genome.fa.s25.2.7.7.80.10.50.1000.46.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  46  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)
12631986--12632017	17	1.9	16	93	6	55	75	0	15	9	1.05
12634902--12634953	27	1.9	27	96	0	95	21	7	15	55	1.64
12635479--12635508	2	15.0	2	100	0	60	50	0	0	50	1.00
12641056--12641090	12	2.9	12	86	0	52	68	0	14	17	1.21
12641248--12641304	26	2.2	26	93	0	96	42	10	17	29	1.83
12643897--12643921	12	2.1	12	100	0	50	24	16	8	52	1.70
12650792--12650847	28	2.0	28	92	0	94	32	25	3	39	1.73
12652843--12652872	14	2.1	14	100	0	60	56	13	0	30	1.37
12656320--12656492	73	2.4	72	85	2	231	27	20	25	26	1.99
12656208--12656604	186	2.1	185	84	6	525	27	22	24	25	2.00
12656388--12657271	114	7.9	113	82	9	1043	27	20	25	25	1.99
12656666--12657271	115	5.4	114	84	7	808	27	20	25	26	1.99
12656388--12657269	332	2.7	331	90	1	1356	27	20	25	25	1.99
12656669--12657215	218	2.5	217	86	4	745	28	21	24	25	1.99
12657170--12657333	74	2.2	73	88	3	231	25	20	25	29	1.99
12658498--12658535	17	2.2	17	100	0	76	10	13	10	65	1.47
12659217--12659315	23	4.5	22	82	12	91	18	8	24	49	1.74
12659243--12659315	23	3.2	23	92	7	114	17	8	24	49	1.74
12660511--12660616	25	4.2	25	79	14	121	50	5	6	37	1.52
12660504--12660573	23	3.0	23	79	12	88	51	7	8	32	1.60
12664261--12664428	47	3.6	45	70	19	132	45	2	3	47	1.35
12664187--12664394	91	2.3	91	88	0	308	45	3	4	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12664225--12664369	44	3.2	43	69	19	116	46	2	3	48	1.31
12664309--12664369	28	2.2	28	85	5	81	45	0	3	50	1.17
12664544--12664598	24	2.2	26	81	12	71	45	0	1	52	1.11
12664810--12664861	16	3.2	16	94	0	86	34	36	0	28	1.58
12664900--12664935	16	2.2	16	100	0	72	25	0	36	38	1.56
12665151--12665216	15	4.2	16	75	21	52	53	3	0	43	1.16
12665196--12665413	66	3.5	62	69	20	177	47	6	3	42	1.46
12665268--12665319	15	3.6	15	80	12	56	53	1	0	44	1.11
12665149--12665443	120	2.5	121	89	6	442	48	5	3	43	1.40
12665459--12665666	92	2.3	92	86	5	280	46	3	3	46	1.37
12671582--12671608	13	2.1	13	100	0	54	55	7	7	29	1.55
12675364--12675633	43	6.3	42	83	3	263	22	17	29	30	1.96
12675392--12675633	85	2.8	84	81	4	261	23	17	29	29	1.97
12680993--12681185	50	3.8	50	84	2	244	22	30	20	25	1.98
12683298--12683336	18	2.2	18	95	0	69	15	17	20	46	1.84
12685507--12685541	17	2.1	17	89	10	54	34	5	20	40	1.76
12690186--12690217	5	6.8	5	92	7	50	0	0	12	87	0.54
12692950--12693012	32	1.9	33	87	3	92	42	17	4	34	1.70
12695611--12695797	67	2.8	68	84	1	232	27	23	12	35	1.92
12708656--12708720	30	2.2	29	100	0	112	55	4	0	40	1.21
12717612--12717665	15	3.4	15	73	14	54	42	18	1	37	1.61
12717607--12717673	33	2.0	33	94	0	116	43	17	2	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12717606--12717653	15	2.9	16	75	12	53	41	16	4	37	1.68
12720267--12720304	19	2.0	19	89	0	58	23	0	5	71	1.07
12727474--12727603	59	2.2	60	80	6	158	47	3	23	24	1.68
12727920--12727963	21	2.1	21	95	0	79	50	34	15	0	1.45
12737934--12737961	3	9.3	3	100	0	56	32	0	0	67	0.91
12741554--12741589	15	2.3	15	95	4	63	44	8	0	47	1.33
12754750--12754942	50	3.8	50	87	0	260	21	30	21	26	1.98
12760943--12760973	15	2.1	15	100	0	62	29	12	6	51	1.65
12765195--12765332	54	2.5	55	83	3	154	28	19	25	26	1.99
12766006--12766045	18	2.2	18	100	0	80	35	25	27	12	1.92
12768284--12768342	25	2.3	26	88	5	93	45	3	8	42	1.51
12768447--12768753	18	16.5	18	67	21	109	63	2	13	21	1.40
12768499--12768818	5	61.2	5	71	20	121	62	1	11	23	1.37
12768441--12768819	99	4.0	87	70	25	233	63	1	11	23	1.38
12768509--12768808	39	6.9	44	79	15	281	63	1	11	23	1.37
12768560--12768778	18	12.1	17	73	20	105	65	2	10	21	1.35
12768458--12768778	39	8.1	38	73	20	214	63	1	12	22	1.37
12768511--12768786	21	13.2	21	76	14	218	63	1	11	23	1.36
12769419--12769458	20	2.0	20	95	0	71	45	15	2	37	1.59
12774900--12774927	14	2.0	14	100	0	56	28	0	64	7	1.20
12780941--12780977	17	2.2	17	95	0	65	43	5	24	27	1.76
12791583--12791614	16	2.0	16	93	0	55	59	6	0	34	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12793165--12793555	192	2.0	191	87	3	563	34	25	8	31	1.85
12801159--12801209	25	2.0	25	88	0	75	43	19	1	35	1.63
12805130--12805168	17	2.3	17	86	0	51	41	15	0	43	1.46
12806266--12806319	28	2.0	28	85	10	76	29	1	0	68	1.00
12806485--12806643	59	2.7	58	83	4	178	33	8	16	40	1.79
12806515--12806678	57	2.8	57	83	6	177	37	7	15	39	1.76
12806503--12806650	20	7.6	20	73	5	97	34	7	17	40	1.78
12807924--12807971	24	2.0	24	92	8	80	27	18	8	45	1.78
12808957--12809005	20	2.4	21	80	10	57	22	14	20	42	1.88
12825663--12825719	23	2.5	23	85	0	60	57	8	7	26	1.54
12825710--12825764	23	2.4	23	81	0	65	58	14	10	16	1.64
12834217--12834243	8	3.4	8	100	0	54	66	0	0	33	0.92
12844566--12844590	13	1.9	13	100	0	50	44	40	16	0	1.47
12846191--12846231	19	2.2	19	86	8	57	36	2	7	53	1.42
12847363--12847396	17	1.9	18	94	5	61	29	0	0	70	0.87
12855036--12855085	25	2.0	26	88	4	75	64	12	10	14	1.51
12855791--12855834	20	2.2	20	95	0	79	45	11	2	40	1.53
12860046--12860097	24	2.2	24	92	0	86	57	9	0	32	1.31
12861853--12862064	106	2.0	106	98	0	406	45	18	15	20	1.85
12862118--12862169	24	2.2	24	89	0	77	55	9	1	32	1.43
12864895--12864921	3	9.0	3	100	0	54	33	33	0	33	1.58
12876310--12876358	23	2.1	23	81	7	55	40	8	8	42	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12886180--12886255	22	3.6	21	75	8	73	14	0	47	38	1.44
12886176--12886233	29	2.0	29	87	9	84	15	0	44	39	1.47
12886180--12886257	7	10.9	7	78	10	52	15	0	46	38	1.46
12886187--12886255	14	4.9	14	77	12	61	13	0	49	37	1.42
12889691--12889740	17	3.2	17	78	21	72	36	6	6	52	1.51
12889709--12889736	13	2.2	13	100	0	56	39	7	7	46	1.59
12889732--12889770	16	2.5	15	88	8	60	41	0	5	53	1.23
12889702--12889850	62	2.4	61	81	4	174	36	5	10	48	1.60
12889989--12890064	21	3.6	21	82	5	91	39	14	6	39	1.72
12890114--12890429	9	34.8	9	78	1	335	49	16	1	32	1.56
12890114--12890429	27	11.9	27	82	6	378	49	16	1	32	1.56
12890114--12890429	82	4.0	81	85	4	378	49	16	1	32	1.56
12892804--12892854	21	2.4	21	83	0	57	35	11	45	7	1.70
12893234--12893394	42	3.9	41	90	3	234	35	20	21	22	1.96
12893233--12893394	82	2.0	82	88	2	245	35	20	21	22	1.96
12893771--12893840	36	2.0	35	85	2	95	45	10	20	24	1.81
12894388--12894467	40	2.0	40	95	0	142	32	17	11	38	1.85
12894666--12894690	9	2.8	9	100	0	50	20	0	0	80	0.72
12901246--12901301	16	3.7	15	75	15	53	3	28	0	67	1.07
12901246--12901304	31	1.9	31	93	6	102	3	27	0	69	1.04
12901246--12901305	15	4.1	14	76	16	59	3	28	0	68	1.05
12903070--12903151	27	3.0	27	77	7	83	24	8	4	62	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12908057--12908087	10	3.2	10	95	4	55	93	0	0	6	0.35
12908060--12908088	14	2.0	15	93	6	51	89	0	0	10	0.48
12910176--12910254	37	2.1	37	88	4	115	25	30	18	25	1.98
12910373--12910766	47	8.4	47	95	0	673	28	29	8	32	1.87
12910373--12910766	187	2.1	188	93	0	673	28	29	8	32	1.87
12916209--12916240	12	2.8	12	95	4	57	31	6	0	62	1.20
12921350--12921422	36	2.0	36	97	0	137	34	9	16	39	1.81
12926391--12926420	3	10.0	3	100	0	60	66	0	33	0	0.92
12933931--12933995	34	1.9	34	90	0	103	36	3	3	56	1.30
12936300--12936408	22	5.0	22	70	6	87	30	17	23	28	1.97

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