genome.fa.s4.2.7.7.80.10.50.1000.168.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  168  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)
56777402--56777462	15	4.1	15	72	17	56	13	13	13	60	1.59
56786538--56786770	47	5.0	47	88	1	328	30	10	33	25	1.90
56786901--56786980	37	2.2	37	86	4	108	23	17	31	27	1.97
56794249--56794288	19	2.1	19	95	0	71	35	10	12	42	1.76
56799525--56799585	30	2.0	30	83	0	77	31	22	8	37	1.84
56800397--56800544	40	3.7	40	87	1	179	33	27	15	23	1.95
56804291--56805345	40	26.4	40	98	0	1992	24	22	27	25	2.00
56815969--56816116	40	3.7	40	87	1	179	33	27	15	23	1.95
56831118--56831225	39	2.8	39	91	2	164	28	31	18	21	1.97
56833144--56833183	20	2.0	20	85	5	53	32	7	0	60	1.25
56836333--56836361	15	2.0	15	93	6	51	20	13	6	58	1.58
56839199--56839389	55	3.5	54	83	6	226	22	24	17	36	1.95
56839178--56839395	54	4.0	54	83	4	251	22	24	15	38	1.93
56839374--56839495	47	2.6	47	93	0	208	27	23	13	36	1.92
56846705--56846896	40	4.8	40	88	1	269	26	28	23	21	1.99
56854512--56854688	40	4.4	40	86	4	216	25	28	22	23	1.99
56859407--56859543	73	1.9	73	86	3	195	27	24	23	24	2.00
56866950--56867105	42	3.6	43	77	13	176	25	16	24	34	1.95
56878821--56878964	39	3.7	39	90	0	234	28	28	22	20	1.99
56881619--56881692	29	2.6	29	86	4	96	25	17	31	25	1.97
56882083--56882315	40	5.8	40	95	0	412	25	22	26	25	2.00
56882005--56882315	80	3.9	80	89	3	405	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56885854--56886342	47	10.4	47	97	0	906	31	8	30	29	1.87
56886461--56886539	37	2.1	37	88	4	115	25	18	30	25	1.98
56890227--56890441	94	2.3	94	81	3	227	25	27	18	28	1.98
56890368--56891274	98	9.3	98	100	0	1814	28	30	13	27	1.94
56896211--56896380	93	1.8	93	93	0	295	28	28	21	21	1.99
56896202--56896377	46	3.8	46	78	10	196	30	28	20	21	1.98
56896211--56896396	46	4.0	45	72	19	141	29	28	20	22	1.98
56899387--56899541	29	5.4	29	70	11	113	28	31	18	21	1.97
56899405--56899573	58	2.9	58	93	0	286	28	29	18	22	1.98
56899412--56899570	29	5.5	29	70	12	112	29	28	19	22	1.98
56899678--56899942	43	6.2	43	88	0	386	33	32	22	12	1.91
56913153--56913369	108	2.0	108	98	0	416	49	4	3	42	1.39
56920149--56920190	21	2.0	20	82	13	50	45	11	9	33	1.73
56925484--56925521	20	1.9	20	88	0	58	47	15	2	34	1.60
56928736--56928817	41	2.0	41	97	0	155	28	19	28	24	1.99
56928921--56929073	42	3.5	42	71	15	121	28	19	26	24	1.99
56939220--56939431	48	4.5	48	73	9	152	26	13	27	32	1.94
56939389--56939559	90	1.9	90	84	2	227	25	16	27	29	1.97
56945119--56945311	40	4.8	40	86	0	242	23	29	23	23	1.99
56945119--56945396	120	2.3	121	80	4	287	24	28	22	24	1.99
56945132--56945400	40	6.7	41	78	6	209	24	28	22	24	2.00
56945696--56945774	29	2.7	29	84	5	97	27	31	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56962373--56962473	40	2.5	40	85	7	127	23	25	24	25	2.00
56970733--56970757	10	2.5	10	100	0	50	36	20	12	32	1.89
56972956--56973086	57	2.3	58	82	4	167	31	24	16	28	1.96
56981016--56981141	39	3.2	39	90	0	189	22	19	29	28	1.98
56981016--56981179	78	2.1	78	80	5	181	21	20	29	29	1.98
56985849--56985992	39	3.7	40	81	11	156	24	27	22	25	2.00
57013542--57013618	40	1.9	40	94	0	136	23	29	25	20	1.99
57020764--57020876	40	2.8	40	92	4	176	23	29	23	23	1.99
57023625--57023671	10	4.7	10	89	5	69	38	12	17	31	1.87
57023625--57023691	21	3.3	21	85	4	75	38	11	17	31	1.87
57023737--57023809	25	2.9	25	87	0	101	31	24	20	23	1.98
57023739--57023820	25	3.4	25	84	5	89	32	21	21	23	1.98
57037874--57038051	27	6.6	26	83	6	178	26	15	28	29	1.96
57037875--57038030	82	1.9	81	88	3	233	26	15	28	29	1.96
57037871--57038051	82	2.2	81	83	2	229	26	15	28	29	1.96
57046058--57046235	27	6.6	26	83	6	178	26	15	28	29	1.96
57046059--57046214	82	1.9	81	88	3	233	26	15	28	29	1.96
57046055--57046235	82	2.2	81	83	2	229	26	15	28	29	1.96
57055923--57055962	21	1.9	21	84	0	53	35	2	40	22	1.68
57066502--57066717	40	5.4	40	91	2	330	26	27	22	23	1.99
57075297--57075599	40	7.6	40	92	4	497	29	27	20	23	1.99
57075297--57075599	80	3.8	80	96	1	547	29	27	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57076814--57076872	30	2.0	30	96	0	109	10	23	11	54	1.67
57084749--57084880	39	3.4	39	86	2	176	30	17	25	27	1.97
57084873--57085049	39	4.5	39	90	1	273	20	23	28	27	1.99
57084824--57085049	78	2.9	78	84	4	195	23	21	28	27	1.99
57106568--57106593	13	2.0	13	100	0	52	15	38	30	15	1.88
57110949--57111006	29	2.0	30	82	3	73	41	5	1	51	1.34
57111542--57111597	21	2.7	21	91	0	94	25	8	37	28	1.86
57112402--57112459	19	3.1	18	75	7	53	37	1	0	60	1.07
57112404--57112479	40	1.9	40	84	10	102	35	1	1	61	1.12
57113216--57113252	18	2.1	18	100	0	74	35	0	27	37	1.57
57115356--57115393	17	2.2	18	86	13	53	47	7	10	34	1.67
57119099--57119146	7	6.9	7	100	0	96	27	29	0	43	1.55
57122373--57122447	20	3.8	20	87	0	105	12	26	22	38	1.89
57123316--57123357	20	2.1	20	86	0	57	26	0	30	42	1.55
57125719--57125818	50	2.0	50	96	0	182	41	32	4	23	1.73
57133305--57133373	34	2.0	34	81	10	79	36	24	0	39	1.56
57133334--57133377	23	1.9	23	81	9	54	38	27	0	34	1.57
57139640--57139706	25	2.7	25	88	0	98	20	14	26	37	1.92
57141385--57141452	27	2.6	26	79	9	68	22	25	19	33	1.97
57142739--57142906	93	1.8	92	84	3	230	26	21	26	25	1.99
57142694--57142910	49	4.6	47	72	11	167	26	21	27	24	1.99
57142694--57142957	141	1.9	138	83	5	343	25	20	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57150391--57150540	67	2.3	67	82	6	184	30	14	32	23	1.94
57157812--57157964	67	2.4	65	79	5	166	30	13	32	24	1.93
57160573--57160638	32	2.1	32	100	0	132	34	6	30	28	1.81
57160807--57160935	49	2.6	48	79	9	136	31	20	24	23	1.98
57184266--57184340	34	2.2	34	97	0	141	18	22	5	53	1.65
57192807--57192859	23	2.3	24	80	6	65	45	3	3	47	1.39
57193045--57193206	54	3.0	53	74	12	132	24	22	3	50	1.64
57195291--57195331	16	2.6	16	96	0	73	48	0	36	14	1.44
57197631--57197797	89	1.9	90	89	3	266	49	5	4	40	1.47
57201079--57201115	2	19.0	2	88	5	58	48	0	2	48	1.15
57222839--57222958	43	2.8	43	90	0	186	30	26	18	25	1.98
57224765--57224852	27	3.2	26	82	10	97	36	15	22	25	1.94
57224845--57224919	27	2.8	27	70	8	62	33	14	25	26	1.94
57226616--57226654	17	2.2	18	86	4	53	53	2	2	41	1.28
57228521--57228762	109	2.2	109	88	2	362	34	14	20	30	1.92
57235219--57235297	29	2.7	30	82	13	110	30	30	13	25	1.94
57244542--57244644	51	2.0	51	94	0	179	31	20	25	23	1.98
57244921--57245048	65	2.0	65	85	0	175	17	33	25	23	1.96
57245109--57245157	21	2.3	21	89	0	71	16	38	22	22	1.92
57248887--57248925	16	2.4	16	95	0	69	28	15	41	15	1.87
57254506--57254651	46	3.2	46	82	11	142	25	30	17	27	1.97
57257066--57257118	24	2.2	25	93	3	90	32	9	3	54	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57259981--57260019	11	3.5	11	83	16	53	0	20	0	79	0.73
57259981--57260019	17	2.3	17	91	8	62	0	20	0	79	0.73
57266536--57266572	5	7.2	5	87	6	56	0	16	0	83	0.64
57266536--57266580	13	3.3	15	79	20	62	0	20	0	80	0.72
57267676--57267726	25	2.0	25	92	0	84	31	23	19	25	1.98
57267766--57267805	10	3.9	10	80	6	53	32	20	17	30	1.95
57267851--57267920	25	2.8	25	91	0	113	27	25	21	25	1.99
57267850--57267947	25	4.0	23	81	9	97	28	24	21	25	1.99
57270766--57270815	6	8.3	6	100	0	100	68	16	0	16	1.22
57275098--57275220	48	2.7	47	83	5	135	26	19	30	23	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