genome.fa.s12.2.7.7.80.10.50.1000.124.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  124  of  276  ( 33102 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)
39900016--39900200	79	2.3	81	84	7	236	24	22	27	25	2.00
39900017--39900200	40	4.6	40	83	9	216	24	22	27	25	2.00
39900069--39900233	79	2.1	79	84	6	210	26	21	27	25	1.99
39913446--39913570	39	3.2	39	81	0	151	29	4	20	44	1.72
39915814--39915872	17	3.4	17	77	9	73	54	15	1	28	1.51
39915831--39915888	19	3.2	19	75	9	75	51	13	3	31	1.58
39915813--39915888	36	2.1	36	100	0	152	53	13	2	30	1.53
39915822--39915881	17	3.4	17	77	8	75	51	13	1	33	1.51
39921456--39921517	27	2.3	27	82	0	70	20	27	16	35	1.94
39926332--39926360	13	2.2	13	100	0	58	27	44	27	0	1.54
39928395--39928448	27	2.0	27	85	0	72	38	14	5	40	1.70
39938230--39938267	19	2.1	18	90	5	58	50	5	5	39	1.48
39940945--39940992	24	2.0	24	100	0	96	33	4	20	41	1.72
39948488--39948516	6	4.8	6	100	0	58	13	0	0	86	0.58
39953266--39953292	2	13.5	2	100	0	54	48	0	51	0	1.00
39955587--39955653	29	2.3	29	82	5	73	43	7	2	46	1.47
39960718--39960831	26	4.2	26	85	12	156	32	7	25	35	1.83
39960718--39960831	58	2.0	58	94	0	201	32	7	25	35	1.83
39964037--39964079	12	3.6	12	93	0	77	9	23	51	16	1.73
39968963--39969044	26	3.2	26	96	0	146	30	6	25	37	1.80
39973086--39973142	29	2.0	29	86	6	80	40	1	3	54	1.28
39975758--39975788	15	2.1	15	100	0	62	51	0	12	35	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39978782--39978814	16	2.1	16	94	0	57	30	3	18	48	1.63
39979077--39979198	40	3.1	40	87	5	169	27	27	20	24	1.99
39979275--39979359	40	2.2	39	86	2	116	29	25	22	22	1.99
39979008--39979371	198	1.8	198	95	0	665	30	23	18	28	1.98
39981975--39982114	42	3.3	42	79	6	131	30	24	15	30	1.95
39995730--39996449	310	2.4	308	78	5	685	34	10	8	46	1.70
39997535--39997578	21	2.1	21	100	0	88	27	31	13	27	1.94
39998829--39998967	39	3.6	39	94	0	215	36	22	26	14	1.92
40008308--40008456	42	3.5	42	75	11	124	25	18	25	30	1.98
40008308--40008464	43	3.7	42	72	13	106	25	17	26	30	1.97
40019048--40019177	43	3.0	43	78	6	138	30	27	16	24	1.97
40022408--40022552	43	3.4	43	81	12	156	33	26	18	22	1.97
40036846--40037020	3	60.0	3	70	13	98	65	4	4	26	1.30
40036852--40037020	13	13.5	13	70	18	92	65	3	4	26	1.28
40036939--40037031	42	2.2	42	84	9	118	69	1	5	23	1.15
40038954--40039890	40	23.5	40	97	0	1754	22	22	29	25	1.99
40046118--40046203	42	2.0	42	100	0	172	23	20	9	46	1.79
40047631--40047677	23	2.0	23	83	0	58	72	4	2	21	1.12
40055151--40055236	35	2.5	35	81	9	106	45	0	4	50	1.22
40055178--40055238	24	2.5	23	80	15	61	45	0	4	49	1.23
40056217--40056243	13	2.1	13	100	0	54	55	0	7	37	1.28
40056295--40056376	40	2.0	40	85	0	110	35	4	20	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40056580--40056673	45	2.1	45	83	0	116	23	12	19	44	1.85
40089298--40089466	29	5.3	29	66	27	85	24	14	17	43	1.86
40089284--40089479	65	3.0	65	95	0	356	25	13	17	43	1.85
40090836--40090907	34	2.1	35	84	7	94	41	11	26	20	1.86
40091593--40091675	42	2.0	42	100	0	166	22	12	31	33	1.91
40093084--40093183	37	2.7	37	93	0	173	26	33	18	23	1.97
40093327--40093710	48	8.0	48	96	1	700	31	28	6	33	1.82
40097787--40097887	30	3.2	30	67	17	87	23	17	16	41	1.90
40097771--40097899	65	2.0	65	95	0	231	26	15	17	40	1.90
40099254--40099314	27	2.3	27	89	10	99	24	24	18	32	1.97
40099258--40099322	27	2.4	27	89	5	87	26	26	16	30	1.97
40099324--40099400	27	2.9	27	86	0	109	29	9	22	38	1.85
40104879--40104923	20	2.2	20	84	7	56	15	0	24	60	1.36
40106357--40106410	22	2.5	22	81	3	65	14	31	35	18	1.91
40109471--40109528	29	2.0	29	100	0	116	48	24	3	24	1.66
40113080--40113262	90	2.0	90	97	0	348	29	25	10	34	1.89
40125074--40125113	20	2.0	20	90	9	64	20	0	27	52	1.46
40126180--40126216	6	6.5	6	81	12	51	83	0	16	0	0.64
40126176--40126217	11	4.1	10	80	14	50	80	0	19	0	0.70
40126176--40126216	17	2.5	17	88	4	57	82	0	17	0	0.66
40127443--40127747	154	2.0	154	91	2	497	24	20	28	26	1.99
40127471--40127747	40	7.1	40	80	11	297	23	22	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40136936--40136983	22	2.2	22	88	3	71	14	33	37	14	1.87
40138115--40138229	40	2.9	40	88	6	155	27	16	26	28	1.97
40140341--40140513	46	3.8	45	76	10	179	21	20	28	28	1.98
40151951--40152418	131	3.6	130	83	3	519	33	19	19	26	1.96
40158442--40158493	16	3.2	16	88	0	68	38	5	26	28	1.79
40158475--40158568	44	2.1	46	88	4	138	32	5	25	36	1.79
40158645--40158669	3	8.3	3	100	0	50	36	0	0	64	0.94
40158669--40158804	58	2.4	57	86	5	184	53	3	0	41	1.23
40178401--40178535	40	3.3	40	81	5	139	31	25	13	28	1.94
40184830--40184908	37	2.1	37	88	4	115	25	30	18	25	1.98
40185029--40185213	47	3.7	47	72	14	138	28	30	10	30	1.90
40185105--40185189	28	3.0	28	100	0	170	29	28	14	28	1.95
40188756--40188997	48	5.0	48	92	0	385	36	6	26	31	1.81
40189138--40189240	37	2.8	37	96	0	188	23	20	32	24	1.98
40194513--40194792	138	2.0	138	92	0	470	41	7	5	46	1.53
40207915--40208003	30	3.0	30	80	8	101	57	15	16	10	1.65
40207915--40207994	15	5.4	15	80	7	92	58	13	17	10	1.62
40207926--40208003	15	5.2	15	78	9	79	56	15	16	11	1.67
40210916--40211090	46	3.8	46	75	13	169	29	27	20	23	1.99
40210924--40211095	93	1.8	93	88	2	265	28	27	20	23	1.99
40221630--40221782	35	4.4	35	77	0	162	28	9	18	43	1.82
40221630--40221804	70	2.5	70	76	2	163	28	12	18	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40225021--40225059	10	3.8	10	93	6	69	33	17	17	30	1.94
40225020--40225059	21	1.9	21	100	0	80	35	17	17	30	1.93
40225106--40225176	25	2.8	25	95	0	124	25	25	22	26	2.00
40227447--40227489	22	2.0	22	85	0	59	6	23	2	67	1.27
40228700--40228809	27	4.1	27	80	8	116	15	21	24	38	1.92
40228700--40228809	54	2.0	54	86	6	152	15	21	24	38	1.92
40231391--40231992	301	2.0	301	96	0	1105	25	13	31	29	1.94
40235278--40235319	22	1.9	22	85	0	57	7	23	2	66	1.28
40236542--40236652	27	4.1	27	82	7	127	15	22	23	38	1.92
40236542--40236652	54	2.1	54	86	3	152	15	22	23	38	1.92
40239684--40239771	46	1.9	46	88	0	131	23	12	27	36	1.91
40243248--40243303	26	2.2	26	90	0	85	26	0	32	41	1.56
40245784--40245836	27	2.0	27	92	0	88	39	20	5	33	1.76
40245786--40245846	27	2.3	27	85	0	77	44	18	8	29	1.78
40246666--40246725	27	2.2	27	81	0	75	21	21	26	30	1.99
40252599--40252711	27	4.2	27	84	4	138	44	21	5	29	1.74
40252571--40252698	54	2.4	54	81	7	145	42	21	7	27	1.80
40252599--40252779	54	3.3	55	79	6	154	42	19	6	30	1.77
40252660--40252780	27	4.4	27	76	13	95	42	19	6	32	1.77
40252700--40252784	27	3.1	27	80	14	102	38	15	9	36	1.80
40252839--40252903	27	2.4	27	76	5	69	35	20	24	20	1.96
40253696--40253765	25	2.8	25	93	0	113	27	25	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40253695--40253790	25	3.9	24	81	9	95	28	23	22	25	2.00
40253696--40253790	50	1.9	50	80	8	113	28	24	23	24	2.00
40260628--40260735	37	2.9	37	95	0	189	25	32	19	23	1.97
40260868--40261182	48	6.6	48	92	0	513	32	26	5	35	1.80
40263697--40263735	19	2.1	19	90	0	60	17	10	0	71	1.12
40272534--40272690	47	3.4	47	66	15	135	29	26	19	24	1.98
40272480--40272692	93	2.3	93	85	1	275	28	27	21	23	1.99
40278997--40279233	47	5.1	47	79	10	279	31	27	19	22	1.98
40278997--40279227	93	2.5	93	85	7	292	31	27	19	22	1.98
40287053--40287108	25	2.3	24	87	9	78	32	3	3	60	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