genome.fa.s7.2.7.7.80.10.50.1000.11.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_A07
Parameters: 2 7 7 80 10 50 1000
Length:  92880876

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  11  of  290  ( 34756 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)
3924614--3924657	21	2.1	21	83	8	54	34	6	0	59	1.24
3928976--3929006	16	1.9	16	93	0	53	48	0	0	51	1.00
3938991--3939030	18	2.2	18	100	0	80	52	15	7	25	1.68
3941048--3941078	15	2.1	15	94	5	55	70	0	0	29	0.87
3946152--3946176	6	4.2	6	100	0	50	0	0	16	84	0.63
3951162--3951186	13	1.9	13	100	0	50	12	32	32	24	1.91
3951174--3951213	18	2.2	18	86	8	55	20	45	22	12	1.84
3969723--3969752	4	7.8	4	92	7	53	76	0	0	23	0.78
3977603--3977706	52	2.0	52	98	0	199	38	8	15	37	1.78
3977667--3977725	31	1.9	31	89	0	91	38	11	13	35	1.82
3981407--3981431	10	2.5	10	100	0	50	72	0	0	28	0.86
3982608--3982658	25	2.0	24	82	14	59	49	0	7	43	1.32
3985828--3986070	133	1.8	133	81	1	308	23	19	23	33	1.97
3991456--3991694	78	3.1	78	95	0	433	39	23	20	16	1.92
3991480--3991686	42	5.2	42	61	13	123	40	25	18	15	1.90
4002888--4002920	16	2.1	16	100	0	66	36	30	18	15	1.91
4002813--4003005	105	1.9	103	97	2	368	38	19	19	22	1.93
4006592--4006643	24	2.3	22	79	20	63	67	3	5	23	1.29
4006602--4006678	24	3.1	25	81	9	77	63	3	6	25	1.36
4006719--4006959	27	9.1	27	69	14	137	57	2	8	31	1.43
4006844--4006967	26	4.7	26	75	15	101	57	1	8	33	1.38
4007460--4007774	132	2.4	128	84	3	391	36	18	18	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4008745--4008812	30	2.2	30	79	7	75	58	4	11	25	1.51
4008840--4008902	31	2.0	31	84	6	83	58	4	3	33	1.35
4012857--4012881	13	1.9	13	100	0	50	32	0	0	68	0.90
4017269--4017296	10	2.8	10	100	0	56	50	7	0	42	1.30
4017737--4017768	7	4.6	7	100	0	64	31	0	0	68	0.90
4017737--4017777	21	2.0	21	85	0	55	34	0	2	63	1.08
4022572--4022662	45	2.0	44	82	2	110	29	5	28	36	1.80
4022827--4022861	18	2.0	17	88	5	52	54	0	0	45	0.99
4022714--4023030	157	2.0	157	95	0	562	44	2	4	47	1.38
4022964--4023005	15	2.7	16	82	14	52	52	2	0	45	1.13
4022973--4023014	15	2.9	15	82	10	52	52	0	0	47	1.00
4026502--4026526	9	2.8	9	100	0	50	88	0	0	12	0.53
4029126--4029157	15	2.0	17	88	11	50	59	6	6	28	1.46
4032215--4032288	30	2.5	30	97	0	139	29	28	2	39	1.71
4032216--4032291	9	7.8	9	72	16	62	32	26	2	38	1.70
4032232--4032297	18	4.0	18	75	22	81	33	25	4	36	1.77
4032459--4032527	25	2.8	24	80	12	68	30	0	2	66	1.06
4034043--4034085	18	2.4	18	88	0	59	20	25	9	44	1.81
4035104--4035176	27	2.7	27	82	4	85	61	6	4	27	1.40
4035288--4035325	20	1.9	20	88	0	58	65	5	0	28	1.14
4035294--4035468	24	7.4	23	64	16	63	56	5	6	31	1.48
4036339--4036363	5	5.0	5	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4037757--4037804	24	2.0	23	84	15	62	39	0	4	56	1.19
4040420--4040784	127	2.9	126	87	2	536	28	16	16	37	1.91
4040838--4040964	34	3.6	34	78	7	130	46	11	1	40	1.50
4041058--4041113	15	3.7	15	90	0	85	58	32	0	8	1.29
4041002--4041080	42	1.9	42	89	2	124	50	24	1	24	1.57
4044075--4044110	2	18.0	2	100	0	72	50	0	0	50	1.00
4055153--4055212	17	3.5	17	75	11	52	53	1	3	41	1.27
4055246--4055333	37	2.4	37	86	5	115	65	3	4	26	1.27
4055265--4055338	10	7.7	10	71	8	55	64	1	6	27	1.26
4055921--4055980	30	1.9	30	83	10	75	21	0	6	71	1.08
4055921--4055975	23	2.2	26	75	21	64	23	0	7	69	1.14
4060803--4060902	46	2.1	46	85	12	130	52	3	2	43	1.28
4065077--4065140	19	3.2	20	76	13	51	56	7	3	32	1.44
4065204--4065265	24	2.5	24	71	26	58	58	4	3	33	1.36
4065460--4065539	3	26.3	3	72	20	53	63	1	3	31	1.20
4065458--4065540	12	6.6	12	74	16	62	63	1	3	31	1.19
4066657--4067412	43	17.6	42	65	12	274	20	22	21	36	1.96
4066869--4067455	43	13.6	44	69	6	335	20	23	22	34	1.97
4066607--4067468	87	10.0	86	83	5	1041	20	22	21	35	1.96
4066617--4067468	173	5.0	173	85	5	1122	20	22	21	35	1.96
4082117--4082170	15	3.7	13	77	22	54	3	12	1	81	0.91
4082117--4082171	22	2.5	22	85	8	67	3	14	1	80	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087905--4087945	19	2.1	20	90	4	66	43	0	0	56	0.99
4088703--4088747	17	2.4	19	82	10	58	33	0	2	64	1.06
4088703--4088754	20	2.6	21	75	9	54	36	0	3	59	1.16
4088930--4088980	22	2.4	21	81	15	68	66	3	3	25	1.26
4089946--4089993	20	2.4	20	80	13	55	50	2	0	47	1.12
4091372--4091410	18	2.2	18	100	0	78	61	0	15	23	1.33
4094380--4094428	4	12.2	4	82	0	62	53	18	0	28	1.45
4094380--4094428	16	3.1	16	87	0	71	53	18	0	28	1.45
4094937--4095030	23	4.1	23	85	0	134	47	4	25	22	1.69
4099439--4099532	23	4.1	23	85	0	134	47	4	25	22	1.69
4100170--4100221	15	3.2	15	73	26	52	65	0	0	34	0.93
4100170--4100221	18	3.2	16	75	21	54	65	0	0	34	0.93
4109658--4109790	19	6.8	18	65	18	54	39	0	3	57	1.17
4109639--4109790	39	3.9	36	72	18	108	37	0	3	58	1.17
4109743--4109954	9	21.8	9	64	24	51	33	1	3	60	1.24
4109746--4109916	28	5.8	27	68	25	73	33	1	4	60	1.26
4109704--4109877	92	1.9	92	82	7	219	35	1	4	58	1.26
4109869--4109952	27	3.1	27	73	14	66	33	2	2	61	1.21
4115911--4115973	26	2.4	25	84	7	81	39	1	3	55	1.25
4118700--4118917	107	2.0	107	99	0	427	34	14	14	36	1.87
4128446--4128503	13	4.3	14	74	18	52	53	0	3	43	1.17
4134442--4134473	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138999--4139068	22	3.2	22	83	2	79	65	11	15	7	1.45
4139033--4139083	21	2.4	22	80	3	59	66	7	13	11	1.43
4142583--4142640	30	1.9	31	85	3	82	51	6	10	31	1.62
4149640--4149683	13	3.5	13	90	3	72	47	0	6	45	1.29
4162323--4162474	37	3.9	37	81	13	173	26	21	15	36	1.94
4162391--4162757	46	7.6	46	87	7	446	28	22	14	34	1.93
4162434--4162751	52	6.3	52	86	7	426	28	22	13	34	1.93
4162391--4162743	196	1.8	196	92	0	607	28	22	14	34	1.93
4162391--4162757	98	3.7	97	85	9	501	28	22	14	34	1.93
4165620--4165665	19	2.4	19	85	0	65	65	2	4	28	1.23
4167403--4167633	42	5.6	42	70	13	147	27	21	21	29	1.98
4167358--4167554	83	2.4	82	77	6	200	27	23	21	27	1.99
4167391--4167546	84	1.9	84	85	5	217	26	23	21	28	1.99
4167527--4167675	44	3.5	44	72	18	154	28	18	20	31	1.97
4167487--4167678	83	2.3	84	90	7	293	27	20	20	31	1.98
4168851--4168875	1	25.0	1	100	0	50	0	0	0	100	0.00
4188530--4188572	21	2.1	20	86	4	59	34	2	0	62	1.08
4188773--4188798	2	13.0	2	100	0	52	50	0	0	50	1.00
4189132--4189172	19	2.2	19	86	8	57	26	2	4	65	1.25
4189126--4189183	22	2.7	22	74	17	59	25	1	5	67	1.21
4189645--4189687	19	2.4	18	81	11	52	41	0	32	25	1.56
4193181--4193384	52	4.0	52	81	8	233	29	30	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4197537--4197569	15	2.2	15	94	0	57	51	15	15	18	1.77
4198348--4198414	34	1.9	35	87	3	100	44	14	8	31	1.76
4199506--4199544	15	2.7	15	92	4	62	33	12	2	51	1.54
4209877--4209969	46	2.0	46	97	0	177	46	5	8	39	1.57
4219297--4219339	21	2.0	21	95	0	77	34	9	23	32	1.87
4220777--4220821	16	2.6	17	86	10	65	37	0	0	62	0.96
4220777--4220817	21	1.9	22	90	5	66	41	0	0	58	0.98
4220930--4220977	23	2.1	23	92	0	78	33	14	6	45	1.70
4225096--4225139	23	1.9	23	81	9	54	52	2	11	34	1.50
4228260--4228306	24	2.0	23	84	12	60	34	0	4	61	1.15

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290