genome.fa.s20.2.7.7.80.10.50.1000.13.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  13  of  189  ( 22580 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)
4236784--4236826	14	2.9	15	86	6	52	34	0	4	60	1.17
4237228--4237264	9	4.1	9	92	0	65	45	13	10	29	1.77
4237483--4237542	30	2.0	31	86	3	86	20	40	0	40	1.52
4243997--4244092	31	3.1	28	76	15	84	57	1	4	37	1.25
4244054--4244094	21	2.1	18	86	13	55	53	0	4	41	1.22
4244482--4244583	10	10.4	10	72	12	77	35	3	0	59	1.22
4244482--4244583	19	5.2	20	74	10	77	35	3	0	59	1.22
4244472--4244554	19	4.2	20	70	18	59	38	1	1	59	1.13
4244463--4244556	28	3.2	29	76	8	93	36	1	1	61	1.10
4244482--4244586	49	2.1	49	85	3	140	35	3	0	60	1.22
4245213--4245290	19	4.1	19	78	3	93	32	6	20	41	1.78
4248161--4248194	9	3.9	9	88	3	52	47	5	2	44	1.42
4249660--4249712	13	4.1	13	72	0	52	35	7	18	37	1.80
4254380--4254409	13	2.3	13	94	0	51	16	0	10	73	1.09
4258635--4258669	8	4.5	8	96	3	63	80	0	11	8	0.92
4258630--4258669	16	2.7	15	88	11	64	80	0	12	7	0.91
4258630--4258675	8	6.4	7	85	9	58	80	0	13	6	0.89
4260098--4260148	3	17.0	3	76	15	52	33	0	1	64	1.05
4260098--4260148	15	3.4	15	89	5	68	33	0	1	64	1.05
4260522--4260573	27	1.9	27	84	7	70	28	11	5	53	1.60
4261743--4261938	108	1.8	108	91	2	322	25	16	10	47	1.79
4262383--4263245	87	9.9	87	90	0	1160	29	24	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4263021--4263160	45	3.2	45	66	15	128	30	25	22	21	1.98
4263198--4263402	46	4.5	46	65	11	109	25	20	24	29	1.99
4263198--4263874	134	5.1	134	83	6	792	27	19	24	27	1.99
4263235--4263874	264	2.4	264	94	1	1093	27	20	24	27	1.99
4263871--4264557	82	8.4	82	92	2	980	32	25	19	22	1.97
4266155--4266184	13	2.3	13	94	0	51	16	0	10	73	1.09
4269721--4269760	20	2.0	21	90	9	66	22	7	0	70	1.12
4274004--4274100	21	4.3	22	71	14	63	52	2	2	43	1.24
4274004--4274159	70	2.2	69	79	3	152	48	2	5	44	1.38
4281379--4281425	17	2.5	20	87	12	66	53	4	4	38	1.40
4282323--4282390	27	2.4	28	78	4	75	32	1	1	64	1.11
4284458--4284532	37	1.9	39	84	7	100	33	16	4	46	1.65
4284571--4284619	20	2.5	20	83	3	64	24	14	6	55	1.62
4286539--4286688	3	50.0	3	70	6	81	28	8	3	60	1.41
4286611--4286672	25	2.5	25	84	7	74	29	6	0	64	1.18
4286656--4286699	18	2.6	18	85	7	56	25	6	4	63	1.38
4286826--4286879	24	2.3	23	87	9	74	16	7	3	72	1.22
4291268--4291303	17	2.2	16	90	5	54	0	25	0	75	0.81
4291388--4291451	16	3.9	16	78	10	67	0	31	0	68	0.90
4291388--4291458	25	3.0	22	71	16	63	0	30	0	69	0.89
4291391--4291462	9	8.2	9	73	11	60	0	30	0	69	0.89
4291400--4291459	27	2.2	27	87	0	84	0	28	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4291400--4291461	25	2.4	27	83	5	83	0	29	0	70	0.87
4291979--4292100	31	4.1	31	82	7	153	39	1	25	33	1.66
4291979--4292114	59	2.3	60	87	7	197	40	2	23	33	1.70
4291982--4292114	29	4.5	28	75	16	108	40	3	22	33	1.69
4301566--4301620	27	2.0	27	100	0	110	29	0	18	52	1.45
4311314--4311351	11	3.2	12	82	17	53	68	0	2	28	1.03
4312233--4312277	25	1.9	23	82	13	56	31	6	4	57	1.44
4312954--4312982	13	2.1	14	93	6	51	27	6	0	65	1.18
4312975--4313008	15	2.1	17	89	10	54	41	0	2	55	1.15
4313092--4313155	27	2.4	28	84	10	89	50	0	3	46	1.17
4317345--4317413	31	2.2	31	100	0	138	17	34	42	5	1.73
4318137--4318171	18	1.9	18	94	0	61	37	8	5	48	1.58
4319365--4319407	22	1.9	23	85	4	61	48	4	0	46	1.22
4330633--4330745	4	27.8	4	71	16	63	23	10	0	66	1.22
4334377--4334537	80	2.0	80	100	0	322	47	13	27	11	1.77
4347853--4347928	38	2.0	38	100	0	152	50	18	13	18	1.78
4350084--4350151	30	2.3	29	85	10	84	45	14	10	29	1.78
4350968--4351040	23	3.2	23	92	0	119	43	23	8	24	1.81
4361478--4361524	17	2.6	18	80	12	53	42	4	0	53	1.20
4361468--4361539	18	4.1	18	77	10	58	45	6	1	45	1.38
4364821--4364914	28	3.4	28	87	0	134	34	10	23	31	1.89
4366097--4366281	46	4.0	46	90	4	293	29	24	9	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4368122--4368722	112	5.6	107	85	11	770	43	15	17	23	1.88
4368121--4368726	107	5.7	101	80	13	600	43	15	17	23	1.87
4368114--4368726	207	2.9	210	85	8	837	43	15	17	23	1.87
4368841--4368983	73	2.0	72	93	4	243	26	11	12	48	1.75
4376009--4376042	13	2.6	13	95	0	59	0	5	14	79	0.91
4378201--4378317	33	3.6	32	73	5	92	27	26	13	32	1.94
4381365--4381402	15	2.6	15	83	4	51	63	0	5	31	1.17
4382329--4382375	20	2.2	21	85	7	60	34	4	0	61	1.15
4388817--4388857	21	2.0	21	90	0	64	29	21	29	19	1.98
4397420--4397525	53	2.0	53	96	0	194	30	18	15	35	1.92
4402668--4402692	3	8.3	3	100	0	50	36	0	32	32	1.58
4404134--4404176	22	1.9	23	85	4	61	46	2	2	48	1.27
4404320--4404348	6	4.8	6	100	0	58	65	0	0	34	0.93
4405408--4405435	13	2.2	13	100	0	56	35	0	0	64	0.94
4412624--4412674	22	2.3	22	79	0	57	21	9	5	62	1.47
4418916--4418953	4	9.5	4	100	0	76	26	0	23	50	1.50
4466924--4466973	22	2.3	22	86	3	66	8	8	18	66	1.42
4474073--4474105	16	2.1	16	88	5	50	30	0	0	69	0.88
4485520--4485569	20	2.5	20	81	18	61	22	6	2	70	1.20
4485693--4485726	15	2.3	15	90	10	52	23	0	5	70	1.09
4485947--4486388	109	4.1	108	88	3	597	32	16	16	34	1.91
4487580--4487623	22	2.0	22	83	12	56	9	4	38	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4491845--4491902	30	1.9	30	89	0	89	41	3	24	31	1.71
4492114--4492145	13	2.5	13	94	0	55	31	0	12	56	1.37
4492240--4492481	50	4.7	50	86	4	297	26	24	29	19	1.99
4492240--4492489	100	2.4	103	88	6	364	26	24	29	20	1.99
4494490--4494555	11	6.0	11	76	0	60	65	16	3	15	1.40
4494815--4494840	11	2.4	11	100	0	52	69	0	0	30	0.89
4504971--4505003	17	2.1	17	88	11	52	30	6	0	63	1.18
4512555--4512588	18	1.9	18	88	5	52	29	0	5	64	1.17
4514088--4515522	715	2.0	715	100	0	2870	29	20	21	29	1.98
4518278--4518309	3	10.7	3	100	0	64	65	0	34	0	0.93
4518763--4518795	17	2.0	16	94	5	57	33	6	0	60	1.21
4520098--4520150	24	2.2	24	93	0	88	37	5	9	47	1.60
4520098--4520161	24	2.7	24	87	4	76	35	6	10	46	1.64
4524478--4524529	24	2.2	24	85	0	68	38	3	7	50	1.50
4532432--4532497	11	6.5	10	73	23	50	72	12	0	15	1.12
4532453--4532495	23	1.9	22	100	0	77	76	11	0	11	1.02
4533342--4533398	7	7.7	7	78	9	51	77	0	14	8	0.99
4533341--4533398	8	7.6	8	81	14	61	77	0	13	8	0.98
4533342--4533406	22	3.0	22	76	17	64	75	0	13	10	1.05
4533339--4533411	15	5.0	15	73	23	50	75	0	15	9	1.04
4533339--4533406	29	2.4	29	85	7	86	76	0	13	10	1.02
4534645--4534781	43	3.2	43	65	17	120	32	27	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534634--4535266	87	7.3	87	94	1	1045	30	25	21	23	1.99
4534634--4535266	175	3.6	175	94	1	1060	30	25	21	23	1.99
4534634--4535292	262	2.5	262	92	1	1058	30	25	21	22	1.99
4535277--4535614	44	7.8	44	72	7	235	29	20	23	26	1.99
4535277--4535548	131	2.1	131	95	0	483	29	20	24	25	1.99
4535382--4535592	87	2.5	84	79	7	221	30	20	23	25	1.99
4535472--4535588	40	2.8	40	85	5	135	28	21	23	27	1.99
4542088--4542121	15	2.3	15	90	10	52	85	0	14	0	0.60
4545024--4545058	18	2.0	17	94	5	61	28	2	5	62	1.32
4546166--4546223	19	3.2	17	69	11	53	53	8	1	36	1.42

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