genome.fa.s4.2.7.7.80.10.50.1000.126.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  126  of  235  ( 28198 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)
42801244--42801470	115	2.0	115	99	0	445	35	19	8	35	1.83
42803814--42803906	27	3.5	27	77	7	109	40	22	8	27	1.83
42804789--42804859	25	2.8	25	85	6	90	23	25	22	28	2.00
42804788--42804886	25	4.0	23	80	10	81	26	24	22	27	2.00
42805007--42805098	42	2.2	42	98	0	175	31	15	20	32	1.94
42805122--42805267	31	4.7	31	98	0	276	28	17	26	28	1.97
42805429--42805584	78	2.0	78	97	0	294	25	14	11	48	1.77
42808146--42808183	17	2.2	17	90	0	58	50	0	7	42	1.31
42815292--42815354	30	2.1	31	90	3	101	42	23	6	26	1.78
42817116--42817169	20	2.7	19	75	16	56	37	22	29	11	1.89
42820231--42820265	14	2.5	14	80	0	52	14	2	2	80	0.95
42820844--42820909	25	2.8	23	74	14	62	31	1	1	65	1.11
42820874--42820910	18	2.1	18	89	0	56	24	2	0	72	0.97
42831533--42831579	22	2.1	22	84	0	58	23	0	25	51	1.49
42832874--42832922	25	2.0	25	88	8	73	24	6	6	63	1.41
42833736--42833774	17	2.2	18	86	4	53	33	0	0	66	0.92
42838214--42838326	38	2.9	38	85	2	136	22	24	27	25	2.00
42838230--42838332	38	2.7	38	87	0	143	21	24	26	28	1.99
42838309--42838454	43	3.5	42	83	3	161	14	21	32	31	1.93
42840218--42840258	13	3.2	13	75	25	50	53	9	0	36	1.34
42847876--42847949	35	2.1	35	97	0	139	41	10	5	41	1.63
42853539--42853571	16	2.1	16	100	0	66	36	21	36	6	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42859047--42859103	16	3.6	15	81	6	60	14	5	0	80	0.87
42859057--42859095	20	2.0	21	90	10	64	15	5	0	79	0.90
42859209--42859301	42	2.2	42	84	5	116	32	35	12	19	1.90
42859964--42860005	21	2.0	22	85	4	59	71	0	0	28	0.86
42859969--42860012	21	2.1	21	83	8	54	75	2	0	22	0.92
42862578--42862629	26	2.0	26	100	0	104	46	7	11	34	1.69
42863217--42863242	5	5.2	5	100	0	52	19	0	0	80	0.71
42864321--42864451	66	2.0	66	83	5	167	16	23	17	42	1.88
42868565--42868673	26	4.2	26	93	0	191	35	23	7	33	1.83
42875574--42875629	26	2.2	26	100	0	112	33	7	16	42	1.75
42886040--42886078	4	9.8	4	88	0	60	23	2	23	51	1.61
42887240--42887424	98	1.9	101	85	7	263	48	3	1	45	1.30
42887901--42887925	13	1.9	13	100	0	50	64	4	0	32	1.12
42900091--42900122	3	10.7	3	100	0	64	65	0	0	34	0.93
42900403--42900464	24	2.6	23	80	10	61	46	3	11	38	1.56
42907236--42907291	28	2.0	28	92	0	94	16	16	26	41	1.88
42911570--42911609	20	2.1	19	85	4	53	7	2	20	70	1.24
42914887--42914917	16	1.9	16	93	0	53	12	6	0	80	0.89
42914956--42915003	18	2.7	17	76	20	53	31	4	0	64	1.12
42915841--42915929	10	9.4	9	72	11	63	52	2	1	43	1.20
42915841--42915929	19	4.7	18	73	12	63	52	2	1	43	1.20
42915831--42915943	29	3.9	28	76	5	109	53	1	1	42	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42915899--42915987	34	2.7	34	78	16	98	53	1	1	43	1.15
42915952--42915993	14	3.3	13	78	15	52	59	2	0	38	1.10
42918938--42919090	30	5.1	30	95	0	261	26	28	22	22	1.99
42922078--42922114	18	2.2	16	90	9	56	35	0	0	64	0.94
42922212--42922261	21	2.3	21	80	13	57	58	2	2	38	1.21
42922379--42922444	26	2.5	26	78	14	71	42	1	4	51	1.31
42922925--42923011	22	4.0	21	69	23	63	56	2	0	41	1.12
42922923--42923013	23	4.1	22	72	13	62	54	2	0	42	1.12
42923001--42923074	37	2.0	37	85	12	100	68	4	5	21	1.26
42922996--42923047	18	2.9	18	74	5	52	67	1	3	26	1.18
42929075--42929178	10	9.5	10	70	19	66	62	1	0	34	1.13
42929077--42929125	24	2.2	20	86	13	62	57	2	0	40	1.10
42929118--42929178	11	5.8	10	80	14	70	65	1	1	31	1.12
42929135--42929178	9	4.4	9	83	13	52	68	2	2	27	1.14
42930155--42930203	23	2.2	22	85	10	64	40	6	4	48	1.47
42942786--42942824	20	2.0	19	95	5	69	61	10	0	28	1.28
42942783--42942827	19	2.4	18	89	10	72	62	8	0	28	1.25
42943590--42943651	20	3.2	20	75	13	67	50	0	0	50	1.00
42943714--42943782	15	4.5	15	73	16	61	52	1	0	46	1.09
42946279--42946324	3	15.3	3	100	0	92	32	0	0	67	0.91
42955119--42955270	27	5.6	27	83	4	189	27	15	27	28	1.96
42955120--42955270	82	1.9	81	88	4	232	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42955119--42955272	55	2.8	54	83	3	193	27	15	27	29	1.96
42955995--42956019	13	1.9	13	100	0	50	80	8	4	8	1.03
42957927--42957979	25	2.2	23	83	12	63	24	11	5	58	1.54
42960962--42961008	19	2.5	19	86	6	60	27	19	8	44	1.79
42965133--42965396	86	3.1	86	89	0	402	25	22	24	27	2.00
42965344--42965619	134	2.1	134	94	1	482	27	19	22	29	1.98
42965521--42965715	97	2.0	96	92	2	320	30	18	22	28	1.97
42965705--42966261	44	12.7	44	74	5	403	27	16	25	30	1.96
42965705--42966127	132	3.2	132	93	0	731	28	16	25	30	1.96
42965705--42966215	132	3.9	132	88	4	633	27	16	25	30	1.96
42965713--42966215	264	1.9	264	88	2	760	27	16	25	30	1.97
42967988--42968040	25	2.2	23	83	12	63	24	11	5	58	1.54
42970655--42970701	19	2.5	19	86	6	60	27	19	8	44	1.79
42976161--42976198	18	2.1	18	90	0	58	10	0	10	78	0.95
42983135--42983190	28	2.0	28	100	0	112	42	17	10	28	1.83
42988439--42988542	26	4.0	26	87	5	156	35	7	21	35	1.82
42988595--42988643	17	3.1	17	72	22	61	20	10	40	28	1.85
42992421--42992460	20	2.0	20	85	0	53	30	7	20	42	1.79
43002023--43002138	28	4.0	29	78	8	112	29	30	13	26	1.94
43002014--43002097	29	2.9	29	79	8	100	28	32	15	23	1.95
43003651--43003934	19	14.8	17	67	25	74	38	2	1	58	1.20
43003714--43003740	14	1.9	14	100	0	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43003646--43003761	60	1.9	60	91	3	189	37	3	0	57	1.21
43003731--43004029	21	13.6	21	69	19	166	36	2	1	59	1.19
43003877--43004042	38	4.0	39	72	22	140	36	1	1	60	1.15
43003915--43004079	53	3.4	51	68	25	142	35	1	2	61	1.17
43003968--43004025	17	3.2	17	75	17	62	39	1	0	58	1.08
43003813--43004096	91	3.1	91	95	1	498	37	2	1	58	1.20
43004250--43004288	19	2.1	19	85	0	51	48	12	7	30	1.69
43004711--43004854	72	2.0	72	94	0	252	22	31	22	22	1.99
43006698--43006872	46	3.8	46	78	13	205	29	29	20	20	1.98
43006706--43006876	93	1.8	93	93	0	297	28	29	21	20	1.98
43008303--43008356	21	2.6	21	87	0	81	24	27	29	18	1.98
43011599--43011682	39	2.2	38	78	2	87	55	4	5	33	1.45
43014626--43014672	15	3.1	15	84	9	60	34	4	2	59	1.29
43014700--43014725	13	2.0	13	100	0	52	38	7	7	46	1.61
43018771--43018911	6	23.0	6	70	15	60	53	4	1	41	1.29
43018762--43018905	76	1.9	75	97	1	270	52	5	1	40	1.33
43019169--43019221	26	2.0	26	85	7	72	35	3	3	56	1.35
43024453--43024587	66	2.0	66	97	0	252	31	14	11	42	1.82
43033896--43033985	37	2.5	37	87	5	121	17	11	27	43	1.83
43037432--43037519	31	2.9	31	80	6	101	27	12	17	43	1.84
43037436--43037569	60	2.2	59	81	7	146	29	14	14	42	1.84
43037435--43037529	31	3.1	31	77	10	97	30	12	14	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43037899--43037942	17	2.5	17	85	7	52	68	2	2	27	1.14
43037997--43038039	9	4.8	9	82	0	50	69	0	9	20	1.15
43038006--43038041	18	1.9	19	88	5	56	66	0	8	25	1.19
43038116--43038150	9	3.8	9	88	7	52	31	2	0	65	1.07
43038116--43038153	19	2.0	19	94	0	67	34	2	0	63	1.09
43041466--43041544	39	2.0	39	92	0	131	35	13	17	32	1.90
43049627--43049652	12	2.2	12	100	0	52	34	38	0	26	1.57
43058222--43058251	12	2.5	12	94	0	51	90	0	10	0	0.47
43058508--43058533	11	2.4	11	100	0	52	19	0	11	69	1.18
43058454--43058614	81	2.0	81	100	0	322	21	14	12	50	1.76

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