genome.fa.s24.2.7.7.80.10.50.1000.12.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   

This is table  12  of  240  ( 28759 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)
4444816--4444860	20	2.1	22	84	8	58	55	0	6	37	1.26
4444975--4445074	28	3.7	28	76	15	79	35	2	3	60	1.24
4445013--4445074	25	2.4	27	80	17	69	32	3	1	62	1.20
4460287--4460552	103	2.6	104	89	3	410	19	20	29	30	1.97
4468247--4468392	37	4.0	37	92	1	233	24	22	15	36	1.93
4468356--4468624	46	5.6	46	84	10	331	28	21	14	35	1.93
4468399--4468610	52	4.2	52	85	7	292	28	22	13	35	1.92
4468356--4468624	98	2.7	98	92	0	448	28	21	14	35	1.93
4470773--4471038	103	2.6	104	89	3	410	19	20	29	30	1.97
4472507--4472564	30	1.9	30	86	6	82	41	6	24	27	1.80
4472901--4473193	50	5.8	50	86	2	408	25	23	30	20	1.99
4476825--4476855	3	10.0	3	93	6	53	35	0	0	64	0.94
4479836--4479876	21	2.0	21	90	0	64	29	21	29	19	1.98
4489488--4489745	127	2.0	126	99	0	507	30	19	21	29	1.97
4495930--4495973	19	2.2	20	84	4	54	52	0	4	43	1.22
4499449--4500785	668	2.0	668	99	0	2665	36	20	10	32	1.86
4505793--4505843	23	2.3	23	83	10	61	64	0	3	31	1.11
4508433--4508494	31	2.0	31	90	0	97	46	9	8	35	1.66
4512330--4512354	2	12.5	2	100	0	50	52	48	0	0	1.00
4516041--4516306	103	2.6	104	90	3	419	19	20	29	29	1.97
4523527--4523792	103	2.6	104	89	3	401	20	20	29	30	1.97
4529237--4529286	14	3.3	15	80	8	66	72	2	0	26	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4529233--4529290	16	3.8	16	81	9	75	68	1	0	29	0.99
4531414--4531461	24	1.9	26	83	8	64	56	12	4	27	1.54
4534750--4534799	22	2.2	23	89	3	75	50	2	2	46	1.24
4534773--4534814	16	2.6	16	96	0	75	47	2	4	45	1.36
4534867--4534947	18	4.5	19	65	22	66	39	1	9	49	1.44
4534867--4535044	35	4.8	36	68	15	112	40	5	8	45	1.58
4534809--4535046	112	2.1	110	92	1	404	41	7	7	44	1.59
4534852--4535026	56	3.1	56	69	15	171	40	5	9	45	1.60
4535044--4535078	6	5.8	6	100	0	70	17	0	48	34	1.47
4535058--4535196	53	2.5	54	83	6	181	18	1	34	45	1.59
4535158--4535229	33	2.2	33	94	0	126	19	1	36	43	1.60
4535105--4535484	86	4.1	87	79	17	413	19	1	34	44	1.58
4535176--4535320	27	5.6	27	72	18	128	19	0	37	42	1.56
4535215--4535289	22	3.6	21	80	15	84	17	1	37	44	1.57
4535167--4535494	102	3.3	102	85	5	465	19	0	35	44	1.57
4535348--4535410	14	4.1	14	70	18	54	30	0	25	44	1.54
4535460--4535494	12	2.9	12	91	0	52	11	0	40	48	1.39
4535501--4535540	7	5.9	7	83	16	57	52	0	0	47	1.00
4535498--4535540	12	3.3	12	78	15	50	53	0	0	46	1.00
4537793--4537819	12	2.2	12	100	0	54	51	7	0	40	1.30
4538304--4538481	27	6.6	27	83	3	196	26	14	28	30	1.95
4538309--4538460	82	1.9	81	87	4	225	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4538301--4538481	82	2.2	81	82	2	220	27	14	27	30	1.95
4545898--4545924	12	2.2	12	100	0	54	51	7	0	40	1.30
4546405--4546582	27	6.6	27	83	3	205	26	15	28	29	1.96
4546406--4546561	82	1.9	81	88	3	233	26	15	28	29	1.96
4546402--4546582	82	2.2	81	83	2	229	27	15	27	29	1.96
4549649--4549688	16	2.5	16	84	8	55	32	25	5	37	1.77
4576001--4576151	79	1.9	76	86	4	212	29	21	17	31	1.96
4578288--4578336	21	2.3	22	85	3	64	2	24	4	69	1.17
4578287--4578341	27	2.1	26	83	10	67	1	25	5	67	1.22
4579495--4579535	18	2.3	18	87	4	57	60	21	4	12	1.50
4582307--4582917	88	7.1	88	83	5	734	28	22	24	24	1.99
4582578--4582715	44	3.1	44	63	15	104	23	24	25	26	2.00
4582324--4582917	261	2.3	256	87	2	843	27	22	24	24	2.00
4582324--4582917	173	3.5	172	82	7	756	27	22	24	24	2.00
4583098--4583212	44	2.6	44	77	2	133	28	24	24	22	1.99
4586496--4586572	29	2.6	30	83	8	86	51	3	2	41	1.34
4586905--4586954	19	2.7	18	81	9	55	70	6	0	24	1.10
4586896--4586963	28	2.4	28	85	7	84	63	4	1	30	1.23
4587410--4587437	8	3.5	8	100	0	56	10	0	0	89	0.49
4587875--4587914	19	2.2	20	83	16	52	27	0	2	70	1.01
4595837--4595927	39	2.3	40	78	17	102	49	7	6	36	1.58
4597564--4598578	132	7.7	132	95	0	1755	29	26	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597564--4598578	395	2.6	396	95	0	1775	29	26	16	27	1.97
4621460--4621550	39	2.3	40	78	17	102	49	7	6	36	1.58
4623182--4623698	44	11.7	43	75	9	434	29	26	16	28	1.97
4623182--4623703	132	4.0	132	94	0	846	29	26	16	27	1.97
4623750--4623833	43	2.0	42	95	2	150	16	4	17	60	1.52
4629591--4629619	13	2.1	14	93	6	51	27	0	0	72	0.85
4630216--4630256	18	2.3	18	91	0	64	51	12	26	9	1.70
4631702--4631806	42	2.5	42	87	0	147	16	24	17	41	1.89
4634234--4634264	9	3.4	9	90	0	53	25	12	22	38	1.90
4634382--4634422	21	2.0	21	85	9	57	24	34	0	41	1.55
4636988--4637022	11	3.1	12	88	12	56	48	0	51	0	1.00
4643828--4643920	18	5.2	18	88	0	132	29	24	15	31	1.95
4643834--4643920	36	2.4	36	94	0	156	29	24	13	32	1.94
4650144--4650447	152	2.0	152	100	0	608	29	20	13	36	1.91
4665667--4665759	18	5.2	18	88	0	141	32	16	22	29	1.95
4671619--4671654	16	2.2	16	90	0	54	41	0	11	47	1.39
4672202--4672264	28	2.2	28	86	8	83	39	1	0	58	1.07
4675299--4675511	103	2.1	103	89	0	318	26	7	5	61	1.44
4676534--4676571	13	2.9	13	92	0	67	23	10	26	39	1.87
4682110--4682166	4	14.0	4	78	10	53	66	1	7	24	1.26
4683415--4683449	18	1.9	18	94	0	61	11	5	20	62	1.48
4684152--4684220	26	2.6	26	88	2	102	52	10	13	24	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693651--4693683	17	1.9	17	88	11	50	39	0	0	60	0.97
4700936--4700966	14	2.2	14	100	0	62	29	29	0	41	1.56
4701242--4701349	25	4.3	25	85	0	117	38	20	21	19	1.93
4702204--4702261	27	2.2	26	85	14	75	0	31	6	62	1.22
4704662--4704712	20	2.5	20	78	15	68	43	0	1	54	1.11
4704662--4704714	19	2.6	20	80	19	65	43	0	1	54	1.11
4704914--4705021	15	7.2	15	68	12	78	44	7	21	26	1.78
4704908--4705031	30	4.1	30	92	1	194	43	6	23	26	1.78
4709606--4709683	15	5.2	15	67	11	61	44	7	21	25	1.79
4709602--4709683	30	2.7	30	94	0	137	46	7	21	24	1.77
4710633--4710670	20	1.9	20	84	10	51	42	0	0	57	0.98
4715292--4715316	6	4.2	6	100	0	50	32	0	68	0	0.90
4717767--4717794	7	4.0	7	100	0	56	28	28	14	28	1.95
4729116--4729169	6	8.8	6	87	4	81	64	0	20	14	1.28
4729111--4729195	12	6.8	12	75	15	55	72	1	15	10	1.16
4729692--4729742	27	1.9	27	84	11	70	80	1	9	7	0.98
4746199--4746239	21	2.0	21	90	0	64	19	29	21	29	1.98
4748081--4748117	14	2.6	14	91	0	56	37	16	0	45	1.47
4749308--4749341	13	2.6	13	95	0	59	32	0	5	61	1.20
4764040--4764119	28	2.8	29	83	7	101	22	20	11	46	1.82
4768012--4768063	24	2.2	24	89	0	77	55	9	1	32	1.43
4769982--4770033	24	2.2	24	89	0	77	55	9	1	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4770384--4770447	3	21.3	3	100	0	128	32	0	0	67	0.91
4781755--4781781	13	2.1	13	100	0	54	25	29	14	29	1.95
4782512--4782541	14	2.1	14	100	0	60	60	13	20	6	1.55
4783220--4783268	25	1.9	26	83	4	64	69	0	8	22	1.14
4787970--4788219	52	4.9	52	87	5	359	34	14	22	28	1.93
4787962--4788231	98	2.7	98	89	5	389	35	14	23	27	1.93
4788074--4788231	46	3.3	46	80	11	183	37	12	21	28	1.90
4788196--4788303	37	3.0	37	87	2	166	38	14	21	25	1.91
4794081--4794169	29	2.9	30	76	14	76	38	4	4	52	1.42
4797850--4797928	33	2.6	29	73	24	74	36	40	5	17	1.72

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240