genome.fa.s4.2.7.7.80.10.50.1000.106.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  106  of  255  ( 30512 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)
33312665--33312787	47	2.6	47	86	3	165	30	17	28	23	1.97
33312627--33312787	50	3.5	46	78	9	168	29	18	27	24	1.98
33325175--33325202	5	5.6	5	100	0	56	17	0	0	82	0.68
33327363--33327401	20	2.0	20	85	10	53	43	20	28	7	1.79
33327394--33327482	40	2.2	41	74	4	92	38	16	29	15	1.90
33331821--33331925	27	3.9	27	83	7	124	17	24	20	37	1.94
33331821--33331932	54	2.1	54	84	3	145	16	24	21	37	1.94
33340360--33340437	25	3.1	24	85	7	102	25	21	24	28	1.99
33341678--33341753	38	2.0	38	100	0	152	31	13	23	31	1.93
33342940--33343084	40	3.6	40	85	4	193	25	24	26	23	2.00
33349733--33349808	38	2.0	38	100	0	152	31	13	23	31	1.93
33350994--33351138	40	3.6	40	85	4	193	25	24	26	23	2.00
33376388--33376444	26	2.2	26	80	3	60	26	21	19	33	1.97
33382606--33382868	46	5.7	45	76	11	187	29	19	28	23	1.98
33382648--33382868	46	4.8	46	79	9	191	28	19	29	23	1.98
33389209--33389258	23	2.2	23	96	0	91	24	26	36	14	1.93
33389348--33389417	28	2.5	28	92	0	122	20	42	18	18	1.89
33392127--33392251	46	2.7	46	85	9	157	21	28	20	29	1.98
33394825--33395009	79	2.3	82	84	7	229	24	27	22	24	2.00
33394806--33395009	40	5.1	40	81	8	229	24	27	22	25	2.00
33396135--33396253	55	2.1	56	96	1	222	22	23	8	45	1.79
33402049--33402233	40	4.7	40	78	11	175	25	26	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33403360--33403479	56	2.1	56	98	0	231	22	23	9	45	1.81
33404169--33404387	40	5.5	39	87	2	244	24	26	23	25	2.00
33406454--33406565	57	2.0	57	94	0	197	29	21	15	33	1.94
33411136--33411226	43	2.2	41	84	4	110	31	23	18	26	1.97
33415801--33415982	40	4.6	39	88	2	231	25	28	22	24	2.00
33423361--33423512	40	3.8	39	83	3	180	25	27	21	25	1.99
33423368--33423469	39	2.6	40	92	1	170	25	27	21	25	1.99
33432166--33432208	16	2.7	16	85	0	59	46	16	23	13	1.83
33432419--33432502	28	3.0	28	81	10	98	26	14	29	29	1.95
33439506--33439654	28	5.3	28	94	0	235	27	12	26	34	1.92
33446850--33446998	28	5.3	28	94	0	235	27	12	26	34	1.92
33449694--33449876	40	4.6	41	79	10	177	23	22	27	25	2.00
33449747--33449876	39	3.3	40	87	7	187	23	22	28	26	1.99
33452843--33453025	46	4.0	46	92	0	276	25	31	8	34	1.86
33452999--33453377	47	8.1	47	92	0	535	26	28	10	34	1.90
33453064--33453189	25	5.3	25	63	18	79	28	27	10	33	1.90
33453158--33453282	23	5.2	25	63	24	72	28	30	11	30	1.91
33459809--33459842	18	1.9	18	88	5	52	29	14	14	41	1.86
33461060--33461135	29	2.7	29	85	6	93	30	31	15	22	1.95
33466796--33466836	22	1.9	21	85	5	55	63	2	2	31	1.20
33467778--33467857	29	2.8	28	75	7	90	31	32	12	23	1.92
33468085--33468127	8	5.4	8	82	0	50	13	20	20	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33470765--33470792	14	2.0	14	100	0	56	42	0	0	57	0.99
33474493--33474713	40	5.6	40	82	3	250	25	21	26	25	2.00
33474941--33474982	22	1.9	22	85	9	59	33	9	14	42	1.78
33482758--33482978	40	5.6	40	83	7	265	24	21	27	26	1.99
33483206--33483247	22	1.9	22	85	9	59	33	9	14	42	1.78
33488471--33488592	22	5.3	22	63	24	63	34	12	28	24	1.92
33488449--33488642	47	4.1	47	95	0	334	35	10	28	25	1.89
33490309--33490367	23	2.7	23	77	12	63	33	0	23	42	1.55
33496085--33496237	79	1.9	79	85	7	213	27	27	19	25	1.99
33496101--33496278	40	4.4	40	82	4	191	27	27	19	25	1.99
33497629--33497806	27	6.6	27	83	3	196	29	28	15	26	1.96
33517006--33517044	16	2.4	17	91	4	62	10	5	35	48	1.59
33517327--33517367	18	2.2	19	83	12	50	19	36	21	21	1.95
33519906--33519989	29	2.9	29	86	8	118	32	28	13	26	1.93
33521279--33521317	16	2.4	17	91	4	62	10	5	35	48	1.59
33522917--33522950	16	2.1	16	88	5	50	76	11	11	0	1.02
33528260--33528414	39	4.0	39	88	0	238	25	21	27	25	1.99
33528260--33528442	78	2.3	78	85	1	242	25	22	27	24	2.00
33536449--33536573	39	3.2	39	89	1	189	24	20	28	28	1.99
33542279--33542339	29	2.3	27	83	13	74	44	1	0	54	1.10
33542282--33542371	12	7.5	11	70	22	65	43	3	1	52	1.25
33542298--33542376	6	13.2	6	75	19	60	44	3	1	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33542280--33542376	17	5.4	17	72	19	72	42	3	1	53	1.23
33545828--33545857	13	2.3	13	94	0	51	10	3	6	80	1.01
33552756--33553137	40	9.6	40	85	4	375	24	21	28	25	1.99
33556035--33556398	47	7.7	47	94	0	586	32	9	30	27	1.89
33556082--33556160	25	3.3	25	61	10	65	32	5	29	32	1.79
33556517--33556595	37	2.1	37	85	0	104	25	20	30	24	1.98
33560936--33560966	16	1.9	16	93	0	53	51	25	6	16	1.68
33562180--33562231	24	2.2	24	85	0	68	57	19	15	7	1.62
33562441--33562559	29	4.2	29	81	2	143	28	14	30	26	1.95
33565427--33565459	16	2.1	16	94	0	57	48	24	6	21	1.72
33571447--33571518	29	2.5	29	86	0	99	31	13	29	25	1.94
33580200--33580373	46	3.8	48	76	11	159	24	28	20	26	1.99
33597327--33597397	29	2.5	28	88	6	99	28	12	26	32	1.93
33597327--33597397	28	2.5	29	88	6	101	28	12	26	32	1.93
33602007--33602278	40	6.8	40	86	2	368	26	28	20	24	1.99
33601987--33602274	80	3.6	80	90	2	427	26	28	20	23	1.99
33610277--33610508	40	5.8	40	84	3	279	25	27	21	25	1.99
33610277--33610504	120	1.9	120	90	0	366	25	28	21	24	1.99
33610257--33610508	80	3.2	79	87	3	337	26	27	21	24	1.99
33615346--33615406	15	4.1	15	73	14	54	11	19	14	54	1.71
33617783--33617955	46	3.8	46	78	15	180	19	20	31	28	1.97
33620878--33620913	14	2.5	15	90	4	56	13	19	11	55	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33620867--33620943	15	5.2	15	75	9	77	11	18	15	54	1.70
33620867--33620953	29	3.0	29	81	8	95	10	18	16	55	1.69
33620876--33620954	15	5.4	14	75	10	61	10	18	13	56	1.65
33623322--33623501	46	3.9	46	82	12	224	20	21	29	28	1.98
33623321--33623492	93	1.8	93	93	0	299	20	22	29	27	1.98
33630779--33630852	28	2.7	27	87	6	112	28	12	25	33	1.92
33641058--33641151	46	2.0	46	100	0	188	34	6	19	40	1.77
33644735--33644910	46	3.8	46	79	12	207	20	20	29	29	1.98
33644732--33644903	93	1.8	93	94	0	308	20	20	29	28	1.98
33665771--33666000	48	4.8	48	86	2	293	26	19	27	27	1.99
33665830--33666033	96	2.1	96	81	3	241	27	17	26	27	1.98
33665771--33666046	144	1.9	144	79	5	308	28	18	26	26	1.98
33668355--33668538	40	4.6	40	82	10	225	25	22	27	25	2.00
33695504--33695599	39	2.4	40	91	1	158	25	30	21	22	1.99
33697541--33697784	29	8.4	29	78	7	154	27	15	20	35	1.94
33697590--33697793	58	3.5	58	76	4	185	27	16	21	35	1.94
33712670--33712694	13	1.9	13	100	0	50	8	40	36	16	1.77
33723952--33723976	9	2.8	9	100	0	50	52	0	24	24	1.48
33724265--33724361	43	2.3	41	79	13	99	24	21	25	27	1.99
33728662--33728686	9	2.8	9	100	0	50	24	0	20	56	1.43
33729024--33729116	40	2.3	40	83	7	118	22	17	23	36	1.94
33736712--33736994	142	2.0	141	97	0	539	40	18	19	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33739069--33739107	18	2.0	20	85	9	55	30	0	30	38	1.58
33739141--33739334	47	4.1	47	85	0	253	32	11	29	26	1.91
33739215--33739290	23	3.2	25	62	24	63	28	13	34	23	1.92
33739304--33739529	48	4.8	48	85	11	333	36	6	26	30	1.82
33739369--33739448	41	2.0	41	100	0	160	37	5	25	32	1.77
33739321--33739498	89	2.0	91	92	4	299	37	5	25	32	1.79
33739410--33739526	50	2.4	50	87	8	177	36	6	25	30	1.82
33739410--33739550	50	2.8	50	78	15	166	33	7	28	31	1.84
33739675--33739746	37	1.9	37	94	0	126	22	19	30	27	1.98
33741016--33741326	159	2.0	160	90	1	500	24	21	28	25	1.99

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255