genome.fa.s5.2.7.7.80.10.50.1000.129.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  129  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)
40000095--40000131	17	2.2	17	95	0	65	54	2	13	29	1.53
40005166--40005219	23	2.5	22	87	6	74	59	7	1	31	1.36
40005169--40005239	3	23.3	3	74	8	63	61	5	1	30	1.27
40005703--40005738	11	3.0	12	92	8	56	47	0	52	0	1.00
40006227--40006251	8	3.1	8	100	0	50	24	12	52	12	1.72
40006713--40007218	44	11.2	44	69	16	130	28	21	18	31	1.97
40006689--40006997	88	3.4	87	71	18	259	29	21	17	32	1.96
40006656--40007045	188	2.1	187	88	4	572	27	20	18	32	1.96
40006926--40007262	46	7.6	45	72	9	212	28	21	19	30	1.98
40018734--40018787	23	2.5	22	87	6	74	59	7	1	31	1.36
40018737--40018807	3	23.3	3	74	8	63	61	5	1	30	1.27
40019273--40019308	11	3.0	12	92	8	56	47	0	52	0	1.00
40019276--40019320	22	2.0	22	86	0	63	42	0	57	0	0.98
40019797--40019821	8	3.1	8	100	0	50	24	12	52	12	1.72
40020140--40020656	254	2.0	254	97	0	980	41	14	9	35	1.78
40021306--40021822	254	2.0	254	96	0	962	41	14	9	34	1.79
40023403--40023680	142	2.0	143	91	0	459	36	19	9	35	1.84
40026086--40026112	14	1.9	14	100	0	54	51	14	0	33	1.43
40028610--40028658	21	2.3	21	89	0	71	20	34	26	18	1.95
40033053--40033264	111	1.9	112	81	6	261	34	10	22	32	1.88
40033234--40033273	17	2.2	20	86	13	59	80	0	5	15	0.88
40034612--40034651	21	2.0	20	85	5	53	32	15	2	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40035029--40035083	28	2.0	28	100	0	110	36	10	18	34	1.86
40036378--40036487	26	4.2	26	95	0	184	35	5	22	36	1.78
40038106--40038245	27	5.2	27	88	2	183	17	24	22	35	1.96
40038106--40038245	54	2.6	55	89	2	203	17	24	22	35	1.96
40049795--40049904	54	2.0	54	100	0	220	40	23	16	20	1.91
40054561--40054627	30	2.2	30	84	5	82	26	20	26	25	1.99
40054574--40054693	30	3.8	29	73	16	87	28	15	28	28	1.96
40054574--40054732	66	2.4	66	81	6	178	28	13	29	28	1.94
40059768--40060015	131	1.9	131	84	3	329	27	18	16	37	1.93
40061424--40061483	19	3.4	18	76	19	65	18	20	13	48	1.81
40061430--40061468	14	2.8	14	96	0	69	17	20	12	48	1.80
40065094--40065281	64	2.9	64	91	0	286	34	15	12	36	1.86
40065303--40066104	131	6.0	131	88	4	1102	28	16	26	28	1.97
40065337--40066100	275	2.8	268	89	2	1162	28	17	26	27	1.97
40069133--40069376	131	1.9	131	87	1	364	29	17	16	37	1.91
40069133--40069405	131	2.1	130	84	4	343	29	18	15	36	1.91
40069149--40069500	131	2.7	131	80	3	332	29	18	17	34	1.94
40071838--40071903	25	2.8	24	73	15	73	53	12	0	34	1.38
40071825--40071899	25	3.1	25	73	17	70	56	10	0	33	1.34
40076212--40076278	5	13.0	5	79	17	75	77	0	1	20	0.85
40076212--40076278	16	4.3	16	80	16	79	77	0	1	20	0.85
40079619--40079670	16	3.1	16	76	17	52	17	0	38	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40087716--40088000	47	6.1	47	91	0	419	34	10	28	25	1.90
40087836--40087910	22	3.3	22	72	17	80	32	13	29	25	1.93
40087836--40087957	22	5.3	22	67	24	72	33	12	28	25	1.92
40087974--40088156	46	4.0	46	92	0	285	33	9	31	25	1.87
40089697--40089743	21	2.2	22	85	11	62	31	2	2	63	1.18
40089609--40089739	33	3.9	34	71	22	84	32	3	2	61	1.26
40089638--40089743	12	9.3	11	75	20	76	33	1	2	62	1.21
40103884--40103974	39	2.3	39	84	3	121	34	18	23	24	1.96
40103969--40104184	39	5.5	39	91	1	342	20	22	28	28	1.99
40105821--40106297	206	2.3	206	88	1	670	31	18	21	28	1.97
40108188--40108259	31	2.3	31	79	13	85	34	5	0	59	1.21
40108288--40108333	21	2.4	18	86	13	58	30	0	4	65	1.12
40108293--40108333	9	4.7	9	82	14	50	29	0	4	65	1.13
40111935--40112003	5	13.4	5	86	3	93	75	4	1	18	1.05
40121056--40121085	15	2.0	15	93	0	51	23	36	26	13	1.92
40124508--40124746	38	6.3	38	81	4	277	15	17	33	33	1.92
40127181--40127276	40	2.5	38	79	3	102	14	13	35	36	1.86
40129402--40129484	27	3.0	27	72	20	82	39	0	3	56	1.17
40129430--40129477	11	4.2	11	79	10	60	33	0	2	64	1.05
40131269--40131519	46	5.5	46	89	2	371	44	13	23	19	1.85
40131491--40131546	29	1.9	29	85	0	76	50	7	21	21	1.72
40131844--40131888	17	2.6	18	79	13	58	55	2	11	31	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40137753--40138091	38	8.9	38	84	1	392	15	19	31	33	1.93
40146001--40146059	21	2.8	21	81	0	64	16	27	33	22	1.95
40147784--40147861	39	2.0	39	100	0	156	25	23	7	43	1.80
40147999--40148040	13	3.2	13	83	16	50	21	0	2	76	0.90
40147998--40148040	18	2.4	18	85	11	54	23	0	2	74	0.93
40148398--40148435	17	2.2	18	86	9	53	84	0	2	13	0.73
40152326--40152427	48	2.1	48	88	0	150	30	25	16	27	1.97
40153796--40153966	93	1.8	93	88	0	261	29	26	20	22	1.98
40153791--40153963	46	3.7	46	76	10	172	30	26	20	23	1.98
40157684--40157743	28	2.1	28	100	0	120	36	16	6	40	1.75
40162544--40162721	51	3.5	52	87	6	233	29	14	28	28	1.95
40168445--40168607	43	3.8	43	77	8	136	28	16	23	31	1.96
40169563--40169633	18	3.9	18	73	14	65	38	15	5	40	1.71
40170499--40170557	30	2.0	30	89	0	91	45	20	18	15	1.85
40177959--40178109	48	3.3	42	73	15	113	29	25	16	28	1.97
40177988--40178117	48	2.7	48	87	0	188	31	26	16	25	1.96
40187955--40187984	13	2.2	14	94	5	53	53	13	0	33	1.40
40192648--40192788	66	2.1	68	85	2	187	32	16	24	26	1.96
40192757--40192926	33	5.1	33	70	7	110	30	17	22	29	1.96
40192699--40192943	101	2.4	100	86	2	339	33	16	22	26	1.95
40201318--40201350	13	2.6	13	90	4	50	75	6	0	18	1.00
40202041--40202066	3	8.7	3	100	0	52	0	0	65	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40202237--40202264	3	9.3	3	100	0	56	32	35	0	32	1.58
40204310--40204334	13	1.9	13	100	0	50	64	4	0	32	1.12
40204747--40204923	43	4.2	42	81	5	187	29	28	17	23	1.97
40205040--40205068	11	2.7	11	94	5	51	41	10	0	48	1.37
40207429--40207463	16	2.2	16	89	0	52	40	20	14	25	1.90
40210309--40210348	14	2.8	14	84	3	53	32	45	0	22	1.53
40210462--40210532	7	9.9	7	69	6	52	49	28	0	22	1.50
40210466--40210503	15	2.6	15	83	4	51	44	39	0	15	1.47
40210529--40210580	7	7.3	7	84	4	59	32	48	0	19	1.49
40210529--40210601	14	5.1	14	74	9	67	34	43	0	21	1.53
40210555--40210631	28	2.7	28	82	9	77	42	35	0	22	1.54
40210527--40210608	14	5.7	14	71	15	51	36	41	0	21	1.54
40210585--40210661	29	2.7	30	78	17	83	48	29	0	22	1.51
40210972--40211113	40	3.6	38	80	6	133	28	19	19	32	1.96
40210972--40211113	39	3.6	38	77	13	144	28	19	19	32	1.96
40211164--40211260	40	2.4	41	84	6	119	24	22	25	26	2.00
40211192--40211275	40	2.1	41	88	2	125	25	20	22	32	1.98
40212566--40212640	3	25.0	3	91	0	123	65	2	0	32	1.07
40212677--40212712	4	9.0	4	93	0	63	72	2	0	25	0.98
40212734--40212796	11	6.1	10	78	14	58	74	1	4	19	1.08
40214472--40214531	3	20.0	3	89	0	93	65	3	0	31	1.09
40214568--40214599	4	8.0	4	92	0	55	71	3	0	25	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40214621--40214683	11	6.1	10	78	14	58	74	1	4	19	1.08
40217201--40217241	20	2.0	20	90	0	64	26	9	31	31	1.89
40217335--40217399	29	2.2	30	81	8	80	52	0	4	43	1.22
40220464--40220519	26	2.2	26	96	0	103	35	25	7	32	1.83
40221280--40221314	19	1.9	17	88	11	52	14	0	31	54	1.40
40221337--40221377	16	2.5	17	77	22	52	58	0	0	41	0.98
40221483--40221867	125	3.1	126	84	5	483	35	15	18	29	1.92
40224843--40224975	56	2.4	56	94	0	230	51	6	3	39	1.45
40225372--40225413	18	2.3	18	91	0	66	42	2	28	26	1.67
40226030--40226066	7	5.3	7	93	0	65	59	10	0	29	1.31

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