	13	81	13	57	75	6	0	18	1.01
40128652--40128682	9	3.4	9	90	0	53	25	12	22	38	1.90
40128735--40128771	9	4.1	9	92	0	65	45	13	10	29	1.77
40136256--40136346	35	2.6	35	83	0	128	15	10	32	40	1.82
40142144--40142183	20	1.9	22	85	10	57	37	15	0	47	1.45
40142144--40142191	21	2.3	21	82	13	55	37	16	0	45	1.48
40142231--40142286	29	1.9	29	96	0	103	57	3	0	39	1.16
40142235--40142300	29	2.2	29	86	5	87	60	4	0	34	1.17
40142277--40142326	24	2.1	24	85	7	66	72	4	0	24	1.02
40142750--40142812	19	3.2	19	80	12	65	58	0	4	36	1.19
40142731--40142874	10	14.3	10	62	12	53	59	2	2	34	1.26
40142739--40142888	20	7.4	20	73	8	99	58	2	4	35	1.28
40142779--40142887	41	2.7	40	76	8	103	55	2	3	37	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40147709--40147747	19	2.1	19	90	0	60	53	0	2	43	1.14
40147876--40147952	19	3.9	19	72	12	75	36	3	0	59	1.16
40147869--40148011	10	13.6	11	66	18	56	34	4	0	60	1.23
40147878--40147965	20	4.4	20	77	4	90	34	3	0	62	1.12
40147911--40147985	31	2.5	29	82	6	87	29	4	1	65	1.19
40148679--40148731	18	2.9	17	78	10	61	1	16	49	32	1.57
40148692--40148724	6	5.7	6	89	3	50	3	15	51	30	1.58
40164788--40164858	31	2.2	33	83	14	87	36	4	9	49	1.56
40165299--40165354	18	3.1	18	76	0	58	28	3	23	44	1.70
40166012--40166079	17	4.0	17	70	0	55	26	5	19	48	1.71
40166002--40166101	51	2.0	51	86	4	139	28	8	17	47	1.75
40168411--40168463	24	2.2	24	87	9	74	47	22	16	13	1.82
40172532--40172560	11	2.7	11	94	5	51	44	0	0	55	0.99
40172541--40172723	59	3.2	58	73	12	141	48	3	4	43	1.42
40172641--40172684	16	2.7	16	89	10	63	52	6	6	34	1.55
40178414--40178460	23	2.0	23	91	0	76	46	6	21	25	1.74
40180517--40180568	20	2.8	18	78	21	63	51	3	1	42	1.31
40183615--40183760	73	2.1	71	91	7	237	41	14	6	37	1.73
40191409--40191450	21	2.0	21	85	0	57	19	21	19	40	1.92
40194385--40194446	26	2.4	26	91	5	99	43	16	9	30	1.80
40203555--40203624	24	2.9	24	87	4	97	17	21	7	54	1.66
40203591--40203729	40	3.5	39	73	14	113	21	23	7	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40205800--40205840	14	2.8	15	78	14	50	53	2	0	43	1.13
40205819--40205877	23	2.5	23	81	15	68	47	0	3	49	1.18
40217618--40217676	8	8.0	8	77	11	56	77	6	0	15	0.96
40217633--40217658	10	2.6	10	100	0	52	84	0	0	15	0.62
40217625--40217679	25	2.1	28	86	10	80	78	5	0	16	0.93
40217615--40217701	35	2.5	35	81	9	97	78	4	5	11	1.08
40217681--40217718	10	3.7	10	89	6	58	84	0	15	0	0.63
40219764--40219991	46	5.0	46	92	0	366	27	17	26	29	1.97
40219981--40220275	132	2.2	132	87	2	414	32	18	21	27	1.96
40220590--40220631	22	1.9	22	90	0	66	52	40	4	2	1.35

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