genome.fa.s5.2.7.7.80.10.50.1000.202.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  202  of  318  ( 38109 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)
63813956--63814126	93	1.8	93	93	2	299	21	21	29	28	1.98
63813959--63814131	46	3.7	47	80	13	214	21	21	28	28	1.98
63823082--63823177	47	2.0	47	89	0	147	30	15	20	33	1.94
63829992--63830308	47	6.7	47	94	0	519	32	8	30	28	1.87
63830427--63830505	37	2.1	37	90	0	122	24	18	31	25	1.98
63833566--63833607	21	2.0	21	86	9	59	42	11	0	45	1.41
63842248--63842346	30	3.3	30	80	8	137	41	16	16	26	1.88
63842240--63842376	31	4.5	31	79	8	156	44	16	16	23	1.86
63842240--63842376	61	2.2	61	100	0	274	44	16	16	23	1.86
63843319--63843368	3	17.0	3	81	4	57	2	36	0	62	1.07
63843316--63843371	9	6.9	8	79	16	62	1	35	0	62	1.06
63843313--63843371	26	2.4	23	80	20	75	1	33	0	64	1.04
63843950--63844006	8	7.4	8	76	11	57	22	0	5	71	1.05
63843952--63844007	17	3.5	16	79	18	55	23	0	5	71	1.06
63848746--63848790	22	2.0	22	100	0	90	53	4	8	33	1.52
63853299--63853336	19	2.0	19	85	10	51	47	2	0	50	1.15
63853805--63853848	18	2.4	18	85	7	54	38	0	2	59	1.10
63853839--63853913	23	3.3	23	92	0	114	45	1	1	52	1.17
63853964--63853988	13	1.9	13	100	0	50	56	32	0	12	1.36
63854219--63854254	18	1.9	19	88	5	56	25	8	5	61	1.46
63855602--63855685	36	2.3	36	95	0	159	32	20	21	26	1.98
63856754--63857438	44	15.2	44	73	11	431	29	18	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63856991--63857271	45	5.9	51	75	12	197	27	19	18	34	1.95
63857045--63857438	45	8.7	45	80	6	341	29	19	16	33	1.94
63856994--63857309	95	3.4	95	82	4	333	28	19	18	33	1.95
63857094--63857410	133	2.3	131	83	6	366	29	19	16	34	1.94
63874682--63874904	40	5.6	39	80	8	200	25	21	27	26	1.99
63879063--63879151	30	3.0	30	100	0	178	12	37	20	30	1.89
63885609--63885658	24	2.1	24	96	0	91	42	20	4	34	1.70
63886880--63886913	5	6.6	5	93	6	59	61	0	0	38	0.96
63893063--63893123	32	1.9	32	86	0	86	42	8	11	37	1.71
63893902--63893940	17	2.1	19	86	13	55	69	0	15	15	1.20
63894154--63894210	22	2.6	22	100	0	114	21	28	24	26	1.99
63900137--63900173	5	7.4	5	100	0	74	78	0	0	21	0.75
63900381--63900433	25	2.1	25	100	0	106	33	16	11	37	1.85
63902206--63902257	27	1.9	27	96	0	95	44	11	26	17	1.83
63907277--63907328	22	2.5	20	85	11	77	23	0	1	75	0.91
63907361--63907406	17	2.6	17	86	3	65	28	2	0	69	1.00
63907361--63907399	16	2.4	16	91	4	60	28	0	0	71	0.86
63907402--63907470	22	3.1	21	78	12	68	13	7	2	76	1.10
63907411--63907476	22	2.9	22	77	11	71	13	9	3	74	1.18
63907518--63907560	3	15.3	3	86	13	65	27	0	0	72	0.85
63907518--63907560	17	2.6	17	89	10	63	27	0	0	72	0.85
63907646--63907736	41	2.2	41	96	0	164	27	15	5	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63908591--63908622	12	2.7	12	90	0	55	90	0	9	0	0.45
63909467--63909527	30	2.0	30	93	0	104	24	37	27	9	1.87
63922576--63922623	24	2.0	24	95	0	87	54	27	6	12	1.61
63930057--63930346	142	2.0	142	98	0	562	35	6	19	37	1.79
63939430--63939511	26	3.2	26	92	0	137	35	26	6	31	1.81
63946459--63946540	26	3.2	26	94	0	146	35	26	7	30	1.84
63948864--63949129	56	4.8	56	84	0	325	28	15	22	33	1.94
63948864--63949129	112	2.4	112	88	0	379	28	15	22	33	1.94
63948864--63949159	56	5.3	55	80	6	285	27	15	23	33	1.94
63948922--63949159	112	2.1	112	86	3	327	26	15	23	34	1.94
63950519--63950544	12	2.2	12	100	0	52	76	0	7	15	0.99
63952274--63952339	27	2.5	25	75	18	62	34	1	0	63	1.04
63952283--63952370	43	2.0	44	82	6	106	39	3	1	55	1.24
63955182--63955394	36	5.7	36	65	12	115	34	23	19	23	1.97
63955156--63955387	76	3.1	76	82	3	279	34	21	19	24	1.96
63958227--63958256	15	2.0	15	100	0	60	46	40	6	6	1.56
63964478--63964519	17	2.4	17	88	8	57	11	21	45	21	1.84
63964486--63964521	17	2.1	18	94	5	65	13	22	41	22	1.89
63964768--63964856	27	3.3	27	90	0	133	33	17	22	25	1.96
63964768--63964880	27	4.2	27	86	0	127	35	17	19	27	1.94
63965043--63965102	27	2.2	27	81	0	75	20	20	23	36	1.95
63973376--63973431	14	4.1	13	75	24	53	60	1	1	35	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63973366--63973424	14	3.9	15	80	12	75	61	1	3	33	1.23
63973362--63973429	34	2.0	33	88	2	100	61	1	2	33	1.20
63973388--63973431	12	3.4	12	82	14	52	61	0	2	36	1.09
63973532--63973697	7	24.6	7	68	19	70	61	1	3	34	1.19
63973600--63973695	15	6.5	15	70	20	69	63	0	3	33	1.10
63973536--63973667	32	4.1	32	72	19	91	61	1	2	34	1.18
63973548--63973715	15	10.6	16	66	28	60	61	1	3	33	1.24
63973536--63973728	22	9.0	21	69	15	76	61	2	3	33	1.25
63973602--63973750	41	3.6	40	76	15	110	63	2	4	30	1.27
63973532--63973767	15	17.4	13	66	23	55	61	2	3	32	1.26
63975391--63976180	289	2.7	289	95	0	1366	30	21	17	30	1.96
63981622--63981733	40	2.8	39	86	4	145	24	29	23	23	1.99
63981629--63981772	40	3.6	40	83	3	139	24	29	24	22	1.99
63985549--63986024	47	10.1	47	93	0	790	32	9	29	28	1.88
63985549--63985972	190	2.2	190	98	0	825	32	8	29	29	1.87
63985549--63986019	237	2.0	237	94	0	816	32	9	29	28	1.88
63986143--63986221	37	2.1	37	88	4	115	25	18	30	25	1.98
63988074--63988176	43	2.4	43	100	0	206	22	15	35	26	1.94
63988158--63988231	29	2.6	29	89	4	105	25	16	32	25	1.96
63988544--63988739	40	4.9	40	81	5	184	25	22	27	25	2.00
63988544--63988740	80	2.5	81	82	5	222	25	22	26	24	2.00
63992142--63992233	47	2.0	47	100	0	184	32	8	28	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63992143--63992282	47	3.0	47	88	0	172	31	10	32	25	1.90
63992405--63992483	37	2.1	37	86	4	106	25	18	31	24	1.98
63994831--63994864	16	2.0	18	88	11	54	23	20	38	17	1.93
64005545--64005605	30	2.0	30	100	0	122	39	6	32	21	1.79
64010215--64010260	21	2.2	21	88	7	67	63	0	0	36	0.95
64010224--64010270	22	2.1	22	84	7	60	68	0	0	31	0.90
64010393--64010555	77	2.1	77	96	2	303	47	6	7	38	1.56
64013617--64013685	27	2.5	28	88	6	106	42	0	15	42	1.47
64016987--64017064	37	2.1	37	85	0	102	44	6	14	34	1.70
64019141--64019215	29	2.5	29	80	4	78	49	13	10	26	1.74
64019849--64019892	17	2.4	19	88	11	74	45	4	0	50	1.22
64021239--64021580	26	13.5	26	68	10	111	57	3	6	32	1.41
64021422--64021579	26	6.4	24	76	9	124	56	4	5	33	1.43
64023498--64023566	29	2.4	29	82	2	86	27	4	8	59	1.46
64029716--64029794	37	2.1	37	88	0	113	26	31	17	24	1.97
64029913--64030503	47	12.4	47	92	2	885	28	29	8	32	1.88
64033559--64033804	128	1.9	128	91	2	406	25	13	23	37	1.91
64045086--64045958	177	4.9	174	87	3	1185	29	19	21	29	1.97
64047347--64047415	29	2.4	29	85	2	95	27	5	7	59	1.47
64048046--64048296	128	2.0	128	91	0	405	26	13	23	36	1.92
64049093--64049161	34	2.0	34	100	0	138	23	37	11	27	1.89
64049945--64050028	28	3.0	28	100	0	168	10	25	17	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64051425--64051465	11	3.5	11	81	18	55	31	0	0	68	0.90
64052599--64052652	23	2.3	23	82	14	67	66	0	1	31	1.02
64052614--64052663	20	2.6	21	81	15	63	68	0	0	32	0.90
64052618--64052654	19	2.0	19	89	5	58	67	0	0	32	0.91
64053486--64053530	20	2.2	20	88	7	65	60	4	2	33	1.29
64053851--64053913	28	2.2	28	97	2	117	28	3	28	39	1.72
64060745--64060927	40	4.6	40	88	5	246	24	21	27	26	1.99
64062521--64062739	37	5.9	37	95	0	357	22	33	20	23	1.97
64062944--64063231	47	6.1	47	89	0	432	27	29	11	32	1.91
64062944--64063232	141	2.0	141	94	0	506	27	29	11	32	1.91

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318