genome.fa.s23.2.7.7.80.10.50.1000.129.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  129  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)
43320743--43320913	46	3.7	46	78	9	177	29	19	27	23	1.98
43320743--43320942	94	2.1	94	82	3	233	29	19	27	24	1.98
43320977--43321100	49	2.5	49	79	8	137	29	21	27	21	1.99
43322295--43322334	21	2.0	20	85	5	53	12	37	27	22	1.90
43323377--43323471	11	8.1	13	69	23	52	34	24	1	40	1.62
43323388--43323469	17	4.8	17	81	10	96	34	23	1	41	1.62
43323621--43323793	77	2.3	75	76	11	172	36	20	1	41	1.60
43323612--43323777	79	2.0	78	80	9	179	36	19	1	42	1.59
43324654--43324703	3	17.0	3	76	12	50	58	2	2	38	1.21
43324831--43324867	3	12.3	3	94	0	65	62	2	0	35	1.10
43337037--43337080	19	2.3	19	96	0	79	29	22	11	36	1.89
43337044--43337081	9	4.0	10	83	10	53	34	21	10	34	1.87
43339694--43339845	43	3.5	43	81	5	173	30	27	18	23	1.98
43352704--43352816	44	2.6	43	82	9	124	35	21	16	26	1.95
43352652--43352803	44	3.5	42	76	10	121	32	22	17	28	1.96
43354029--43354118	45	2.0	45	100	0	180	26	17	24	31	1.97
43357817--43357850	17	2.1	15	89	10	50	35	0	0	64	0.94
43373860--43374004	30	4.8	29	86	1	173	20	4	47	27	1.68
43380819--43380891	36	2.0	36	97	0	137	58	4	16	20	1.54
43383516--43383609	28	3.3	29	72	19	81	43	0	3	53	1.17
43383545--43383586	15	2.7	16	82	14	52	45	0	2	52	1.13
43383527--43383577	15	3.5	15	78	13	52	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43383801--43383869	16	4.3	16	92	0	93	33	33	1	31	1.67
43389097--43389261	58	2.9	57	82	5	181	41	1	3	53	1.24
43389383--43389453	12	5.7	13	73	18	53	50	0	1	47	1.09
43389644--43389733	44	2.0	46	89	4	139	34	27	6	31	1.83
43390889--43391053	58	2.9	57	82	5	181	41	1	3	53	1.24
43391175--43391245	12	5.7	13	73	18	53	50	0	1	47	1.09
43391425--43391530	44	2.5	40	75	19	99	34	27	5	32	1.80
43391437--43391530	44	2.1	46	90	4	147	34	27	6	31	1.82
43391512--43391566	16	3.4	16	80	9	67	29	27	7	36	1.84
43397076--43397130	25	2.3	23	78	12	58	43	3	16	36	1.65
43397186--43397260	22	3.3	22	75	10	69	60	5	5	29	1.41
43397192--43397338	25	5.9	25	68	14	88	57	4	7	29	1.47
43397156--43397337	77	2.3	82	79	7	196	57	4	6	31	1.44
43397276--43397403	23	5.5	23	69	15	59	56	3	5	35	1.38
43397867--43397964	30	3.3	30	97	0	178	18	6	51	24	1.69
43397901--43397954	18	3.3	18	66	28	57	20	7	50	22	1.73
43398601--43398806	87	2.4	87	84	4	245	35	19	14	30	1.92
43398933--43399179	88	2.8	88	99	0	485	33	21	18	26	1.96
43399109--43399673	73	7.7	73	87	3	735	31	21	16	29	1.95
43399570--43399820	127	2.0	126	86	3	353	36	21	15	26	1.93
43399803--43399847	13	3.4	13	84	6	63	73	6	6	13	1.24
43399803--43399847	14	3.3	14	87	3	65	73	6	6	13	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43399732--43399935	100	2.0	101	86	3	286	41	18	15	24	1.89
43399816--43399991	90	2.0	87	86	5	246	39	19	15	24	1.91
43399919--43400211	72	4.0	72	87	5	367	33	20	15	30	1.94
43399239--43400494	698	1.8	680	89	5	1968	35	21	15	27	1.94
43399919--43401051	232	5.3	222	73	17	840	34	20	15	29	1.93
43400222--43400363	72	2.0	73	91	1	232	38	23	15	21	1.92
43400077--43400377	160	1.9	157	86	6	428	34	21	15	27	1.94
43400517--43400872	72	4.7	72	80	10	338	33	19	15	31	1.93
43400517--43400876	148	2.4	151	82	6	446	33	19	15	31	1.93
43400517--43400858	76	4.5	75	85	6	431	31	20	16	32	1.94
43400876--43401051	71	2.5	71	85	3	214	34	22	14	28	1.93
43412825--43412890	30	2.2	30	94	0	114	18	6	50	25	1.70
43419962--43420128	58	2.9	55	77	12	167	41	1	2	53	1.23
43420248--43420318	12	5.7	13	73	18	53	50	0	1	47	1.09
43420509--43420598	44	2.0	46	89	4	139	34	27	6	31	1.83
43420584--43420638	16	3.4	16	87	0	74	29	29	7	34	1.84
43420952--43421003	15	3.2	15	73	19	50	46	0	0	53	1.00
43420965--43421001	19	1.9	19	88	0	56	51	0	0	48	1.00
43421420--43421530	53	2.1	53	91	0	177	51	6	12	29	1.64
43429359--43429399	22	2.0	22	85	9	59	29	0	7	63	1.21
43440201--43440354	76	2.0	76	100	0	308	40	14	18	25	1.89
43441850--43441999	43	3.4	44	73	10	128	35	22	21	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43442090--43442437	129	2.7	128	85	3	455	36	22	20	20	1.95
43442103--43442440	43	7.8	43	71	9	197	36	22	21	19	1.95
43442803--43442858	24	2.3	23	82	8	67	46	42	1	8	1.45
43447396--43447669	46	6.0	46	91	0	424	22	24	14	38	1.92
43447703--43447839	54	2.5	54	100	0	274	29	24	19	26	1.98
43451936--43452065	65	2.0	65	86	5	183	29	13	14	42	1.84
43452120--43452490	86	4.4	86	86	5	472	37	22	21	18	1.94
43452161--43452473	170	1.8	172	88	6	485	39	22	19	18	1.93
43454121--43454177	15	3.9	15	88	2	89	35	0	12	52	1.39
43454549--43454635	21	4.0	23	80	10	92	14	21	25	37	1.92
43455734--43456128	84	4.7	84	90	0	592	38	21	21	18	1.93
43455847--43456064	44	5.1	42	64	24	118	38	22	20	18	1.94
43455815--43456027	40	5.1	40	64	22	116	38	21	21	18	1.93
43458294--43458703	125	3.2	125	81	5	464	28	14	18	39	1.89
43458350--43458750	125	3.2	125	79	7	290	29	14	16	39	1.88
43462094--43462133	18	2.2	19	90	4	64	50	5	10	35	1.58
43462166--43462195	5	6.2	5	96	3	53	40	0	0	60	0.97
43462247--43462316	25	2.9	24	71	24	58	68	2	22	5	1.24
43462530--43462576	24	2.0	24	84	16	62	31	2	14	51	1.55
43474991--43475021	16	2.0	16	93	6	55	0	9	0	90	0.46
43476601--43476701	41	2.5	41	81	3	114	41	10	18	28	1.85
43476601--43476715	41	2.8	41	80	5	99	39	11	20	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43479881--43479995	44	2.6	44	85	2	149	35	13	22	27	1.92
43479881--43480014	46	3.0	45	82	4	153	35	14	23	26	1.93
43483576--43484231	48	13.1	48	87	8	916	32	26	5	35	1.80
43483576--43484231	150	4.4	150	95	2	1110	32	26	5	35	1.80
43487993--43488032	13	3.2	13	85	7	64	65	2	0	32	1.06
43487994--43488030	12	2.9	13	88	8	58	70	2	0	27	1.01
43492332--43492359	3	9.3	3	100	0	56	0	35	0	64	0.94
43501540--43501582	19	2.2	20	88	8	63	27	23	4	44	1.73
43509655--43509765	44	2.5	45	82	4	127	31	20	20	27	1.98
43509670--43509763	45	2.1	44	84	5	118	30	19	22	27	1.98
43509837--43510009	44	3.9	44	83	1	186	30	18	21	28	1.97
43509837--43510100	95	2.9	91	81	6	275	30	18	22	28	1.97
43509606--43510042	233	1.9	233	88	1	662	32	19	19	28	1.97
43510028--43510130	44	2.3	44	84	0	134	29	18	25	27	1.98
43511611--43511645	12	2.9	12	95	0	61	31	5	0	62	1.18
43513339--43513500	53	3.0	53	77	2	173	32	17	16	33	1.92
43513345--43513556	53	4.0	51	75	6	138	33	17	17	31	1.94
43520510--43520554	15	3.0	15	90	0	63	57	2	11	28	1.45
43527617--43527732	43	2.7	43	84	7	130	24	17	28	30	1.97
43529463--43529603	40	3.5	40	80	4	178	25	25	23	25	2.00
43532743--43532800	26	2.2	26	87	6	82	15	22	24	37	1.93
43532853--43532961	48	2.2	49	74	7	114	21	27	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43536087--43536138	25	2.1	25	100	0	104	34	21	15	28	1.94
43541872--43541919	19	2.4	20	89	6	62	43	8	10	37	1.69
43541874--43541919	21	2.3	21	92	7	78	41	8	10	39	1.71
43541912--43541949	4	9.2	4	88	5	58	73	0	2	23	0.95
43541914--43541949	17	2.1	17	94	0	63	75	0	2	22	0.94
43542674--43542711	5	7.4	5	88	11	51	15	0	0	84	0.63
43542685--43542723	6	6.3	6	85	14	53	17	0	2	79	0.84
43542685--43542723	11	3.2	12	85	14	53	17	0	2	79	0.84
43542677--43542723	17	2.8	17	87	12	62	17	0	2	80	0.80
43544096--43544147	21	2.5	21	90	0	77	38	1	30	28	1.68

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