genome.fa.s4.2.7.7.80.10.50.1000.135.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  135  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)
45621239--45621340	30	3.4	30	84	2	134	44	3	22	29	1.71
45621336--45621370	14	2.4	15	90	4	54	25	0	2	71	1.00
45625857--45625890	15	2.1	17	89	10	54	70	0	5	23	1.09
45632255--45632783	131	4.0	131	79	5	482	34	17	20	28	1.95
45635012--45635179	84	2.0	84	98	0	327	29	29	11	29	1.91
45635234--45635262	13	2.3	13	94	5	51	0	13	24	62	1.32
45647842--45647885	18	2.4	18	96	0	79	20	34	0	45	1.51
45649998--45650023	7	3.7	7	100	0	52	42	0	0	57	0.98
45650706--45650762	28	2.0	28	83	12	73	61	0	3	35	1.13
45653338--45653408	31	2.4	30	79	9	74	66	5	2	25	1.27
45655878--45655961	14	5.5	14	71	18	53	36	1	2	59	1.18
45655885--45655937	17	3.1	16	78	21	63	37	1	1	58	1.20
45659398--45659446	21	2.3	22	85	3	64	24	12	24	38	1.90
45661146--45661200	27	2.0	27	100	0	110	50	27	3	18	1.63
45663480--45663550	35	2.0	35	100	0	142	36	14	22	26	1.92
45666104--45666265	81	2.0	81	96	0	297	20	22	9	47	1.78
45671444--45671476	2	16.5	2	100	0	66	51	0	48	0	1.00
45680522--45680584	28	2.2	28	88	0	90	31	28	6	33	1.82
45681636--45681665	12	2.5	12	94	0	51	0	26	53	20	1.46
45685933--45685995	28	2.2	28	91	0	99	31	30	6	31	1.83
45691086--45691117	6	5.7	6	85	14	50	0	37	0	62	0.95
45691086--45691119	10	3.2	10	91	8	50	0	38	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45692264--45692289	5	5.2	5	100	0	52	19	0	0	80	0.71
45693141--45693186	22	2.1	22	84	8	58	41	0	0	58	0.98
45705597--45705650	27	2.0	27	85	0	72	40	5	14	38	1.70
45705896--45706141	49	4.9	50	78	5	248	26	16	26	30	1.97
45722665--45722715	19	2.7	18	85	11	66	78	1	9	9	1.04
45724891--45724944	26	2.1	26	100	0	108	44	18	11	25	1.83
45725070--45725108	19	2.1	19	100	0	78	25	15	20	38	1.92
45733829--45733860	16	2.0	16	93	0	55	31	0	9	59	1.29
45735710--45735892	63	2.8	64	76	9	185	30	17	29	22	1.97
45735743--45735870	66	1.9	65	84	6	168	32	17	29	20	1.96
45742521--45742567	20	2.5	18	86	6	67	12	10	10	65	1.46
45743411--45743444	17	2.0	17	100	0	68	35	5	29	29	1.81
45743629--45743676	22	2.2	22	81	7	53	16	2	14	66	1.34
45743635--45743687	22	2.5	22	85	11	67	22	0	13	64	1.28
45754914--45754981	17	3.9	17	69	23	52	67	7	1	23	1.24
45755782--45756158	189	2.0	188	98	0	736	27	14	18	40	1.89
45757757--45757821	21	3.2	21	73	20	75	10	26	23	40	1.87
45757739--45757839	39	2.6	39	93	0	166	12	26	23	36	1.91
45758664--45758715	26	2.0	26	100	0	104	23	19	11	46	1.82
45761075--45761191	21	5.5	21	88	2	153	35	26	23	15	1.94
45761575--45761630	15	3.9	14	82	15	69	51	12	1	33	1.50
45761582--45761630	15	3.3	15	88	5	82	51	14	0	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45764134--45764211	38	2.1	38	87	4	113	17	35	14	32	1.90
45772007--45772201	50	3.8	49	80	9	210	55	13	7	22	1.63
45772007--45772232	55	4.2	53	79	11	237	55	13	7	23	1.63
45777423--45777472	2	25.0	2	95	0	91	50	2	48	0	1.12
45792192--45792333	27	5.3	27	84	5	162	35	23	23	18	1.96
45792434--45792508	26	2.8	27	81	4	71	33	12	21	33	1.90
45793949--45794058	26	4.2	26	95	2	177	36	24	4	34	1.76
45801455--45801507	26	2.0	26	100	0	106	30	22	11	35	1.89
45802486--45802544	30	2.0	30	89	0	91	59	11	1	27	1.42
45810136--45810163	5	5.6	5	100	0	56	39	0	0	60	0.97
45819147--45819251	52	2.0	52	96	0	192	26	9	15	48	1.75
45824846--45824878	4	8.2	4	93	0	57	51	21	0	27	1.48
45825679--45825739	27	2.2	28	75	18	67	52	4	1	40	1.33
45826707--45826733	13	2.1	13	100	0	54	22	14	51	11	1.73
45827146--45827217	29	2.4	29	77	6	74	36	18	13	31	1.90
45828019--45828326	78	3.9	78	99	0	598	31	21	14	32	1.93
45828291--45828387	40	2.4	40	78	0	104	40	22	7	29	1.81
45836220--45836283	28	2.3	28	78	15	78	48	1	1	48	1.20
45838532--45838576	19	2.2	20	81	18	58	4	26	0	68	1.08
45838789--45838825	3	12.3	3	100	0	74	67	0	0	32	0.91
45844621--45844652	16	1.9	17	93	6	57	28	15	6	50	1.68
45846452--45846608	43	3.7	43	79	10	187	31	26	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45848087--45848119	17	1.9	17	93	0	57	24	18	18	39	1.92
45858114--45858153	22	1.9	20	90	10	62	20	10	0	70	1.16
45859579--45859620	6	7.0	6	100	0	84	0	66	0	33	0.92
45866316--45866342	9	3.0	9	100	0	54	66	0	11	22	1.22
45866834--45866917	36	2.3	37	83	6	118	23	13	27	35	1.92
45870158--45870237	39	2.1	39	90	0	124	16	12	31	40	1.85
45871704--45871785	42	2.0	42	83	4	105	19	24	14	41	1.89
45873861--45874031	46	3.6	48	83	9	201	35	14	22	28	1.92
45873995--45874103	37	3.0	37	90	2	177	35	16	22	24	1.95
45876666--45876718	20	2.8	19	76	20	58	54	3	1	39	1.29
45876611--45876777	68	2.4	70	76	10	180	53	4	1	40	1.31
45877061--45877141	36	2.2	36	85	12	112	56	2	1	39	1.20
45879973--45880024	27	1.9	28	84	7	72	53	13	13	19	1.72
45880677--45880744	31	2.3	29	80	9	84	51	5	5	36	1.50
45880690--45880754	31	2.1	30	86	8	87	53	4	6	35	1.46
45888889--45888997	54	2.0	54	96	0	200	44	13	16	25	1.85
45899142--45899172	15	2.1	15	94	5	55	22	6	6	64	1.40
45901617--45901814	98	2.0	98	95	0	351	39	9	7	44	1.63
45909134--45909173	7	5.3	7	85	14	53	80	2	2	15	0.93
45909134--45909173	16	2.6	14	82	17	53	80	2	2	15	0.93
45909282--45909317	16	2.2	16	90	0	54	0	50	0	50	1.00
45909794--45909851	26	2.2	25	76	8	62	29	6	0	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45922880--45923215	76	4.5	74	86	4	437	31	14	20	33	1.93
45922862--45923215	72	4.8	73	84	5	430	30	14	19	35	1.92
45923236--45923675	199	2.2	199	98	0	853	25	16	23	34	1.95
45923363--45923537	72	2.4	73	81	2	210	26	14	25	33	1.95
45923636--45923881	88	2.8	87	84	4	289	27	17	19	34	1.95
45923814--45924211	73	5.5	72	95	1	654	31	17	18	32	1.94
45923814--45924211	145	2.7	145	92	2	656	31	17	18	32	1.94
45926701--45927188	44	11.1	43	65	18	202	33	22	23	20	1.97
45926699--45927191	88	5.6	88	95	1	855	32	22	23	20	1.98
45930431--45930513	6	15.8	5	72	18	55	74	0	4	20	0.99
45937188--45937728	88	6.2	88	85	1	683	27	23	20	29	1.99
45937231--45937625	44	9.0	43	63	17	132	26	24	21	27	1.99
45937549--45937687	44	3.2	44	67	11	122	25	21	19	33	1.97
45937774--45937928	45	3.5	45	77	8	163	29	18	24	27	1.98
45938359--45938414	21	2.8	18	82	17	58	66	21	3	8	1.35
45939898--45939932	18	1.9	19	88	11	56	28	11	0	60	1.32
45941878--45941915	3	12.7	3	100	0	76	31	0	0	68	0.90
45948040--45948076	18	2.1	18	89	0	56	18	8	13	59	1.58
45951587--45951636	21	2.3	22	82	3	57	26	6	4	64	1.35
45954590--45954614	1	25.0	1	100	0	50	0	0	0	100	0.00
45957603--45957710	53	2.0	53	100	0	216	31	29	14	24	1.95
45972559--45972605	16	2.9	16	78	6	51	23	10	4	61	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45972889--45972988	34	2.9	34	82	5	96	31	10	17	42	1.82
45973565--45973589	10	2.5	10	100	0	50	20	8	8	64	1.46
45975248--45975348	50	2.0	50	98	0	193	38	15	27	17	1.91
45980757--45980929	3	56.3	3	69	10	73	28	9	1	60	1.38
45980769--45980805	16	2.4	15	90	4	56	27	8	5	59	1.48
45981288--45981602	127	2.4	127	85	2	405	25	14	19	40	1.90
45994241--45994365	64	2.0	64	95	0	223	32	15	14	38	1.87
45994435--45995147	84	8.4	84	83	3	851	37	21	22	18	1.94
45994439--45995270	84	9.7	88	80	6	358	37	20	22	19	1.95
45996440--45996467	5	5.6	5	100	0	56	17	0	0	82	0.68

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