genome.fa.s4.2.7.7.80.10.50.1000.157.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  157  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)
52911758--52911806	24	2.0	24	100	0	98	34	16	12	36	1.86
52916962--52917006	14	3.1	14	80	3	54	71	8	2	17	1.23
52920149--52920286	50	2.7	50	81	1	150	28	28	18	23	1.98
52923526--52923691	42	3.9	42	76	7	156	27	16	24	31	1.96
52923533--52923691	87	1.9	84	84	6	212	28	16	24	30	1.97
52928995--52929138	43	3.3	43	77	5	148	27	15	24	31	1.96
52933697--52933729	15	2.2	15	94	0	57	54	18	12	15	1.71
52933791--52933823	16	2.1	16	94	0	57	42	9	6	42	1.61
52934859--52934893	16	2.2	16	89	0	52	42	20	8	28	1.81
52937320--52937406	43	2.0	44	86	2	122	20	2	36	40	1.65
52937731--52937772	14	2.8	16	75	17	54	38	38	0	23	1.55
52937737--52937791	22	2.6	21	80	5	65	41	34	0	23	1.55
52937822--52938031	7	29.0	7	73	8	89	35	42	0	21	1.53
52937730--52938103	145	2.6	145	97	0	703	40	36	0	22	1.55
52938093--52938130	14	2.7	14	87	0	58	50	26	0	23	1.50
52938246--52938313	29	2.3	30	75	14	70	30	4	2	61	1.30
52938457--52938728	40	6.8	39	81	7	287	29	20	18	31	1.96
52938457--52938728	80	3.4	80	85	5	336	29	20	18	31	1.96
52945999--52946047	24	2.0	25	84	4	64	46	30	4	18	1.67
52946447--52946512	24	2.8	24	90	0	96	33	9	37	19	1.84
52947954--52948056	27	3.8	26	83	7	116	16	23	23	36	1.94
52954280--52954353	24	3.1	24	90	0	112	32	5	40	21	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52955784--52955893	54	2.0	54	84	3	141	17	22	20	39	1.93
52955784--52955890	27	3.9	27	80	9	119	17	22	21	38	1.93
52959637--52959661	6	4.2	6	100	0	50	16	0	0	84	0.63
52959623--52959677	16	2.8	20	71	25	55	23	0	3	72	1.00
52959635--52959677	12	3.8	11	81	12	52	20	0	2	76	0.89
52959636--52959687	22	2.4	21	81	9	52	21	1	1	75	1.00
52961918--52962082	42	3.9	42	77	7	181	27	16	25	29	1.97
52963353--52963404	20	2.6	20	100	0	104	19	36	32	11	1.87
52968694--52968767	30	2.5	30	97	0	139	28	13	14	43	1.84
52971009--52971098	46	2.0	46	97	0	171	22	12	8	56	1.63
52976713--52976759	19	2.5	19	96	0	85	48	0	19	31	1.49
52977287--52977329	13	3.3	13	83	9	52	72	0	11	16	1.13
52977283--52977329	17	2.7	18	86	6	69	72	0	10	17	1.12
52977295--52977329	9	4.0	9	88	7	54	71	0	11	17	1.14
52978700--52978746	5	9.2	5	92	2	58	38	0	25	36	1.56
52979166--52979394	45	5.1	45	88	0	305	20	18	20	41	1.91
52979562--52979764	18	11.3	18	75	14	141	36	12	14	36	1.83
52979562--52979764	72	2.8	72	81	9	218	36	12	14	36	1.83
52979562--52979857	54	5.4	54	72	15	176	36	12	14	36	1.84
52979803--52979844	18	2.3	18	87	0	57	38	11	16	33	1.86
52979562--52979844	36	7.6	36	70	13	180	36	12	14	36	1.84
52981558--52981647	45	2.0	45	93	0	153	23	15	18	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52982421--52982453	15	2.2	15	89	10	50	33	0	0	66	0.92
52982443--52982507	29	2.2	30	86	8	89	44	1	3	50	1.26
52989622--52989658	12	3.0	13	84	11	51	29	40	18	10	1.85
52991858--52991903	22	2.1	22	95	0	83	54	0	15	30	1.41
52994450--52994501	25	2.0	26	81	3	61	42	1	1	53	1.23
52994525--52994568	22	2.0	22	81	0	52	50	0	0	50	1.00
52994588--52994629	13	2.9	14	80	13	50	54	0	0	45	0.99
52994592--52994628	16	2.3	16	86	13	58	59	0	0	40	0.97
52994661--52994717	15	3.5	15	71	17	51	49	1	1	47	1.22
53000020--53000117	30	3.3	30	88	2	144	19	7	48	24	1.73
53000754--53000959	87	2.4	87	82	4	236	36	17	14	31	1.90
53001151--53001183	14	2.4	14	94	0	57	63	6	12	18	1.48
53000998--53001315	91	3.6	90	79	7	330	35	19	17	27	1.94
53001376--53002413	148	6.9	149	85	5	1240	33	19	15	30	1.94
53001401--53002326	444	2.1	442	93	1	1586	33	19	15	31	1.94
53001376--53002326	221	4.3	221	92	1	1496	33	19	16	31	1.94
53002344--53002702	100	3.7	98	83	8	427	38	19	17	24	1.93
53002516--53002560	13	3.4	13	87	6	72	68	6	11	13	1.37
53002344--53002648	100	3.0	101	89	2	445	40	18	17	23	1.91
53002529--53002704	90	2.0	87	86	3	244	36	19	18	25	1.94
53014196--53014271	39	1.9	39	97	0	143	23	10	32	32	1.89
53025384--53025441	30	1.9	30	92	0	98	31	20	31	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53034873--53035040	46	3.6	46	78	10	164	27	19	29	23	1.98
53034921--53035140	50	4.6	48	76	13	192	27	18	29	25	1.98
53034926--53035140	49	4.5	47	74	14	147	27	18	29	25	1.98
53053929--53054190	39	6.7	40	87	7	337	25	22	27	24	2.00
53060177--53060254	29	2.7	28	80	11	95	25	12	30	30	1.93
53060207--53060534	174	1.9	174	96	0	611	30	14	24	31	1.94
53074068--53074292	40	5.6	40	80	4	247	25	24	26	23	2.00
53078811--53078839	7	4.3	7	95	4	51	13	0	0	86	0.58
53078811--53078850	13	3.1	13	85	0	53	20	0	0	80	0.72
53078811--53078850	20	2.0	20	90	0	62	20	0	0	80	0.72
53079639--53079682	22	2.0	22	95	0	79	43	9	20	27	1.82
53088361--53088391	14	2.1	15	94	5	55	19	9	6	64	1.45
53090137--53090232	34	2.8	34	73	4	95	22	23	22	30	1.99
53097879--53097958	34	2.4	34	78	2	90	25	22	25	27	2.00
53098351--53098396	20	2.3	20	96	0	83	21	32	19	26	1.97
53104969--53105091	46	2.7	46	83	10	153	23	28	19	28	1.98
53112871--53113337	232	2.0	232	100	0	934	29	16	15	38	1.90
53118316--53118366	27	1.9	26	84	11	68	23	7	0	68	1.15
53125933--53127171	620	2.0	619	96	0	2262	35	11	18	34	1.87
53131060--53131138	28	2.8	28	86	0	122	22	12	34	30	1.92
53131468--53131952	27	18.0	27	76	9	357	41	18	9	30	1.82
53131468--53131861	54	7.3	54	79	6	408	40	19	9	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53132209--53132330	41	3.0	40	81	9	138	22	21	28	27	1.99
53135637--53136165	27	19.7	27	80	5	480	40	19	9	30	1.83
53135637--53136083	161	2.8	159	82	6	515	41	19	9	29	1.83
53136406--53136528	41	3.0	41	85	0	165	26	23	26	24	2.00
53140109--53140185	39	2.0	39	100	0	154	25	2	36	35	1.70
53141710--53141778	6	11.3	6	73	14	61	49	13	18	18	1.79
53141731--53141789	31	1.9	31	96	0	109	45	11	23	18	1.83
53142038--53142132	27	3.5	27	87	5	113	30	9	18	41	1.83
53142061--53142158	27	3.6	27	86	5	101	27	7	21	43	1.78
53146380--53146431	27	2.0	26	84	3	68	32	21	28	17	1.96
53146675--53146818	27	5.3	27	88	5	193	27	6	22	43	1.77
53149864--53149962	28	3.5	28	97	0	180	28	0	28	43	1.55
53150791--53150844	27	2.0	27	85	0	72	37	7	24	31	1.83
53150615--53150945	173	1.9	173	85	2	450	36	14	23	25	1.93
53158438--53158478	19	2.2	19	95	0	73	17	21	4	56	1.60
53160325--53160375	22	2.3	24	74	19	56	62	1	1	33	1.17
53160320--53160373	16	3.3	17	77	12	51	62	1	1	33	1.16
53160620--53160671	23	2.2	24	83	13	63	61	0	3	34	1.14
53160642--53160700	19	3.2	19	68	18	61	67	0	1	30	1.00
53170318--53170553	85	2.8	86	86	3	316	23	23	12	40	1.88
53170333--53170580	85	2.9	85	84	5	270	23	24	13	38	1.91
53170665--53170746	27	3.0	28	83	5	114	26	26	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53172569--53172725	24	6.6	24	72	9	88	37	22	22	17	1.94
53172569--53172723	47	3.3	46	73	10	141	36	22	22	18	1.95
53181387--53181570	40	4.6	40	86	2	253	23	26	24	25	2.00
53190631--53190691	25	2.4	25	83	0	77	26	22	22	27	1.99
53194346--53194383	20	2.1	18	85	14	51	57	13	0	28	1.36
53205103--53205160	24	2.4	24	88	5	91	43	18	20	17	1.89
53205328--53205385	24	2.4	24	85	5	73	34	18	29	17	1.94
53208155--53208801	49	13.7	49	71	13	356	23	26	19	30	1.98
53208155--53208572	98	4.4	98	86	4	543	22	26	19	30	1.98
53208157--53208802	147	4.5	147	71	12	395	24	26	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