genome.fa.s25.2.7.7.80.10.50.1000.13.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  13  of  196  ( 23409 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)
3775094--3775152	30	2.0	30	89	0	91	49	15	13	22	1.79
3778695--3778781	25	3.5	25	78	7	97	29	17	26	26	1.97
3778695--3778791	50	1.9	50	81	8	117	29	18	25	25	1.98
3778735--3778791	25	2.3	25	84	6	71	29	17	26	26	1.97
3778771--3778874	24	4.3	24	73	17	83	38	21	22	18	1.93
3778784--3778887	47	2.2	48	85	13	135	38	21	22	18	1.93
3780312--3780352	19	2.2	19	91	4	66	58	4	0	36	1.20
3781533--3781618	40	2.2	40	85	4	111	37	3	6	52	1.46
3784637--3784665	3	9.7	3	100	0	58	31	0	0	68	0.89
3785780--3785834	23	2.2	26	90	9	89	45	5	1	47	1.36
3795914--3795958	7	6.3	7	82	5	54	77	0	0	22	0.76
3795916--3795957	15	2.8	15	81	0	57	80	0	0	19	0.70
3796071--3796117	19	2.5	20	82	6	62	65	2	0	31	1.04
3796037--3796117	32	2.6	31	71	7	76	62	1	1	34	1.11
3796579--3796627	21	2.3	21	89	0	71	40	2	4	53	1.32
3796681--3796758	18	4.3	17	73	15	59	29	3	2	64	1.25
3796653--3796758	10	11.6	9	71	17	67	29	3	4	62	1.33
3796736--3796802	21	3.2	19	74	16	53	14	4	7	73	1.22
3796743--3796802	23	2.7	22	87	5	86	15	5	8	71	1.27
3800552--3800676	41	3.0	41	94	0	223	32	15	10	41	1.81
3814003--3814043	22	1.9	22	90	5	66	58	9	9	21	1.59
3814251--3814300	20	2.4	21	77	12	59	70	8	2	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3816376--3816418	3	14.3	3	100	0	86	32	0	0	67	0.91
3822754--3822782	3	9.7	3	100	0	58	0	31	0	68	0.89
3826777--3826901	46	2.7	46	77	11	139	33	24	16	25	1.95
3826964--3826996	15	2.2	15	89	10	50	39	33	0	27	1.57
3834785--3834843	29	2.0	30	80	9	68	44	6	0	49	1.29
3842373--3842407	18	1.9	18	94	0	61	71	5	0	22	1.07
3842403--3842432	15	1.9	16	93	6	53	73	0	0	26	0.84
3842449--3842495	20	2.3	21	85	3	69	65	4	6	23	1.33
3842862--3842900	20	2.0	20	89	0	60	25	0	2	71	0.98
3849993--3850048	25	2.2	25	90	0	85	28	5	17	48	1.69
3853904--3853942	17	2.3	17	86	8	53	30	0	20	48	1.50
3854081--3854187	21	5.2	21	81	4	110	17	21	15	44	1.86
3854139--3854206	19	3.5	19	82	7	91	20	22	14	42	1.88
3854131--3854206	40	1.9	40	91	0	125	21	22	14	42	1.89
3857490--3857538	21	2.4	20	86	6	71	40	8	28	22	1.82
3859770--3859833	21	3.0	22	75	9	78	35	25	20	18	1.95
3862607--3862642	18	2.1	18	89	5	56	33	25	0	41	1.55
3866478--3866767	90	3.1	89	82	10	364	25	1	15	57	1.44
3866568--3866848	112	2.7	103	81	10	324	26	1	14	58	1.43
3866660--3866888	112	2.0	112	90	1	361	27	0	12	59	1.39
3866794--3866963	91	1.9	90	87	3	254	27	1	15	55	1.47
3867506--3867561	21	2.7	21	94	0	94	28	33	8	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3871873--3872023	54	2.9	54	71	16	143	57	9	1	31	1.40
3871873--3872032	51	3.1	51	72	13	137	58	10	1	30	1.40
3872125--3872166	18	2.4	17	85	14	59	4	23	0	71	1.05
3875687--3875721	6	5.8	6	96	0	52	42	0	34	22	1.54
3881361--3881400	17	2.2	19	86	8	57	40	2	7	50	1.44
3887913--3887954	22	2.0	22	85	4	59	45	14	2	38	1.58
3888099--3888225	68	1.9	67	83	4	166	36	18	4	40	1.72
3890629--3890835	65	3.1	64	78	13	163	33	15	5	44	1.71
3890727--3890904	69	2.6	68	85	4	234	36	16	4	42	1.68
3894031--3894179	69	2.2	69	85	2	192	35	19	5	39	1.75
3894176--3894219	21	2.0	22	91	4	72	45	9	0	45	1.35
3904193--3904312	23	5.2	23	85	0	159	21	20	26	31	1.98
3904193--3904305	46	2.5	46	95	0	208	21	20	26	31	1.98
3906959--3907212	46	5.6	46	90	1	379	33	15	22	29	1.94
3919530--3919605	9	8.4	9	80	13	77	42	21	9	27	1.83
3919529--3919597	27	2.6	26	90	4	111	42	20	10	27	1.84
3919712--3919755	18	2.4	18	85	7	54	15	2	40	40	1.60
3922380--3922416	20	1.9	20	88	5	58	35	0	5	59	1.20
3922388--3922426	21	1.9	20	89	5	60	38	0	2	58	1.12
3923406--3923587	10	18.9	9	66	17	55	58	2	3	35	1.29
3924267--3924316	27	1.9	25	84	8	64	22	4	0	74	0.99
3930673--3930718	24	1.9	24	86	0	65	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3933538--3934026	243	2.0	241	94	1	854	33	19	23	24	1.97
3935354--3935413	31	1.9	31	93	0	102	41	13	11	33	1.80
3935842--3935881	21	1.9	21	84	0	53	32	5	12	50	1.62
3950966--3950999	12	2.7	13	90	4	52	70	11	0	17	1.16
3955793--3955826	12	2.9	11	91	8	50	0	14	17	67	1.23
3962572--3962610	20	1.9	20	89	5	60	20	20	23	35	1.96
3962697--3962766	23	3.0	23	74	10	63	51	0	0	48	1.00
3963012--3963071	19	3.3	17	71	24	50	25	5	3	66	1.27
3967157--3967186	13	2.3	13	100	0	60	46	10	6	36	1.64
3971265--3971297	15	2.1	16	88	5	50	15	12	27	45	1.81
3972942--3973180	18	13.6	18	67	12	84	46	9	11	32	1.73
3972992--3973125	35	3.9	34	73	8	110	48	8	12	29	1.72
3972983--3973165	53	3.5	50	78	9	150	48	10	13	27	1.76
3973045--3973191	18	8.3	18	72	11	99	45	10	12	31	1.76
3973773--3973814	22	2.0	21	85	4	57	0	19	2	78	0.86
3973949--3973986	19	2.0	20	89	5	60	2	18	15	63	1.43
3973977--3974008	10	3.0	11	90	9	57	0	9	0	90	0.45
3974120--3974168	8	6.3	7	82	17	53	0	20	0	79	0.73
3974132--3974168	4	9.5	4	83	16	51	0	21	0	78	0.75
3974119--3974161	14	3.1	14	87	9	54	0	18	0	81	0.69
3974096--3974174	23	3.5	22	80	13	90	2	17	1	78	0.93
3974431--3974475	23	2.0	23	82	8	56	4	11	17	66	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3974796--3974878	29	2.9	29	85	5	107	38	2	21	37	1.67
3974801--3974890	29	3.1	28	81	12	94	42	1	21	35	1.60
3975089--3976202	74	14.6	74	88	6	1104	36	20	15	27	1.93
3975165--3976201	301	3.4	305	85	6	1230	36	20	15	27	1.93
3977096--3977176	10	8.7	10	77	12	68	2	8	7	81	0.96
3977096--3977176	9	8.8	9	76	8	51	2	8	7	81	0.96
3977124--3977173	19	2.5	20	83	3	66	2	8	10	80	0.99
3982745--3982959	18	12.2	17	75	10	164	46	10	13	29	1.77
3982745--3982959	35	6.1	35	75	7	148	46	10	13	29	1.77
3982748--3982934	53	3.6	52	76	10	184	45	11	14	27	1.80
3983543--3983576	7	4.7	7	88	3	50	0	14	2	82	0.79
3983725--3983760	18	1.9	19	88	5	56	2	19	16	61	1.47
3983857--3983919	8	7.9	8	82	7	65	3	15	0	80	0.83
3983883--3983919	4	9.5	4	83	16	51	0	21	0	78	0.75
3983870--3983912	14	3.1	14	87	9	54	0	18	0	81	0.69
3983847--3983925	23	3.5	22	80	17	92	2	17	0	79	0.84
3984182--3984225	22	2.0	22	82	8	54	4	11	18	65	1.40
3984458--3984643	30	6.2	29	73	10	119	39	5	23	31	1.77
3984820--3985493	79	8.7	76	83	9	581	35	20	16	27	1.94
3986432--3986469	19	2.0	20	89	5	60	2	18	15	63	1.43
3986567--3986606	9	4.2	9	93	6	62	10	2	0	87	0.63
3986604--3986656	4	12.5	4	80	11	61	0	22	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3986601--3986656	13	4.7	13	79	18	68	0	21	0	78	0.75
3986571--3986655	22	4.0	21	80	11	84	3	15	0	81	0.83
3986593--3986655	22	3.0	21	90	4	99	1	19	0	79	0.82
3987189--3987347	30	5.4	29	75	8	119	37	6	25	29	1.82
3987223--3987347	59	2.1	60	82	7	148	38	5	24	31	1.79
3987653--3987733	26	3.3	24	75	16	69	55	2	3	38	1.31
3987653--3987720	25	2.8	23	75	20	66	55	1	4	38	1.29
3989595--3989624	10	3.1	10	95	4	53	50	0	0	50	1.00
3989656--3989694	21	1.9	20	94	5	69	66	0	0	33	0.92
3989659--3989776	19	6.2	18	73	16	80	60	1	6	31	1.33

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