genome.fa.s23.2.7.7.80.10.50.1000.105.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  105  of  167  ( 19959 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)
34971557--34971712	82	1.9	81	81	6	190	25	16	28	30	1.96
34974642--34975319	339	2.0	339	100	0	1356	28	11	18	41	1.85
34979503--34979665	86	1.9	86	89	0	254	34	25	5	34	1.79
34980457--34980485	3	9.7	3	100	0	58	68	0	0	31	0.89
34980968--34981021	23	2.2	24	80	6	65	59	7	5	27	1.47
34981073--34981107	12	2.8	13	82	8	54	74	0	0	25	0.82
34981127--34981182	12	4.6	12	75	4	58	58	8	1	30	1.39
34981242--34981279	19	2.0	20	89	5	60	65	13	0	21	1.26
34981999--34982048	21	2.4	21	82	0	55	34	26	2	38	1.68
34982212--34982314	54	1.9	54	95	0	188	31	4	4	59	1.40
34983854--34983888	18	1.9	18	94	0	61	25	28	11	34	1.91
34986260--34986296	14	2.6	15	83	12	51	37	5	0	56	1.22
34986262--34986324	21	3.1	21	77	8	60	39	4	0	55	1.21
34992865--34992920	26	2.2	26	100	0	112	30	7	26	35	1.83
34994542--34994791	27	9.2	27	94	3	423	21	24	22	32	1.98
34996839--34996873	10	3.3	10	85	14	52	0	22	0	77	0.78
34996839--34996886	20	2.2	20	89	10	69	0	25	2	72	0.95
34997353--34997428	21	3.6	21	78	0	80	30	43	17	9	1.80
35001946--35002004	27	2.3	25	78	16	59	16	3	8	71	1.25
35009574--35009675	51	2.0	51	94	0	177	33	10	13	42	1.79
35009892--35009925	16	2.1	16	94	0	59	55	0	0	44	0.99
35011241--35011272	11	2.9	11	90	0	55	31	3	46	18	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35013966--35014130	18	9.2	18	88	0	249	30	14	24	29	1.95
35013966--35014126	36	4.5	36	97	0	295	31	14	24	29	1.94
35014676--35014706	11	2.8	11	95	0	53	29	3	48	19	1.64
35019318--35019364	18	2.5	19	86	6	60	34	4	0	61	1.15
35022845--35023029	50	3.7	50	99	0	361	16	32	23	26	1.96
35023124--35023155	13	2.5	13	94	0	55	56	12	0	31	1.37
35023367--35023424	30	1.9	30	89	0	89	31	24	3	41	1.71
35025629--35025706	4	19.5	4	76	7	52	24	6	2	66	1.28
35025629--35025674	20	2.3	20	85	7	58	26	4	2	67	1.21
35025862--35025913	21	2.5	21	81	12	54	30	13	0	55	1.38
35026504--35026562	28	2.1	28	81	9	68	35	6	1	55	1.36
35026516--35026579	28	2.4	26	82	10	76	31	4	3	60	1.32
35029053--35029156	54	1.9	54	100	0	208	26	18	22	32	1.97
35029189--35029510	46	7.0	46	91	2	423	38	15	24	21	1.92
35031400--35031458	30	1.9	31	86	3	84	30	22	6	40	1.79
35034021--35034063	19	2.3	18	80	11	50	39	2	0	58	1.11
35034067--35034123	30	1.9	30	82	13	73	47	3	0	49	1.18
35035624--35035690	35	1.9	35	100	0	134	23	16	23	35	1.95
35037764--35037813	25	2.0	25	100	0	100	40	12	24	24	1.88
35040593--35040628	18	1.9	19	88	5	56	77	2	13	5	1.05
35043025--35043139	59	1.9	59	82	3	142	23	12	10	53	1.68
35047376--35047454	38	2.1	38	100	0	158	16	20	10	53	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35058998--35059079	42	2.0	42	87	4	121	24	36	24	14	1.93
35059859--35060120	46	5.6	46	75	11	153	23	30	17	28	1.97
35059810--35060067	138	1.8	143	83	8	350	24	31	18	26	1.97
35059802--35060117	138	2.2	142	79	10	335	23	30	18	27	1.97
35064121--35064168	22	2.2	22	85	3	62	18	35	33	12	1.89
35068680--35068812	43	3.1	44	74	14	116	36	19	19	24	1.95
35068711--35068829	43	2.8	42	77	10	114	37	20	18	23	1.94
35080503--35080906	216	1.9	216	100	0	808	27	16	20	35	1.94
35081934--35082147	58	3.7	58	67	12	143	26	16	11	45	1.81
35082395--35082420	9	2.9	9	100	0	52	46	0	30	23	1.53
35086328--35086376	25	2.0	25	87	0	71	34	14	18	32	1.91
35094326--35094396	12	6.4	12	67	26	50	53	0	1	45	1.09
35094333--35094399	21	3.1	21	83	12	82	52	0	1	46	1.09
35096325--35096409	25	3.4	25	67	20	61	70	4	21	3	1.21
35097301--35097325	6	4.2	6	100	0	50	84	0	0	16	0.63
35108508--35108685	27	6.6	26	79	7	142	26	15	27	30	1.96
35108508--35108685	54	3.3	54	76	10	166	26	15	27	30	1.96
35108536--35108685	55	2.8	54	83	4	167	27	15	28	28	1.96
35108509--35108664	82	1.9	81	84	6	208	26	16	27	30	1.96
35108505--35108685	82	2.2	81	80	4	204	26	16	27	30	1.96
35108590--35108696	27	3.9	27	85	1	70	26	14	28	30	1.95
35115737--35115781	17	2.5	18	85	7	56	20	2	0	77	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35115737--35115784	5	10.4	5	76	17	50	18	2	0	79	0.84
35115760--35115789	14	2.1	14	93	0	51	26	0	3	70	1.03
35115746--35115784	19	2.1	18	90	4	60	20	0	0	79	0.73
35126181--35126220	21	2.0	20	90	5	62	37	0	20	42	1.52
35131656--35131745	20	4.6	18	71	19	65	38	20	28	12	1.88
35131719--35131810	40	2.3	40	76	12	100	36	18	25	19	1.94
35138652--35138738	25	3.3	26	78	10	81	36	25	20	17	1.94
35138695--35138803	25	4.4	25	76	3	114	35	21	23	19	1.96
35139607--35139645	20	1.9	21	89	5	62	38	5	2	53	1.37
35141732--35141806	35	2.1	35	85	4	98	64	6	1	28	1.27
35141863--35141904	7	6.0	7	86	10	59	28	45	0	26	1.54
35142123--35142164	6	7.0	6	100	0	84	33	0	66	0	0.92
35142310--35142366	30	1.9	29	85	3	78	33	1	1	63	1.15
35142358--35142461	51	2.0	51	81	3	120	44	2	12	40	1.57
35143369--35143403	3	11.7	3	93	0	61	62	0	0	37	0.95
35145205--35145239	3	11.7	3	93	0	61	62	0	0	37	0.95
35146929--35146978	25	2.0	25	100	0	100	28	12	8	52	1.66
35160354--35160615	39	6.7	40	87	7	337	25	22	27	24	2.00
35165403--35165544	54	2.6	54	83	1	178	26	19	17	37	1.93
35165399--35165544	27	5.4	27	82	3	150	26	18	18	36	1.94
35167350--35167413	32	2.0	32	100	0	128	25	25	25	25	2.00
35169952--35170073	58	2.1	58	92	0	199	27	29	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35173447--35173516	35	2.0	35	100	0	140	31	5	20	42	1.75
35175928--35175991	34	1.9	33	81	9	76	25	21	25	28	1.99
35181752--35182117	50	7.6	50	76	8	276	23	28	20	27	1.99
35181794--35182123	95	3.4	96	79	9	311	23	27	20	28	1.99
35181752--35182067	145	2.2	146	84	4	397	23	29	19	27	1.98
35181794--35182118	145	2.2	146	80	6	367	23	28	20	28	1.99
35188689--35189124	27	16.2	26	83	6	505	19	17	20	41	1.90
35191485--35191554	35	2.0	35	91	0	113	41	12	18	27	1.87
35194768--35195005	28	8.5	28	98	0	442	34	28	11	25	1.91
35195748--35195773	2	13.0	2	100	0	52	50	0	0	50	1.00
35199749--35199928	47	3.8	46	68	13	118	21	32	20	26	1.98
35203230--35203400	93	1.8	93	94	0	306	27	29	21	21	1.98
35203222--35203397	46	3.8	46	81	10	214	28	29	21	21	1.98
35205788--35205876	30	3.0	30	80	8	101	57	15	16	10	1.65
35205788--35205867	15	5.4	15	80	7	92	58	13	17	10	1.62
35205799--35205876	15	5.2	15	78	9	79	56	15	16	11	1.67
35215413--35215575	47	3.5	45	78	12	168	28	19	30	22	1.98
35215364--35215677	94	3.4	91	76	12	273	28	19	29	22	1.98
35223127--35223298	47	3.7	48	72	12	151	23	31	20	24	1.98
35223089--35223342	94	2.7	93	83	3	280	24	31	19	24	1.98
35226870--35226919	19	2.6	19	96	0	91	14	34	36	16	1.88
35229190--35229302	43	2.7	43	81	1	120	30	26	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35255226--35255284	31	1.9	30	82	3	73	62	3	5	28	1.32
35255575--35255609	15	2.4	14	95	4	61	65	0	0	34	0.93
35255575--35255610	7	4.9	8	83	16	51	63	0	0	36	0.94
35255982--35256017	18	2.0	18	94	0	63	16	0	58	25	1.38
35256000--35256062	29	2.2	29	88	5	92	15	1	50	31	1.54
35256276--35257294	133	7.6	134	89	1	1480	26	22	20	30	1.99
35256822--35257157	45	7.5	45	66	17	180	26	22	21	30	1.99
35256278--35257305	532	1.9	531	91	2	1679	26	22	20	30	1.99
35259653--35259830	27	6.6	27	84	3	205	29	28	15	26	1.96
35259674--35259829	82	1.9	81	88	3	233	29	28	15	26	1.96

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