genome.fa.s4.2.7.7.80.10.50.1000.163.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  163  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)
55028133--55028246	27	4.2	26	86	5	147	35	22	23	17	1.95
55028665--55028695	8	3.9	8	95	0	53	6	25	29	38	1.81
55030690--55030958	46	5.8	46	76	14	266	22	19	28	28	1.98
55030742--55030904	47	3.5	47	77	14	210	22	19	30	28	1.98
55030686--55030950	93	2.8	93	96	0	476	22	20	29	28	1.98
55038860--55038962	27	3.8	27	90	2	145	33	22	25	19	1.97
55041146--55041239	28	3.4	28	92	0	116	30	26	10	31	1.90
55049144--55049168	12	2.1	12	100	0	50	40	0	8	52	1.31
55051227--55051295	11	6.7	11	77	14	76	36	11	18	33	1.87
55051239--55051295	20	2.8	20	100	0	114	36	10	19	33	1.86
55051343--55051412	25	2.8	25	95	0	122	25	25	22	25	2.00
55051343--55051425	25	3.4	24	85	8	105	28	22	22	25	1.99
55051634--55051712	31	2.5	31	91	0	122	29	20	29	21	1.98
55070904--55071043	29	4.9	29	80	5	153	27	29	15	28	1.96
55079186--55079281	29	3.3	29	88	2	131	29	31	10	29	1.90
55079187--55079301	58	2.0	58	86	3	160	31	30	10	27	1.90
55079187--55079297	29	3.8	29	78	7	109	30	30	10	27	1.91
55079324--55079395	29	2.5	28	88	8	92	31	22	5	40	1.77
55079339--55079398	29	2.1	29	100	0	120	31	20	6	41	1.78
55085083--55085111	4	7.2	4	100	0	58	24	0	0	75	0.80
55085567--55085971	90	4.5	90	81	6	554	30	18	16	34	1.93
55085815--55085956	45	3.1	46	64	18	125	32	19	14	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55085567--55085971	177	2.3	178	79	7	550	30	18	16	34	1.93
55085559--55086110	267	2.1	267	95	0	1005	29	18	16	34	1.93
55089920--55090076	43	3.6	44	80	10	182	29	24	18	26	1.98
55089920--55090079	86	1.9	85	84	8	218	30	25	18	26	1.98
55094841--55095058	94	2.3	94	82	3	260	22	29	20	27	1.98
55094694--55095053	47	7.7	47	68	15	151	22	29	20	28	1.98
55096686--55096727	21	2.0	21	86	9	59	33	4	23	38	1.76
55096806--55096972	43	3.9	43	76	9	178	23	17	26	31	1.97
55096809--55096932	44	2.9	43	75	12	121	24	18	26	30	1.98
55103216--55103361	49	2.9	49	84	7	175	38	15	23	22	1.92
55103554--55103584	16	1.9	16	93	0	53	41	0	16	41	1.48
55103548--55103587	20	2.0	20	85	0	53	40	0	17	42	1.49
55107337--55107375	20	2.0	20	89	0	60	0	33	0	66	0.92
55108160--55108193	18	1.9	18	88	5	52	29	17	11	41	1.85
55109314--55109405	29	3.2	29	82	1	114	27	33	13	26	1.93
55113740--55113874	42	3.2	42	85	6	168	21	17	22	38	1.93
55113755--55113893	41	3.4	42	83	8	162	21	18	22	37	1.94
55124411--55124913	252	2.0	251	99	0	997	30	21	13	33	1.92
55131861--55131899	18	2.2	18	85	0	51	61	2	23	12	1.43
55134553--55134597	22	2.2	20	84	8	54	33	4	15	46	1.66
55134931--55134963	11	3.0	11	95	0	57	39	6	0	54	1.25
55135877--55135909	16	2.1	16	100	0	66	48	27	6	18	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55137390--55137501	29	3.9	29	82	5	129	29	16	30	24	1.96
55139646--55139673	14	2.0	14	100	0	56	21	21	14	42	1.88
55142244--55142273	14	2.1	14	100	0	60	26	0	33	40	1.57
55144751--55144796	20	2.3	20	85	3	67	28	26	17	28	1.98
55150482--55150529	24	2.0	24	84	8	62	31	0	22	45	1.53
55153081--55153287	53	3.8	53	76	4	191	37	17	23	20	1.94
55157005--55157182	27	6.6	27	84	3	205	29	28	15	26	1.96
55157026--55157181	82	1.9	81	88	3	233	29	28	15	26	1.96
55165087--55165264	27	6.6	27	83	3	178	29	27	15	27	1.96
55165108--55165263	82	1.9	81	86	3	224	29	27	15	27	1.96
55165087--55165263	54	3.3	54	81	6	196	29	27	15	27	1.96
55173970--55174115	51	2.9	49	79	4	166	26	26	20	26	1.99
55184079--55184255	27	6.5	26	81	6	158	25	16	28	29	1.97
55184079--55184234	82	1.9	81	85	3	215	25	16	28	28	1.97
55184075--55184255	82	2.2	81	81	2	211	25	16	28	29	1.97
55192113--55192289	27	6.5	26	81	6	158	25	16	28	29	1.97
55192113--55192268	82	1.9	81	85	3	215	25	16	28	28	1.97
55192109--55192289	82	2.2	81	81	2	211	25	16	28	29	1.97
55196948--55197134	40	4.7	40	95	0	338	29	20	27	21	1.98
55211248--55211274	12	2.2	12	100	0	54	51	7	0	40	1.30
55211721--55211869	27	5.5	27	81	9	162	27	12	27	32	1.93
55211780--55211884	51	2.1	51	100	0	210	29	12	24	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55214978--55215022	20	2.2	20	88	0	63	35	13	2	48	1.54
55216703--55216760	8	6.5	8	78	21	62	17	3	0	79	0.87
55218579--55218611	15	2.1	17	88	11	52	45	6	9	39	1.61
55223412--55223566	49	3.2	49	93	3	278	32	9	27	30	1.89
55223538--55223590	26	2.0	26	100	0	106	33	7	22	35	1.83
55223443--55223688	122	2.0	121	92	3	404	32	9	27	30	1.88
55223497--55223641	75	1.9	75	92	0	245	31	9	26	31	1.89
55223572--55223872	96	3.2	95	90	1	451	31	9	30	28	1.89
55223572--55223872	47	6.3	47	87	3	431	31	9	30	28	1.89
55223412--55223735	171	1.9	169	93	1	558	31	10	28	29	1.90
55223673--55223748	22	3.3	22	66	16	64	28	13	30	27	1.94
55228026--55228077	25	2.0	26	96	3	97	19	21	26	32	1.97
55228085--55228116	16	2.0	16	100	0	64	12	31	12	43	1.80
55228086--55228123	16	2.4	16	90	0	58	10	34	13	42	1.78
55230588--55230630	17	2.4	18	80	7	61	53	0	4	41	1.21
55234193--55234231	18	2.3	18	86	8	55	43	12	5	38	1.65
55234389--55234419	15	2.1	15	100	0	62	22	32	6	38	1.80
55237781--55237810	15	2.0	15	93	0	51	23	46	6	23	1.75
55238552--55238590	18	2.3	18	86	8	55	43	12	5	38	1.65
55238748--55238778	15	2.1	15	100	0	62	22	32	6	38	1.80
55239604--55239655	24	2.2	24	89	0	77	34	3	7	53	1.48
55241583--55241634	24	2.2	24	85	0	68	36	3	7	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55246854--55246920	24	2.6	26	77	13	68	32	1	1	64	1.12
55246854--55246914	26	2.4	25	76	15	63	29	1	1	67	1.10
55248649--55248697	20	2.5	20	78	15	57	28	4	2	65	1.22
55248649--55248698	19	2.6	18	78	12	55	30	4	2	64	1.23
55249283--55249307	2	12.5	2	100	0	50	52	0	0	48	1.00
55250540--55250616	40	1.9	40	86	0	109	33	33	14	18	1.91
55261481--55261530	23	2.2	23	85	0	64	20	14	20	46	1.84
55261869--55261910	22	2.0	21	85	4	57	19	26	42	11	1.85
55262354--55262415	30	2.1	30	100	0	124	30	33	22	12	1.92
55266502--55266539	17	2.2	17	86	9	51	42	0	2	55	1.14
55271679--55271889	117	1.8	117	87	0	314	44	23	9	23	1.82
55272077--55272112	16	2.2	16	90	0	54	33	0	22	44	1.53
55274194--55274427	63	3.7	63	82	2	202	29	8	28	33	1.86
55274282--55274459	63	2.8	61	80	9	205	30	7	29	32	1.85
55276051--55276151	50	2.0	52	88	7	154	46	7	1	43	1.44
55279154--55279229	39	1.9	39	81	5	91	50	0	7	42	1.31
55286080--55286230	27	5.7	26	79	9	153	27	26	12	33	1.93
55286081--55286231	53	2.8	52	80	9	155	27	26	11	33	1.92
55286910--55286974	32	2.0	32	100	0	130	43	21	0	35	1.53
55292327--55292414	27	3.2	28	78	12	94	31	27	12	28	1.93
55294818--55294865	20	2.4	20	79	6	53	45	6	10	37	1.64
55307150--55307327	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55307151--55307306	82	1.9	81	88	3	233	26	15	28	29	1.96
55307147--55307327	82	2.2	81	83	2	229	27	15	27	29	1.96
55308763--55308810	22	2.1	24	88	7	73	43	2	12	41	1.54
55311982--55312040	10	5.9	10	80	7	75	66	1	10	22	1.31
55312672--55312702	16	1.9	16	93	0	53	3	16	0	80	0.83
55317959--55318044	43	2.0	43	97	0	163	27	22	16	33	1.95
55323545--55323603	10	5.9	10	82	7	75	67	1	10	20	1.28
55335849--55336021	46	3.7	46	79	10	208	21	20	27	29	1.98
55335846--55336016	93	1.8	93	93	0	297	21	21	28	28	1.98
55343443--55343615	46	3.7	46	78	13	210	21	21	27	28	1.99

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