genome.fa.s25.2.7.7.80.10.50.1000.2.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  2  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)
326139--326233	49	1.9	49	89	4	147	43	8	22	26	1.81
326321--326427	52	2.0	53	89	5	164	40	11	19	28	1.86
328462--328513	20	2.5	21	74	22	56	7	23	3	65	1.35
328465--328505	20	2.1	19	86	13	57	9	21	4	63	1.44
329423--329566	78	1.8	78	86	0	207	34	26	14	24	1.94
333390--333493	49	2.1	49	94	0	181	31	7	10	50	1.65
334877--334919	21	2.0	21	86	8	61	34	0	6	58	1.25
334932--335002	28	2.7	27	76	8	74	43	0	0	56	0.99
335223--335287	6	10.8	6	100	0	130	33	0	0	66	0.92
335357--335420	34	1.9	33	84	9	85	51	1	1	45	1.20
335790--335821	13	2.4	14	90	10	50	65	0	0	34	0.93
335808--335859	18	2.9	18	80	2	61	57	0	1	40	1.10
335791--335862	17	3.9	18	75	8	65	58	0	1	40	1.07
336694--336806	19	5.9	19	72	6	68	28	4	3	63	1.30
336692--336774	29	2.9	28	77	8	78	25	6	3	65	1.32
336693--336774	10	8.4	10	69	10	53	25	4	3	65	1.29
336778--336814	19	1.9	19	89	10	58	32	2	0	64	1.07
338196--338279	38	2.4	34	84	11	100	46	13	8	32	1.72
340361--340560	97	2.1	96	83	0	247	29	12	30	28	1.92
341474--341570	34	2.9	34	87	3	133	46	15	9	28	1.77
341729--341753	12	2.1	12	100	0	50	48	0	24	28	1.52
344280--344465	92	2.0	92	81	2	212	32	15	22	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347061--347090	14	2.1	14	100	0	60	50	16	6	26	1.70
364315--364369	21	2.5	21	73	5	56	34	5	1	58	1.32
375949--375999	6	8.5	6	95	0	93	35	1	0	62	1.06
376610--376640	6	5.2	6	96	0	53	19	0	67	12	1.22
381900--381991	29	3.2	28	77	9	105	21	2	21	54	1.56
383810--383849	15	2.7	15	84	0	53	32	22	12	32	1.91
387163--387517	46	8.1	46	81	13	455	29	20	14	35	1.93
387327--387480	36	4.0	37	78	17	186	27	19	14	37	1.91
387281--387517	82	2.9	82	96	1	440	28	21	13	36	1.92
387163--387515	128	2.7	134	81	13	423	29	20	14	35	1.92
389523--389564	21	2.0	21	85	0	57	45	11	4	38	1.62
389924--390066	46	3.2	45	91	3	236	34	15	23	26	1.95
395444--395481	18	2.1	18	90	9	60	71	0	0	28	0.87
397219--397265	14	3.4	14	73	8	51	6	6	27	59	1.46
400291--400329	18	2.2	18	85	0	51	28	0	2	69	1.02
404647--404693	3	15.7	3	95	0	85	65	0	2	31	1.04
411495--411550	29	1.9	29	92	0	94	55	7	1	35	1.38
430935--430974	15	2.5	17	84	8	57	60	0	5	35	1.19
453072--453149	39	2.0	39	89	0	120	43	10	10	35	1.73
460732--460889	85	1.9	87	86	6	234	30	29	17	22	1.97
460732--460956	43	5.3	43	81	5	222	28	28	17	26	1.97
468731--468771	21	2.0	21	95	0	73	29	43	0	26	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468969--469022	22	2.3	24	84	9	76	62	0	0	37	0.95
469112--469145	14	2.3	15	90	5	52	35	35	0	29	1.58
469379--469494	41	2.8	41	82	7	146	31	30	19	18	1.96
469530--469608	39	2.0	39	90	2	122	24	20	16	39	1.92
469530--469667	40	3.5	40	75	5	136	22	20	18	39	1.93
473807--473832	4	6.5	4	100	0	52	76	0	0	23	0.78
489349--489398	22	2.3	22	80	13	59	22	24	2	52	1.58
498357--498392	16	2.2	16	100	0	72	22	19	38	19	1.93
499230--499264	18	2.0	17	88	5	52	45	0	0	54	0.99
499210--499485	146	1.9	142	91	2	345	47	2	3	46	1.33
499376--499410	18	2.0	17	88	5	52	45	0	0	54	0.99
499572--499666	45	2.1	45	86	1	129	33	26	5	34	1.79
499647--499698	16	3.2	16	91	0	77	36	34	0	28	1.58
500030--500062	11	2.8	12	86	9	50	36	9	6	48	1.60
502069--502113	16	2.7	17	86	6	65	42	0	0	57	0.98
504094--504165	28	2.6	28	91	2	119	44	0	4	51	1.20
504101--504152	15	3.6	15	79	10	72	38	0	3	57	1.17
504155--504179	12	2.1	12	100	0	50	44	8	8	40	1.63
509588--509633	23	2.0	23	83	8	58	36	4	15	43	1.66
515177--515203	13	2.1	13	100	0	54	25	29	7	37	1.83
518472--518526	20	2.9	17	80	20	56	54	1	0	43	1.10
518472--518516	20	2.3	20	85	14	60	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518748--518832	8	9.6	9	74	15	54	32	3	2	61	1.26
518748--518788	17	2.3	18	88	12	59	31	4	0	63	1.15
518692--518831	46	3.1	44	78	10	117	32	5	3	57	1.39
518956--519160	92	2.2	95	82	8	255	36	7	18	38	1.78
520268--520305	3	12.7	3	100	0	76	68	0	0	31	0.90
532448--532482	18	1.9	18	88	0	52	40	0	0	60	0.97
532677--532713	15	2.5	15	80	20	51	59	0	0	40	0.97
532682--532721	15	2.7	15	84	0	53	55	0	2	42	1.13
535567--535594	6	4.7	6	100	0	56	32	0	50	17	1.47
536343--536390	25	2.0	25	88	12	73	27	16	4	52	1.62
536524--536577	18	2.7	21	77	13	60	70	1	5	22	1.18
536527--536569	19	2.3	19	84	8	52	72	2	6	18	1.19
536620--536661	21	2.0	22	85	4	59	57	0	7	35	1.26
537259--537330	35	2.1	35	100	0	144	45	16	13	23	1.83
545743--545774	16	2.1	15	94	5	55	59	0	0	40	0.97
545730--545780	26	2.0	26	84	7	68	56	0	0	43	0.99
545892--545959	26	2.6	26	78	19	70	47	1	2	48	1.26
549659--549708	26	2.0	25	92	7	84	44	8	0	48	1.32
549834--549988	18	8.3	18	65	23	63	68	0	30	1	0.98
549835--549986	10	15.1	10	65	16	55	69	0	29	1	0.97
549834--549988	28	5.4	29	65	25	87	68	0	30	1	0.98
549853--550011	38	4.3	38	79	10	161	67	0	30	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549853--550006	72	2.2	72	80	10	165	67	0	31	1	0.99
550675--550726	19	2.7	19	87	0	68	25	0	7	67	1.17
550763--550831	27	2.5	28	90	6	106	40	8	0	50	1.33
550832--550863	16	2.0	16	93	0	55	84	6	3	6	0.86
552173--552209	17	2.2	17	100	0	74	29	16	8	45	1.76
553173--553201	14	2.1	14	100	0	58	37	6	0	55	1.27
555581--555618	18	2.1	18	90	0	58	15	44	5	34	1.69
555584--555625	18	2.3	18	83	0	57	21	47	2	28	1.63
556243--556319	39	2.0	38	82	12	95	55	9	0	35	1.31
556653--556758	27	3.9	27	81	0	86	11	39	24	24	1.88
556818--556867	26	2.0	25	88	7	75	50	0	6	44	1.26
559839--560033	97	2.0	97	100	0	390	22	19	25	32	1.97
563370--563447	14	5.1	14	68	24	50	33	7	14	44	1.73
563378--563444	34	1.9	35	93	3	118	31	7	13	47	1.70
563393--563432	20	2.0	20	90	0	62	27	10	12	50	1.72
567904--567989	43	2.0	43	97	0	163	30	22	26	20	1.98
569957--569998	21	2.0	22	81	13	52	47	0	2	50	1.14
581702--581748	19	2.4	20	82	10	53	57	2	2	38	1.23
581868--581898	16	2.0	15	93	6	53	67	0	0	32	0.91
582793--582818	13	2.0	13	100	0	52	38	15	0	46	1.46
584716--584774	19	3.4	19	68	22	65	45	10	6	37	1.65
584720--584785	33	2.0	33	100	0	132	45	12	6	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594465--594649	58	3.2	55	73	19	155	42	2	5	49	1.40
600020--600079	30	2.0	30	90	0	93	41	13	20	25	1.88
601102--601154	22	2.6	19	75	18	52	62	7	0	30	1.23
612863--612908	24	2.0	23	82	4	56	32	13	13	41	1.82
627240--627319	14	5.9	13	70	22	58	70	1	2	26	1.08
627249--627315	20	3.2	20	70	19	57	71	1	2	23	1.08
627545--627721	88	2.0	88	100	0	354	40	4	9	45	1.56
642975--643060	46	1.9	45	88	9	131	36	26	19	17	1.94
668698--668750	24	2.2	24	86	0	70	52	9	3	33	1.52
671574--671607	7	4.9	7	92	0	50	23	26	29	20	1.99

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