genome.fa.s9.2.7.7.80.10.50.1000.129.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: 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  129  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)
43159073--43159112	21	1.9	21	90	10	64	62	5	12	20	1.48
43161000--43161141	40	3.6	40	85	2	189	22	22	26	28	1.99
43165697--43166607	46	19.8	46	96	1	1655	19	23	30	26	1.98
43169353--43169436	15	5.7	15	77	6	82	8	15	17	58	1.61
43171072--43171146	38	2.0	38	97	0	141	38	18	13	29	1.89
43171867--43172078	46	4.6	46	96	0	379	19	20	30	29	1.97
43181429--43181670	47	5.1	47	87	4	340	32	12	28	26	1.92
43181429--43181670	98	2.5	94	90	4	360	32	12	28	26	1.92
43181644--43181780	46	3.0	46	86	0	193	34	8	31	26	1.85
43191834--43191919	44	2.0	44	88	0	127	20	17	27	33	1.95
43208408--43208575	47	3.6	47	90	0	246	28	30	8	32	1.86
43210865--43211029	40	4.2	40	81	8	133	27	27	20	24	1.99
43210902--43211029	40	3.2	39	85	4	175	28	27	20	24	1.99
43210865--43211085	80	2.8	79	77	12	202	26	26	21	25	1.99
43218231--43218415	40	4.7	40	81	5	178	27	28	20	24	1.99
43218198--43218415	40	5.5	39	77	7	165	25	27	20	25	1.99
43221666--43221987	40	8.1	40	83	3	371	35	16	27	19	1.94
43221747--43221931	20	9.2	20	64	9	72	36	16	28	18	1.92
43221886--43221987	20	5.1	20	69	13	75	34	18	30	16	1.93
43221666--43221987	80	4.0	80	84	2	423	35	16	27	19	1.94
43223395--43223502	54	2.0	54	96	0	198	36	12	19	32	1.88
43225403--43225457	23	2.4	23	93	0	92	27	27	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43228327--43228478	40	3.8	40	92	1	243	23	23	29	23	1.99
43236333--43236448	40	2.9	40	88	5	180	25	23	29	22	1.99
43240804--43240981	27	6.6	27	85	3	214	26	14	28	30	1.95
43240805--43240960	82	1.9	81	89	3	242	26	14	28	30	1.95
43240801--43240981	82	2.2	81	84	2	238	27	14	27	30	1.95
43241234--43241576	169	2.0	169	96	1	627	25	9	26	38	1.86
43249028--43249205	27	6.6	27	85	3	214	26	14	28	30	1.95
43249029--43249184	82	1.9	81	89	3	242	26	14	28	30	1.95
43249025--43249205	82	2.2	81	84	2	238	27	14	27	30	1.95
43250559--43250629	37	1.9	37	100	0	142	23	32	19	23	1.98
43250769--43251721	48	19.9	48	99	0	1807	29	27	7	35	1.84
43254058--43254271	46	4.5	48	80	10	208	22	28	19	28	1.98
43254058--43254271	49	4.5	47	79	8	202	22	28	19	28	1.98
43257699--43257929	90	2.6	89	79	4	214	27	16	26	29	1.97
43281367--43281422	24	2.3	25	87	3	78	21	14	26	37	1.92
43282789--43282839	17	3.0	17	85	0	57	15	3	5	74	1.16
43288099--43288273	46	3.8	46	96	0	314	29	29	21	20	1.98
43293314--43293383	35	2.0	35	100	0	140	25	22	20	31	1.98
43302547--43302729	40	4.6	40	90	2	271	26	26	22	25	2.00
43304650--43304704	18	3.1	18	74	10	58	60	7	3	29	1.41
43306085--43306128	23	1.9	23	86	9	63	13	0	9	77	0.99
43310812--43310907	47	2.0	47	95	0	174	29	13	13	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43311714--43311880	45	3.7	44	87	7	246	23	22	25	27	2.00
43311714--43311881	90	1.9	90	92	2	284	23	22	26	27	2.00
43318206--43318301	47	2.0	47	93	0	165	28	12	15	43	1.83
43319110--43319325	45	4.9	45	88	4	291	23	19	29	27	1.99
43320239--43320287	14	3.6	15	71	23	54	26	2	18	53	1.56
43320245--43320292	12	3.8	12	76	10	51	27	4	18	50	1.65
43320241--43320298	26	2.2	26	96	0	107	24	3	20	51	1.62
43333863--43334046	40	4.6	40	78	8	178	26	22	25	25	2.00
43333863--43334082	80	2.8	79	81	8	243	25	22	25	25	2.00
43342026--43342209	40	4.6	40	82	2	235	25	23	25	25	2.00
43342026--43342245	80	2.8	78	83	5	255	25	23	25	25	2.00
43351355--43351536	89	2.0	89	96	0	337	40	6	16	36	1.75
43352177--43352348	67	2.6	66	81	7	170	31	16	29	22	1.96
43352201--43352384	67	2.8	64	78	8	203	28	16	30	23	1.96
43353253--43353300	22	2.2	21	92	3	78	37	6	14	41	1.71
43354295--43354654	180	2.0	180	96	0	657	37	6	20	36	1.77
43356610--43356759	67	2.2	67	81	8	171	32	17	28	21	1.96
43356634--43356817	67	2.8	64	77	8	194	29	17	29	22	1.97
43357848--43357890	22	2.0	22	95	0	77	37	4	13	44	1.65
43359389--43359607	40	5.5	40	90	2	327	25	26	22	24	2.00
43375410--43375451	23	1.9	21	90	9	66	0	19	7	73	1.05
43376123--43376332	50	4.2	50	75	4	163	24	21	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43377349--43377390	15	2.8	15	75	13	50	54	7	11	26	1.62
43379353--43379377	6	4.2	6	100	0	50	36	16	32	16	1.90
43382102--43382233	68	2.0	67	96	1	246	46	11	10	31	1.74
43386403--43386435	17	2.0	17	88	5	50	39	9	6	45	1.61
43386475--43386502	13	2.2	13	100	0	56	28	0	0	71	0.86
43389294--43389362	34	2.0	34	97	0	129	20	27	20	31	1.97
43395665--43395768	48	2.2	48	81	6	113	48	7	6	37	1.59
43396031--43396102	33	2.2	33	82	0	90	37	4	4	54	1.39
43396966--43396997	9	3.6	9	91	0	55	46	15	12	25	1.81
43396961--43396997	18	2.1	18	94	0	65	45	13	10	29	1.77
43405863--43406099	29	8.2	29	81	5	223	38	21	16	23	1.93
43405906--43406096	58	3.3	58	86	0	256	38	20	16	24	1.92
43405861--43406099	58	4.2	58	83	4	254	38	21	16	23	1.93
43406669--43406732	31	2.1	31	100	0	128	48	14	28	9	1.74
43410082--43410120	15	2.5	15	91	8	60	28	28	0	43	1.55
43417725--43418010	38	6.8	40	70	19	161	30	15	24	29	1.95
43417802--43418008	85	2.4	85	89	1	317	30	15	24	28	1.96
43423067--43423451	128	3.0	128	99	0	761	38	11	15	35	1.83
43428574--43428735	42	3.8	42	77	1	153	29	24	15	30	1.95
43434448--43434494	22	2.1	22	84	7	60	19	6	51	23	1.70
43437572--43437739	40	4.2	40	82	8	139	27	27	21	23	1.99
43437607--43437792	80	2.3	80	83	9	220	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43437609--43437792	40	4.6	40	81	7	196	27	27	21	23	1.99
43438012--43438252	121	2.0	121	97	0	455	30	23	10	36	1.88
43447113--43447450	103	3.3	103	89	2	493	18	20	28	32	1.96
43447384--43447434	27	1.9	26	88	4	75	13	23	33	29	1.93
43453798--43454148	103	3.4	103	88	2	483	18	19	28	33	1.96
43453905--43454061	34	4.6	33	69	23	110	17	21	26	33	1.96
43456584--43456651	31	2.2	31	84	10	86	36	8	11	42	1.73
43457136--43457275	55	2.5	55	94	3	237	23	0	22	54	1.45
43457345--43457421	35	2.2	34	86	6	102	38	0	19	41	1.52
43457365--43457454	19	4.8	19	81	10	114	37	0	18	43	1.51
43457365--43457454	39	2.5	35	85	7	108	37	0	18	43	1.51
43457998--43458377	125	3.0	126	88	2	532	36	16	18	29	1.92
43461830--43461872	18	2.4	18	92	0	68	41	9	27	20	1.83
43463461--43463595	48	2.8	46	83	6	155	51	5	8	33	1.57
43463728--43463789	11	5.7	11	77	11	65	43	1	17	37	1.59
43465749--43465777	15	1.9	15	100	0	58	17	0	0	82	0.66
43466511--43466535	13	1.9	13	100	0	50	88	0	0	12	0.53
43467232--43467315	20	4.2	19	73	10	62	45	5	13	35	1.67
43467479--43467517	20	2.0	20	84	0	51	48	5	15	30	1.66
43467725--43467768	20	2.2	20	83	0	52	47	6	13	31	1.69
43469282--43469322	20	2.0	20	90	0	64	48	7	12	31	1.68
43469527--43469572	23	2.0	23	83	8	58	47	6	8	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43469635--43469728	40	2.4	39	83	7	109	37	8	13	40	1.76
43469668--43469732	20	3.2	20	73	0	67	36	7	15	40	1.76
43469787--43469893	41	2.7	40	81	7	110	42	4	12	41	1.63
43469928--43469978	20	2.5	20	90	0	75	37	7	19	35	1.81
43475357--43475387	9	3.4	9	95	0	53	54	0	12	32	1.38
43478097--43478412	49	6.6	49	88	4	450	28	30	7	33	1.86
43478097--43478412	96	3.3	96	91	2	478	28	30	7	33	1.86
43478097--43478412	145	2.2	143	92	1	515	28	30	7	33	1.86
43480023--43480047	13	1.9	13	100	0	50	36	16	16	32	1.90
43484578--43484703	46	2.7	45	81	7	146	28	19	27	23	1.99

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