genome.fa.s25.2.7.7.80.10.50.1000.16.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  16  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)
4540944--4541006	20	3.3	18	76	10	54	47	9	1	41	1.45
4540944--4540992	20	2.5	19	77	9	55	51	10	0	38	1.36
4541159--4541204	21	2.2	21	84	7	58	52	8	0	39	1.33
4540929--4541412	147	3.3	146	86	6	624	45	9	4	40	1.57
4542673--4542700	13	2.2	13	100	0	56	71	0	14	14	1.15
4543824--4543886	24	2.6	25	75	10	67	25	22	14	38	1.92
4550007--4550049	20	2.2	20	83	8	52	4	16	2	76	1.05
4550014--4550054	19	2.2	19	86	8	57	0	14	2	82	0.76
4550018--4550055	15	2.5	15	87	8	51	0	13	2	84	0.73
4554380--4554444	26	2.6	24	80	4	67	41	9	18	30	1.82
4554649--4554694	23	2.0	23	86	0	65	41	0	0	58	0.98
4554672--4554744	20	3.9	19	83	16	91	34	0	5	60	1.20
4554911--4554940	14	2.1	14	93	0	51	43	13	6	36	1.70
4561633--4561701	34	2.0	34	85	0	93	23	15	8	52	1.71
4566466--4566524	25	2.4	24	91	5	100	8	42	23	25	1.82
4570606--4570644	3	13.0	3	100	0	78	33	0	0	66	0.92
4582983--4583054	32	2.3	31	81	15	78	5	13	5	75	1.17
4583435--4583474	17	2.5	16	84	11	55	30	2	0	67	1.04
4592530--4592565	19	1.9	18	88	5	54	11	33	5	50	1.61
4595497--4595592	47	2.0	47	100	0	192	23	19	18	37	1.94
4609761--4609789	2	14.5	2	100	0	58	0	48	0	51	1.00
4618223--4618277	19	2.7	21	83	11	87	36	10	10	41	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4618214--4618265	21	2.5	20	79	20	61	34	15	7	42	1.75
4620226--4620260	6	5.8	6	100	0	70	0	17	0	82	0.66
4624471--4625046	287	2.0	287	90	1	913	25	13	27	33	1.93
4628667--4628715	25	2.0	24	84	8	62	20	2	2	75	1.00
4629289--4629352	29	2.1	29	85	5	83	42	14	10	32	1.80
4629826--4629982	84	1.9	83	86	3	219	49	7	7	35	1.60
4630388--4630426	18	2.2	18	85	0	51	38	0	5	56	1.22
4630406--4630460	27	2.1	26	86	3	74	40	0	5	54	1.23
4635666--4635708	21	2.0	21	86	8	61	44	0	34	20	1.52
4635744--4635780	9	4.1	9	92	0	65	29	10	13	45	1.77
4635834--4635875	9	4.7	9	90	0	66	35	21	11	30	1.90
4636662--4636687	13	2.0	13	100	0	52	7	38	15	38	1.76
4642531--4642576	21	2.2	21	84	7	58	17	28	17	36	1.92
4664520--4664562	21	2.0	23	86	9	63	30	18	11	39	1.86
4665898--4665982	28	3.2	26	75	17	84	20	8	3	68	1.31
4665930--4665978	22	2.2	23	78	7	57	22	6	2	69	1.21
4666537--4666570	18	1.9	18	88	5	52	8	8	2	79	1.03
4672869--4672893	5	5.0	5	100	0	50	0	20	40	40	1.52
4675536--4675590	12	4.6	12	76	13	51	12	21	0	65	1.26
4678821--4678862	15	2.6	17	77	14	52	38	0	2	59	1.10
4678984--4679044	32	1.9	32	83	12	81	49	1	4	44	1.33
4679003--4679044	20	2.1	20	86	0	57	47	0	7	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680615--4680647	15	2.2	15	100	0	66	45	0	21	33	1.52
4681125--4681158	15	2.2	16	89	5	52	41	2	11	44	1.56
4684911--4684981	26	2.8	26	76	2	81	36	21	22	19	1.95
4690107--4690168	21	3.0	21	70	13	56	46	19	20	12	1.83
4690111--4690265	42	3.7	41	82	6	177	42	18	20	18	1.89
4690191--4690262	21	3.4	21	69	7	74	40	19	20	19	1.92
4690233--4690302	21	3.4	21	78	7	63	42	15	17	24	1.88
4700385--4700435	26	1.9	26	88	4	75	62	3	0	33	1.13
4705639--4705673	3	11.7	3	93	0	61	62	0	2	34	1.10
4705639--4705678	12	3.4	12	93	3	64	62	0	5	32	1.17
4707223--4707272	22	2.3	22	82	6	57	34	26	0	40	1.56
4708088--4708129	20	2.1	20	90	0	66	50	23	21	4	1.68
4709419--4709472	21	2.4	23	79	17	60	51	7	1	38	1.41
4710469--4710569	43	2.4	42	76	1	103	18	18	20	41	1.90
4716118--4716160	18	2.5	17	82	10	52	13	6	6	72	1.27
4716269--4716797	110	4.9	109	90	2	796	31	15	18	34	1.92
4716269--4716797	219	2.4	218	89	3	816	31	15	18	34	1.92
4721250--4721287	3	13.3	3	83	10	53	71	0	28	0	0.87
4721226--4721295	6	12.8	5	81	15	52	74	1	24	0	0.90
4721374--4721476	43	2.4	42	79	7	109	33	14	26	26	1.95
4722610--4723950	100	13.4	100	87	2	1617	32	25	20	22	1.98
4722610--4723950	50	26.9	50	70	6	781	32	25	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4725634--4725704	28	2.6	28	78	17	69	22	5	5	66	1.35
4725697--4725735	18	2.2	18	90	4	62	12	5	7	74	1.20
4725843--4726372	110	4.9	109	89	3	789	30	15	19	35	1.92
4725843--4726372	219	2.4	219	90	3	809	30	15	19	35	1.92
4727675--4727951	138	2.0	138	90	0	437	45	6	7	40	1.56
4727927--4728079	75	2.0	77	88	3	229	30	13	7	48	1.71
4738679--4738818	26	5.5	25	68	20	85	42	0	1	55	1.14
4738692--4738747	15	4.0	15	73	17	57	44	0	0	55	0.99
4738740--4738798	18	3.4	17	88	9	84	40	1	1	55	1.20
4738955--4739051	45	2.2	45	85	5	126	32	28	4	34	1.76
4739031--4739095	16	4.1	16	93	0	103	21	33	4	40	1.74
4740324--4740436	10	11.7	9	71	17	68	61	4	2	31	1.30
4740386--4740437	18	2.8	18	75	13	52	59	5	0	34	1.21
4740377--4740436	19	3.2	18	76	11	50	61	3	0	35	1.12
4750734--4750768	18	2.0	17	88	5	52	45	0	0	54	0.99
4750740--4751028	44	7.1	43	64	20	131	43	0	5	50	1.29
4750711--4751028	120	2.7	120	98	0	609	43	0	5	50	1.31
4750793--4750980	61	3.1	61	70	14	208	42	1	6	50	1.36
4750854--4750888	18	2.0	17	88	5	52	45	0	0	54	0.99
4751770--4751811	12	3.6	12	77	6	50	23	14	21	40	1.90
4751753--4751832	23	3.4	23	84	5	99	31	11	17	40	1.85
4752821--4752867	17	2.6	17	86	6	58	29	4	2	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4758956--4758993	18	2.1	18	85	9	51	36	2	2	57	1.26
4763911--4763937	3	9.0	3	100	0	54	33	0	0	66	0.92
4764769--4764848	42	1.9	42	87	10	119	40	5	10	45	1.60
4772070--4772126	26	2.3	25	85	11	73	36	5	5	52	1.47
4773335--4773365	16	1.9	16	93	0	53	58	0	0	41	0.98
4773342--4773381	20	2.0	20	85	0	53	52	0	0	47	1.00
4774449--4774512	6	10.5	6	94	3	110	64	35	0	0	0.94
4778826--4778856	4	7.8	4	100	0	62	22	0	0	77	0.77
4794315--4794339	10	2.5	10	100	0	50	32	0	0	68	0.90
4794444--4794473	14	2.1	15	93	6	53	16	0	6	76	0.99
4796124--4796157	14	2.5	14	95	4	61	14	0	35	50	1.44
4799000--4799043	20	2.2	20	88	12	63	31	0	2	65	1.05
4799000--4799042	18	2.3	19	88	8	61	30	0	2	67	1.03
4800223--4800269	19	2.4	19	82	3	58	40	4	14	40	1.66
4800266--4800317	20	2.6	20	75	0	59	36	5	5	51	1.50
4800241--4800317	40	1.9	39	85	12	104	37	3	7	50	1.50
4800317--4800354	20	1.9	20	88	0	58	34	5	13	47	1.65
4803605--4803664	26	2.3	26	81	18	72	28	0	3	68	1.05
4804270--4804343	24	3.2	22	75	9	76	36	2	4	56	1.32
4806038--4806087	25	2.0	25	92	7	84	48	16	18	18	1.82
4813031--4813121	39	2.3	38	75	14	94	51	4	9	34	1.55
4813558--4813616	29	2.0	30	83	3	75	30	5	11	52	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4823835--4823930	40	2.4	39	79	6	104	26	27	25	21	2.00
4825771--4825841	30	2.4	30	80	0	79	32	45	15	7	1.73
4826316--4826530	100	2.2	100	95	1	387	38	2	7	51	1.46
4828919--4829206	126	2.3	126	85	2	391	29	20	15	34	1.94
4829237--4829317	43	2.0	40	82	7	99	40	18	0	40	1.51
4829338--4829413	37	2.0	39	87	10	113	36	19	0	43	1.52
4829245--4829666	98	4.3	95	85	5	542	39	17	1	41	1.58
4860590--4860632	16	2.8	16	92	3	70	41	0	16	41	1.48
4860750--4860784	18	2.0	17	88	5	52	45	0	0	54	0.99
4860610--4861044	120	3.6	120	98	0	836	44	0	5	49	1.32

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