genome.fa.s4.2.7.7.80.10.50.1000.122.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  122  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)
41540548--41540587	17	2.4	17	95	0	71	12	20	25	42	1.86
41545598--41545638	21	2.0	21	90	0	64	17	19	21	41	1.90
41546037--41546071	7	5.0	7	86	13	54	68	0	17	14	1.21
41546444--41546468	13	1.9	13	100	0	50	12	24	8	56	1.62
41547431--41548178	89	8.4	89	91	1	1106	29	18	24	27	1.98
41549878--41549944	31	2.2	31	83	5	82	31	5	0	62	1.19
41555676--41555748	38	1.9	39	86	5	105	38	1	0	60	1.06
41555892--41555924	15	2.2	15	89	10	50	66	0	15	18	1.25
41558340--41558395	22	2.5	21	80	11	67	51	3	3	41	1.36
41558378--41558419	13	3.6	12	81	12	52	54	0	0	45	0.99
41558381--41558410	13	2.2	14	94	5	53	63	0	0	36	0.95
41558335--41558438	35	3.0	34	73	15	90	50	2	1	44	1.27
41558432--41558512	31	2.5	32	78	8	74	54	1	4	39	1.30
41558444--41558512	31	2.2	33	84	5	88	52	0	5	42	1.25
41558506--41558575	22	3.2	22	83	6	79	57	0	2	40	1.14
41558582--41558654	28	2.6	27	76	8	67	72	5	8	13	1.25
41572417--41572451	17	2.1	17	89	10	54	71	5	2	20	1.19
41577924--41577957	17	2.0	17	94	0	59	44	14	0	41	1.45
41582000--41582099	29	3.4	29	87	2	139	44	21	14	21	1.86
41583262--41583297	18	2.0	18	100	0	72	27	11	11	50	1.72
41589806--41589873	30	2.3	30	87	5	93	26	13	14	45	1.82
41596267--41596455	46	4.1	46	90	2	292	30	20	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41596383--41596626	124	2.0	124	99	0	479	27	21	13	38	1.90
41600354--41600391	20	1.9	20	88	0	58	23	0	21	55	1.44
41613665--41613726	30	2.1	29	87	3	88	30	17	17	33	1.94
41616125--41616184	28	2.2	27	81	3	75	43	16	15	25	1.86
41624690--41624721	6	5.3	6	96	0	55	18	28	15	37	1.92
41624958--41625024	13	5.5	13	67	16	54	31	5	23	38	1.79
41625253--41625313	19	3.1	19	81	9	70	50	0	1	47	1.10
41631118--41631514	210	1.9	211	88	1	600	30	17	14	37	1.89
41646170--41646326	75	2.1	75	100	0	314	30	5	8	55	1.52
41647492--41647560	22	3.0	23	77	8	70	47	0	0	52	1.00
41651911--41652106	67	2.9	67	89	0	302	28	29	18	24	1.98
41652240--41652492	57	4.3	57	92	4	364	23	24	20	31	1.98
41655685--41655714	10	2.9	10	95	5	51	40	3	6	50	1.45
41659022--41659056	15	2.2	16	90	5	54	45	0	0	54	0.99
41659004--41659076	24	2.9	25	78	15	62	43	0	0	56	0.99
41659034--41659083	26	2.0	26	84	11	68	50	2	0	48	1.12
41670550--41670826	91	3.0	91	99	0	545	43	5	9	41	1.59
41670585--41670816	44	5.1	44	65	27	146	42	5	9	42	1.61
41680018--41680669	216	3.0	216	97	0	1205	33	13	12	40	1.82
41691314--41691385	30	2.3	31	83	9	85	61	0	2	36	1.11
41691327--41691455	42	3.1	42	97	1	242	65	0	2	32	1.06
41702827--41702900	26	2.8	26	87	0	112	22	13	20	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41706910--41706943	14	2.4	14	90	0	50	64	5	0	29	1.17
41707470--41707516	24	2.0	23	84	8	60	59	0	0	40	0.97
41714998--41715035	15	2.4	17	82	13	53	39	2	18	39	1.65
41716036--41716140	11	9.6	11	81	2	131	30	0	3	65	1.10
41716034--41716147	22	5.2	22	96	2	212	32	0	4	63	1.14
41718560--41718602	20	2.1	20	83	12	52	25	2	0	72	0.97
41721238--41721284	15	2.8	16	73	20	51	42	0	2	55	1.12
41721325--41721364	13	3.0	13	83	16	55	45	0	0	55	0.99
41721325--41721359	15	2.5	14	90	9	54	40	0	0	60	0.97
41726752--41727145	130	3.0	130	100	0	788	26	21	15	36	1.93
41730625--41730772	71	2.1	71	96	1	271	25	22	9	41	1.84
41736078--41736116	12	3.3	12	78	7	53	28	0	0	71	0.86
41736062--41736134	33	2.2	32	79	11	78	36	0	1	61	1.05
41739797--41739824	3	9.3	3	100	0	56	32	0	0	67	0.91
41740835--41740957	63	2.0	63	90	0	192	33	9	12	44	1.75
41754647--41754689	21	2.0	21	100	0	86	44	13	23	18	1.86
41755346--41755726	187	2.0	186	93	0	654	43	15	11	29	1.82
41763480--41763518	5	7.8	5	94	0	69	41	20	0	38	1.53
41764355--41764408	16	3.4	16	78	0	63	12	24	27	35	1.92
41766474--41766595	23	5.3	23	87	0	181	31	24	20	23	1.98
41766474--41766595	46	2.7	46	94	0	208	31	24	20	23	1.98
41773410--41773458	23	2.1	23	85	11	64	44	2	0	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41777403--41777440	18	2.2	17	95	4	67	34	7	15	42	1.76
41787407--41787468	30	2.1	30	100	0	124	30	27	25	16	1.96
41808036--41808065	12	2.4	13	88	11	53	76	0	0	23	0.78
41809449--41809492	22	2.0	23	90	4	72	45	0	0	54	0.99
41810046--41810079	13	2.8	12	86	8	50	29	0	2	67	1.05
41810045--41810074	13	2.3	13	94	0	51	26	0	3	70	1.03
41810048--41810101	20	2.6	21	73	5	56	33	0	1	64	1.04
41811474--41811512	17	2.3	18	86	8	55	64	0	0	35	0.94
41822545--41822582	18	2.2	17	95	4	67	42	15	7	34	1.76
41827671--41827704	17	2.0	17	88	0	50	58	0	0	41	0.98
41857166--41857350	40	4.7	40	91	1	282	18	31	17	31	1.95
41857166--41857350	79	2.3	80	88	0	282	18	31	17	31	1.95
41860154--41860267	43	2.7	43	79	6	117	28	27	18	25	1.98
41861263--41861307	19	2.4	19	100	0	90	40	17	8	33	1.81
41862811--41862857	24	2.0	24	91	0	76	38	19	25	17	1.92
41862878--41862950	26	2.9	24	82	9	83	35	19	26	19	1.95
41873902--41873936	4	8.8	4	100	0	70	25	0	22	51	1.48
41889018--41889114	48	2.0	48	95	0	176	23	12	22	41	1.88
41895961--41896032	31	2.3	31	90	0	108	12	34	29	23	1.92
41897299--41897363	31	2.1	31	88	5	96	32	24	13	29	1.94
41897610--41897679	25	2.8	25	93	0	113	25	21	27	25	1.99
41897727--41897774	20	2.3	21	89	3	71	35	16	10	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41905564--41905633	25	2.8	25	93	0	113	25	24	24	25	2.00
41905681--41905728	20	2.3	21	92	3	80	35	18	10	35	1.85
41908353--41908551	45	4.6	45	76	10	175	28	17	26	28	1.97
41913007--41913121	45	2.6	45	83	2	151	26	13	26	32	1.94
41914478--41914648	93	1.8	93	93	0	297	27	28	21	22	1.99
41914473--41914645	46	3.7	46	76	13	192	28	27	21	22	1.99
41919027--41919776	47	15.7	47	92	3	1038	32	9	30	27	1.88
41919027--41919776	96	7.9	94	89	3	1038	32	9	30	27	1.88
41919027--41919776	143	5.2	143	87	3	1064	32	9	30	27	1.88
41940086--41940143	24	2.5	22	84	10	80	46	17	13	22	1.83
41941614--41941645	14	2.3	14	100	0	64	87	0	0	12	0.54
41943629--41943701	22	3.3	21	81	7	83	39	15	15	30	1.87
41975928--41976045	43	2.8	42	74	8	105	30	20	22	26	1.98
41977043--41977115	36	2.0	36	97	0	137	38	15	16	30	1.89
41979536--41979804	47	5.8	46	73	13	169	24	19	31	24	1.98
41979541--41979855	94	3.4	93	77	6	278	25	19	30	24	1.98
41980672--41980784	55	2.1	55	83	3	138	19	27	31	21	1.97
41980681--41980797	55	2.1	55	80	3	128	18	29	33	18	1.95
41982444--41982763	158	2.0	158	96	0	586	36	19	10	33	1.86
41983094--41983260	39	4.3	39	90	0	262	22	27	19	30	1.98
41986363--41986401	20	2.0	20	84	0	51	23	28	15	33	1.95
41992582--41992648	32	2.1	32	91	2	109	17	29	32	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41994357--41994433	28	2.8	28	79	0	100	29	31	11	27	1.92
41994448--41994523	40	1.9	40	86	10	111	34	28	17	19	1.94
41995737--41995767	15	2.1	15	100	0	62	32	12	0	54	1.38
41997769--41997809	20	2.0	20	95	0	73	34	17	7	41	1.77
42003533--42003610	38	2.1	38	80	4	86	25	5	3	65	1.30
42010138--42010221	21	3.8	22	78	9	82	57	0	2	40	1.12
42010146--42010209	10	6.1	11	78	8	71	57	0	1	40	1.08
42010193--42010233	14	2.8	15	82	13	50	58	0	2	39	1.11
42010210--42010290	22	3.7	22	77	6	74	55	1	3	39	1.25
42010322--42010393	20	3.5	20	94	1	117	50	0	2	47	1.15

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