genome.fa.s4.2.7.7.80.10.50.1000.128.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: 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  128  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)
40967648--40967723	22	3.3	22	64	10	62	28	10	31	28	1.90
40967640--40968033	47	8.4	47	93	0	644	32	8	30	28	1.86
40967836--40967911	22	3.3	22	66	16	64	32	10	30	26	1.90
40967640--40968033	141	2.8	141	97	0	725	32	8	30	28	1.86
40970158--40970368	115	1.8	112	83	8	271	30	4	12	52	1.59
40981643--40981750	53	2.0	53	94	3	191	37	12	12	38	1.80
40981894--40982815	45	20.6	42	65	17	173	30	15	27	27	1.96
40981857--40982814	90	10.7	90	89	1	1444	29	15	27	27	1.96
40981857--40982814	444	2.1	447	89	1	1447	29	15	27	27	1.96
40983958--40983987	13	2.2	14	94	5	53	40	0	3	56	1.16
40986723--40986905	79	2.3	81	82	7	214	25	27	22	24	2.00
40986702--40986905	40	5.1	40	81	8	220	25	27	22	25	2.00
40989520--40989650	67	2.0	67	86	8	187	34	16	23	25	1.95
40992252--40992548	40	7.5	40	86	2	359	23	22	27	25	2.00
40994235--40994289	24	2.3	25	75	9	60	32	0	3	63	1.12
41002868--41002892	7	3.6	7	100	0	50	44	0	28	28	1.55
41005896--41005945	26	1.9	26	95	0	91	32	8	18	42	1.79
41012920--41013095	46	3.8	46	78	14	200	21	20	28	29	1.98
41012917--41013088	93	1.8	93	93	2	301	21	20	29	28	1.98
41020485--41020660	46	3.8	46	78	14	200	20	19	29	30	1.97
41020482--41020653	93	1.8	93	93	2	301	20	20	29	29	1.98
41023074--41023250	49	3.7	47	76	11	162	24	16	32	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41022890--41023253	140	2.6	138	80	8	376	26	17	30	25	1.97
41028274--41028321	15	3.2	15	77	11	53	54	4	0	41	1.20
41033729--41033779	22	2.4	21	72	18	52	64	0	0	35	0.94
41038932--41039011	37	2.2	37	97	0	151	40	6	12	41	1.68
41043668--41043898	40	5.8	40	88	1	304	22	27	24	25	2.00
41048863--41048939	25	3.1	25	98	0	145	28	20	24	25	1.99
41052754--41052918	56	2.9	56	90	1	242	26	15	26	31	1.96
41053203--41053234	15	2.1	15	100	0	64	37	0	21	40	1.54
41056078--41056109	16	1.9	17	93	6	57	43	15	9	31	1.78
41058677--41058746	23	3.2	23	61	19	58	27	11	28	32	1.91
41058677--41058758	43	1.9	43	100	0	164	28	12	28	31	1.92
41059833--41059877	17	2.6	17	89	0	72	11	28	31	28	1.91
41060463--41060501	13	3.0	12	82	17	51	20	17	15	46	1.84
41063366--41063491	58	2.2	60	81	4	150	19	19	23	37	1.94
41073124--41073442	48	6.7	46	80	6	271	29	19	27	23	1.98
41073121--41073393	96	2.8	96	85	3	354	28	19	28	23	1.98
41073111--41073426	144	2.2	144	85	2	411	28	18	28	24	1.98
41073124--41073426	96	3.2	96	82	5	344	29	19	28	23	1.98
41075015--41075110	6	15.8	6	76	14	90	46	15	18	18	1.84
41075024--41075122	31	3.2	31	91	1	146	46	16	19	18	1.84
41075270--41075371	27	3.8	26	83	5	105	38	20	21	19	1.94
41075530--41075591	22	2.8	23	82	7	74	33	22	22	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41076021--41076188	27	6.3	27	81	8	157	25	19	20	34	1.96
41076209--41076729	27	19.3	27	84	0	612	33	8	19	39	1.81
41076209--41076729	81	6.4	81	88	1	677	33	8	19	39	1.81
41078669--41078765	6	15.8	6	74	16	83	46	15	18	19	1.84
41078678--41078788	31	3.5	31	92	1	159	46	15	18	19	1.84
41078925--41078999	27	2.8	27	87	0	96	37	20	24	18	1.94
41079648--41079814	27	6.2	27	77	10	137	26	20	18	34	1.96
41079665--41079814	54	2.8	55	79	8	157	25	19	20	35	1.95
41079796--41079868	27	2.7	26	72	8	74	31	9	24	34	1.88
41079850--41080269	27	15.6	26	82	4	392	32	8	20	38	1.83
41079853--41080269	81	5.2	81	86	2	471	32	8	20	39	1.83
41079907--41080269	27	13.5	27	85	0	440	32	8	19	39	1.81
41083399--41083472	37	2.0	37	82	15	91	25	8	24	41	1.82
41090598--41090748	76	2.0	78	82	2	189	21	20	23	33	1.97
41090598--41090748	38	3.9	38	84	1	167	21	20	23	33	1.97
41092322--41092574	43	5.9	43	91	0	389	11	23	32	32	1.91
41096953--41097141	38	4.9	38	85	6	220	21	22	25	30	1.99
41101805--41101862	28	2.0	28	87	9	82	18	20	43	17	1.89
41108998--41109043	22	2.0	23	87	4	67	39	19	4	36	1.72
41110439--41110493	28	2.0	28	88	0	83	29	27	14	29	1.95
41115027--41115106	34	2.4	34	91	0	124	26	27	25	21	1.99
41116907--41117129	39	5.7	40	84	8	257	25	21	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41116907--41117129	79	2.8	80	81	11	262	25	21	27	25	2.00
41116959--41117162	79	2.6	79	82	8	186	26	21	26	25	1.99
41121295--41121556	39	6.6	39	87	6	320	24	27	22	25	2.00
41129832--41130100	46	5.8	45	72	11	213	21	19	29	29	1.97
41129884--41130046	47	3.5	47	73	11	181	20	19	30	30	1.97
41129828--41130092	93	2.8	93	91	0	422	21	19	30	29	1.97
41132425--41132452	13	2.2	13	100	0	56	57	0	21	21	1.41
41136016--41136200	40	4.7	40	83	6	216	25	28	22	23	2.00
41136016--41136200	79	2.3	80	80	8	198	25	28	22	23	2.00
41138838--41139103	46	5.7	46	72	16	226	23	18	28	30	1.98
41138831--41139095	93	2.8	93	90	1	424	23	19	28	29	1.98
41138887--41139049	47	3.5	47	72	11	172	23	18	28	30	1.98
41142040--41142093	28	1.9	28	96	0	99	35	29	9	25	1.87
41150926--41151004	28	2.8	28	90	0	113	29	24	11	35	1.90
41154678--41154821	39	3.7	39	94	0	252	27	28	22	21	1.99
41167990--41168051	27	2.3	27	91	0	97	40	17	14	27	1.89
41171985--41172196	46	4.6	45	77	11	173	27	18	29	23	1.98
41172028--41172250	92	2.4	94	79	13	237	28	18	29	23	1.98
41175661--41175696	18	1.9	19	94	5	65	55	2	0	41	1.14
41176211--41176243	17	1.9	17	88	11	50	57	9	0	33	1.30
41178250--41178731	27	17.9	27	82	10	551	27	22	9	40	1.86
41178250--41178731	54	8.9	54	85	6	631	27	22	9	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41178249--41178731	81	6.0	80	85	5	659	27	22	9	40	1.86
41178749--41178934	81	2.3	81	87	1	257	36	17	19	26	1.94
41178741--41178936	27	7.3	27	86	0	230	35	17	19	27	1.94
41179812--41179864	27	2.0	27	96	0	97	26	20	20	32	1.98
41179811--41179871	27	2.3	27	88	0	95	29	18	19	32	1.95
41179876--41180368	27	18.3	27	84	5	595	39	9	22	27	1.85
41179876--41180368	81	6.1	81	85	3	661	39	9	22	27	1.85
41184642--41184715	29	2.6	29	86	4	96	27	16	31	25	1.96
41190667--41190891	40	5.7	40	88	3	242	27	26	21	25	1.99
41190667--41190891	80	2.8	80	82	7	278	27	26	21	25	1.99
41198572--41198744	40	4.3	40	88	3	233	27	25	20	27	1.99
41198572--41198785	40	5.4	39	85	5	225	27	25	20	26	1.99
41202695--41202768	29	2.6	29	86	4	96	27	16	31	25	1.96
41205208--41205268	21	3.0	21	92	2	88	21	27	36	14	1.93
41232149--41232227	29	2.7	29	84	5	97	29	32	15	22	1.95
41236300--41236479	27	6.6	28	79	12	135	38	20	10	31	1.86
41236290--41236479	81	2.3	81	82	6	233	37	21	10	31	1.86
41236290--41236479	54	3.5	53	79	9	204	37	21	10	31	1.86
41236849--41236908	22	2.7	22	78	0	66	21	25	21	31	1.98
41242032--41242119	43	2.0	43	86	0	122	37	11	17	34	1.85
41243553--41243736	91	2.0	91	100	0	368	51	11	7	29	1.66
41256647--41257099	48	9.4	48	94	0	762	35	8	26	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41257271--41257369	37	2.7	37	95	0	171	25	19	31	24	1.98
41262104--41262283	48	3.6	50	85	10	210	28	25	20	25	1.99
41294238--41294269	15	2.1	15	94	0	55	62	6	0	31	1.20
41299275--41299299	13	1.9	13	100	0	50	16	40	28	16	1.89
41305507--41305674	43	3.9	43	91	0	264	14	23	32	29	1.94
41305991--41306098	45	2.5	42	83	8	119	23	24	26	25	2.00
41318395--41318498	51	2.0	51	100	0	208	33	26	1	37	1.68
41322600--41322719	43	2.8	43	83	2	152	36	25	15	22	1.94
41322615--41322766	43	3.6	43	74	11	132	32	23	15	29	1.95
41322762--41322879	43	2.7	43	84	5	123	27	15	22	33	1.94

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