genome.fa.s20.2.7.7.80.10.50.1000.15.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   

This is table  15  of  186  ( 22216 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)
4645833--4645868	18	2.1	18	89	5	56	63	0	0	36	0.94
4653899--4653941	22	2.0	22	81	9	52	37	9	0	53	1.33
4653993--4654058	33	2.0	33	82	14	82	18	7	7	66	1.40
4656078--4656116	13	2.7	15	80	15	55	20	7	0	71	1.10
4660101--4660131	13	2.4	13	94	0	53	83	3	12	0	0.75
4665423--4665452	12	2.5	12	100	0	60	23	10	16	50	1.75
4672375--4672441	25	2.8	24	82	13	68	22	5	0	71	1.07
4672388--4672441	6	8.7	6	78	15	56	22	3	0	74	0.98
4672389--4672441	19	2.7	20	80	16	58	22	3	0	73	0.99
4675207--4675242	16	2.2	16	90	0	54	0	36	0	63	0.94
4675357--4675393	19	1.9	20	94	5	67	40	5	5	48	1.49
4675473--4675506	16	2.1	16	88	5	50	55	0	0	44	0.99
4677621--4677660	21	1.9	21	85	10	55	22	45	0	32	1.53
4679869--4680037	85	2.0	85	98	0	329	32	23	15	28	1.95
4683964--4683993	15	2.0	15	100	0	60	26	46	0	26	1.53
4684065--4684111	20	2.2	22	85	7	71	36	44	0	19	1.51
4684631--4684789	41	3.9	40	84	5	212	31	24	20	23	1.98
4685989--4686018	15	2.0	15	100	0	60	26	46	0	26	1.53
4686090--4686136	20	2.2	22	85	7	71	36	44	0	19	1.51
4686656--4686814	41	3.9	40	84	5	212	31	24	20	23	1.98
4697190--4697214	3	8.3	3	100	0	50	68	0	0	32	0.90
4697202--4697242	21	2.0	21	85	9	57	68	0	7	24	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4706148--4706183	11	3.2	11	92	4	54	19	33	0	47	1.50
4706155--4706189	11	3.1	11	91	4	52	25	28	0	45	1.54
4706163--4706286	51	2.4	51	93	0	203	29	25	0	45	1.59
4708095--4708134	18	2.2	18	95	0	71	22	30	7	40	1.81
4708403--4708459	21	2.7	21	86	5	80	35	35	24	5	1.78
4710127--4710252	25	5.3	24	71	20	104	42	0	13	42	1.49
4710105--4710261	70	2.3	67	90	5	251	42	0	12	44	1.47
4710120--4710230	35	3.2	35	63	19	86	40	0	13	45	1.50
4710306--4710530	47	4.8	47	95	1	414	46	21	4	27	1.70
4710303--4710530	24	9.7	23	93	4	393	46	21	4	27	1.70
4710303--4710530	71	3.2	70	94	2	411	46	21	4	27	1.70
4710543--4710758	116	1.9	117	94	1	380	37	10	7	43	1.68
4713759--4713794	11	3.2	11	92	4	54	47	0	33	19	1.50
4716601--4716660	24	2.6	23	76	15	61	33	0	6	60	1.23
4718264--4718293	13	2.2	14	94	5	53	50	6	10	33	1.62
4718405--4718507	24	4.0	24	71	22	75	50	1	10	36	1.48
4722807--4722891	27	3.1	27	98	0	161	18	31	31	17	1.95
4725216--4725393	92	1.9	92	89	0	275	28	27	17	26	1.98
4725216--4725372	46	3.4	46	97	0	287	30	26	17	24	1.97
4725405--4725543	44	3.2	43	70	15	131	23	22	27	26	2.00
4725364--4726441	87	12.4	86	86	2	1306	25	23	23	28	2.00
4725364--4726441	173	6.2	173	87	2	1389	25	23	23	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4725364--4726441	260	4.1	259	86	1	1469	25	23	23	28	2.00
4726429--4727068	218	2.9	218	93	0	1100	28	22	19	29	1.98
4726471--4727107	44	14.8	42	68	14	224	28	21	19	29	1.98
4726911--4727201	128	2.3	129	84	4	365	28	20	18	31	1.96
4728406--4728457	7	7.9	7	81	10	65	11	17	1	69	1.27
4728406--4728463	13	4.5	13	85	8	75	10	17	1	70	1.23
4728406--4728463	20	3.0	19	80	9	73	10	17	1	70	1.23
4729445--4729502	6	9.7	6	81	7	55	13	5	8	72	1.26
4729355--4729478	50	2.4	51	78	7	119	10	13	4	70	1.30
4730175--4730380	104	2.0	105	99	0	405	42	11	16	29	1.83
4733021--4733093	26	2.8	26	74	15	71	31	10	2	54	1.49
4733034--4733086	24	2.2	24	86	6	72	33	11	0	54	1.36
4736968--4737007	20	2.0	20	90	0	62	32	22	12	32	1.91
4744614--4744706	46	2.0	46	100	0	186	41	10	15	32	1.81
4745165--4745421	50	5.1	49	68	7	176	29	19	24	26	1.98
4745108--4745405	100	3.0	100	92	0	488	30	20	23	25	1.98
4746555--4746628	25	2.9	27	78	10	82	32	10	1	55	1.43
4746661--4746685	13	1.9	13	100	0	50	36	0	0	64	0.94
4748771--4748886	49	2.4	49	79	0	124	28	25	20	25	1.99
4748809--4748910	49	2.1	49	81	0	114	28	22	20	28	1.99
4752010--4752049	9	4.6	9	84	6	55	0	27	0	72	0.85
4753803--4753878	23	3.3	23	86	0	116	22	22	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4757566--4757642	13	5.9	13	89	0	118	40	24	9	25	1.85
4774517--4774554	11	3.5	11	85	0	58	52	0	0	47	1.00
4774848--4774895	3	17.0	3	79	12	57	31	0	4	64	1.12
4774870--4774934	29	2.3	29	86	7	89	44	0	4	50	1.22
4775053--4775097	10	4.4	10	82	2	54	73	8	13	4	1.23
4775053--4775103	16	3.3	16	81	10	54	72	9	13	3	1.24
4775108--4775147	21	2.0	20	85	14	55	72	2	25	0	0.97
4775110--4775148	9	4.4	9	80	6	53	74	2	23	0	0.94
4775295--4775352	29	2.0	29	80	12	66	31	1	25	41	1.66
4776018--4776125	38	2.8	39	78	7	112	21	20	25	32	1.97
4778012--4778054	19	2.2	20	80	12	54	30	18	2	48	1.60
4778903--4778960	29	2.0	29	80	12	66	41	24	3	31	1.71
4779100--4779165	26	2.9	20	71	26	51	0	31	3	65	1.08
4779153--4779196	16	2.8	16	83	13	56	4	20	9	65	1.38
4779156--4779198	10	4.3	10	85	8	61	4	18	6	69	1.29
4779223--4779588	191	1.9	192	96	0	671	41	9	4	44	1.56
4779562--4779610	24	2.0	24	88	7	73	61	4	0	34	1.15
4779686--4779758	34	2.3	31	76	17	76	53	6	0	39	1.28
4782912--4782947	3	12.0	3	100	0	72	33	0	0	66	0.92
4783095--4783140	16	3.0	16	75	12	51	41	2	2	54	1.25
4783201--4783240	15	2.5	17	88	12	66	60	0	2	37	1.11
4797549--4798265	358	2.0	357	96	0	1319	37	19	16	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4798068--4798862	394	2.0	394	99	0	1581	37	15	14	32	1.88
4807642--4807704	28	2.2	29	88	5	92	69	0	1	28	0.97
4812946--4812985	21	1.9	21	84	0	53	37	2	7	52	1.43
4815070--4815104	18	1.9	18	88	0	52	71	2	2	22	1.13
4815184--4815260	10	7.7	10	75	16	70	66	0	33	0	0.92
4815178--4815267	20	4.5	20	90	0	144	64	0	35	0	0.94
4815696--4815965	130	2.1	131	92	2	445	52	7	10	29	1.63
4815828--4816275	155	2.9	154	87	4	661	52	6	9	31	1.60
4821467--4821565	37	2.5	40	85	11	123	53	10	4	32	1.53
4821552--4821598	23	2.0	23	84	8	60	59	14	2	23	1.46
4821930--4821966	3	12.3	3	94	0	65	0	37	0	62	0.96
4823837--4823917	42	1.9	42	82	0	99	22	34	19	23	1.96
4827511--4827537	2	13.5	2	100	0	54	51	0	0	48	1.00
4835234--4835283	25	2.0	25	100	0	100	36	16	16	32	1.90
4835688--4835750	31	2.1	31	90	3	101	25	3	12	58	1.49
4836366--4836424	27	2.2	27	87	6	84	37	28	6	27	1.82
4836341--4836463	34	3.6	33	76	13	108	39	26	4	29	1.77
4837531--4837565	3	11.7	3	100	0	70	68	0	0	31	0.90
4837695--4837727	3	11.0	3	100	0	66	33	0	0	66	0.92
4839795--4839822	6	4.7	6	100	0	56	85	0	14	0	0.59
4842285--4842325	18	2.3	18	82	0	55	46	2	2	48	1.28
4842619--4842668	21	2.4	21	86	0	64	52	10	32	6	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4842590--4842663	33	2.2	33	80	4	78	45	12	31	10	1.76
4842616--4842659	15	2.9	15	86	0	61	52	9	34	4	1.54
4845036--4845090	28	2.0	28	96	0	101	25	10	30	32	1.90
4857240--4857272	12	2.7	13	86	13	52	72	0	18	9	1.10
4861112--4861143	12	2.7	12	100	0	64	68	0	6	25	1.12
4882505--4882552	25	1.9	25	83	8	62	47	2	27	22	1.62
4885238--4885294	25	2.3	24	82	11	62	36	1	1	59	1.18
4888498--4889303	402	2.0	400	92	0	1344	30	19	23	27	1.98
4891142--4891174	17	1.9	17	88	11	50	36	18	3	42	1.66
4896396--4896431	18	1.9	19	88	5	56	0	16	5	77	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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186