genome.fa.s9.2.7.7.80.10.50.1000.164.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  164  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)
55022694--55022745	21	2.5	21	75	3	52	55	1	0	42	1.10
55022674--55022754	38	2.2	36	82	8	92	62	2	0	34	1.08
55022707--55022804	30	3.3	27	70	13	70	62	3	0	34	1.11
55022746--55022802	30	1.9	30	85	7	80	64	3	0	31	1.10
55028585--55028856	136	2.0	136	99	0	535	34	13	19	31	1.92
55037678--55037871	40	4.8	40	79	6	207	25	20	26	26	1.99
55037733--55037897	79	2.1	79	83	8	203	26	20	27	26	1.99
55039999--55040055	27	2.1	27	100	0	114	54	10	17	17	1.70
55051802--55051867	35	1.9	33	87	6	96	43	21	7	27	1.79
55053435--55053493	27	2.2	27	93	3	102	54	22	10	13	1.69
55055421--55055459	20	2.0	20	94	0	69	51	5	0	43	1.24
55055474--55055532	29	2.0	29	100	0	118	38	27	10	23	1.87
55056972--55057028	28	2.0	28	100	0	114	31	3	17	47	1.65
55058659--55058706	25	1.9	25	86	0	69	33	25	16	25	1.96
55058754--55058809	11	5.5	11	71	16	57	35	12	19	32	1.89
55058743--55058809	20	3.3	20	93	0	116	34	11	20	32	1.90
55058860--55058932	23	3.1	23	94	3	128	28	20	20	30	1.98
55058859--55058953	24	4.0	24	89	6	140	28	21	22	28	1.99
55059147--55059210	31	2.1	31	93	0	110	37	15	23	23	1.93
55074500--55074666	46	3.6	46	79	9	169	22	28	20	28	1.98
55091830--55091954	46	2.7	46	92	2	198	22	18	27	32	1.97
55103215--55103257	15	2.7	16	89	10	70	32	16	6	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55112279--55112339	32	1.9	32	93	0	104	39	8	26	26	1.84
55113353--55113457	46	2.3	44	84	11	124	29	19	24	26	1.98
55122253--55122307	29	1.9	28	85	10	76	16	20	45	18	1.86
55128888--55128925	20	1.9	20	88	0	58	31	7	10	50	1.66
55137007--55137067	30	2.0	30	100	0	104	50	13	13	22	1.75
55144961--55145042	41	2.0	40	80	2	92	26	14	28	30	1.95
55147420--55147544	49	2.5	49	84	6	146	22	29	19	28	1.98
55147580--55147686	48	2.2	48	88	0	151	23	28	20	28	1.99
55153703--55153823	48	2.5	48	83	1	152	23	28	22	25	1.99
55170859--55171145	40	7.2	40	85	7	295	23	28	21	25	1.99
55170875--55171146	80	3.4	80	87	4	354	23	29	21	25	1.99
55170875--55171145	119	2.3	119	83	4	332	23	29	21	25	1.99
55196796--55196874	39	2.0	39	100	0	158	16	27	17	37	1.91
55201428--55201466	20	2.0	20	89	0	60	48	2	12	35	1.55
55210484--55210594	40	2.7	42	84	5	147	24	17	27	30	1.97
55237279--55237322	14	2.9	15	86	6	54	11	20	15	52	1.74
55239890--55240013	46	2.7	46	81	12	157	26	18	30	24	1.98
55247402--55247445	19	2.2	20	84	8	63	15	9	15	59	1.61
55247577--55247625	19	2.5	20	90	10	82	32	8	14	44	1.74
55248063--55248175	40	2.7	42	89	5	160	24	15	26	33	1.95
55251265--55251315	21	2.4	22	90	3	77	15	31	33	19	1.93
55253899--55253942	17	2.4	18	85	11	54	68	4	2	25	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55260441--55260657	47	4.6	45	77	11	197	29	17	29	23	1.97
55260440--55260657	94	2.3	93	81	5	269	29	17	29	23	1.97
55262905--55263012	44	2.4	44	87	3	144	29	23	13	33	1.93
55269420--55269498	37	2.1	37	88	0	113	25	32	18	22	1.97
55269617--55269916	47	6.4	47	96	0	528	29	30	8	31	1.87
55274157--55274264	44	2.4	44	87	3	144	29	23	13	33	1.93
55280033--55280074	21	2.0	21	81	9	50	66	2	4	26	1.23
55290424--55290741	94	3.4	91	76	9	279	23	28	21	26	1.99
55300185--55300772	296	2.0	296	96	0	1079	31	23	9	35	1.87
55311608--55311716	54	2.0	54	98	0	209	20	19	28	32	1.97
55314310--55314722	206	2.0	206	100	0	826	27	21	15	35	1.93
55320800--55320833	18	1.9	17	94	5	59	52	0	0	47	1.00
55321065--55321104	21	1.9	21	85	10	55	15	2	40	42	1.60
55323028--55323199	46	3.7	45	74	7	148	21	28	20	29	1.98
55327677--55327815	72	1.9	72	92	2	235	35	7	15	40	1.77
55337150--55337231	41	2.0	41	97	0	155	30	19	15	34	1.93
55339624--55339673	22	2.5	20	83	9	57	56	2	22	20	1.53
55344497--55345383	131	6.6	137	83	6	909	25	18	23	32	1.97
55344554--55345337	393	2.0	398	83	5	1003	25	18	23	32	1.97
55346296--55346346	9	5.9	8	75	24	50	60	3	0	35	1.15
55346392--55346448	22	2.6	21	72	5	51	71	1	5	21	1.14
55347029--55347114	35	2.5	35	90	0	136	11	43	23	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55357575--55357657	41	2.0	41	97	0	157	37	8	4	49	1.55
55358230--55358287	18	3.2	18	73	9	64	58	0	5	36	1.20
55362279--55362312	2	17.0	2	100	0	68	50	50	0	0	1.00
55362524--55362733	39	5.4	39	89	0	321	22	26	20	30	1.98
55362524--55362731	78	2.7	78	97	0	389	22	25	20	31	1.98
55369081--55369110	2	15.0	2	92	0	51	50	46	3	0	1.18
55369328--55369533	39	5.3	39	87	2	297	22	25	20	31	1.98
55369328--55369533	78	2.6	78	94	0	358	22	25	20	31	1.98
55374776--55374804	15	1.9	15	100	0	58	27	34	13	24	1.93
55376825--55377110	39	7.3	39	89	0	437	22	25	20	31	1.98
55376825--55377108	78	3.6	78	97	0	523	22	25	20	31	1.98
55379419--55379567	75	2.0	75	83	8	189	25	10	19	44	1.81
55379764--55379859	35	2.7	34	78	12	113	21	21	14	41	1.89
55379845--55380037	35	5.4	35	71	13	117	28	20	15	35	1.93
55380245--55380357	35	3.2	34	83	12	129	23	20	15	39	1.91
55380822--55380864	17	2.5	17	88	0	59	60	2	9	27	1.40
55385452--55385613	85	1.9	85	86	7	229	46	14	8	31	1.73
55388115--55388159	20	2.2	20	88	0	63	35	13	2	48	1.54
55389870--55389904	19	1.9	17	88	11	52	17	14	0	68	1.21
55397094--55397150	29	2.0	29	89	0	87	28	14	22	35	1.93
55397893--55397939	20	2.3	20	92	0	76	46	6	2	44	1.40
55403529--55403644	47	2.5	47	83	8	139	24	31	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55411000--55411061	31	2.0	31	90	0	97	33	25	6	33	1.82
55411098--55411219	47	2.6	46	79	8	122	24	28	18	28	1.98
55412577--55412617	16	2.6	16	100	0	82	46	14	26	12	1.80
55414985--55415035	25	2.1	25	85	3	68	41	23	19	15	1.90
55415344--55415393	20	2.5	20	75	18	50	48	18	0	34	1.48
55415344--55415395	21	2.5	20	75	9	52	48	17	0	34	1.48
55417324--55417391	35	1.9	35	100	0	136	35	20	16	27	1.94
55421095--55421136	20	2.1	20	100	0	84	52	11	0	35	1.38
55421941--55422057	44	2.7	44	93	0	189	29	29	18	23	1.98
55422036--55422155	47	2.6	47	82	7	147	22	27	21	28	1.99
55424024--55424061	20	1.9	20	88	0	58	36	7	5	50	1.54
55424082--55424124	2	21.5	2	100	0	86	51	0	48	0	1.00
55430993--55431137	20	7.3	20	70	7	107	33	21	31	13	1.92
55430993--55431153	40	4.1	40	85	1	225	34	21	29	14	1.93
55430993--55431153	79	2.0	80	86	1	225	34	21	29	14	1.93
55436294--55436345	25	2.1	25	85	3	70	25	17	23	34	1.96
55436393--55436453	21	2.9	21	82	4	79	32	19	9	37	1.85
55436393--55436453	10	5.9	10	77	11	61	32	19	9	37	1.85
55444316--55444471	83	1.9	83	97	0	294	28	21	18	31	1.97
55444333--55444463	24	5.0	25	68	23	72	28	22	19	30	1.98
55444521--55444595	10	7.1	11	74	7	57	33	16	13	37	1.87
55444535--55444583	21	2.3	21	89	0	80	34	20	10	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55444632--55444681	25	2.0	26	88	4	75	26	12	24	38	1.90
55452270--55452448	48	3.9	48	81	8	219	25	26	21	26	2.00
55452371--55452477	42	2.5	42	86	3	126	27	28	17	27	1.98
55455033--55455136	48	2.2	48	89	0	163	23	25	20	30	1.98
55455109--55455218	42	2.7	39	83	9	114	30	28	15	25	1.96
55455194--55455315	48	2.5	48	82	0	136	25	29	18	27	1.98
55462983--55463128	46	3.0	48	73	9	170	33	13	23	29	1.93
55462965--55463122	46	3.3	47	74	11	167	33	14	21	30	1.93
55463900--55464532	317	2.0	317	97	0	1187	36	10	18	34	1.85
55467055--55467356	41	7.4	41	90	0	453	34	19	23	22	1.96

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