genome.fa.s23.2.7.7.80.10.50.1000.14.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  14  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)
4467948--4468011	16	3.9	17	79	6	69	37	0	4	57	1.19
4467955--4468034	42	2.0	42	82	9	103	33	1	6	58	1.31
4468099--4468159	15	4.1	15	76	16	56	37	3	4	54	1.39
4468227--4468277	21	2.2	24	83	10	63	33	1	0	64	1.05
4468341--4468392	20	2.5	22	76	23	58	26	3	1	67	1.18
4468738--4468778	18	2.4	17	95	4	73	34	0	4	60	1.18
4470025--4470065	14	2.8	15	88	3	57	21	4	0	73	1.02
4470397--4470456	31	1.9	31	86	6	86	70	1	8	20	1.22
4470451--4470495	17	2.6	17	89	6	65	66	0	11	22	1.22
4470456--4470510	18	3.1	18	86	5	67	61	0	12	25	1.31
4470578--4470854	14	19.9	14	67	20	68	62	2	6	28	1.33
4470576--4470989	3	137.7	3	71	12	235	61	2	7	28	1.35
4470811--4470872	32	1.9	33	86	3	90	64	3	6	25	1.33
4476000--4476054	24	2.4	22	82	11	83	16	3	14	65	1.41
4477431--4477499	16	4.2	16	96	3	129	24	0	37	37	1.56
4477431--4477499	33	2.1	32	97	2	129	24	0	37	37	1.56
4477480--4477570	45	2.0	45	85	2	121	27	6	28	37	1.82
4477715--4477769	15	3.4	16	80	16	53	54	1	0	43	1.10
4477721--4477769	16	2.9	18	80	20	61	55	0	0	44	0.99
4480965--4481080	36	3.1	36	65	16	101	57	21	9	11	1.61
4480931--4481080	75	2.0	75	97	0	282	54	25	8	12	1.64
4485357--4485404	20	2.3	20	82	3	69	27	14	10	47	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4492929--4492959	15	2.1	15	93	0	53	41	6	22	29	1.78
4494389--4494422	12	2.8	12	90	0	59	58	0	8	32	1.29
4499197--4499325	44	2.9	45	85	6	181	27	18	7	45	1.77
4502578--4502770	47	4.0	48	81	8	196	23	17	29	30	1.97
4502582--4502789	93	2.1	97	80	8	228	25	16	28	28	1.97
4503113--4503156	24	1.9	22	81	9	52	45	6	22	25	1.77
4511077--4511123	23	2.0	23	100	0	94	14	29	4	51	1.62
4514827--4514870	19	2.3	19	80	0	52	50	0	0	50	1.00
4527094--4527122	15	1.9	15	100	0	58	27	17	0	55	1.42
4528369--4528411	17	2.5	18	81	7	54	37	0	4	58	1.19
4537951--4538207	73	3.5	73	92	2	379	32	18	13	35	1.90
4537951--4538225	150	1.9	148	83	5	360	35	17	13	33	1.88
4538225--4538400	71	2.5	70	84	3	212	32	22	14	29	1.94
4539288--4539340	15	3.6	14	82	12	61	1	3	7	86	0.75
4539289--4539350	22	2.9	21	86	9	81	3	3	8	85	0.81
4539294--4539350	20	2.7	21	86	8	80	3	1	8	85	0.77
4539315--4539361	20	2.3	20	88	3	67	6	4	6	82	0.92
4539288--4539348	1	61.0	1	73	0	50	3	3	6	86	0.76
4549045--4549106	22	2.9	20	68	25	54	50	6	4	38	1.50
4549223--4549320	23	4.4	22	69	20	69	55	5	5	34	1.44
4549764--4549799	19	1.9	18	94	5	63	63	11	2	22	1.39
4555644--4555680	19	2.1	19	85	10	51	45	2	0	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4556163--4556225	32	2.0	32	84	6	83	30	11	19	39	1.86
4558099--4558152	5	10.0	5	78	21	56	22	3	0	74	0.98
4558099--4558152	16	3.3	15	78	21	56	22	3	0	74	0.98
4558155--4558219	21	3.0	21	82	8	76	41	0	4	53	1.21
4558177--4558294	35	3.4	36	82	15	142	38	0	3	57	1.15
4558258--4558325	20	3.1	21	79	12	75	44	0	1	54	1.09
4558194--4558281	35	2.5	35	96	1	160	38	0	3	57	1.15
4558375--4558416	18	2.2	19	87	8	59	38	0	2	59	1.10
4558396--4558473	24	3.3	24	79	15	74	38	0	2	58	1.12
4558272--4558531	135	1.9	134	86	7	375	39	2	3	54	1.30
4558508--4558533	13	2.0	13	100	0	52	46	0	0	53	1.00
4558510--4558574	28	2.3	29	81	7	80	46	0	0	53	1.00
4558334--4558593	135	1.9	134	81	8	294	40	2	3	53	1.30
4561988--4562065	30	2.6	31	82	11	92	38	17	17	25	1.92
4564192--4564253	27	2.3	27	80	5	72	45	0	1	53	1.10
4564295--4564332	17	2.2	17	90	0	58	34	2	2	60	1.24
4564577--4564606	15	1.9	16	93	6	53	43	3	0	53	1.17
4567994--4568023	12	2.5	12	94	0	51	73	0	26	0	0.84
4569689--4569726	20	1.9	20	84	10	51	47	0	10	42	1.38
4579429--4579525	39	2.5	38	83	5	115	24	23	26	24	2.00
4579777--4579814	20	1.9	20	84	10	51	47	0	10	42	1.38
4581130--4581202	25	2.9	24	79	16	78	35	6	2	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581117--4581162	20	2.3	20	79	17	51	34	4	4	56	1.39
4581118--4581166	22	2.3	21	86	13	66	36	4	4	55	1.38
4595141--4595213	36	2.0	36	89	10	114	36	19	23	20	1.95
4596588--4596621	16	2.1	16	100	0	68	50	5	11	32	1.63
4605554--4605612	18	3.2	18	90	2	82	42	13	23	20	1.88
4605572--4605612	6	6.8	6	88	0	64	43	17	21	17	1.87
4605598--4605738	39	3.6	39	85	0	183	38	17	22	21	1.93
4606425--4606477	3	17.7	3	100	0	106	66	0	0	33	0.92
4606502--4606571	24	2.9	23	78	16	70	27	11	4	57	1.52
4610991--4611024	12	2.7	13	90	4	52	47	0	0	52	1.00
4613600--4613624	3	8.3	3	100	0	50	0	36	0	64	0.94
4618641--4618718	22	3.5	22	91	0	120	21	32	33	12	1.91
4621140--4621190	25	2.0	25	96	0	93	50	5	3	39	1.45
4627014--4627061	24	2.0	24	87	0	69	41	2	16	39	1.60
4627005--4627074	24	3.3	20	70	16	52	37	1	12	48	1.50
4627097--4627170	30	2.4	30	80	6	78	28	21	18	31	1.97
4636359--4636754	68	5.8	68	77	5	320	21	20	18	38	1.94
4636359--4636762	135	3.0	136	79	5	397	22	21	18	37	1.94
4637637--4637689	16	3.3	16	73	17	56	54	3	3	37	1.36
4639191--4639230	11	3.6	11	82	0	53	25	0	2	72	0.97
4639191--4639245	3	19.3	3	80	10	53	23	0	3	72	1.00
4641726--4641771	20	2.3	20	84	0	56	56	10	0	32	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4655477--4655520	21	2.1	21	95	0	79	29	29	11	29	1.92
4657308--4657361	23	2.3	24	81	9	58	35	0	9	55	1.32
4657452--4657615	42	3.9	42	80	1	193	27	16	26	29	1.97
4657459--4657615	85	1.9	84	83	1	206	28	17	26	28	1.97
4659458--4659488	12	2.6	12	100	0	62	22	19	25	32	1.97
4661443--4661593	67	2.3	68	83	6	188	30	15	32	21	1.94
4663628--4663668	6	6.5	6	83	10	55	17	0	4	78	0.93
4664368--4664448	13	6.8	13	75	16	77	38	50	0	11	1.38
4664362--4664431	35	2.1	32	89	7	104	37	51	0	11	1.38
4664372--4664442	23	3.1	23	78	11	92	38	50	0	11	1.38
4664818--4664893	38	2.0	38	97	0	143	22	2	18	56	1.54
4664915--4664999	23	3.6	23	67	9	55	30	9	2	57	1.43
4669359--4669397	20	2.0	20	85	10	53	41	7	10	41	1.68
4675535--4676412	206	4.3	206	95	0	1560	29	19	23	27	1.98
4676505--4676596	45	2.0	45	91	0	148	29	13	30	27	1.94
4676783--4676812	15	1.9	16	93	6	53	53	33	3	10	1.51
4676901--4676947	13	3.9	13	78	18	57	36	53	0	10	1.36
4677365--4677449	23	3.6	23	67	9	55	30	9	2	57	1.43
4680958--4681038	38	2.1	38	97	0	153	28	23	14	33	1.94
4682133--4682208	6	12.7	6	98	0	107	40	0	59	0	0.98
4682446--4682699	63	4.1	63	91	3	399	29	12	34	24	1.91
4682695--4682737	18	2.4	18	92	0	68	34	16	34	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4682694--4682737	15	2.9	15	82	0	61	36	15	34	13	1.87
4687293--4687434	33	4.3	33	70	12	103	32	17	25	24	1.97
4687359--4687448	33	2.7	33	72	6	85	31	17	25	25	1.97
4687462--4687583	45	2.7	45	77	7	124	38	14	22	23	1.92
4687555--4687713	46	3.5	45	87	5	221	47	13	20	19	1.82
4687685--4687740	29	1.9	29	88	0	85	50	7	23	19	1.72
4689732--4689830	25	4.2	25	72	15	93	32	27	14	26	1.94
4689724--4689812	44	2.0	44	100	0	178	33	24	15	25	1.95
4693189--4693403	46	4.7	44	73	15	150	25	30	18	26	1.98
4695373--4695397	3	8.3	3	100	0	50	36	0	0	64	0.94

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