genome.fa.s23.2.7.7.80.10.50.1000.16.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  16  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)
4872872--4872957	34	2.4	36	79	7	97	58	8	4	29	1.47
4873179--4873238	26	2.3	27	82	2	77	61	8	5	25	1.44
4873470--4873547	27	2.9	25	79	9	84	51	7	7	33	1.59
4873536--4873566	15	2.1	15	93	0	53	58	0	9	32	1.31
4874217--4874277	11	5.2	11	75	16	52	55	6	3	34	1.42
4875088--4875163	27	2.8	27	82	13	86	75	2	15	6	1.13
4875631--4875690	25	2.3	25	85	5	75	10	0	40	50	1.36
4875631--4875690	26	2.3	27	85	5	79	10	0	40	50	1.36
4878197--4878272	27	2.8	27	82	13	86	75	2	15	6	1.13
4878740--4878799	25	2.3	25	85	5	75	10	0	40	50	1.36
4878740--4878799	26	2.3	27	85	5	79	10	0	40	50	1.36
4885939--4886085	73	2.0	73	95	0	267	30	22	8	38	1.83
4887181--4887207	13	2.1	13	100	0	54	51	0	33	14	1.43
4891608--4891640	17	2.1	16	88	11	50	33	0	6	60	1.21
4892088--4892114	7	3.9	7	100	0	54	0	11	0	88	0.50
4902480--4902517	10	3.8	10	83	13	51	73	0	2	23	0.95
4902480--4902517	14	2.5	16	87	8	53	73	0	2	23	0.95
4910469--4910499	12	2.6	12	94	0	53	58	0	16	25	1.38
4911173--4911351	33	5.5	33	73	9	145	20	20	14	44	1.86
4911150--4911352	97	2.2	92	85	6	264	19	20	15	44	1.87
4915862--4915930	32	2.2	32	92	5	113	20	20	37	21	1.94
4916757--4916803	11	4.3	11	78	10	51	53	0	4	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4937976--4938032	19	3.0	19	100	0	114	47	15	10	26	1.78
4938957--4938991	17	2.1	17	88	0	52	68	11	0	20	1.20
4942404--4942446	22	2.0	22	90	0	68	46	16	2	34	1.60
4946133--4946175	22	2.0	22	90	0	68	46	16	2	34	1.60
4947655--4947701	23	2.0	23	100	0	94	34	12	4	48	1.61
4948734--4948764	15	2.1	15	93	0	53	45	3	9	41	1.53
4949177--4949229	22	2.4	22	79	17	56	62	0	3	33	1.13
4949223--4949254	2	16.0	2	93	0	55	50	0	3	46	1.17
4950846--4950897	25	2.1	25	100	0	104	21	26	17	34	1.95
4962064--4962096	2	16.5	2	93	0	57	45	3	51	0	1.16
4963685--4963744	31	1.9	31	93	0	102	50	23	10	16	1.75
4964440--4964468	13	2.1	14	93	6	51	55	10	0	34	1.34
4977813--4977988	56	3.1	56	99	0	343	22	22	9	45	1.80
4980938--4981058	9	13.4	9	70	14	63	37	0	15	46	1.52
4980938--4981045	47	2.4	43	82	11	153	36	0	15	47	1.52
4980955--4981048	47	2.0	47	95	0	170	37	1	14	46	1.52
4981330--4981794	105	4.4	105	91	2	738	54	4	5	36	1.43
4981330--4981794	214	2.2	209	91	2	754	54	4	5	36	1.43
4985178--4985340	74	2.2	74	84	2	202	31	18	21	28	1.97
4986840--4986898	29	2.0	29	96	0	109	42	6	22	28	1.79
4987021--4987057	12	2.9	13	88	8	58	29	0	0	70	0.88
4987235--4987287	11	4.8	11	73	0	52	64	7	9	18	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4987229--4987287	22	2.7	22	72	0	55	64	8	8	18	1.46
4988498--4988527	15	1.9	16	93	6	53	50	0	0	50	1.00
4988500--4988538	13	3.0	13	80	0	51	61	0	0	38	0.96
4989417--4989465	24	2.0	25	88	4	73	22	12	8	57	1.61
4990471--4990516	22	2.1	23	88	8	69	30	0	8	60	1.26
4993543--4993716	46	3.8	46	91	0	258	40	14	23	21	1.90
4994702--4994734	17	2.1	16	88	11	50	30	0	0	69	0.88
4994781--4994867	22	4.1	22	75	15	69	22	0	6	70	1.11
4994795--4994857	22	2.8	22	85	9	74	25	0	6	68	1.13
4998220--4998268	10	5.2	9	81	16	55	65	4	2	28	1.22
4998213--4998256	20	2.2	20	96	4	81	63	0	4	31	1.14
4998352--4998412	19	3.2	18	75	11	50	65	1	3	29	1.18
4998841--4998919	17	4.5	17	74	17	63	24	6	2	67	1.27
5029648--5029831	71	2.5	74	84	3	230	43	11	15	29	1.82
5029793--5029896	54	1.9	54	90	0	163	49	15	7	27	1.72
5029720--5030054	127	2.6	127	82	5	383	44	12	11	31	1.78
5031669--5031703	17	2.1	17	100	0	70	45	5	11	37	1.64
5034412--5034571	80	2.0	81	93	3	279	26	24	21	26	1.99
5035497--5035603	43	2.5	42	81	3	124	32	22	14	30	1.93
5038088--5038158	11	6.6	10	72	13	52	4	22	2	70	1.18
5038085--5038139	28	1.9	29	85	3	76	1	27	3	67	1.17
5038137--5038167	12	2.7	11	90	9	53	9	16	0	74	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5038438--5038466	13	2.1	14	93	6	51	48	6	0	44	1.29
5039895--5039941	15	3.3	15	79	5	53	31	0	6	61	1.21
5043685--5043709	8	3.1	8	100	0	50	76	0	0	24	0.80
5043682--5043760	29	2.6	31	77	13	94	62	3	0	34	1.14
5051476--5051724	50	4.8	50	85	4	284	20	29	24	26	1.99
5051475--5051724	100	2.4	104	88	6	357	20	29	24	26	1.99
5051819--5051850	13	2.5	13	94	0	55	56	12	0	31	1.37
5052062--5052119	30	1.9	30	89	0	89	31	24	3	41	1.71
5067253--5067301	25	2.0	25	84	4	64	63	8	0	28	1.23
5067265--5067329	25	2.9	23	82	15	75	66	9	0	24	1.21
5067291--5067329	19	2.0	20	95	5	71	71	10	0	17	1.12
5069131--5069176	3	15.3	3	95	0	83	32	34	0	32	1.58
5069275--5069330	27	2.2	25	84	9	76	30	10	1	57	1.43
5069252--5069331	41	2.0	41	85	5	108	30	10	1	58	1.38
5069343--5069382	20	2.0	20	90	0	62	27	7	0	65	1.20
5069345--5069408	27	2.3	27	81	7	76	28	6	0	65	1.16
5072207--5072298	44	2.1	44	97	0	175	48	14	18	18	1.80
5081337--5081979	87	7.4	87	90	2	941	34	20	23	21	1.96
5081434--5081927	44	11.3	43	69	9	293	34	19	23	22	1.97
5081478--5081978	44	11.5	43	67	11	187	34	19	23	21	1.96
5081338--5082000	262	2.5	259	88	3	870	34	19	22	22	1.96
5083725--5083767	18	2.5	17	80	3	50	27	11	4	55	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5083854--5084156	3	103.3	3	67	13	78	29	9	0	60	1.35
5083905--5083984	41	2.0	41	85	5	108	30	10	1	58	1.38
5083998--5084030	14	2.3	15	89	5	50	24	3	0	72	0.98
5084012--5084139	23	5.4	23	71	19	77	26	7	0	66	1.17
5084072--5084141	29	2.4	29	83	4	97	25	7	0	67	1.16
5084289--5084323	18	1.9	18	88	0	52	22	8	8	60	1.54
5088327--5088377	17	3.1	16	75	25	52	58	1	0	39	1.09
5088322--5088386	22	3.0	22	69	13	53	55	1	1	41	1.18
5088761--5088804	22	2.0	22	90	0	70	50	0	0	50	1.00
5088761--5088816	22	2.6	22	86	5	62	46	0	0	53	1.00
5088829--5088859	15	2.0	16	93	6	55	61	0	0	38	0.96
5088898--5088954	15	3.5	15	71	17	51	49	1	1	47	1.22
5089410--5089447	14	2.7	14	91	0	58	31	18	10	39	1.85
5090867--5090896	14	2.1	14	93	0	51	50	0	10	40	1.36
5093076--5093118	18	2.3	19	92	4	70	34	0	0	65	0.93
5093086--5093202	18	6.3	19	67	15	57	36	3	5	53	1.42
5093065--5093182	18	6.2	20	69	13	56	38	2	5	53	1.37
5097981--5098044	7	8.7	7	76	10	65	57	1	0	40	1.08
5097981--5098057	37	2.1	38	82	2	93	58	1	3	36	1.25
5099583--5099620	13	3.0	13	88	3	51	50	0	0	50	1.00
5101700--5101766	31	2.1	32	88	5	100	38	4	7	49	1.51
5102158--5102207	20	2.5	20	83	3	57	48	2	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119667--5119691	8	3.1	8	100	0	50	24	12	52	12	1.72
5123235--5123422	99	1.9	100	84	4	252	29	15	23	30	1.96
5123688--5123713	12	2.2	12	100	0	52	0	7	15	76	0.99
5126600--5126751	44	3.5	44	89	0	241	49	12	1	36	1.52
5126677--5126746	22	3.2	22	67	15	63	50	14	0	35	1.43
5127015--5127065	6	8.8	6	80	6	52	56	0	25	17	1.41
5126784--5127028	50	5.1	49	89	7	369	63	0	13	22	1.35
5126782--5127028	96	2.6	95	90	5	376	63	0	13	22	1.35
5127212--5127277	25	2.7	25	76	4	73	46	1	9	42	1.44
5127333--5127391	20	2.8	20	82	7	64	62	0	13	23	1.31

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