genome.fa.s4.2.7.7.80.10.50.1000.158.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  158  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)
53208459--53208535	40	1.9	40	83	0	100	24	27	15	32	1.95
53208408--53208572	89	1.9	89	92	0	276	23	28	18	30	1.97
53208590--53208804	46	4.6	48	77	6	190	24	26	19	30	1.98
53208155--53208711	196	2.9	185	80	9	466	23	26	19	30	1.98
53208590--53208804	94	2.3	94	82	4	247	24	26	19	30	1.98
53215041--53215110	25	2.8	25	93	0	122	21	25	21	31	1.98
53217099--53217132	17	2.0	17	88	0	50	29	29	23	17	1.97
53219062--53219190	67	1.9	68	88	3	197	33	27	16	23	1.95
53220653--53220779	42	3.0	42	76	9	123	29	3	33	34	1.73
53222432--53222498	28	2.4	28	87	5	91	34	8	14	41	1.78
53224837--53224893	29	2.0	29	85	0	78	49	1	35	14	1.53
53226938--53227047	43	2.6	42	81	9	134	30	23	18	27	1.97
53226938--53227087	43	3.5	42	79	13	121	30	24	18	27	1.97
53239689--53239864	46	3.8	46	76	14	173	22	19	27	30	1.98
53239686--53239857	93	1.8	93	91	2	283	22	20	27	29	1.98
53241292--53241384	29	3.2	29	69	6	80	41	3	38	16	1.64
53241333--53241391	29	2.0	29	80	6	66	44	5	35	15	1.68
53245773--53245841	29	2.4	26	76	19	75	40	5	36	17	1.74
53246430--53246514	29	2.9	29	82	0	107	43	2	42	11	1.54
53245518--53249659	668	6.4	636	77	10	3305	38	11	19	31	1.87
53248004--53248035	16	2.0	16	93	0	55	37	9	21	31	1.85
53249003--53249090	29	3.0	29	77	0	95	40	2	42	14	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53252344--53252374	15	2.1	15	94	5	55	70	0	0	29	0.87
53258177--53258220	23	2.0	22	82	13	54	43	0	6	50	1.29
53260858--53260890	6	5.5	6	100	0	66	0	15	36	48	1.45
53270827--53270905	37	2.1	37	86	4	106	26	30	17	25	1.97
53270997--53271457	47	9.8	47	96	1	825	28	29	9	32	1.89
53281059--53281152	40	2.3	41	83	7	113	30	29	14	24	1.95
53283366--53283535	41	4.2	40	73	18	152	28	27	21	22	1.99
53290922--53291184	40	6.6	40	88	3	325	24	20	27	26	1.99
53290961--53291219	80	3.3	80	85	3	256	25	20	27	25	1.99
53298911--53299134	40	5.6	40	91	1	308	24	20	28	26	1.99
53298872--53299134	80	3.3	80	85	3	318	23	20	28	26	1.99
53298872--53299134	120	2.2	120	82	4	318	23	20	28	26	1.99
53303064--53303172	40	2.7	41	82	10	129	28	28	17	25	1.97
53310074--53310185	36	3.2	36	70	14	106	28	24	18	28	1.98
53310349--53310404	27	2.1	27	100	0	112	32	10	21	35	1.88
53315166--53315260	38	2.5	38	81	6	120	23	21	25	30	1.99
53315251--53315334	43	2.0	43	92	0	141	16	25	29	28	1.97
53318688--53318822	52	2.7	50	80	6	155	32	14	11	40	1.83
53318665--53318816	50	3.0	51	78	7	157	33	13	12	40	1.83
53320002--53320050	22	2.2	23	85	3	64	75	6	8	10	1.18
53320011--53320060	10	4.8	10	76	9	55	78	4	10	8	1.09
53320927--53320999	18	4.1	19	77	18	68	67	1	21	9	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53320947--53321005	15	3.6	16	80	17	59	67	1	22	8	1.26
53320912--53320966	21	2.7	19	84	13	74	67	1	21	9	1.28
53322944--53323119	46	3.8	45	79	4	174	22	20	27	29	1.98
53322940--53323111	93	1.8	93	88	0	263	22	20	28	28	1.99
53325686--53325848	50	3.3	50	80	8	181	33	13	12	39	1.83
53329816--53329853	19	2.0	19	100	0	76	31	10	21	36	1.87
53335586--53336519	47	19.9	47	96	0	1616	36	8	27	27	1.86
53338933--53339251	101	3.0	109	88	7	510	35	7	16	40	1.76
53339614--53339683	28	2.5	28	90	4	106	27	12	27	32	1.93
53343638--53343724	34	2.5	35	81	3	88	25	25	24	25	2.00
53345193--53345235	22	2.0	22	95	0	77	34	11	37	16	1.85
53355668--53355843	56	3.2	56	91	2	275	36	24	11	27	1.90
53357724--53357770	20	2.4	19	85	3	58	46	0	25	27	1.53
53358315--53358483	48	3.5	48	91	0	284	24	21	30	24	1.99
53366080--53366113	1	34.0	1	87	0	50	94	0	5	0	0.32
53367116--53367242	65	2.0	65	98	1	247	33	1	29	35	1.67
53369208--53369331	59	2.1	58	81	14	139	55	3	4	37	1.35
53369247--53369330	29	3.0	27	72	11	71	57	2	4	35	1.33
53371315--53371460	73	2.0	72	90	4	231	43	9	25	21	1.82
53384662--53384885	40	5.6	40	87	4	274	26	28	20	24	1.99
53387677--53387730	20	2.7	20	88	0	81	14	29	37	18	1.91
53388483--53388621	38	3.4	42	77	14	130	33	21	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53388483--53388637	42	3.7	42	76	14	142	32	21	14	30	1.94
53395002--53395032	15	2.1	14	94	5	53	19	22	25	32	1.97
53412921--53413043	44	2.8	44	84	4	153	26	19	28	26	1.99
53430209--53430407	103	1.9	103	93	0	344	28	22	24	24	1.99
53438244--53438269	13	2.0	13	100	0	52	15	30	30	23	1.95
53459571--53459613	22	2.0	22	81	9	52	23	27	6	41	1.80
53464110--53464148	21	1.9	21	85	15	55	30	5	0	64	1.15
53464110--53464161	23	2.3	22	81	15	54	32	3	0	63	1.12
53464129--53464170	18	2.3	18	84	8	50	30	2	2	64	1.19
53464129--53464251	49	2.5	49	80	11	128	33	0	6	59	1.29
53464146--53464204	31	1.9	31	89	0	91	32	0	6	61	1.22
53471770--53471833	23	2.8	23	80	4	76	32	21	23	21	1.98
53479033--53479091	24	2.4	25	83	11	77	25	1	5	67	1.20
53481805--53481842	19	2.0	19	94	0	67	31	23	10	34	1.89
53494020--53494243	88	2.6	88	89	0	324	27	16	27	29	1.97
53494205--53495993	44	41.4	44	85	2	2274	30	16	30	22	1.96
53497256--53497293	19	2.0	19	94	0	67	31	23	10	34	1.89
53499495--53499548	26	2.1	25	86	3	72	42	0	7	50	1.30
53502631--53502665	15	2.3	16	85	14	56	74	0	0	25	0.82
53521052--53521133	37	2.2	37	93	2	137	35	13	8	42	1.75
53521260--53521309	25	2.0	25	88	7	75	32	18	30	20	1.96
53524621--53525105	252	1.9	252	96	0	898	31	10	26	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53525982--53526207	40	5.6	41	87	3	300	31	17	25	25	1.97
53526010--53526207	81	2.5	81	90	0	317	31	18	25	24	1.98
53526010--53526207	41	4.9	40	87	5	283	31	18	25	24	1.98
53526010--53526231	81	2.7	79	84	7	286	32	18	23	24	1.97
53526778--53526902	66	1.9	66	89	0	196	44	27	1	26	1.63
53526868--53526954	22	4.0	21	69	15	70	45	28	1	24	1.60
53526957--53527017	14	4.3	14	77	10	61	42	42	1	13	1.53
53527265--53527313	8	6.2	8	90	4	64	67	4	0	28	1.09
53527266--53527313	15	3.1	15	90	3	78	66	4	0	29	1.10
53527265--53527310	23	2.0	23	91	0	74	67	4	0	28	1.10
53528352--53528659	154	2.0	154	96	0	562	26	13	14	45	1.82
53533825--53533877	25	2.1	25	89	0	79	37	0	0	62	0.96
53533882--53533920	18	2.1	18	85	4	51	30	0	2	66	1.05
53536972--53537027	26	2.2	26	93	0	94	30	7	26	35	1.83
53540656--53540719	30	2.1	31	82	2	76	50	6	17	26	1.69
53541075--53541113	21	1.9	21	89	5	62	38	10	7	43	1.67
53547211--53547272	29	2.1	30	84	3	81	33	3	25	37	1.72
53550746--53551026	48	5.9	48	75	5	217	26	18	30	24	1.98
53558514--53558830	48	6.6	48	82	2	314	25	17	31	25	1.97
53558466--53558830	144	2.5	144	83	0	435	25	17	31	25	1.97
53558466--53558829	96	3.8	96	81	4	297	25	17	31	25	1.97
53561146--53561187	17	2.5	17	96	0	75	52	0	23	23	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53563242--53563397	47	3.0	53	71	19	155	28	13	26	31	1.94
53569101--53569140	21	2.0	21	85	5	55	32	0	0	67	0.91
53570588--53570626	3	13.0	3	89	10	62	33	0	2	64	1.08
53571200--53571257	24	2.5	22	81	10	71	37	0	6	55	1.27
53571200--53571264	22	2.8	23	78	17	71	38	1	7	52	1.40
53571200--53571301	47	2.2	46	80	15	104	37	1	6	53	1.39
53576861--53577034	48	3.6	48	78	1	197	25	25	18	31	1.98
53576811--53577034	96	2.3	96	86	2	297	25	25	17	31	1.97
53584589--53584945	48	7.4	48	79	6	217	22	26	19	31	1.98
53584632--53584949	48	6.6	48	85	2	415	22	27	19	30	1.98

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