genome.fa.s18.2.7.7.80.10.50.1000.12.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: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   

This is table  12  of  199  ( 23841 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)
4882876--4882931	15	4.0	15	73	17	57	44	0	0	55	0.99
4882707--4882948	119	2.0	120	95	0	441	41	2	4	52	1.32
4882785--4882967	41	4.6	40	67	24	109	40	1	3	53	1.29
4883429--4883460	15	2.1	15	100	0	64	21	21	18	37	1.94
4884397--4884452	21	2.7	21	88	0	85	32	35	8	23	1.86
4909085--4909188	45	2.3	44	86	8	138	0	26	8	64	1.22
4910378--4910405	14	2.0	14	100	0	56	50	0	0	50	1.00
4919052--4919089	17	2.2	18	85	4	51	21	2	18	57	1.52
4921551--4921725	83	2.1	83	88	2	253	28	5	50	16	1.66
4926516--4926567	26	2.0	26	88	0	77	25	23	15	36	1.93
4934004--4934053	24	2.1	24	92	0	82	50	22	12	16	1.77
4944160--4944199	20	2.1	19	85	4	53	60	7	5	27	1.45
4946224--4946253	14	2.1	14	93	6	51	20	0	0	80	0.72
4948762--4948809	23	2.0	24	84	11	64	45	4	0	50	1.21
4951581--4951645	25	2.7	23	72	13	60	64	4	7	23	1.38
4956768--4956802	18	1.9	18	88	0	52	0	25	5	68	1.11
4977205--4977252	17	2.5	20	80	12	66	27	0	6	66	1.15
4977538--4977570	15	2.3	15	89	5	50	51	0	0	48	1.00
4978906--4978938	16	2.1	16	88	5	50	48	0	3	48	1.17
5013284--5013356	5	14.4	5	73	18	62	56	0	2	41	1.14
5013285--5013354	17	3.9	18	76	9	63	57	0	2	40	1.14
5033607--5033855	50	4.8	50	82	5	266	20	28	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5033606--5033855	100	2.4	105	86	6	341	21	28	23	26	1.99
5033950--5033981	13	2.5	13	94	0	55	56	12	0	31	1.37
5049503--5049534	16	1.9	17	93	6	57	50	0	3	46	1.17
5053085--5053125	21	2.0	21	90	0	64	19	29	21	29	1.98
5060836--5060870	3	11.7	3	93	0	61	62	0	2	34	1.10
5060836--5060876	15	2.7	15	92	0	64	58	0	7	34	1.26
5070962--5071129	85	2.0	85	91	0	273	32	16	23	27	1.96
5071171--5071239	30	2.3	30	84	0	84	30	13	11	44	1.78
5075888--5075949	33	1.9	32	83	9	81	69	1	1	27	1.07
5111286--5111328	20	2.2	19	84	12	52	62	0	2	34	1.08
5117099--5117181	29	2.9	28	77	12	78	43	8	8	39	1.65
5125201--5125452	24	10.8	24	69	15	143	55	5	5	33	1.45
5125223--5125450	69	3.3	69	78	7	180	55	5	6	33	1.47
5126288--5126335	22	2.2	21	78	10	51	33	18	4	43	1.69
5127798--5127959	79	2.1	78	87	2	227	41	18	9	30	1.82
5138801--5138831	14	2.2	14	94	0	53	38	19	12	29	1.89
5158536--5158583	24	2.1	22	84	7	60	45	2	2	50	1.25
5163798--5163837	18	2.2	19	95	4	73	40	0	0	60	0.97
5163805--5163846	18	2.3	18	91	4	66	30	2	0	66	1.04
5166389--5166445	14	4.0	14	81	4	78	40	7	14	38	1.73
5166389--5166445	29	2.0	28	86	3	78	40	7	14	38	1.73
5171324--5171360	18	2.1	18	100	0	74	21	16	27	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5173012--5173052	21	2.0	21	90	0	64	19	29	21	29	1.98
5177612--5177662	25	2.0	25	85	7	68	41	5	1	50	1.37
5187471--5187504	5	6.8	5	100	0	68	0	61	0	38	0.96
5194171--5194211	16	2.5	17	88	8	66	26	14	21	36	1.93
5201110--5201939	411	2.0	411	93	1	1414	25	24	15	34	1.94
5216548--5216579	13	2.4	14	94	5	57	28	0	0	71	0.86
5216550--5216580	16	1.9	16	93	0	53	29	0	0	70	0.87
5219815--5219870	25	2.2	25	93	0	94	19	25	17	37	1.94
5219825--5219892	22	3.0	22	82	6	73	20	25	16	38	1.92
5228697--5228725	3	9.7	3	100	0	58	0	34	31	34	1.58
5232380--5232410	4	7.8	4	100	0	62	0	22	0	77	0.77
5251217--5251252	18	2.0	18	100	0	72	44	22	11	22	1.84
5255731--5255810	6	13.3	6	71	5	63	2	30	12	55	1.50
5255719--5255870	24	6.3	24	81	3	153	1	32	16	48	1.57
5255827--5255892	12	5.5	12	72	5	53	1	36	18	43	1.59
5255826--5255897	36	2.0	36	88	0	108	2	34	18	44	1.64
5256245--5256273	6	4.8	6	100	0	58	0	34	48	17	1.47
5262412--5262498	42	2.1	42	97	0	165	31	8	21	39	1.83
5267296--5267321	5	5.2	5	100	0	52	19	0	0	80	0.71
5280087--5280145	22	2.8	21	76	7	57	49	10	1	38	1.47
5299715--5299750	12	3.0	12	87	0	54	44	27	0	27	1.55
5301251--5301293	21	2.0	23	81	9	54	34	0	6	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5303029--5303077	20	2.4	20	83	10	55	63	4	4	28	1.31
5306372--5306416	21	2.1	21	83	0	54	42	11	28	17	1.84
5312067--5312188	63	1.9	63	94	0	217	27	9	33	28	1.89
5319931--5319986	21	2.7	21	75	5	60	30	5	0	64	1.16
5320210--5320244	18	1.9	18	88	0	52	51	2	0	45	1.16
5320218--5320309	48	2.0	47	87	6	134	41	5	3	50	1.42
5320384--5320426	19	2.3	20	80	15	56	58	2	0	39	1.11
5320513--5320860	124	2.8	124	92	0	581	29	17	21	31	1.96
5323965--5323989	10	2.5	10	100	0	50	48	0	8	44	1.32
5324259--5324310	23	2.3	21	100	0	68	28	0	25	46	1.53
5324038--5324431	142	2.7	141	90	5	578	27	1	27	44	1.62
5324056--5324452	89	4.5	89	89	7	566	27	1	26	44	1.62
5324038--5324452	29	14.3	29	83	11	539	27	1	26	44	1.62
5324927--5324957	9	3.4	9	90	0	53	25	12	22	38	1.90
5325261--5325321	30	2.0	31	87	3	88	19	37	0	42	1.52
5326715--5326739	7	3.6	7	100	0	50	60	12	0	28	1.32
5326821--5327212	195	2.0	195	95	1	705	35	16	16	31	1.91
5328966--5329214	50	4.8	50	85	4	284	20	29	24	26	1.99
5328965--5329214	100	2.4	104	88	6	357	20	29	24	26	1.99
5329309--5329340	13	2.5	13	94	0	55	56	12	0	31	1.37
5329552--5329609	30	1.9	30	89	0	89	31	24	3	41	1.71
5337013--5337155	50	2.9	49	87	3	214	18	32	23	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5337311--5337337	13	2.1	13	100	0	54	62	7	0	29	1.22
5337552--5337610	28	2.0	28	83	6	73	28	25	3	42	1.71
5338914--5338963	24	2.0	26	88	7	77	66	0	0	34	0.92
5338965--5339083	51	2.3	51	83	12	147	42	0	27	30	1.56
5342242--5342272	14	2.2	14	94	0	53	61	0	16	22	1.34
5342296--5342327	4	8.0	4	92	0	55	71	0	25	3	1.00
5347176--5347205	7	4.4	7	91	8	53	73	0	0	26	0.84
5347176--5347205	13	2.2	14	94	5	53	73	0	0	26	0.84
5351937--5351968	5	6.4	5	100	0	64	40	18	21	18	1.91
5390324--5390355	16	2.0	16	93	0	55	46	12	12	28	1.78
5394886--5395009	64	1.9	64	91	0	203	29	8	28	33	1.86
5400962--5401022	30	2.0	30	96	0	113	40	11	21	26	1.87
5403382--5403418	12	3.2	12	92	3	58	54	8	0	37	1.30
5405039--5405068	14	2.1	14	100	0	60	66	13	6	13	1.43
5405464--5405504	19	2.1	20	90	4	66	48	14	9	26	1.75
5424408--5424467	25	2.4	25	77	5	68	58	0	1	40	1.08
5431380--5431405	12	2.2	12	100	0	52	11	23	0	65	1.25
5435509--5435612	35	3.0	35	91	0	172	38	21	3	36	1.72
5435623--5435960	170	2.0	166	97	2	640	45	17	13	23	1.84
5449154--5449190	19	1.9	19	88	0	56	56	2	8	32	1.43
5456060--5456114	2	27.5	2	100	0	110	0	49	0	50	1.00
5456580--5456635	29	1.9	29	100	0	112	42	3	16	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5464228--5464294	31	2.3	29	82	14	84	47	0	4	47	1.22
5464902--5465446	126	4.3	126	88	2	801	35	18	19	27	1.95
5464902--5465446	251	2.2	252	88	1	826	35	18	19	27	1.95
5472604--5472628	7	3.6	7	100	0	50	56	16	0	28	1.41
5472624--5472649	7	3.7	7	100	0	52	57	15	0	26	1.38
5472604--5472649	14	3.3	14	88	11	60	56	15	0	28	1.39
5473852--5473899	11	4.4	11	80	17	55	43	0	35	20	1.52
5473852--5473899	22	2.2	23	82	17	66	43	0	35	20	1.52
5473860--5473902	11	4.0	10	85	14	59	46	0	32	20	1.51
5484000--5484066	29	2.3	29	76	5	73	16	10	19	53	1.71

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