genome.fa.s4.2.7.7.80.10.50.1000.42.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  42  of  253  ( 30316 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)
10951107--10951191	44	1.9	44	90	0	134	32	9	5	51	1.58
10951107--10951237	48	2.9	43	80	13	138	32	9	6	52	1.58
10952218--10952250	7	4.7	7	100	0	66	27	0	15	57	1.38
10954137--10954177	19	2.2	19	90	0	64	46	34	12	7	1.69
10955134--10955170	19	1.9	19	94	0	65	21	10	8	59	1.56
10956554--10956614	30	2.1	29	87	3	86	36	21	14	27	1.93
10958840--10959220	126	3.0	126	88	2	552	28	17	16	36	1.92
10959405--10959434	7	4.1	7	95	4	51	43	40	0	16	1.48
10959770--10959857	19	4.7	20	83	12	116	44	21	0	34	1.53
10959770--10959857	39	2.4	35	84	7	113	44	21	0	34	1.53
10959819--10959849	16	1.9	16	93	0	53	41	22	0	35	1.54
10960397--10960428	12	2.7	12	100	0	64	46	6	0	46	1.27
10960724--10960750	14	1.9	14	100	0	54	37	0	14	48	1.45
10965148--10965324	90	2.0	91	81	7	209	39	17	8	34	1.80
10965436--10965511	30	2.5	28	81	12	80	60	3	0	35	1.15
10965498--10965551	19	2.9	19	86	2	74	64	0	3	31	1.11
10965468--10965559	48	1.9	48	83	14	120	61	2	2	33	1.20
10965771--10965872	10	10.2	10	69	16	52	27	5	1	64	1.27
10965771--10965853	22	4.0	20	69	18	62	26	7	1	65	1.26
10965844--10965878	17	1.9	17	88	11	52	31	0	2	65	1.07
10968037--10968075	16	2.4	16	80	20	53	51	10	0	38	1.36
10969062--10969096	3	11.7	3	100	0	70	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10972766--10972803	3	12.7	3	100	0	76	65	0	0	34	0.93
10972830--10972895	24	2.7	23	76	17	62	28	15	3	53	1.57
10974058--10974092	18	1.9	18	88	0	52	40	8	25	25	1.84
10974072--10974170	44	2.2	45	82	5	121	41	15	19	24	1.89
10974159--10974193	12	2.9	12	86	0	52	40	17	25	17	1.90
10974803--10974848	22	2.1	22	84	8	58	23	19	0	56	1.42
10977317--10977348	14	2.3	14	94	0	55	21	0	0	78	0.76
10981828--10981998	46	3.7	45	77	13	186	28	26	21	22	1.99
10981833--10982003	93	1.8	93	92	0	288	28	27	21	22	1.99
10984384--10984439	15	3.7	15	86	9	87	60	10	16	12	1.58
10988849--10989026	27	6.6	27	85	3	205	29	29	14	26	1.95
10988849--10989026	54	3.3	54	85	3	232	29	29	14	26	1.95
10988870--10989025	81	1.9	82	88	3	235	29	29	14	26	1.95
10999490--10999598	33	3.3	33	88	0	146	18	36	26	18	1.94
11002196--11002249	28	1.9	28	84	0	72	29	14	24	31	1.95
11005341--11005382	15	2.9	15	75	3	50	23	30	21	23	1.99
11013336--11013400	34	1.9	34	90	6	105	24	23	24	27	2.00
11013635--11013700	34	1.9	34	100	0	132	40	15	15	28	1.87
11020919--11020971	25	2.1	25	96	0	97	32	13	28	26	1.93
11021559--11021597	16	2.6	16	92	8	64	46	0	15	38	1.46
11021682--11021850	63	2.7	62	84	8	195	41	1	2	53	1.26
11022222--11022328	53	2.0	53	100	0	214	26	20	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11024337--11024428	28	3.3	27	82	8	105	42	10	13	33	1.78
11041629--11041729	34	3.1	33	75	4	96	31	21	21	24	1.98
11044820--11044853	13	2.8	12	87	12	52	8	11	8	70	1.34
11055360--11055576	46	4.6	46	76	10	183	24	29	17	28	1.98
11069928--11069954	13	2.1	13	100	0	54	22	33	22	22	1.97
11072740--11072772	13	2.6	13	90	4	50	48	12	0	39	1.40
11073969--11074235	46	5.6	48	75	14	184	22	28	19	28	1.98
11078041--11078088	25	2.0	25	87	4	71	56	14	16	12	1.68
11079392--11079500	46	2.4	44	84	7	139	26	20	30	22	1.98
11083624--11083900	107	2.6	107	86	2	369	25	18	23	32	1.97
11085018--11085056	19	2.1	19	100	0	78	35	0	23	41	1.55
11085993--11086048	24	2.3	25	81	6	71	21	32	16	30	1.95
11086096--11086213	25	4.7	25	73	10	80	17	20	25	36	1.94
11088140--11088165	7	3.7	7	100	0	52	15	69	15	0	1.20
11089384--11089435	26	2.0	26	92	0	86	32	9	0	57	1.31
11092147--11092198	25	2.1	25	85	3	70	26	19	21	32	1.97
11092249--11092306	21	2.7	22	89	5	84	27	22	15	34	1.94
11092246--11092306	10	5.9	10	79	7	68	29	21	14	34	1.93
11100305--11100356	25	2.1	25	85	3	70	26	17	23	32	1.96
11100404--11100463	10	5.8	10	76	7	57	31	21	15	31	1.94
11100390--11100464	11	7.1	11	76	7	66	32	18	16	33	1.93
11100390--11100454	32	2.0	32	82	5	78	30	18	16	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11100407--11100464	21	2.7	22	86	5	75	29	22	15	32	1.95
11105658--11105719	26	2.4	26	89	2	90	41	3	19	35	1.67
11122345--11122371	14	1.9	14	100	0	54	81	0	0	18	0.69
11122351--11122375	10	2.5	10	100	0	50	80	0	0	20	0.72
11124451--11124677	50	4.5	50	92	0	355	35	14	22	27	1.93
11124653--11124863	31	6.8	31	90	2	325	27	18	26	26	1.98
11124885--11125010	49	2.6	49	88	3	177	28	14	26	30	1.95
11125706--11125745	18	2.1	18	86	9	53	35	10	17	37	1.83
11140483--11140534	27	1.9	27	100	0	104	44	0	21	34	1.52
11147982--11148041	19	2.9	19	76	18	59	51	6	0	41	1.28
11148161--11148212	3	17.3	3	100	0	104	32	0	0	67	0.91
11148501--11148539	3	13.0	3	100	0	78	33	0	0	66	0.92
11148599--11148629	3	10.3	3	100	0	62	35	0	0	64	0.94
11152780--11152951	46	3.7	46	77	13	199	22	19	28	29	1.98
11152773--11152943	93	1.8	93	93	0	297	22	21	28	28	1.99
11161654--11161682	15	1.9	15	100	0	58	37	0	0	62	0.96
11162767--11162792	11	2.4	11	100	0	52	7	38	7	46	1.61
11165801--11165842	15	2.7	16	82	14	52	45	0	2	52	1.13
11165792--11165833	15	2.9	15	82	10	52	47	0	0	52	1.00
11165945--11165979	18	2.0	17	88	5	52	45	0	0	54	0.99
11165777--11166092	157	2.0	156	94	0	551	48	4	2	44	1.38
11166215--11166282	16	4.2	16	92	0	100	39	30	1	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11166651--11166700	22	2.3	21	80	10	55	48	4	6	42	1.46
11169356--11169400	20	2.3	20	88	3	65	24	17	31	26	1.97
11170403--11170462	31	2.0	30	84	12	79	43	10	13	33	1.77
11172823--11172867	20	2.3	20	92	3	74	26	17	28	26	1.98
11174507--11174858	3	112.7	3	69	13	144	28	9	2	59	1.40
11174667--11174749	25	3.4	24	82	14	82	28	6	0	65	1.17
11174667--11174814	71	2.1	70	80	12	160	28	8	0	62	1.28
11176941--11176975	18	1.9	18	88	0	52	48	8	0	42	1.33
11180631--11180660	12	2.4	13	94	5	53	76	0	0	23	0.78
11181884--11181923	15	2.6	16	84	8	55	5	20	5	70	1.26
11181891--11181938	15	3.1	15	82	11	53	6	16	8	68	1.35
11193563--11193591	6	5.0	6	91	8	51	86	0	13	0	0.58
11193951--11193976	3	8.7	3	100	0	52	34	30	0	34	1.58
11194152--11194203	26	2.0	26	100	0	104	50	0	11	38	1.39
11194523--11194556	6	5.7	6	92	0	59	35	11	0	52	1.38
11195557--11195607	24	2.1	25	85	3	68	58	7	13	19	1.59
11199820--11199914	42	2.2	43	83	1	120	30	16	22	30	1.96
11199820--11199932	43	2.7	43	79	9	117	27	15	24	31	1.96
11202433--11202526	40	2.3	40	78	10	104	34	26	11	27	1.91
11205647--11205706	30	2.0	30	83	6	77	38	8	25	28	1.84
11206349--11206595	49	5.0	50	81	2	282	24	18	27	29	1.98
11206352--11206590	100	2.4	98	86	2	316	24	18	26	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11208696--11208807	51	2.2	51	93	0	188	31	16	24	28	1.96
11219365--11219392	12	2.3	12	100	0	56	35	0	0	64	0.94
11220332--11220854	162	3.2	162	89	3	775	35	17	19	27	1.94
11225072--11225110	20	2.0	20	89	0	60	33	10	25	30	1.89
11230269--11230298	15	2.0	15	93	0	51	50	0	10	40	1.36
11230265--11230327	27	2.3	26	76	10	63	38	0	11	50	1.38
11234062--11234112	5	10.4	5	81	14	54	17	1	0	80	0.81
11234062--11234119	11	5.2	11	77	10	64	18	1	0	79	0.82
11234064--11234124	15	3.9	15	75	25	56	19	1	0	78	0.83
11234061--11234123	33	1.9	33	83	6	83	19	1	0	79	0.82

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