genome.fa.s4.2.7.7.80.10.50.1000.114.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  114  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)
36293139--36293309	46	3.7	46	74	16	176	28	26	21	23	1.99
36298157--36298248	19	4.9	19	92	5	152	35	13	10	40	1.79
36298150--36298248	36	2.7	38	90	9	170	35	14	10	40	1.79
36310446--36310557	35	3.2	35	79	3	109	25	16	30	26	1.97
36316429--36316495	28	2.5	28	79	15	79	28	22	19	29	1.98
36320002--36320077	21	3.5	21	66	16	55	22	14	25	38	1.92
36320006--36320093	45	2.0	45	95	0	158	22	13	25	38	1.91
36322467--36322639	46	3.7	48	78	12	168	26	19	30	24	1.98
36327682--36327763	27	3.1	27	91	1	130	37	17	20	24	1.93
36331524--36331658	40	3.3	40	84	1	135	32	23	17	25	1.97
36331544--36331671	40	3.2	40	86	0	157	33	23	16	26	1.96
36335538--36335584	23	2.0	23	100	0	94	44	29	0	25	1.54
36336396--36336473	39	2.0	39	94	0	138	39	16	11	32	1.85
36341502--36341533	15	2.1	15	94	0	55	31	0	15	53	1.43
36343686--36343724	17	2.4	17	82	4	53	71	5	0	23	1.05
36345567--36345739	43	4.0	43	78	11	167	26	17	26	29	1.98
36345582--36345739	86	1.8	86	86	2	228	27	17	26	28	1.97
36351310--36351361	27	1.9	27	88	0	77	63	1	26	7	1.32
36352756--36352796	12	3.3	13	87	12	52	21	0	0	78	0.76
36354085--36354212	28	4.5	28	86	2	166	29	12	25	32	1.92
36354085--36354213	57	2.3	57	86	2	179	29	12	25	32	1.92
36367068--36367111	21	2.1	21	86	0	61	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36368248--36368299	11	4.7	11	85	0	59	69	9	0	21	1.17
36368555--36368615	31	2.0	31	96	0	113	52	26	16	4	1.64
36371239--36371302	32	2.0	32	96	0	119	31	7	28	32	1.85
36380413--36380452	15	2.7	15	84	3	55	47	0	0	52	1.00
36382878--36382926	25	2.0	25	91	0	80	46	10	10	32	1.71
36383204--36383254	25	2.1	24	82	10	59	33	7	3	54	1.47
36391997--36392051	27	2.0	27	100	0	110	38	7	10	43	1.68
36397758--36397942	79	2.3	81	82	7	218	25	22	27	25	2.00
36397758--36397942	40	4.7	40	84	6	198	25	22	27	25	2.00
36397811--36397965	79	2.0	79	81	7	181	27	20	25	25	1.99
36405727--36405909	78	2.3	81	82	7	216	24	21	27	25	1.99
36405727--36405916	39	4.8	40	79	10	169	25	21	27	25	1.99
36405774--36405932	78	2.0	78	82	9	191	27	19	26	26	1.99
36407816--36407878	31	2.0	31	90	0	99	31	15	30	22	1.95
36409723--36409763	20	2.1	20	86	4	57	48	4	0	46	1.23
36410404--36410466	25	2.4	26	81	7	74	34	4	6	53	1.47
36425897--36426209	40	7.8	40	92	0	509	29	20	27	23	1.98
36431561--36431825	40	6.7	40	81	9	247	24	20	27	27	1.99
36431561--36431823	80	3.3	80	86	2	325	24	20	27	26	1.99
36431561--36431825	120	2.2	120	83	3	320	24	20	27	27	1.99
36431614--36431858	80	3.1	80	87	1	260	25	20	28	26	1.99
36439095--36439318	40	5.6	40	88	3	267	25	20	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36439056--36439318	80	3.3	80	82	5	293	24	20	27	27	1.99
36440890--36440959	25	2.8	25	82	0	95	25	25	22	25	2.00
36441007--36441055	20	2.4	21	89	3	73	38	18	8	34	1.80
36441007--36441055	11	4.7	11	75	14	50	38	18	8	34	1.80
36448529--36448604	22	3.3	22	67	22	66	32	13	28	25	1.93
36448509--36448654	47	3.1	47	96	0	265	34	11	27	26	1.91
36448509--36448694	94	2.0	94	86	4	259	33	11	29	25	1.91
36448509--36448674	47	3.5	45	91	4	224	33	10	28	27	1.90
36448678--36448850	46	3.8	46	92	0	274	34	9	32	23	1.87
36461373--36461420	25	1.9	25	91	0	78	35	25	14	25	1.94
36461464--36461502	20	2.0	20	100	0	78	35	12	20	30	1.90
36461553--36461699	24	6.2	23	86	3	195	29	21	21	27	1.98
36461553--36461699	47	3.1	47	85	2	197	29	21	21	27	1.98
36461554--36461693	71	2.0	71	92	0	235	27	22	22	28	1.99
36461912--36461975	31	2.1	31	90	0	101	35	15	23	25	1.94
36464112--36464190	29	2.7	29	86	5	106	27	32	15	24	1.95
36473952--36474103	37	4.1	37	89	3	225	26	32	19	21	1.97
36474266--36474639	47	8.0	47	89	0	550	27	29	11	32	1.91
36474541--36474614	23	3.2	22	67	27	55	25	32	12	29	1.92
36479435--36479508	28	2.6	28	91	4	114	28	13	27	31	1.94
36488108--36488144	11	3.4	11	100	0	74	16	0	8	75	1.02
36493534--36493632	28	3.5	29	86	9	125	27	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36494878--36494902	11	2.3	11	100	0	50	56	20	0	24	1.43
36495856--36496129	96	2.9	96	81	3	336	22	29	20	28	1.98
36495854--36496126	144	1.9	144	82	6	347	21	29	20	28	1.98
36495856--36496126	48	5.6	48	78	5	278	22	29	19	28	1.98
36504488--36504559	36	2.0	36	86	5	101	29	2	4	63	1.27
36519357--36519476	48	2.5	48	81	7	138	28	20	15	35	1.93
36540058--36540099	21	2.0	21	95	0	75	50	14	21	14	1.78
36551179--36551371	43	4.6	42	87	4	151	22	29	20	27	1.99
36551206--36551403	43	4.6	43	86	5	251	23	28	20	27	1.99
36551207--36551371	85	1.9	85	89	4	253	22	29	21	26	1.99
36564921--36564962	22	1.9	22	85	0	57	7	23	2	66	1.28
36574915--36575130	40	5.4	40	86	3	294	27	27	20	24	1.99
36577338--36577469	55	2.4	54	78	6	131	16	25	32	25	1.96
36580113--36580249	40	3.5	40	80	6	129	25	30	22	21	1.99
36601192--36601224	11	3.1	11	95	4	59	30	27	15	27	1.96
36610164--36610758	298	2.0	298	98	0	1163	27	25	20	26	1.99
36618454--36618623	93	1.8	93	88	2	261	30	27	18	23	1.98
36618448--36618617	46	3.7	46	72	17	154	30	26	18	24	1.98
36619041--36619100	30	2.0	30	86	0	84	30	25	6	38	1.81
36621105--36621182	34	2.3	34	82	8	97	30	21	19	28	1.97
36624358--36624535	27	6.6	27	82	3	196	25	15	29	29	1.96
36624359--36624514	82	1.9	81	86	3	224	25	15	29	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36624355--36624535	82	2.2	81	82	2	220	25	15	28	29	1.96
36632482--36632659	27	6.6	27	83	3	205	26	15	28	29	1.96
36632483--36632638	82	1.9	81	88	3	233	26	15	28	29	1.96
36632479--36632659	82	2.2	81	83	2	229	27	15	27	29	1.96
36646885--36647069	40	4.6	40	91	0	289	21	21	28	29	1.98
36646885--36647102	40	5.5	40	88	1	278	22	21	27	27	1.99
36650620--36650647	13	2.2	13	100	0	56	50	28	0	21	1.49
36661095--36661142	24	2.0	24	100	0	96	25	12	20	41	1.87
36665016--36665125	54	2.0	54	96	0	202	33	12	26	27	1.93
36666640--36666796	43	3.6	44	82	7	196	24	17	25	32	1.97
36677437--36677545	37	2.9	37	90	2	166	28	31	17	22	1.97
36677686--36677972	48	5.9	48	95	1	493	31	27	6	34	1.82
36677671--36677977	146	2.1	147	89	4	494	31	28	5	33	1.81
36677686--36677972	98	3.0	96	93	2	502	31	27	6	34	1.82
36677989--36678182	47	4.1	47	92	0	262	25	27	10	36	1.89
36678035--36678109	22	3.3	22	66	23	64	25	29	13	32	1.93
36677950--36678182	94	2.5	95	84	4	294	25	28	10	35	1.89
36682010--36682138	46	2.8	47	86	2	179	23	15	27	33	1.95
36684558--36684584	14	1.9	14	100	0	54	48	7	14	29	1.71
36694044--36694088	22	2.0	22	95	0	81	40	2	28	28	1.69
36694049--36694096	22	2.2	22	88	0	69	45	4	22	27	1.70
36695824--36695859	19	1.9	18	94	5	63	77	2	19	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36712028--36712189	46	3.5	46	78	6	166	24	25	18	31	1.97
36715804--36715829	9	2.9	9	100	0	52	34	11	34	19	1.88
36715930--36716021	29	3.2	29	76	1	96	28	13	30	28	1.94
36725999--36726176	46	3.8	46	78	4	214	28	28	20	21	1.98
36726007--36726177	93	1.8	93	94	0	306	28	29	21	21	1.98
36731571--36731741	93	1.8	93	94	0	306	28	29	21	20	1.98
36731563--36731738	46	3.8	46	79	10	214	28	29	21	20	1.98
36736128--36736184	27	2.1	27	100	0	114	38	14	17	29	1.89
36738255--36738365	58	1.9	59	90	1	179	47	9	2	39	1.51
36741141--36741187	20	2.5	20	90	10	73	21	19	8	51	1.73

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