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: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

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   

This is table  12  of  226  ( 27070 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)
4214639--4214663	8	3.1	8	100	0	50	24	0	0	76	0.80
4221108--4221170	30	2.1	31	84	3	83	49	11	1	38	1.48
4221400--4221438	17	2.4	16	86	4	51	38	2	5	53	1.37
4253125--4253173	10	5.2	10	78	11	50	67	0	4	28	1.09
4253133--4253210	18	4.3	18	71	7	52	69	0	6	24	1.12
4253125--4253189	28	2.2	28	83	5	76	67	0	6	26	1.13
4253247--4253291	20	2.1	22	84	8	58	55	0	6	37	1.26
4253407--4253505	27	3.7	27	75	12	73	35	2	3	59	1.24
4253436--4253505	8	8.2	8	71	16	52	34	2	1	61	1.20
4255130--4255171	19	2.1	20	86	8	59	40	9	7	42	1.65
4262381--4262408	13	2.2	13	100	0	56	71	0	21	7	1.09
4262642--4262934	50	5.8	50	87	0	415	25	23	30	20	1.99
4273843--4274100	127	2.0	126	99	0	507	30	19	21	29	1.97
4285027--4285070	19	2.2	20	84	4	54	52	0	4	43	1.22
4296833--4296894	31	2.0	31	87	0	88	45	9	9	35	1.70
4300723--4300757	2	17.5	2	100	0	70	51	48	0	0	1.00
4307461--4307510	14	3.3	15	80	8	66	72	2	0	26	0.96
4307457--4307514	16	3.8	16	81	9	75	68	1	0	29	0.99
4309638--4309685	24	1.9	26	83	8	64	56	12	4	27	1.54
4312981--4313030	22	2.2	23	89	3	75	50	2	2	46	1.24
4313004--4313045	16	2.6	16	96	0	75	47	2	4	45	1.36
4313098--4313266	35	4.6	35	68	13	115	39	5	9	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313040--4313277	112	2.1	110	95	1	422	40	7	7	44	1.61
4313275--4313303	6	4.8	6	100	0	58	17	0	48	34	1.47
4313283--4313697	53	7.7	53	73	14	327	19	0	35	44	1.57
4313395--4313451	6	9.0	6	75	17	53	19	0	42	38	1.51
4313397--4313468	12	6.2	12	73	15	53	15	0	40	44	1.46
4313369--4313534	33	5.5	33	75	21	154	16	0	37	44	1.53
4313330--4313687	80	4.1	85	83	14	492	19	0	34	44	1.56
4313401--4313523	27	4.6	27	73	13	128	17	0	39	42	1.50
4313551--4313613	14	4.1	14	70	18	54	30	0	25	44	1.54
4313663--4313697	12	2.9	12	91	0	52	11	0	40	48	1.39
4313704--4313743	7	5.9	7	83	16	57	52	0	0	47	1.00
4313701--4313743	12	3.3	12	78	15	50	53	0	0	46	1.00
4315444--4315471	12	2.3	12	100	0	56	21	35	42	0	1.53
4315945--4316010	3	22.7	3	83	6	73	27	3	4	65	1.27
4316194--4316245	20	2.7	18	77	13	50	28	0	5	65	1.16
4328709--4329076	44	8.5	44	72	12	203	31	20	21	26	1.98
4328712--4329038	46	7.5	46	72	14	173	31	21	21	25	1.98
4329919--4329946	12	2.3	12	100	0	56	21	35	42	0	1.53
4330423--4330492	3	23.3	3	85	0	95	30	2	2	64	1.22
4330677--4330728	20	2.7	18	77	13	50	28	0	5	65	1.16
4333120--4333168	20	2.3	22	79	10	57	61	2	0	36	1.08
4333190--4333276	11	8.3	11	65	19	51	43	2	29	24	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4333166--4333265	51	2.0	51	88	4	148	45	2	27	26	1.65
4333227--4333276	22	2.3	22	89	6	75	42	2	32	24	1.66
4336044--4336202	84	1.9	84	84	2	212	26	15	12	45	1.82
4353574--4353730	79	2.0	76	86	3	215	29	21	17	31	1.96
4355864--4355899	6	6.0	6	87	12	56	0	33	0	66	0.92
4357076--4357116	18	2.2	18	86	4	55	63	19	4	12	1.46
4358508--4358557	21	2.4	21	83	9	59	20	2	12	66	1.34
4359886--4360496	88	7.1	87	84	5	753	28	22	24	24	1.99
4360157--4360294	44	3.1	44	65	15	113	23	25	25	25	2.00
4359886--4360496	261	2.4	256	87	2	859	28	22	24	24	1.99
4359886--4360496	173	3.5	171	83	5	775	28	22	24	24	1.99
4360677--4360794	44	2.7	44	78	2	139	28	24	24	22	1.99
4364098--4364174	29	2.6	30	83	8	86	51	3	2	41	1.34
4364498--4364566	28	2.4	28	83	7	77	62	5	1	30	1.27
4364990--4365066	33	2.4	31	77	10	75	33	1	1	63	1.11
4364968--4365056	44	2.0	46	86	4	128	34	1	0	64	1.01
4365028--4365076	26	2.0	24	88	8	71	34	0	2	63	1.06
4365482--4365521	19	2.2	20	83	16	52	27	0	2	70	1.01
4374103--4374175	23	3.3	23	64	24	66	19	4	13	63	1.46
4374098--4374188	43	2.1	43	100	0	182	18	4	16	60	1.52
4379946--4379974	13	2.1	14	93	6	51	27	0	0	72	0.85
4380571--4380611	18	2.3	18	91	0	64	51	12	26	9	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4382057--4382160	42	2.5	42	90	0	154	16	25	17	40	1.90
4384589--4384619	9	3.4	9	90	0	53	25	12	22	38	1.90
4409136--4409171	16	2.2	16	90	0	54	41	0	11	47	1.39
4409729--4409791	28	2.2	28	83	8	74	38	1	0	60	1.07
4412827--4413039	103	2.1	103	89	0	318	26	7	5	60	1.45
4419185--4419228	17	2.5	19	75	17	51	65	0	4	29	1.12
4420683--4420717	18	1.9	18	94	0	61	11	5	20	62	1.48
4421423--4421491	26	2.6	26	88	2	102	52	10	13	24	1.71
4425827--4425854	8	3.5	8	100	0	56	64	10	14	10	1.50
4430495--4430527	17	1.9	17	88	11	50	39	0	0	60	0.97
4437671--4437701	14	2.2	14	100	0	62	29	29	0	41	1.56
4437934--4438033	25	4.3	23	77	8	71	41	21	22	16	1.90
4437977--4438059	25	3.3	25	87	0	112	37	21	22	18	1.94
4437988--4438078	25	3.6	25	83	0	110	37	19	21	20	1.95
4438938--4438995	27	2.2	26	85	14	75	0	31	6	62	1.22
4446644--4446668	6	4.2	6	100	0	50	32	0	68	0	0.90
4447553--4447578	9	2.9	9	100	0	52	0	11	0	88	0.52
4449600--4449639	6	6.7	6	83	11	55	62	5	17	15	1.49
4449762--4449796	6	5.7	6	86	6	52	17	0	45	37	1.48
4460452--4460488	13	2.9	13	92	4	58	67	0	18	13	1.23
4460478--4460516	21	1.9	19	90	10	60	82	2	10	5	0.93
4460453--4460488	6	5.8	6	87	6	54	66	0	19	13	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4475357--4475390	13	2.6	13	95	0	59	32	0	5	61	1.20
4476763--4476789	7	3.9	7	100	0	54	44	29	0	25	1.54
4490140--4490219	28	2.8	29	83	7	101	22	20	11	46	1.82
4493057--4493173	40	2.9	40	93	0	189	33	15	29	21	1.94
4493121--4493709	112	5.3	112	93	1	968	25	19	29	26	1.98
4493121--4493709	223	2.6	223	93	1	984	25	19	29	26	1.98
4494322--4494347	12	2.2	12	100	0	52	38	7	34	19	1.80
4494733--4494931	82	2.4	83	89	5	303	33	19	18	29	1.95
4495915--4495954	11	3.7	11	90	3	64	35	10	27	27	1.89
4497297--4497397	17	5.6	17	80	17	114	46	12	0	39	1.49
4497288--4497430	57	2.5	57	95	0	250	43	10	2	44	1.50
4497402--4497472	13	5.5	13	86	0	106	39	7	2	50	1.44
4497402--4497473	26	2.8	26	100	0	144	40	6	2	50	1.44
4497658--4497771	35	3.2	34	65	16	86	50	0	6	42	1.33
4497619--4497806	73	2.6	73	98	0	358	51	2	7	38	1.43
4497620--4497806	38	5.1	38	63	17	124	51	2	8	38	1.43
4498041--4498111	21	3.4	21	80	0	79	33	18	45	2	1.64
4498434--4498723	42	6.9	42	85	1	186	28	21	20	29	1.98
4498520--4498756	126	1.9	126	94	1	422	25	22	20	31	1.98
4498523--4498767	42	5.8	42	90	2	368	24	22	21	32	1.98
4499976--4500021	3	15.3	3	100	0	92	32	0	0	67	0.91
4506808--4506838	15	2.1	15	93	0	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4507377--4507420	18	2.4	19	81	14	56	34	0	6	59	1.24
4512611--4512659	18	2.7	18	79	14	55	67	2	0	30	1.02
4515329--4515361	17	1.9	17	100	0	66	42	9	0	48	1.35
4517420--4517669	52	4.9	52	87	5	368	34	14	22	28	1.94
4517527--4517680	46	3.2	46	81	12	184	34	13	22	29	1.92
4517412--4517680	98	2.7	98	88	5	387	34	14	23	27	1.94
4517644--4517752	37	3.0	37	93	2	186	36	16	22	24	1.94
4518309--4518340	16	2.0	16	100	0	64	12	43	12	31	1.80
4523535--4523623	29	2.9	30	76	14	76	38	4	4	52	1.42
4527287--4527365	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