genome.fa.s9.2.7.7.80.10.50.1000.125.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  125  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)
41682317--41682432	29	4.0	29	82	7	121	30	28	13	27	1.94
41682308--41682419	58	1.9	58	81	3	136	29	28	14	27	1.95
41687995--41688144	67	2.2	66	81	8	169	32	17	29	21	1.96
41688019--41688202	67	2.8	64	78	8	203	29	17	30	22	1.97
41690428--41690542	29	4.0	28	77	2	95	26	31	16	25	1.96
41695013--41695207	54	3.6	54	78	3	196	20	24	18	37	1.94
41697566--41697598	16	2.1	16	100	0	66	57	18	12	12	1.64
41702438--41702641	53	3.8	54	79	1	212	19	23	18	38	1.93
41706905--41706995	27	3.4	27	96	0	164	29	7	20	41	1.80
41706905--41707024	54	2.2	54	85	2	161	30	8	19	42	1.80
41707028--41707225	27	7.3	27	82	5	213	39	8	23	28	1.83
41707028--41707225	54	3.7	54	86	5	240	39	8	23	28	1.83
41707028--41707222	81	2.4	80	88	5	277	40	8	22	29	1.83
41710603--41710777	40	4.4	40	90	2	255	25	20	29	25	1.99
41715527--41715647	43	2.8	42	79	6	120	28	15	24	30	1.96
41731205--41731351	27	5.5	26	79	2	105	29	19	14	36	1.92
41731205--41731349	54	2.7	54	81	2	166	28	20	15	35	1.93
41733662--41733707	21	2.1	22	84	4	58	39	52	4	4	1.41
41733989--41734106	27	4.4	26	76	11	85	28	21	16	33	1.94
41734090--41734160	27	2.6	27	80	12	83	32	19	11	36	1.87
41740343--41740426	41	2.0	41	90	0	132	38	8	10	42	1.70
41741257--41741284	7	4.0	7	100	0	56	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41741616--41741658	17	2.5	17	84	3	50	25	2	20	51	1.60
41747595--41747716	43	2.8	44	80	3	122	26	15	25	32	1.95
41749671--41750073	47	8.7	46	74	10	263	22	28	20	28	1.99
41749671--41750070	94	4.3	91	74	9	344	22	28	20	29	1.98
41749622--41750070	187	2.4	186	89	1	677	22	27	20	29	1.98
41758345--41758554	47	4.5	47	93	0	348	28	30	8	32	1.87
41760992--41761352	47	7.7	46	72	11	200	21	28	19	29	1.98
41761010--41761349	187	1.8	185	87	2	511	22	28	18	30	1.97
41774701--41774738	14	2.9	13	81	11	51	57	10	13	18	1.63
41789089--41789142	25	2.2	24	83	12	65	66	3	7	22	1.33
41794990--41795027	14	2.9	13	81	11	51	57	10	13	18	1.63
41799542--41800093	56	9.9	56	88	0	764	27	14	23	34	1.94
41804098--41805000	56	16.1	56	87	0	1214	26	14	23	35	1.93
41804961--41805043	43	1.9	43	85	0	112	28	14	21	34	1.93
41804959--41805053	43	2.2	42	79	5	109	27	14	23	34	1.94
41804904--41805126	99	2.3	99	80	10	235	30	15	21	32	1.94
41805394--41805426	18	1.9	17	88	11	50	39	3	15	42	1.62
41809689--41809723	17	1.9	19	88	11	56	5	28	45	20	1.73
41813772--41813826	22	2.5	22	90	0	83	18	32	21	27	1.96
41816887--41817619	56	12.8	56	81	6	725	27	13	24	33	1.93
41816887--41817620	112	6.4	112	85	5	883	27	13	24	33	1.93
41817049--41817192	73	2.0	73	88	0	216	27	12	23	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41817005--41817248	129	1.9	129	88	0	371	27	13	24	35	1.93
41816887--41817645	168	4.4	168	81	6	840	27	13	24	33	1.93
41818810--41818913	50	2.1	50	98	0	199	37	9	13	39	1.77
41820040--41820234	40	4.9	40	83	0	237	42	15	27	14	1.87
41820010--41820234	80	2.8	79	82	2	252	41	16	28	14	1.87
41820160--41820294	20	6.8	20	69	14	73	38	17	28	14	1.90
41820100--41820254	80	1.9	80	83	5	197	42	16	27	13	1.85
41820160--41820294	60	2.2	60	84	0	162	38	17	28	14	1.90
41820229--41820310	40	2.0	40	85	0	110	36	19	29	14	1.92
41822781--41822830	20	2.6	20	73	17	52	48	16	2	34	1.57
41827236--41827479	49	4.9	49	81	3	290	27	18	27	27	1.98
41828375--41828604	115	2.0	115	99	0	451	26	26	19	27	1.99
41829147--41829222	26	2.8	26	84	4	89	36	22	10	30	1.88
41829326--41829437	27	4.2	26	82	7	125	16	22	23	37	1.94
41829326--41829437	54	2.1	54	86	3	154	16	22	23	37	1.94
41830506--41830614	41	2.6	42	88	4	150	36	25	16	21	1.94
41833180--41833308	27	4.8	27	82	0	150	27	15	15	41	1.87
41833180--41833337	81	2.0	81	85	0	217	27	15	15	41	1.87
41833180--41833329	27	5.6	27	80	4	133	27	13	16	42	1.85
41833180--41833340	54	3.0	54	79	5	173	26	14	16	41	1.88
41848923--41849154	49	4.7	49	76	7	234	30	25	17	25	1.97
41849387--41849440	27	2.0	27	85	0	72	38	12	7	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41858634--41858762	42	3.0	42	77	6	152	31	25	13	29	1.94
41864856--41864923	20	3.4	20	81	0	73	36	20	5	36	1.77
41865091--41865147	23	2.5	23	88	2	89	33	17	22	26	1.96
41865139--41865203	24	2.8	23	72	11	60	33	20	21	24	1.97
41867026--41867088	29	2.1	30	94	2	110	34	9	17	38	1.82
41873177--41873237	30	2.0	30	83	0	77	31	22	8	37	1.84
41875952--41876058	42	2.5	42	77	3	99	42	19	19	17	1.89
41885386--41885450	28	2.3	28	94	0	112	33	27	7	30	1.85
41885556--41885645	28	3.2	27	85	7	119	20	24	23	32	1.98
41885556--41885670	55	2.1	56	83	8	146	19	24	21	34	1.96
41887563--41887600	18	2.1	19	85	5	51	73	10	2	13	1.19
41891089--41891202	48	2.4	48	83	2	142	29	21	14	34	1.93
41895600--41895761	55	3.0	55	80	7	181	22	26	17	33	1.96
41897940--41897966	13	2.1	13	100	0	54	14	37	33	14	1.88
41900128--41900152	13	1.9	13	100	0	50	16	32	28	24	1.96
41901285--41901373	38	2.3	39	92	7	146	26	29	22	21	1.99
41907957--41908061	39	2.7	40	86	4	160	26	28	22	21	1.99
41914944--41915115	94	1.9	94	86	4	251	25	28	17	29	1.97
41914890--41915115	50	4.8	46	75	18	166	24	27	18	29	1.98
41914890--41915118	46	4.8	46	77	15	186	24	27	17	29	1.98
41915225--41915292	33	2.3	28	73	23	75	44	17	5	32	1.73
41915236--41915302	33	2.0	33	100	0	134	47	17	2	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41929217--41929345	49	2.6	49	82	9	138	24	20	26	29	1.99
41929216--41929340	50	2.5	48	81	10	137	23	20	27	29	1.98
41931261--41931438	27	6.6	27	83	3	205	26	15	28	29	1.96
41931262--41931417	82	1.9	81	88	3	233	26	15	28	29	1.96
41931258--41931438	82	2.2	81	83	2	229	27	15	27	29	1.96
41944433--41944468	16	2.2	16	90	0	54	38	0	0	61	0.96
41944424--41944481	18	3.3	18	78	9	57	34	1	0	63	1.04
41945255--41945300	9	4.9	9	84	7	56	58	2	2	36	1.22
41945225--41945271	18	2.8	17	81	9	51	70	2	0	27	0.99
41945241--41945304	28	2.4	27	75	19	71	59	1	1	37	1.16
41946023--41946098	26	2.9	26	82	2	98	43	0	0	56	0.99
41951582--41951607	7	3.7	7	100	0	52	76	0	0	23	0.78
41952534--41952620	44	2.0	44	97	0	165	33	4	12	49	1.61
41952682--41952727	24	1.9	24	82	8	58	52	2	2	43	1.25
41959810--41959878	33	2.1	33	86	0	93	14	21	17	46	1.84
41962041--41962181	71	2.0	71	98	0	273	29	25	26	18	1.98
41962176--41962269	32	2.8	32	78	10	93	28	25	20	25	1.99
41969055--41969158	54	1.9	54	100	0	208	25	17	12	44	1.84
41971073--41971485	47	8.7	47	95	1	727	32	7	30	29	1.86
41971073--41971485	190	2.2	188	95	0	727	32	7	30	29	1.86
41971604--41971682	37	2.1	37	90	0	122	24	18	31	25	1.98
41977124--41977171	25	1.9	25	86	0	69	33	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41980340--41980408	21	3.3	21	95	0	120	20	23	4	52	1.64
41981770--41981826	11	5.5	11	72	16	50	35	10	21	33	1.87
41981761--41981826	20	3.3	20	86	0	96	33	10	22	33	1.89
41981876--41982007	24	5.4	24	92	4	210	31	20	20	27	1.97
41981876--41982007	50	2.7	48	92	3	210	31	20	20	27	1.97
41984765--41984812	19	2.3	22	83	16	59	18	4	27	50	1.65
41986089--41986118	15	2.0	15	100	0	60	40	13	0	46	1.43
41986721--41986753	4	8.2	4	100	0	66	24	0	24	51	1.48
41989670--41989714	4	10.8	4	88	7	63	75	0	2	22	0.91
41996123--41996152	15	2.0	15	100	0	60	40	13	0	46	1.43

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