genome.fa.s18.2.7.7.80.10.50.1000.168.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_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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  168  of  199  ( 23841 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)
54456806--54456909	36	3.4	28	68	25	77	48	29	1	20	1.60
54456806--54456849	15	3.0	15	86	3	63	47	34	0	18	1.49
54456773--54456909	21	6.5	21	69	11	82	48	30	1	19	1.58
54456794--54456909	14	8.2	14	73	12	76	50	28	1	19	1.58
54457204--54457389	97	1.9	96	86	1	264	27	22	19	30	1.98
54466299--54466343	20	2.2	20	80	0	54	37	8	2	51	1.46
54475205--54475236	3	10.7	3	100	0	64	31	0	0	68	0.90
54476543--54476584	17	2.6	16	82	14	50	45	2	26	26	1.66
54485506--54485547	19	2.2	20	91	4	68	66	0	2	30	1.04
54485582--54485624	17	2.6	16	82	13	52	46	4	25	23	1.71
54493727--54493800	29	2.5	29	86	8	96	48	8	14	28	1.72
54495112--54495151	15	2.4	16	88	12	55	57	0	0	42	0.98
54496998--54497050	25	2.1	25	96	0	97	39	15	5	39	1.70
54497345--54497446	30	3.4	31	83	5	122	29	22	3	44	1.71
54497992--54498046	24	2.3	24	93	0	101	65	9	25	0	1.22
54498633--54498680	17	2.8	17	76	23	55	31	16	10	41	1.82
54498728--54498782	17	3.2	16	80	19	67	29	12	10	47	1.76
54498812--54498845	10	3.6	10	88	11	54	85	0	0	14	0.60
54498911--54499342	17	25.0	18	70	15	218	30	13	11	44	1.79
54498911--54499307	55	7.6	53	68	14	186	29	13	11	44	1.80
54499305--54499343	18	2.2	18	90	0	60	38	12	7	41	1.72
54499321--54499367	19	2.3	19	80	20	51	51	8	6	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54499162--54499344	91	2.1	89	82	7	230	32	11	11	44	1.76
54511200--54512084	70	12.7	71	85	9	1118	31	16	19	32	1.94
54511209--54512084	344	2.5	342	86	10	1223	31	16	19	32	1.94
54546467--54546530	30	2.2	29	81	10	76	29	28	6	35	1.82
54546474--54546530	30	1.9	30	85	3	80	29	24	7	38	1.82
54553498--54553547	26	1.9	26	95	0	91	30	34	24	12	1.91
54553362--54553625	103	2.6	102	90	3	404	29	29	20	19	1.97
54553953--54554017	30	2.2	29	81	8	76	30	27	6	35	1.81
54553960--54554017	30	1.9	30	85	0	80	31	24	6	37	1.82
54558534--54558567	10	3.4	10	83	0	50	29	2	0	67	1.05
54559785--54559829	15	2.8	17	83	12	51	46	2	4	46	1.35
54563544--54563633	45	2.0	45	95	0	162	33	12	11	43	1.77
54566806--54566862	29	2.0	29	85	0	78	33	3	10	52	1.53
54573874--54573943	36	1.9	36	82	5	88	30	17	20	32	1.95
54579005--54579050	20	2.3	20	88	0	65	10	28	13	47	1.76
54579018--54579082	20	3.2	20	76	8	58	13	30	15	40	1.86
54582158--54582335	27	6.6	27	85	3	214	26	14	28	30	1.95
54582159--54582314	82	1.9	81	89	3	242	26	14	28	30	1.95
54582155--54582335	82	2.2	81	84	2	238	27	14	27	30	1.95
54585395--54585437	17	2.6	16	82	13	52	46	4	25	23	1.71
54590056--54590099	21	2.0	23	87	12	67	27	9	13	50	1.72
54596601--54596643	17	2.6	16	82	13	52	46	4	25	23	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54596708--54596751	21	2.0	23	87	12	67	27	9	13	50	1.72
54598405--54598464	30	2.0	30	100	0	120	46	16	10	26	1.78
54615204--54615402	46	4.4	46	92	1	314	33	14	24	27	1.94
54617526--54617574	15	3.3	15	88	5	82	48	6	0	44	1.27
54617526--54617581	14	3.9	14	81	6	67	46	8	0	44	1.34
54617526--54617581	29	1.9	29	88	0	85	46	8	0	44	1.34
54620213--54620497	50	5.7	50	80	6	321	27	22	28	22	1.99
54620272--54620490	99	2.2	99	96	0	402	28	21	27	21	1.99
54623782--54623897	46	2.5	46	81	0	124	32	16	16	34	1.91
54623826--54623903	23	3.4	23	67	13	70	33	17	16	32	1.93
54623832--54624001	46	3.7	46	80	4	166	34	22	13	29	1.93
54623817--54624000	90	2.0	91	81	3	210	32	21	14	32	1.93
54624501--54624591	47	2.0	46	84	2	119	29	26	14	29	1.95
54627128--54627201	32	2.3	32	97	0	139	52	4	8	35	1.50
54627135--54627190	19	3.3	19	62	27	52	55	3	8	32	1.48
54627732--54627795	3	21.3	3	84	6	85	60	1	1	35	1.15
54631067--54631297	119	1.9	119	94	0	408	24	10	28	35	1.89
54637329--54637380	16	3.2	16	91	0	77	28	0	34	36	1.58
54637361--54637455	45	2.1	44	86	1	127	34	5	26	33	1.79
54637617--54637651	18	2.0	17	88	5	52	54	0	0	45	0.99
54637575--54637647	27	2.7	27	76	8	76	52	2	0	45	1.15
54637764--54637798	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54637536--54637810	147	1.9	149	95	1	500	46	3	2	47	1.35
54637866--54637918	16	3.4	17	73	21	53	56	0	0	43	0.99
54637792--54637978	60	3.1	59	66	13	157	49	6	2	41	1.42
54637744--54638038	119	2.5	120	93	2	486	49	4	2	43	1.35
54642224--54642261	18	2.1	18	95	0	67	76	2	15	5	1.08
54658144--54658250	43	2.5	43	89	3	153	27	16	28	28	1.97
54659292--54659426	43	3.1	43	79	4	173	26	17	24	31	1.97
54669101--54669176	10	7.6	10	77	4	55	35	6	0	57	1.25
54670532--54670586	13	4.3	13	74	4	58	30	0	0	69	0.89
54671044--54672964	598	3.2	598	96	0	3443	33	16	16	32	1.92
54678500--54678635	68	2.0	68	97	0	254	37	19	13	28	1.91
54680152--54680262	55	2.0	55	92	0	186	37	20	15	26	1.92
54681770--54681867	25	3.9	26	67	15	71	28	4	3	64	1.27
54684123--54684173	19	2.8	18	80	8	59	64	1	5	27	1.27
54684118--54684179	25	2.5	24	80	10	63	61	3	4	30	1.33
54686420--54686473	21	2.5	21	84	3	63	68	3	11	16	1.33
54697444--54697478	12	2.9	12	86	0	52	65	2	0	31	1.07
54699172--54699201	12	2.6	11	90	10	51	50	0	0	50	1.00
54699871--54699908	18	2.1	19	85	14	53	28	5	13	52	1.61
54700859--54703181	597	3.9	597	98	0	4450	34	16	15	33	1.90
54704220--54704407	82	2.4	76	85	9	249	50	8	12	28	1.69
54704260--54704410	82	1.9	81	97	1	284	52	6	11	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54710286--54710421	68	2.0	68	92	0	227	36	19	16	27	1.93
54712661--54712700	18	2.2	18	86	13	55	12	17	7	62	1.52
54718494--54718520	12	2.2	12	100	0	54	22	18	18	40	1.91
54718562--54718646	44	1.9	44	97	0	161	34	12	23	29	1.92
54722842--54722909	34	2.0	34	100	0	136	44	23	0	32	1.54
54725282--54725345	27	2.4	27	81	0	83	39	0	1	59	1.07
54726925--54727002	23	3.4	23	67	13	70	34	19	16	29	1.94
54726885--54727096	46	4.7	46	79	8	159	33	21	14	30	1.93
54727014--54727114	45	2.3	43	86	6	132	32	28	11	26	1.92
54727036--54727142	45	2.3	45	83	4	124	32	27	12	28	1.92
54730519--54730568	19	2.7	19	84	3	57	64	4	2	30	1.23
54731008--54731064	22	2.5	22	80	13	62	45	1	0	52	1.11
54731169--54731227	19	3.2	18	71	23	59	27	6	0	66	1.17
54731165--54731223	9	6.6	9	73	9	50	23	5	0	71	1.06
54731170--54731245	38	2.0	37	84	2	98	32	5	0	61	1.18
54743375--54743589	43	5.0	43	83	1	200	31	25	17	26	1.97
54745707--54745743	14	2.4	16	86	8	51	62	27	8	2	1.37
54747035--54747083	19	2.5	19	93	3	80	16	2	8	73	1.16
54747432--54747636	7	28.9	7	71	12	69	44	34	0	20	1.56
54747545--54747588	15	3.0	15	80	3	54	47	31	0	20	1.50
54747545--54747621	36	2.1	36	83	9	95	49	27	1	22	1.58
54747598--54747641	20	2.1	21	87	4	63	47	31	0	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54753940--54753994	16	3.5	16	73	9	51	60	5	3	30	1.37
54754136--54754204	36	1.9	36	82	5	86	49	2	11	36	1.54
54755100--54755137	18	2.1	18	90	9	60	78	5	13	2	1.02
54763872--54763916	23	2.0	23	100	0	90	22	35	11	31	1.89
54771469--54771501	14	2.4	14	90	10	50	63	9	0	27	1.24
54775827--54776549	354	2.0	361	94	5	1268	29	20	16	33	1.94
54778627--54778697	10	7.3	10	80	4	56	35	7	0	57	1.26
54778627--54778696	20	3.5	20	76	3	79	35	7	0	57	1.26
54778829--54778862	11	3.3	11	88	12	54	29	26	17	26	1.98
54779876--54779914	12	3.2	12	100	0	78	61	7	0	30	1.24

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