genome.fa.s10.2.7.7.80.10.50.1000.146.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  146  of  172  ( 20562 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)
47952745--47952774	12	2.5	12	94	0	51	16	13	16	53	1.73
47956882--47957141	46	5.6	47	86	1	346	41	15	24	19	1.89
47956888--47957104	93	2.3	93	100	0	434	39	15	25	19	1.91
47962417--47962443	4	6.8	4	100	0	54	25	0	0	74	0.83
47970872--47970913	21	2.0	21	100	0	84	57	4	14	23	1.56
47974889--47974958	27	2.6	27	82	13	90	71	1	8	18	1.19
47974941--47974965	3	8.3	3	100	0	50	64	0	0	36	0.94
47976862--47976893	12	2.7	12	100	0	64	53	0	15	31	1.43
47987488--47987517	13	2.3	13	94	0	51	70	0	23	6	1.11
47988597--47988635	19	2.1	19	90	0	60	43	0	20	35	1.52
47992725--47992900	46	3.8	46	75	12	180	19	19	30	30	1.97
47992722--47992893	93	1.8	93	91	0	281	19	20	30	29	1.97
47996808--47996871	29	2.2	30	83	5	78	28	9	18	43	1.81
47998549--47998678	64	2.0	64	100	0	260	32	10	9	47	1.70
48009032--48009086	27	2.0	27	100	0	110	36	10	14	38	1.81
48014096--48014158	30	2.1	30	90	0	99	25	4	14	55	1.58
48014130--48014451	161	2.0	161	96	1	601	30	4	11	54	1.56
48020317--48020414	24	4.1	24	89	2	135	11	35	15	37	1.83
48020329--48020392	12	5.3	12	71	0	56	9	35	17	37	1.82
48024205--48024248	17	2.4	18	85	11	54	34	0	2	63	1.07
48024197--48024253	28	2.1	27	87	9	80	33	0	3	63	1.12
48025711--48025800	31	2.9	32	86	5	130	27	0	15	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48026095--48026144	25	2.0	25	100	0	100	32	32	4	32	1.76
48027993--48028029	18	1.9	19	89	10	58	32	2	2	62	1.23
48030236--48030270	3	11.7	3	100	0	70	31	0	0	68	0.90
48039646--48039690	23	2.0	23	86	8	65	53	2	2	42	1.25
48040942--48040995	27	2.0	28	85	7	76	35	9	3	51	1.52
48041623--48041648	12	2.2	12	100	0	52	7	15	30	46	1.74
48041637--48041759	40	3.1	40	79	6	126	35	19	21	23	1.96
48041824--48042067	41	6.0	41	92	0	389	20	23	28	27	1.99
48042432--48042468	14	2.6	14	86	0	56	24	2	29	43	1.68
48046322--48046412	43	2.1	43	85	2	121	35	12	9	42	1.75
48046657--48046687	16	1.9	16	93	0	53	48	0	3	48	1.17
48046685--48046889	42	4.8	43	83	5	229	22	17	31	28	1.96
48046960--48047004	22	2.1	21	91	4	72	44	26	17	11	1.82
48047062--48047097	12	2.9	12	91	4	54	66	0	2	30	1.06
48047630--48047667	18	2.1	18	90	9	60	39	13	0	47	1.42
48048123--48048167	20	2.3	20	84	3	56	57	2	4	35	1.31
48048881--48049060	89	2.0	89	89	0	270	41	18	13	26	1.87
48055979--48056100	46	2.6	46	85	7	149	22	26	20	31	1.98
48055969--48056157	46	4.0	45	76	8	148	23	28	17	30	1.97
48062213--48062406	51	3.8	50	80	4	167	25	19	24	30	1.98
48062264--48062414	51	3.0	51	83	0	178	25	20	24	29	1.99
48066304--48066371	30	2.3	30	84	5	84	47	5	19	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48068570--48068797	46	5.0	46	89	1	296	39	14	23	22	1.91
48077274--48077317	20	2.3	19	80	4	52	43	0	2	54	1.12
48077592--48077649	29	2.0	29	83	6	73	34	13	6	44	1.71
48078195--48078242	20	2.3	21	86	13	73	64	10	0	25	1.25
48078953--48078995	8	5.2	8	77	5	50	60	0	0	39	0.97
48078946--48079074	29	4.2	31	70	23	101	55	0	0	44	1.05
48079014--48079069	24	2.1	28	87	12	84	51	0	0	48	1.00
48079112--48079169	26	2.3	25	80	14	66	31	32	6	29	1.84
48092488--48092548	30	2.0	30	90	0	95	26	6	11	55	1.59
48104165--48104199	18	2.0	17	88	5	52	54	0	0	45	0.99
48104075--48104306	120	1.9	120	89	2	360	49	5	2	43	1.38
48105268--48105335	17	4.2	17	74	22	67	57	1	0	41	1.08
48105261--48105300	14	2.9	15	82	14	50	52	0	0	47	1.00
48105267--48105333	16	4.3	15	71	25	50	56	1	0	41	1.08
48115841--48115916	37	2.0	39	87	5	111	43	3	3	48	1.40
48117997--48118049	23	2.3	23	83	0	61	13	22	9	54	1.67
48124657--48125075	131	3.2	132	77	8	329	26	20	19	33	1.97
48126985--48127058	26	2.9	26	83	2	87	33	16	10	39	1.83
48127202--48127235	12	2.8	12	86	0	50	14	23	0	61	1.33
48129380--48129426	21	2.3	20	81	3	58	44	0	8	46	1.33
48129774--48129839	25	2.7	24	69	4	60	16	24	16	42	1.88
48129924--48130018	25	3.9	24	74	10	86	20	27	21	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48129974--48130091	25	4.8	25	67	3	69	20	24	19	35	1.96
48146918--48146955	17	2.3	17	90	4	60	7	23	0	68	1.16
48146958--48147004	10	4.9	9	80	17	51	72	0	4	23	1.02
48150253--48150288	17	2.1	17	100	0	72	41	11	30	16	1.83
48150303--48150389	44	2.0	43	95	0	147	51	14	19	12	1.74
48173603--48173654	11	4.9	11	79	9	63	30	28	0	40	1.57
48173607--48173644	20	1.9	20	94	0	67	34	26	0	39	1.57
48173682--48173712	15	2.1	15	93	0	53	22	6	0	70	1.09
48175329--48175392	30	2.1	30	85	0	83	31	46	15	6	1.71
48175446--48175488	18	2.4	18	88	0	59	18	27	9	44	1.80
48175873--48176354	116	4.2	116	96	0	883	40	3	9	47	1.53
48176151--48176333	54	3.2	54	72	17	190	42	2	7	48	1.42
48179296--48179354	22	2.7	21	76	15	57	18	5	22	54	1.63
48182571--48183233	126	5.3	125	93	0	1047	26	20	18	34	1.96
48182571--48183233	251	2.6	251	91	0	1067	26	20	18	34	1.96
48183343--48183515	96	1.8	96	84	3	242	40	13	2	43	1.56
48183510--48183541	15	2.1	15	94	0	55	53	15	0	31	1.43
48185571--48185605	3	11.7	3	100	0	70	65	0	0	34	0.93
48185317--48185728	217	2.0	201	84	8	533	51	7	6	35	1.55
48186191--48186223	16	2.1	16	94	0	57	54	3	6	36	1.41
48199767--48199826	27	2.3	26	88	5	93	31	25	26	16	1.96
48201780--48201832	23	2.3	23	83	6	63	60	0	1	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48207523--48207555	11	3.0	11	86	13	50	0	3	9	87	0.63
48207526--48207555	10	2.9	10	95	5	51	0	3	6	90	0.56
48207719--48207761	18	2.3	18	84	11	52	23	0	11	65	1.25
48207761--48207797	11	3.1	13	81	18	53	67	0	0	32	0.91
48209492--48209558	31	2.2	31	83	0	80	59	17	4	17	1.53
48215448--48215560	9	11.9	9	74	10	100	32	1	20	45	1.62
48215452--48215569	57	2.1	57	85	0	155	33	1	18	46	1.59
48215481--48215558	39	2.0	39	89	0	120	34	1	19	44	1.59
48215695--48216339	241	2.7	241	98	0	1236	33	15	17	34	1.91
48219155--48219208	25	2.2	25	93	0	90	38	20	40	0	1.53
48219371--48219425	26	2.0	26	82	6	65	34	18	16	30	1.93
48219474--48219821	158	2.2	156	79	9	377	29	21	15	33	1.94
48220796--48220898	14	7.2	14	72	16	86	44	26	0	28	1.61
48220768--48220889	58	2.1	58	98	0	235	40	27	1	29	1.66
48220847--48220886	21	1.9	21	84	0	53	45	27	0	27	1.54
48221171--48221297	7	18.1	7	77	8	107	40	40	0	19	1.52
48221340--48221470	21	5.9	21	70	13	100	43	24	1	30	1.63
48221324--48221459	46	3.0	46	95	0	245	41	24	2	31	1.67
48221425--48221473	7	7.0	7	78	0	53	48	28	0	22	1.50
48221635--48221812	41	4.4	41	84	4	218	16	21	23	38	1.93
48221635--48221843	41	5.1	40	83	6	199	17	20	23	38	1.93
48221958--48222027	25	2.8	25	71	0	68	21	22	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48224970--48225045	34	2.3	34	95	4	138	34	9	10	46	1.70
48234273--48234314	17	2.4	18	81	18	54	73	2	7	16	1.15
48235170--48235225	29	2.0	29	89	3	87	42	7	1	48	1.41
48240884--48241295	204	2.0	204	99	0	815	23	10	23	42	1.85
48244465--48244516	19	2.7	18	80	16	52	42	1	3	51	1.31
48256045--48256093	25	1.9	26	87	4	73	63	4	2	30	1.24
48258027--48258324	147	2.0	147	96	0	551	38	12	8	40	1.72
48264321--48264375	24	2.3	23	84	9	67	32	0	3	63	1.12
48264336--48264389	24	2.3	23	90	9	90	29	0	3	66	1.09
48264337--48264388	25	2.1	25	96	3	97	26	0	3	69	1.06

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