genome.fa.s14.2.7.7.80.10.50.1000.15.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   

This is table  15  of  213  ( 25468 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)
4103685--4103715	16	2.0	16	93	6	55	51	3	0	45	1.17
4104629--4104662	17	2.0	17	94	0	59	44	50	0	5	1.26
4109268--4109301	17	2.0	17	94	0	59	44	50	0	5	1.26
4116407--4116432	13	2.0	13	100	0	52	23	23	23	30	1.99
4117762--4117795	17	2.0	17	94	0	59	44	50	0	5	1.26
4122401--4122434	17	2.0	17	94	0	59	44	50	0	5	1.26
4131801--4131872	36	2.0	36	97	0	135	33	20	16	29	1.95
4135442--4135506	33	2.0	33	81	6	78	29	7	4	58	1.46
4143113--4143139	3	9.0	3	100	0	54	66	0	0	33	0.92
4145649--4145696	24	2.0	23	92	4	78	72	16	4	6	1.20
4146323--4146366	11	3.9	11	84	3	61	47	0	29	22	1.51
4146323--4146366	22	2.0	23	90	4	72	47	0	29	22	1.51
4163260--4163524	103	2.6	104	90	3	417	29	29	20	19	1.97
4163852--4163916	30	2.2	29	81	8	76	30	27	6	35	1.81
4163859--4163916	30	1.9	30	85	0	80	31	24	6	37	1.82
4168393--4168520	62	2.0	64	92	3	215	34	12	25	28	1.92
4168455--4169205	46	16.4	46	95	0	1256	34	14	22	29	1.93
4170232--4170272	3	13.7	3	100	0	82	31	34	0	34	1.58
4172202--4172244	22	2.0	22	95	0	77	9	20	27	41	1.83
4172340--4172545	85	2.4	86	81	4	211	23	25	26	24	2.00
4172576--4172736	86	1.9	86	87	7	238	30	34	18	17	1.94
4172337--4172736	43	9.3	43	74	8	201	27	29	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4172721--4172823	44	2.3	44	98	0	197	33	20	18	27	1.96
4173132--4173223	21	4.4	21	85	0	112	4	43	18	33	1.70
4178700--4180032	27	48.5	25	77	14	179	36	1	13	48	1.50
4178757--4179021	9	29.7	9	69	17	117	39	1	14	44	1.55
4178686--4178805	16	7.9	16	66	19	69	35	3	16	44	1.65
4178861--4178893	16	2.1	16	100	0	66	30	0	24	45	1.53
4178757--4178898	34	4.2	33	69	16	87	38	1	17	42	1.58
4178779--4179017	84	2.7	87	81	10	242	39	1	14	44	1.53
4178877--4179972	27	38.7	31	81	13	868	36	1	12	49	1.47
4179008--4179065	22	2.6	23	83	5	75	36	1	10	51	1.46
4178919--4179582	53	11.8	53	81	12	666	38	1	11	48	1.48
4179061--4179111	22	2.4	22	83	3	68	45	0	7	47	1.32
4179117--4179236	22	5.6	22	67	15	65	38	2	11	47	1.54
4178879--4179603	171	4.2	171	91	4	1089	38	1	11	48	1.48
4179232--4179282	22	2.4	22	86	3	77	43	0	9	47	1.36
4178943--4179990	9	113.3	9	72	15	449	36	0	12	50	1.47
4182192--4182509	115	2.8	115	93	0	548	38	18	15	27	1.91
4182257--4182335	40	2.0	40	84	0	104	34	18	16	30	1.94
4182373--4182450	40	2.0	39	82	7	95	34	19	16	29	1.94
4182412--4182583	74	2.3	75	94	2	301	40	18	13	27	1.88
4182297--4182649	189	1.9	191	91	1	584	40	18	14	26	1.89
4182735--4182956	114	1.9	114	86	3	313	30	22	18	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4183540--4183611	21	3.1	21	78	19	81	38	43	4	13	1.64
4183540--4183596	27	2.1	27	100	0	114	38	47	3	10	1.55
4184066--4184203	73	1.9	72	86	4	197	31	20	21	27	1.98
4184103--4184429	113	2.9	114	85	2	417	29	23	21	25	1.99
4184398--4184527	38	3.4	37	78	11	127	22	18	21	37	1.94
4184812--4184850	19	2.1	19	100	0	78	28	15	10	46	1.78
4191548--4191580	13	2.4	14	90	5	50	33	0	3	63	1.10
4202422--4202924	253	2.0	254	88	0	756	28	16	16	37	1.91
4202984--4203035	26	1.9	27	92	7	88	65	11	1	21	1.34
4207047--4207132	44	2.0	44	83	0	109	38	2	4	54	1.34
4213931--4214392	231	2.0	231	98	0	888	25	16	21	36	1.94
4235294--4235359	30	2.2	31	83	2	80	39	1	7	51	1.40
4238616--4238672	30	1.9	30	96	0	105	29	19	5	45	1.72
4241564--4241629	32	2.1	32	85	0	87	60	4	3	31	1.32
4243912--4243937	3	8.7	3	100	0	52	69	0	0	30	0.89
4244215--4244275	32	1.9	32	86	6	88	31	19	13	36	1.90
4245077--4245110	17	2.0	17	94	0	59	44	50	0	5	1.26
4249715--4249748	17	2.0	17	94	0	59	44	50	0	5	1.26
4250526--4250551	10	2.6	10	100	0	52	42	42	7	7	1.62
4252984--4253017	17	2.0	17	94	0	59	44	50	0	5	1.26
4257623--4257656	17	2.0	17	94	0	59	44	50	0	5	1.26
4260638--4260717	42	1.9	42	82	5	99	47	13	7	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273188--4273370	37	5.0	37	94	1	307	24	20	16	38	1.93
4273188--4273417	111	2.0	114	86	9	326	25	20	15	37	1.92
4273337--4273701	46	7.5	46	83	10	424	28	21	15	35	1.93
4273377--4273695	52	6.3	52	85	5	383	27	21	14	35	1.93
4273340--4273701	98	3.7	96	83	9	462	28	21	15	35	1.94
4292098--4292128	16	2.0	16	93	6	55	0	12	6	80	0.89
4299054--4299126	38	1.9	38	94	0	128	42	8	21	27	1.81
4299522--4299553	16	1.9	17	93	6	57	56	0	0	43	0.99
4306971--4307032	30	2.1	30	84	6	81	51	0	0	48	1.00
4308137--4308170	15	2.3	15	89	0	50	67	0	0	32	0.91
4318370--4318504	41	3.3	41	91	0	225	26	28	16	28	1.97
4318676--4318771	41	2.3	41	94	0	165	25	28	18	28	1.98
4318982--4319006	2	12.5	2	100	0	50	52	48	0	0	1.00
4319523--4320542	510	2.0	510	98	0	1977	40	20	8	29	1.83
4322714--4322858	50	2.9	50	84	1	191	21	29	22	26	1.99
4323202--4323259	30	1.9	30	89	0	89	31	24	3	41	1.71
4326492--4326527	16	2.2	16	95	0	63	22	25	19	33	1.97
4327903--4328774	175	5.0	175	95	0	1555	24	23	21	30	1.99
4327903--4328774	44	19.9	44	80	3	848	24	23	21	30	1.99
4328762--4329421	87	7.5	87	85	5	864	23	22	23	30	1.99
4330644--4330694	7	7.0	7	79	16	59	15	17	0	66	1.25
4330642--4330680	13	2.9	14	88	7	62	15	20	0	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4331119--4331215	6	16.8	6	79	10	69	12	7	9	71	1.31
4331144--4331191	19	2.5	20	80	10	55	6	6	6	81	0.99
4331144--4331216	10	7.1	10	72	17	60	9	6	8	75	1.19
4335881--4335967	3	28.0	3	76	15	79	62	2	3	32	1.25
4344985--4345053	29	2.3	29	85	5	84	49	11	14	24	1.77
4362082--4362115	4	8.0	4	90	9	50	23	0	2	73	0.97
4362065--4362124	22	2.7	22	73	19	61	26	0	6	66	1.16
4364402--4364437	18	1.9	19	88	5	56	75	2	19	2	1.06
4364447--4364485	18	2.2	18	85	0	51	61	2	23	12	1.43
4365885--4365918	4	8.0	4	90	9	50	23	0	2	73	0.97
4365868--4365927	22	2.7	22	73	19	61	26	0	6	66	1.16
4371670--4371710	21	2.0	20	85	4	55	29	2	0	68	1.03
4374188--4374225	18	2.1	19	90	5	60	42	10	10	36	1.74
4375317--4375362	23	2.1	21	88	8	65	15	4	6	73	1.19
4382227--4382296	34	2.1	34	100	0	140	45	8	20	25	1.79
4385406--4385539	71	1.9	71	100	0	268	45	11	17	24	1.83
4386722--4386752	11	2.8	11	95	0	53	29	3	48	19	1.64
4390800--4390886	36	2.4	36	98	0	165	31	13	25	29	1.94
4390800--4390892	18	5.2	18	90	0	141	30	15	25	29	1.95
4391436--4391466	11	2.8	11	95	0	53	29	3	48	19	1.64
4411501--4411554	19	2.9	18	78	10	56	51	3	0	44	1.19
4411501--4411539	18	2.1	19	85	4	53	56	2	0	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4413112--4413212	38	2.6	39	85	4	132	32	8	0	57	1.36
4413154--4413216	19	3.3	19	71	22	51	30	6	1	61	1.30
4422042--4422071	14	2.1	14	93	0	51	80	10	0	10	0.92
4434968--4435025	22	2.7	23	76	15	61	20	3	10	65	1.38
4435098--4435146	15	3.5	15	72	16	59	28	8	8	55	1.58
4435090--4435153	27	2.7	22	77	22	76	28	7	6	57	1.51
4435094--4435148	27	2.0	27	100	0	110	29	7	7	56	1.53
4439676--4439714	3	13.0	3	100	0	78	33	0	0	66	0.92
4441579--4441668	38	2.4	38	98	0	171	3	27	12	56	1.51
4441723--4441772	25	2.0	25	96	0	91	20	38	12	30	1.88

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213