genome.fa.s4.2.7.7.80.10.50.1000.99.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  99  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)
34130328--34130370	20	2.2	20	100	0	86	37	11	0	51	1.39
34131375--34131678	75	4.1	75	98	0	581	46	16	5	31	1.70
34137580--34137628	22	2.2	22	85	7	64	40	18	24	16	1.90
34141167--34141284	20	5.9	19	75	11	85	35	17	32	14	1.90
34143869--34144089	96	2.3	96	84	3	284	29	19	28	22	1.98
34143869--34144089	48	4.6	48	76	4	196	29	19	28	22	1.98
34148432--34148499	17	3.9	17	73	7	55	26	1	4	67	1.18
34148484--34148557	22	3.3	21	74	18	69	31	1	1	66	1.09
34148511--34148568	21	2.8	22	85	12	70	27	0	1	70	0.97
34149238--34149282	7	6.4	7	97	0	72	37	13	13	35	1.84
34169139--34169249	37	2.8	40	76	12	113	34	23	18	24	1.96
34170099--34170142	22	2.0	22	100	0	88	13	27	0	59	1.35
34170134--34170166	4	8.2	4	87	12	50	0	24	0	75	0.80
34170136--34170168	16	2.1	15	94	5	57	0	21	0	78	0.75
34170106--34170166	22	2.9	21	87	4	79	4	26	0	68	1.09
34173018--34173140	43	2.9	43	79	4	158	28	18	17	35	1.93
34180191--34180318	64	2.0	64	96	0	238	32	6	22	38	1.79
34183040--34183088	21	2.3	21	83	13	57	65	12	0	22	1.26
34194716--34194779	20	3.2	20	76	8	76	18	21	21	37	1.94
34205866--34205915	10	5.0	10	79	13	50	20	10	2	68	1.29
34214644--34214822	96	1.9	96	87	0	268	27	14	25	32	1.95
34215469--34215516	10	4.8	10	87	10	62	22	8	2	66	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34215459--34215516	20	2.9	19	82	10	71	22	8	1	67	1.27
34215459--34215516	30	1.9	30	83	13	75	22	8	1	67	1.27
34221498--34221609	42	2.7	42	87	5	156	30	17	23	28	1.97
34224475--34224629	42	3.7	42	77	5	152	30	24	14	29	1.95
34229127--34229163	18	2.1	17	90	5	56	51	0	0	48	1.00
34232838--34232873	6	6.0	6	100	0	72	16	16	16	50	1.79
34234461--34234503	17	2.6	17	81	3	52	60	16	0	23	1.35
34234786--34234882	47	2.1	47	98	0	185	35	18	10	36	1.85
34237443--34237479	3	12.3	3	88	0	56	64	2	0	32	1.07
34239161--34239580	143	2.9	142	86	1	597	25	22	20	30	1.98
34239309--34239436	44	2.8	46	76	8	138	26	24	20	28	1.99
34239309--34239425	45	2.6	44	78	4	128	23	26	19	29	1.98
34239939--34240078	46	3.0	46	89	0	208	25	24	17	33	1.96
34240462--34240564	52	2.0	53	88	5	156	53	8	15	22	1.69
34250446--34250554	52	2.1	52	94	0	191	37	13	36	11	1.82
34254770--34254805	15	2.4	15	100	0	72	0	58	22	19	1.40
34254770--34254814	15	3.0	15	93	0	63	2	57	17	22	1.50
34258010--34258059	26	1.9	26	91	0	82	38	14	26	22	1.91
34260921--34261000	27	3.0	27	73	14	76	18	30	23	27	1.98
34260933--34261064	27	4.9	28	76	7	85	18	31	22	27	1.98
34266510--34266541	16	2.0	16	100	0	64	50	12	6	31	1.65
34277234--34277273	20	2.0	20	85	9	55	10	30	17	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34291457--34291616	87	1.8	86	89	4	250	28	16	18	36	1.93
34293212--34293340	44	2.7	46	79	13	147	32	17	26	23	1.97
34297992--34298098	54	2.0	53	98	0	196	23	14	26	35	1.92
34308750--34308816	25	2.7	25	86	9	84	26	23	23	25	2.00
34308760--34308827	25	2.8	24	82	14	77	29	23	25	22	1.99
34313441--34313478	20	1.9	19	89	5	58	13	18	36	31	1.89
34313392--34313564	93	1.9	93	91	0	283	19	19	30	30	1.97
34313397--34313571	46	3.8	46	76	13	169	19	19	30	30	1.96
34318806--34318871	28	2.4	28	89	0	96	33	12	30	24	1.91
34319286--34319313	14	2.0	14	100	0	56	14	14	21	50	1.78
34321258--34321317	28	2.1	28	90	0	93	35	16	30	18	1.93
34321258--34321347	28	3.2	28	85	0	90	35	15	28	20	1.93
34321300--34321354	28	2.0	28	81	0	65	40	16	25	18	1.91
34327712--34327747	13	2.8	13	95	0	63	36	13	13	36	1.85
34339212--34339269	17	3.4	17	76	19	59	60	5	0	34	1.19
34341655--34341685	3	10.3	3	100	0	62	67	0	32	0	0.91
34346085--34346388	162	1.9	163	84	3	407	32	11	18	37	1.87
34351723--34351808	45	1.9	44	88	2	127	24	12	25	37	1.91
34358640--34358679	13	3.1	13	96	0	71	17	32	35	15	1.91
34368299--34368337	20	1.9	20	84	5	51	33	0	7	58	1.26
34370222--34370257	17	2.1	17	94	0	63	47	16	8	27	1.75
34370435--34370614	40	4.4	40	83	2	218	33	26	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34374443--34374508	29	2.3	28	77	10	71	43	21	15	19	1.87
34374494--34374557	29	2.2	29	81	10	69	42	18	15	23	1.89
34376008--34376194	48	3.9	48	76	5	171	27	31	17	23	1.97
34382833--34382895	30	2.0	32	82	11	78	55	28	1	14	1.48
34383579--34383701	47	2.6	48	87	10	173	23	30	18	26	1.98
34384909--34384970	29	2.1	29	81	0	70	37	19	19	24	1.94
34391232--34391289	30	2.0	29	96	3	107	25	15	24	34	1.95
34395624--34395799	68	2.6	68	81	12	184	34	15	28	21	1.94
34408727--34408796	31	2.3	31	84	0	86	52	18	10	18	1.72
34409049--34409098	21	2.4	21	89	0	73	2	50	20	28	1.59
34414598--34414672	34	2.2	34	83	4	89	33	1	16	49	1.54
34414594--34414665	9	8.2	9	74	9	60	34	1	16	47	1.56
34414631--34414665	18	1.9	18	100	0	70	37	0	17	45	1.48
34414793--34414940	9	16.1	9	69	18	92	39	2	12	44	1.57
34414803--34414914	30	3.6	30	76	13	118	40	3	13	42	1.61
34414793--34414945	64	2.4	64	91	1	243	39	2	13	45	1.57
34415039--34415508	99	4.8	99	96	1	829	52	3	5	37	1.44
34418748--34418839	21	4.2	20	69	16	58	51	29	1	18	1.54
34418808--34418840	14	2.4	14	94	0	57	54	33	0	12	1.37
34418838--34418877	18	2.2	18	100	0	80	45	35	5	15	1.68
34419419--34419462	21	2.1	21	91	0	70	45	29	0	25	1.54
34427644--34427691	22	2.3	22	85	7	64	27	20	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34428632--34428672	20	2.1	19	86	4	55	21	24	0	53	1.46
34431933--34431982	25	2.0	25	96	0	91	26	16	8	50	1.72
34432768--34432806	19	2.1	19	100	0	78	35	10	33	20	1.86
34437249--34437296	25	1.9	25	91	0	78	18	37	14	29	1.91
34444246--34444306	29	2.1	29	100	0	122	32	4	26	36	1.78
34445952--34446007	21	2.7	21	91	0	85	26	23	28	21	1.99
34454862--34454949	43	2.1	43	86	2	124	39	23	11	25	1.88
34454883--34454968	43	2.0	43	88	0	127	37	26	11	24	1.90
34457588--34457629	22	1.9	22	90	0	66	23	0	21	54	1.44
34459431--34459481	24	2.1	24	100	0	102	29	9	23	37	1.87
34460103--34460389	48	6.0	47	78	3	268	26	18	30	24	1.98
34461939--34461974	18	2.0	18	89	10	56	22	0	19	58	1.40
34485851--34486035	40	4.7	40	80	7	191	24	22	27	25	2.00
34485904--34486068	79	2.1	79	82	6	192	26	20	27	25	1.99
34493830--34493934	40	2.6	41	80	8	126	23	23	27	24	2.00
34508580--34508655	38	2.0	38	100	0	152	47	21	0	31	1.51
34509033--34509057	9	2.8	9	100	0	50	68	20	0	12	1.21
34511678--34511878	108	1.8	110	87	4	300	34	17	24	23	1.96
34511671--34511925	55	4.8	53	80	8	245	36	17	24	21	1.95
34513410--34513491	39	2.1	39	97	0	155	41	17	10	30	1.83
34515086--34515160	36	2.1	36	97	0	141	42	10	18	28	1.83
34515264--34515293	15	2.0	15	100	0	60	6	13	0	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34518064--34518110	22	2.2	20	85	14	60	53	0	2	44	1.12
34525438--34525465	14	2.0	14	100	0	56	42	7	0	50	1.30
34525859--34525892	17	2.0	17	100	0	68	11	35	23	29	1.90
34532021--34532063	6	7.2	6	89	0	68	16	20	0	62	1.32
34533286--34533443	52	3.0	52	80	0	163	32	13	16	37	1.88
34533286--34533518	105	2.2	104	82	3	272	32	12	15	39	1.85
34533772--34533886	15	7.4	15	70	14	54	23	14	25	36	1.93
34533783--34533850	15	4.3	15	75	15	57	23	10	27	38	1.87
34542571--34542607	5	7.4	5	100	0	74	0	18	0	81	0.70
34546156--34546185	8	3.9	8	95	4	53	53	0	0	46	1.00

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