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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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  13  of  199  ( 23844 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)
4227179--4227230	15	3.6	15	80	12	56	53	1	0	44	1.11
4226823--4227355	120	4.4	120	95	1	921	48	5	3	42	1.40
4227396--4227443	26	1.9	25	84	16	64	52	2	0	45	1.12
4227351--4227579	92	2.5	92	83	8	236	47	3	3	44	1.38
4237899--4237931	17	2.0	17	94	5	59	42	6	0	51	1.26
4237901--4237943	17	2.5	17	81	11	52	44	11	0	44	1.40
4239046--4239073	11	2.5	11	100	0	56	42	0	10	46	1.38
4239291--4239513	111	2.0	111	92	0	374	34	12	10	42	1.78
4245223--4245293	3	23.3	3	74	8	63	30	2	4	61	1.29
4245235--4245296	23	2.8	22	85	4	72	32	3	6	58	1.40
4245259--4245304	23	2.0	23	82	0	56	30	4	10	54	1.55
4245323--4245366	22	2.0	22	82	8	54	27	4	2	65	1.23
4264178--4264536	120	3.0	120	97	0	675	26	12	18	43	1.85
4266392--4266429	20	2.0	20	89	5	60	21	7	0	71	1.11
4266401--4266443	10	4.4	9	85	11	50	18	6	2	72	1.19
4272205--4272241	16	2.4	15	86	8	56	0	16	8	75	1.02
4278924--4278959	3	12.0	3	100	0	72	66	0	0	33	0.92
4279084--4279134	3	17.3	3	75	4	50	60	3	1	33	1.26
4280744--4281365	44	14.1	44	73	10	425	28	24	17	29	1.97
4280744--4281367	88	7.1	88	75	5	501	28	24	17	29	1.97
4280744--4281367	132	4.7	132	94	0	1052	28	24	17	29	1.97
4300030--4300063	17	2.1	16	88	5	50	58	2	0	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4300030--4300063	8	4.1	8	88	7	50	58	2	0	38	1.13
4300075--4300113	3	13.0	3	100	0	78	66	0	0	33	0.92
4300238--4300288	3	17.3	3	75	4	50	60	3	1	33	1.26
4308079--4308127	24	2.0	24	84	0	62	63	6	2	28	1.30
4308077--4308127	13	4.1	13	75	10	52	60	7	1	29	1.36
4308130--4308184	20	2.8	19	81	13	58	61	1	1	34	1.17
4308411--4308453	14	2.9	15	86	6	52	34	0	4	60	1.17
4308863--4308899	9	4.1	9	89	0	56	45	10	10	32	1.74
4309118--4309177	30	2.0	31	86	3	86	20	40	0	40	1.52
4315650--4315745	31	3.1	28	76	15	84	57	1	4	37	1.25
4315707--4315747	21	2.1	18	86	13	55	53	0	4	41	1.22
4316135--4316186	19	2.7	19	81	0	59	34	3	1	59	1.27
4316864--4316941	19	4.1	19	76	3	84	33	6	20	39	1.78
4319818--4319851	9	3.9	9	88	3	52	47	5	2	44	1.42
4321312--4321364	13	4.1	13	72	0	52	35	7	20	35	1.81
4323111--4323292	94	1.9	94	86	6	258	45	10	4	39	1.60
4329586--4329624	19	2.0	20	90	9	64	23	7	0	69	1.14
4329731--4329775	19	2.3	20	81	11	58	31	0	4	64	1.13
4329741--4329782	19	2.3	19	84	12	52	35	0	9	54	1.33
4333861--4333957	21	4.3	22	71	14	63	52	2	2	43	1.24
4341259--4341305	17	2.5	20	87	12	66	53	4	4	38	1.40
4342201--4342268	27	2.4	28	78	4	75	32	1	1	64	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344454--4344502	20	2.5	20	83	3	64	24	14	6	55	1.62
4346423--4346572	3	50.0	3	70	6	81	28	8	3	60	1.41
4346495--4346556	25	2.5	25	84	7	74	29	6	0	64	1.18
4346540--4346583	18	2.6	18	85	7	56	25	6	4	63	1.38
4346706--4346759	24	2.3	23	87	9	74	16	7	3	72	1.22
4351147--4351182	17	2.2	16	90	5	54	0	25	0	75	0.81
4351267--4351331	16	3.9	16	78	6	67	0	30	0	69	0.89
4351270--4351342	9	8.2	9	70	19	55	0	30	0	69	0.88
4351279--4351334	28	2.0	28	89	0	85	0	26	0	73	0.84
4351859--4351980	31	4.1	31	82	7	153	39	1	25	33	1.66
4351859--4351994	59	2.3	60	87	7	197	40	2	23	33	1.70
4351862--4351994	29	4.5	28	75	16	108	40	3	22	33	1.69
4361508--4361560	27	2.0	27	100	0	106	30	0	16	52	1.44
4363796--4363853	28	2.0	29	96	3	109	34	17	31	17	1.93
4367545--4367571	5	5.4	5	100	0	54	18	0	0	81	0.69
4372207--4372251	25	1.9	23	82	13	56	31	6	4	57	1.44
4373077--4373140	27	2.4	28	84	10	89	50	0	3	46	1.17
4378372--4378420	26	2.0	26	84	8	66	30	10	14	44	1.78
4379325--4379367	22	1.9	23	85	4	61	48	4	0	46	1.22
4390587--4390699	4	27.8	4	71	16	63	23	10	0	66	1.22
4409994--4410061	30	2.3	31	85	10	88	47	14	8	29	1.75
4410877--4410949	23	3.2	23	92	0	119	43	23	8	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4421388--4421434	17	2.6	18	80	12	53	42	4	0	53	1.20
4421378--4421449	18	4.1	18	77	10	58	45	6	1	45	1.38
4424733--4424826	28	3.4	28	87	0	134	34	10	23	31	1.89
4426010--4426194	46	4.0	46	91	4	302	29	25	9	35	1.87
4428032--4428648	113	5.6	111	84	10	806	43	15	16	24	1.86
4428025--4428648	220	2.9	214	85	6	834	44	15	16	23	1.86
4428645--4428955	115	2.8	115	90	5	512	25	15	14	45	1.83
4428882--4429028	73	2.0	74	97	1	278	26	12	12	48	1.75
4428769--4429118	188	1.8	191	91	3	580	26	15	13	44	1.83
4442516--4442550	17	2.1	17	88	0	52	45	0	2	51	1.16
4442898--4442941	20	2.2	20	83	4	52	68	4	2	25	1.20
4443346--4443379	15	2.3	15	89	0	50	44	2	14	38	1.61
4443790--4443845	20	2.7	21	86	8	71	26	0	3	69	1.04
4443789--4443845	11	5.5	10	82	14	53	26	0	3	70	1.03
4443807--4443847	10	4.0	10	85	14	57	36	0	2	60	1.10
4447569--4447593	3	8.3	3	100	0	50	36	0	32	32	1.58
4449041--4449083	22	1.9	23	85	4	61	46	2	2	48	1.27
4450296--4450323	13	2.2	13	100	0	56	35	0	0	64	0.94
4455563--4455613	22	2.3	22	79	0	57	21	9	5	62	1.47
4461856--4461881	4	6.5	4	100	0	52	26	0	23	50	1.50
4467069--4467320	46	5.2	45	71	22	158	34	15	21	28	1.94
4467135--4467333	46	4.2	46	87	7	272	36	14	20	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4467069--4467320	98	2.6	98	94	0	441	34	15	21	28	1.94
4470932--4470991	30	2.0	29	83	3	75	41	6	5	46	1.52
4512112--4512363	46	5.2	45	71	22	158	34	15	21	28	1.94
4512178--4512376	46	4.2	46	87	7	272	36	14	20	28	1.92
4512112--4512363	98	2.6	98	94	0	441	34	15	21	28	1.94
4515391--4515520	65	2.0	65	98	0	251	36	4	6	53	1.47
4546083--4546125	19	2.3	19	87	0	59	44	0	0	55	0.99
4555558--4555607	22	2.3	22	86	3	66	8	8	18	66	1.42
4562722--4562754	16	2.1	16	88	5	50	30	0	0	69	0.88
4567742--4567779	20	1.9	20	89	10	60	71	0	2	26	1.00
4573157--4573205	19	2.5	19	86	3	62	38	36	6	18	1.76
4574450--4574499	20	2.5	20	81	18	61	22	6	2	70	1.20
4574623--4574656	15	2.3	15	90	10	52	23	0	5	70	1.09
4574877--4575319	109	4.1	108	87	2	606	32	16	16	34	1.91
4576511--4576554	22	2.0	22	83	12	56	9	4	38	47	1.56
4580643--4580708	11	6.0	11	76	0	60	65	16	3	15	1.40
4582738--4583689	474	2.0	474	99	0	1886	32	17	12	38	1.86
4599164--4599197	18	1.9	18	88	5	52	29	0	5	64	1.17
4599776--4599820	16	2.8	16	81	18	58	55	0	0	44	0.99
4604197--4604225	3	9.7	3	100	0	58	65	0	34	0	0.93
4604679--4604711	17	2.0	16	94	5	57	33	6	0	60	1.21
4606015--4606067	24	2.2	24	93	0	88	37	5	9	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4606015--4606078	24	2.7	24	87	4	76	35	6	10	46	1.64
4610469--4610520	24	2.2	24	85	0	68	38	3	7	50	1.50
4618407--4618470	8	7.8	8	78	15	60	75	10	1	12	1.13
4618405--4618472	33	2.2	30	87	10	93	76	10	1	11	1.09
4618406--4618477	9	8.3	9	77	13	64	75	11	1	12	1.12
4618424--4618462	12	3.2	12	85	0	60	79	10	0	10	0.94
4618403--4618475	31	2.4	29	81	16	87	72	12	1	13	1.19
4619322--4619378	7	7.7	7	78	9	51	77	0	14	8	0.99
4619321--4619378	8	7.6	8	81	14	61	77	0	13	8	0.98
4619322--4619387	22	3.0	22	77	16	66	74	0	15	10	1.07

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