genome.fa.s9.2.7.7.80.10.50.1000.145.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: At_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  145  of  284  ( 34012 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)
48464316--48464488	54	3.2	54	83	4	206	37	7	24	30	1.83
48464457--48464612	27	5.7	26	73	13	125	28	10	23	37	1.88
48464456--48464612	83	1.9	84	91	1	262	28	10	23	36	1.89
48466961--48467014	27	2.0	27	82	7	65	31	18	18	31	1.95
48470399--48470795	47	8.1	47	83	8	443	30	12	29	27	1.93
48470399--48470772	100	3.7	100	85	8	508	31	12	28	27	1.93
48470399--48470795	153	2.7	147	85	8	540	30	12	29	27	1.93
48470769--48470859	46	2.0	46	82	0	110	32	8	31	26	1.87
48471006--48471150	37	3.9	37	92	0	227	24	17	30	27	1.97
48471933--48472115	40	4.6	40	88	0	258	22	21	28	26	1.99
48479034--48480161	96	11.8	96	96	0	1980	33	8	28	29	1.87
48484909--48485084	46	3.8	46	80	12	216	19	21	30	28	1.98
48484905--48485077	93	1.9	93	96	0	319	20	21	30	27	1.98
48514389--48514556	43	3.9	43	72	9	137	33	23	14	28	1.94
48526967--48527108	40	3.6	40	92	2	225	26	26	22	24	2.00
48533992--48534213	40	5.6	40	89	1	331	26	25	23	24	2.00
48539745--48540092	40	8.7	40	95	0	561	30	20	27	22	1.98
48550039--48550262	40	5.6	40	91	1	308	24	20	28	26	1.99
48550000--48550262	80	3.3	80	85	3	318	23	20	28	26	1.99
48550000--48550262	120	2.2	120	82	4	318	23	20	28	26	1.99
48553421--48553570	43	3.5	43	79	6	153	28	15	22	33	1.95
48560392--48560503	43	2.6	42	80	5	136	29	23	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48564357--48564471	29	4.0	29	78	1	124	26	31	13	28	1.94
48564363--48564471	58	1.9	57	84	5	148	24	32	14	28	1.95
48564695--48564729	8	4.4	8	96	0	61	14	22	20	42	1.88
48568623--48568708	37	2.3	37	91	0	136	25	32	19	22	1.97
48568845--48569413	48	11.6	48	87	5	764	31	28	5	33	1.81
48569271--48569299	14	2.1	14	100	0	58	41	31	0	27	1.56
48569223--48569356	62	2.1	62	93	1	223	34	29	4	32	1.77
48569175--48569395	110	2.0	110	92	0	370	32	28	5	33	1.80
48569127--48569413	158	1.8	158	92	0	484	32	28	5	34	1.79
48575689--48575721	14	2.3	15	89	10	59	21	6	12	60	1.53
48575693--48575724	14	2.3	14	100	0	64	15	6	12	65	1.44
48580043--48580079	19	1.9	19	94	0	65	43	16	5	35	1.71
48584965--48585142	27	6.6	27	84	3	205	29	28	15	26	1.96
48584986--48585141	82	1.9	81	88	3	233	29	28	15	26	1.96
48600939--48600980	18	2.3	18	80	12	59	14	19	40	26	1.89
48602815--48602934	56	2.2	55	92	1	195	22	15	29	32	1.95
48622129--48622160	5	6.2	5	92	7	55	78	0	21	0	0.76
48622105--48622160	15	3.6	16	80	7	62	69	0	26	3	1.04
48623112--48623177	25	2.6	25	80	9	71	53	7	1	37	1.39
48627096--48627222	55	2.3	55	82	4	148	19	29	22	27	1.98
48636400--48636465	33	2.0	33	84	0	87	28	9	34	27	1.87
48649206--48649329	46	2.7	45	88	5	185	23	19	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48652896--48652959	32	2.0	32	87	0	92	45	14	15	25	1.83
48656000--48656176	46	3.8	46	86	1	221	20	22	26	30	1.98
48657282--48657492	106	2.0	106	99	0	415	25	8	27	38	1.85
48659381--48659615	116	2.0	116	99	0	461	17	32	12	37	1.87
48661480--48661603	46	2.7	45	88	5	185	23	19	25	31	1.98
48679180--48679498	46	7.0	45	83	2	352	40	14	25	19	1.90
48679191--48679493	137	2.2	137	85	1	401	40	15	25	19	1.90
48679191--48679498	91	3.4	91	90	1	429	40	15	25	19	1.90
48679191--48679448	91	2.8	91	94	0	435	39	15	25	19	1.90
48685075--48685101	12	2.2	12	100	0	54	0	29	25	44	1.54
48685990--48686251	39	6.6	39	87	6	320	24	27	22	25	2.00
48685990--48686248	118	2.2	119	83	10	327	24	27	21	25	1.99
48694194--48694316	28	4.4	28	90	2	176	33	28	12	26	1.92
48696449--48696539	46	2.0	46	86	0	128	27	31	6	34	1.83
48696554--48696631	22	3.4	22	67	27	63	23	26	12	37	1.91
48696556--48696985	47	9.1	47	91	0	626	26	27	11	34	1.91
48696697--48696772	22	3.3	22	66	16	64	26	28	11	32	1.92
48696864--48696937	23	3.2	23	62	24	55	31	29	10	28	1.91
48704919--48704943	13	1.9	13	100	0	50	20	40	24	16	1.91
48708188--48708407	109	2.0	109	100	0	440	33	10	14	40	1.81
48711977--48712006	7	4.3	7	100	0	60	26	0	56	16	1.40
48716302--48716439	23	5.9	23	70	19	81	36	19	21	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48716353--48716416	24	2.7	24	75	20	71	39	23	20	17	1.92
48721642--48721671	15	2.0	15	100	0	60	46	26	0	26	1.53
48725492--48725878	39	9.9	39	92	0	639	21	26	29	22	1.99
48730547--48730724	27	6.6	27	83	3	205	26	15	28	29	1.96
48730548--48730703	82	1.9	81	86	3	224	26	16	28	28	1.97
48730544--48730724	82	2.2	81	82	2	220	27	16	27	29	1.97
48730682--48730735	27	2.0	27	81	0	63	27	14	27	29	1.95
48737856--48738038	92	2.0	92	97	0	348	32	24	13	30	1.93
48739737--48740596	48	17.9	48	99	0	1693	31	28	6	33	1.82
48744578--48745663	40	27.1	40	97	0	1992	25	27	21	24	1.99
48746943--48747045	37	2.8	37	93	0	179	26	32	18	23	1.97
48747186--48747278	48	1.9	48	93	0	159	31	27	6	34	1.82
48758937--48759065	46	2.7	47	78	14	133	20	18	31	29	1.96
48767296--48767413	6	19.3	6	68	19	66	47	12	18	21	1.81
48767317--48767390	31	2.4	30	90	2	112	44	13	21	20	1.85
48767346--48767413	25	2.7	25	86	0	91	47	13	19	20	1.82
48767530--48767609	27	3.0	26	87	5	97	37	21	23	17	1.94
48767697--48767759	22	2.9	22	81	9	83	33	23	25	17	1.96
48768290--48768351	27	2.3	27	91	0	97	24	16	22	37	1.94
48768301--48768359	27	2.2	27	90	0	91	30	13	15	40	1.86
48768398--48768549	27	5.6	27	80	4	146	26	9	23	40	1.85
48768344--48768500	81	1.9	81	80	2	181	31	9	21	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48768391--48768540	81	1.9	81	84	8	207	28	10	22	38	1.87
48769588--48769745	33	4.7	33	70	6	93	31	17	25	25	1.97
48776185--48776456	39	7.0	39	94	0	472	21	25	29	23	1.99
48776663--48776689	12	2.2	12	100	0	54	40	7	18	33	1.78
48786176--48786234	18	3.1	18	77	13	57	38	5	1	54	1.33
48786216--48786279	31	2.0	31	81	3	74	46	1	1	50	1.20
48788239--48788324	34	2.3	36	78	15	95	30	29	16	24	1.96
48788255--48788333	34	2.3	35	86	2	106	35	25	15	24	1.94
48790347--48790378	8	4.0	8	100	0	64	50	0	12	37	1.41
48790347--48790386	8	4.8	9	93	3	50	50	0	10	40	1.36
48793059--48793123	33	2.0	33	84	0	85	46	21	10	21	1.82
48794208--48794245	20	1.9	20	88	0	58	44	7	10	36	1.68
48822243--48822307	22	3.0	22	80	8	78	20	23	23	33	1.97
48822466--48822567	27	3.8	27	85	5	116	19	23	20	36	1.95
48822466--48822567	54	1.9	53	83	2	132	19	23	20	36	1.95
48822727--48822823	6	15.8	6	70	16	65	20	18	13	47	1.82
48822715--48822839	31	4.1	31	84	3	146	20	17	13	48	1.80
48827825--48828022	27	7.3	27	77	8	145	37	20	13	27	1.91
48827825--48827965	54	2.6	54	83	6	171	38	19	14	26	1.91
48827825--48828022	81	2.4	81	80	5	204	37	20	13	27	1.91
48827924--48828125	54	3.7	53	76	7	190	40	18	9	31	1.82
48827843--48828047	27	7.6	26	77	6	142	40	20	11	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48827932--48828110	27	6.6	27	76	10	103	39	18	9	31	1.83
48828151--48828228	27	2.9	27	77	11	88	35	21	20	21	1.96
48828920--48828976	9	5.8	10	76	15	57	36	8	19	35	1.83
48828919--48828993	20	3.8	20	91	6	111	37	9	18	34	1.83
48828938--48828993	11	5.5	11	71	16	57	37	10	19	32	1.86
48829043--48829217	26	6.8	26	91	0	273	26	22	23	27	2.00
48829043--48829217	52	3.4	52	96	1	327	26	22	23	27	2.00
48829362--48829453	42	2.2	42	92	0	148	29	14	21	34	1.93
48829477--48829586	31	3.5	31	92	0	175	30	16	23	30	1.96
48838229--48838272	22	2.0	22	100	0	88	40	22	4	31	1.74

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