genome.fa.s12.2.7.7.80.10.50.1000.125.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_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  125  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)
40290541--40290578	11	3.4	11	82	17	51	18	52	0	28	1.45
40292173--40292210	11	3.4	11	82	17	51	18	52	0	28	1.45
40296155--40296221	33	2.0	33	100	0	134	26	17	17	37	1.93
40302029--40302082	23	2.4	22	84	3	72	38	14	20	25	1.91
40302074--40302238	24	6.8	24	69	11	95	34	16	22	26	1.95
40302077--40302238	73	2.2	73	98	0	315	33	16	22	26	1.95
40302538--40302614	24	3.3	23	82	5	102	33	22	23	20	1.97
40310324--40310381	30	1.9	30	85	0	80	10	25	37	25	1.88
40311166--40311209	9	4.7	10	81	13	58	11	9	4	75	1.19
40311167--40311208	18	2.3	18	95	0	75	11	9	4	73	1.22
40312295--40312333	17	2.2	19	90	9	64	79	2	15	2	0.95
40312396--40312447	22	2.5	20	80	17	61	71	3	1	23	1.13
40321896--40321963	27	2.5	27	92	4	111	22	20	11	45	1.83
40321955--40322097	27	5.3	26	72	13	103	37	22	11	28	1.88
40321995--40322132	27	5.1	27	79	7	138	41	21	7	28	1.81
40321962--40322117	81	1.9	81	83	7	201	41	20	10	28	1.85
40321995--40322175	54	3.3	54	82	5	186	41	20	8	29	1.81
40322074--40322181	27	3.9	27	77	13	103	41	18	8	31	1.80
40322222--40322295	27	2.7	27	76	12	71	37	20	20	21	1.94
40322235--40322299	27	2.4	27	82	5	78	35	18	24	21	1.96
40323109--40323172	25	2.6	24	90	5	92	25	26	25	23	2.00
40323326--40323417	42	2.2	42	98	0	175	31	15	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40323441--40323586	31	4.7	31	94	0	258	28	16	26	28	1.97
40330799--40330901	23	4.5	22	74	15	93	36	19	22	21	1.95
40331543--40331613	32	2.2	32	97	0	133	43	21	5	29	1.75
40331559--40331616	16	3.6	16	72	9	64	44	20	6	27	1.77
40333098--40333144	22	2.3	19	85	14	58	44	2	0	53	1.12
40333100--40333141	16	2.7	15	79	20	50	45	2	0	52	1.13
40339658--40339717	6	10.0	6	71	7	50	41	3	36	18	1.67
40339633--40339724	24	3.9	23	80	5	94	38	2	40	19	1.64
40339658--40339741	24	3.5	24	85	0	96	38	2	39	20	1.65
40344290--40344323	18	1.9	18	88	5	52	29	14	14	41	1.86
40345406--40345464	28	2.1	27	81	9	66	28	28	11	30	1.92
40345676--40345718	16	2.7	16	85	0	68	13	20	13	51	1.76
40347676--40348047	40	9.3	40	95	0	638	24	23	25	26	2.00
40352784--40352875	46	2.0	46	91	0	148	31	30	17	20	1.96
40352803--40352911	46	2.4	45	84	6	130	32	29	17	21	1.96
40355233--40355407	40	4.4	40	99	0	341	21	20	30	28	1.98
40355233--40355431	80	2.5	80	92	0	272	22	21	28	27	1.99
40358412--40358595	50	3.8	49	80	9	182	28	16	30	24	1.97
40364538--40364611	23	3.2	23	63	30	57	25	33	6	33	1.82
40364551--40364951	47	8.4	47	93	2	601	27	31	8	32	1.86
40364730--40364812	27	3.3	27	63	22	70	33	27	4	33	1.78
40364551--40364951	192	2.1	190	91	3	646	27	31	8	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40366913--40367124	113	1.9	110	85	2	289	40	13	16	29	1.87
40373415--40373528	43	2.7	43	83	2	140	36	25	12	25	1.91
40374374--40374402	2	14.5	2	100	0	58	0	0	48	51	1.00
40401281--40401427	29	5.1	29	82	3	156	27	32	13	26	1.94
40401645--40401681	16	2.3	16	90	0	56	13	21	13	51	1.75
40407091--40407123	14	2.3	15	89	5	50	57	6	15	21	1.59
40408321--40408395	26	2.9	26	78	4	89	34	22	22	20	1.96
40414404--40414553	67	2.2	67	81	8	171	32	17	28	21	1.96
40414428--40414611	67	2.8	64	77	8	194	29	17	29	22	1.97
40418851--40419000	67	2.2	67	81	8	171	32	17	28	21	1.96
40418875--40419058	67	2.8	64	77	8	194	29	17	29	22	1.97
40421652--40421717	29	2.2	30	91	2	107	33	9	22	34	1.86
40426009--40426058	22	2.3	21	86	10	66	24	32	30	14	1.94
40430355--40430384	15	2.0	15	93	0	51	26	0	16	56	1.40
40430980--40431120	43	3.3	43	72	11	128	24	18	28	28	1.98
40435128--40435206	37	2.1	37	90	0	122	25	31	18	24	1.98
40441132--40441363	56	4.1	56	97	0	437	45	9	22	22	1.81
40454711--40455174	231	2.0	231	99	0	910	37	27	14	20	1.91
40455687--40455797	29	3.9	29	77	10	102	30	29	13	26	1.94
40455687--40455797	58	1.9	58	85	1	152	30	29	13	26	1.94
40456083--40456148	21	3.2	21	64	20	57	42	21	6	30	1.77
40456076--40456157	41	2.0	41	97	0	155	41	23	4	30	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40456093--40456159	21	3.2	21	64	19	59	41	22	4	31	1.73
40468180--40468232	21	2.5	20	84	6	61	58	3	5	32	1.39
40479259--40479410	74	2.1	74	94	0	268	34	21	21	23	1.97
40488526--40488573	16	3.0	16	75	0	51	27	2	4	66	1.21
40496667--40496720	25	2.2	25	82	0	63	33	16	29	20	1.95
40496679--40496737	25	2.4	25	85	0	82	28	16	33	20	1.95
40509692--40509750	23	2.6	22	84	10	75	25	27	16	30	1.97
40509702--40509759	23	2.4	23	88	5	80	27	27	15	29	1.96
40509703--40509777	23	3.0	25	82	5	73	28	25	17	29	1.97
40511677--40511801	29	4.4	29	83	4	146	27	34	12	25	1.92
40511681--40511801	56	2.1	58	81	3	138	26	34	13	25	1.93
40512017--40512051	16	2.2	16	94	0	61	8	17	20	54	1.68
40512016--40512059	24	1.9	22	86	9	61	6	20	20	52	1.69
40512021--40512059	16	2.4	16	86	0	60	7	20	23	48	1.75
40513538--40513678	51	2.8	49	81	4	176	26	26	21	24	1.99
40520729--40520760	13	2.5	13	100	0	64	18	43	25	12	1.85
40522475--40522666	29	6.7	28	81	8	203	25	33	14	26	1.94
40522441--40522665	86	2.6	86	90	1	344	26	33	13	25	1.94
40522464--40522678	57	3.8	56	75	13	206	26	32	13	27	1.93
40526577--40526957	56	6.8	56	90	1	568	27	12	25	35	1.91
40532105--40532187	31	2.7	31	85	3	116	30	24	14	31	1.94
40535196--40535257	24	2.5	24	84	2	79	46	20	12	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40536174--40536325	50	3.0	50	96	1	270	56	17	6	19	1.62
40538084--40538156	25	2.9	25	85	4	85	34	16	28	20	1.94
40551065--40551090	11	2.4	11	100	0	52	42	0	19	38	1.51
40552757--40552821	26	2.6	25	80	2	76	27	18	1	52	1.54
40552786--40552818	12	2.6	13	90	9	59	36	15	0	48	1.45
40553690--40553755	34	1.9	34	84	6	89	25	22	25	25	2.00
40553702--40553766	34	1.9	34	84	6	87	26	21	27	24	1.99
40553788--40553830	22	1.9	23	90	4	70	23	53	2	20	1.57
40567085--40567186	41	2.6	37	73	7	87	33	27	16	22	1.96
40568204--40569710	753	2.0	753	100	0	3014	34	14	4	46	1.65
40576101--40576130	16	1.9	15	93	6	51	60	0	0	40	0.97
40576188--40576237	23	2.1	25	85	7	68	48	6	14	32	1.67
40578329--40578371	21	2.0	21	100	0	86	44	4	13	37	1.65
40578415--40578445	15	2.1	15	100	0	62	38	9	6	45	1.63
40578664--40578724	19	3.3	17	72	17	50	32	3	1	62	1.21
40585007--40585312	47	6.5	47	75	12	211	29	18	28	23	1.98
40586416--40586478	30	2.1	30	90	0	99	60	14	1	23	1.43
40594612--40594636	13	1.9	13	100	0	50	16	24	40	20	1.91
40596012--40596051	20	2.0	20	95	0	71	35	32	5	27	1.79
40598406--40598506	38	2.7	38	95	0	175	23	27	29	18	1.98
40602388--40602412	13	1.9	13	100	0	50	16	24	40	20	1.91
40614590--40614720	57	2.3	58	84	4	167	29	14	24	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40628779--40628999	40	5.5	40	93	1	363	24	28	24	21	1.99
40630335--40630383	25	2.0	25	95	0	89	36	24	10	28	1.88
40630336--40630389	25	2.2	25	89	0	81	35	25	9	29	1.87
40636162--40636198	3	12.3	3	100	0	74	0	32	0	67	0.91
40649285--40649585	39	7.6	39	90	5	407	24	27	22	25	2.00
40658664--40658925	39	6.7	40	88	7	337	24	27	22	25	2.00
40663604--40663733	43	3.0	41	77	6	134	23	17	27	30	1.97
40665718--40666038	48	6.7	48	79	5	346	27	18	29	24	1.98
40665712--40666038	96	3.4	96	90	0	501	26	18	29	25	1.98
40668814--40668935	59	2.1	59	98	0	235	36	9	18	35	1.84

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