genome.fa.s20.2.7.7.80.10.50.1000.121.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  121  of  189  ( 22580 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)
34182810--34182892	43	1.9	43	95	0	148	38	4	9	46	1.58
34182907--34183001	31	3.2	31	65	14	81	50	4	4	41	1.41
34182889--34183037	59	2.5	59	97	0	280	47	3	5	43	1.42
34183695--34183739	22	2.0	23	86	4	65	64	11	2	22	1.36
34183995--34184073	25	3.2	24	72	13	70	29	10	40	20	1.85
34184258--34184336	41	1.9	41	84	0	104	17	24	13	44	1.85
34185066--34185108	10	4.5	10	81	18	56	79	0	2	18	0.85
34185070--34185108	18	2.2	18	90	9	62	79	0	2	17	0.84
34186274--34186338	27	2.5	26	76	11	60	63	7	3	26	1.36
34187082--34187149	27	2.5	27	95	2	118	73	5	7	13	1.23
34187870--34188121	128	2.0	129	82	2	310	29	20	19	29	1.97
34188132--34188291	50	3.2	50	72	3	142	28	21	19	30	1.98
34188156--34188302	50	2.9	50	76	0	150	27	22	19	29	1.98
34188372--34189724	44	31.8	44	78	10	1100	27	24	17	29	1.98
34188375--34189724	170	7.9	172	85	6	1396	27	24	18	29	1.98
34188375--34189724	126	10.6	126	83	7	1356	27	24	18	29	1.98
34189743--34189960	88	2.5	88	93	1	366	19	22	28	29	1.98
34189743--34189970	44	5.1	47	66	16	153	19	22	28	29	1.98
34196917--34196969	21	2.6	21	91	5	83	37	16	11	33	1.85
34205849--34206002	43	3.6	44	78	6	181	35	27	14	22	1.93
34205812--34206003	85	2.3	85	92	0	314	36	26	14	22	1.93
34205816--34206038	85	2.6	85	88	0	277	36	25	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34205812--34206038	42	5.4	42	71	11	160	36	25	16	22	1.94
34207131--34207171	11	3.5	11	86	6	55	39	7	12	41	1.70
34209968--34210166	103	1.9	103	81	6	242	35	17	9	37	1.83
34211125--34211178	17	3.2	17	75	14	58	66	16	5	11	1.40
34211619--34211668	26	1.9	26	83	0	64	26	18	16	40	1.90
34226162--34226369	27	7.8	26	84	4	263	41	23	19	14	1.89
34235112--34235336	40	5.7	40	84	8	298	26	27	23	23	2.00
34235112--34235336	119	1.9	120	88	6	350	26	27	23	23	2.00
34242947--34243287	50	6.9	49	82	1	331	23	28	20	27	1.99
34243004--34243282	150	1.9	150	83	1	371	23	29	21	25	1.99
34249145--34249197	20	2.7	20	77	16	56	15	18	3	62	1.47
34249838--34249958	25	4.7	26	70	6	93	28	19	25	25	1.99
34249840--34249958	52	2.3	52	91	0	193	29	20	25	25	1.99
34254204--34254279	31	2.5	31	100	0	152	27	14	11	46	1.80
34263753--34263783	15	2.1	15	93	0	53	54	0	6	38	1.26
34266472--34266548	41	1.9	41	86	2	111	28	16	24	29	1.97
34268108--34268439	147	2.3	147	80	2	353	28	14	19	37	1.91
34268166--34268568	147	2.8	145	79	2	369	27	14	21	36	1.92
34268221--34268568	146	2.4	146	79	4	351	27	14	20	36	1.92
34270983--34271047	13	5.0	13	86	3	78	43	7	3	46	1.48
34271019--34271205	63	3.0	63	99	0	365	41	8	7	42	1.62
34271076--34271197	36	3.6	36	71	23	129	41	8	7	42	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34271204--34271247	23	1.9	23	95	0	79	43	18	0	38	1.50
34271266--34271761	9	55.0	9	76	14	420	45	18	0	35	1.56
34271416--34271482	28	2.4	28	97	0	125	46	14	2	35	1.61
34277772--34278020	85	2.9	84	84	5	252	26	24	20	29	1.99
34277772--34278024	127	2.0	127	83	6	325	25	24	19	30	1.98
34277771--34278041	42	6.4	42	84	7	282	26	23	20	29	1.99
34280428--34280795	102	3.6	103	92	0	614	32	29	19	18	1.96
34280637--34280791	33	4.6	33	68	24	108	34	29	20	16	1.94
34300322--34300537	79	2.8	78	80	6	240	29	13	11	45	1.79
34304548--34304741	40	4.8	40	82	2	210	33	17	29	19	1.95
34304612--34304676	20	3.2	20	74	8	69	26	20	35	18	1.95
34304619--34304683	20	3.3	19	76	8	67	29	20	36	13	1.91
34304632--34304696	20	3.2	20	67	16	53	27	16	33	21	1.95
34305089--34305127	19	2.2	18	86	9	53	35	7	5	51	1.53
34307489--34308450	477	2.0	477	96	0	1753	38	15	20	26	1.92
34311625--34311682	30	1.9	30	92	0	98	20	6	27	44	1.77
34325843--34326109	104	2.6	104	91	3	423	30	31	20	18	1.96
34326438--34326501	30	2.2	29	81	10	76	29	28	6	35	1.82
34326445--34326501	30	1.9	30	85	3	80	29	24	7	38	1.82
34333466--34333516	26	2.0	26	96	0	93	29	35	23	11	1.90
34333329--34333594	103	2.6	104	90	3	428	30	31	19	18	1.96
34333923--34333986	30	2.2	29	81	10	76	29	28	6	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34333930--34333986	30	1.9	30	85	3	80	29	24	7	38	1.82
34335249--34335307	25	2.4	24	82	2	73	25	23	18	32	1.97
34335313--34335366	25	2.2	25	86	0	72	33	20	22	24	1.97
34335323--34335400	25	3.2	24	80	8	68	32	19	23	25	1.98
34342896--34342996	25	4.0	25	76	0	76	33	20	22	22	1.97
34349685--34349763	29	2.7	29	71	9	79	31	11	16	40	1.84
34355955--34356024	28	2.6	27	86	2	86	28	20	28	22	1.98
34355900--34356051	55	2.8	53	81	4	178	28	16	28	26	1.97
34355901--34356056	27	5.7	27	78	6	145	27	16	28	27	1.97
34364059--34364128	28	2.6	27	86	2	86	28	20	28	22	1.98
34364004--34364155	55	2.8	53	81	4	178	28	16	28	26	1.97
34364005--34364160	27	5.7	27	78	6	145	27	16	28	27	1.97
34373550--34373699	53	2.8	54	80	9	173	28	16	27	27	1.97
34373551--34373705	27	5.8	26	78	8	134	27	16	27	28	1.97
34373657--34373724	26	2.6	27	81	4	77	25	14	32	27	1.95
34385160--34385190	13	2.4	13	94	0	53	48	0	16	35	1.46
34398244--34398273	16	1.9	16	93	6	53	50	20	0	30	1.49
34405582--34405647	25	2.6	25	100	0	132	33	22	19	24	1.97
34413254--34413291	5	7.8	5	88	5	60	0	39	0	60	0.97
34413247--34413291	14	3.1	14	87	6	63	0	37	0	62	0.96
34413760--34413789	15	2.1	15	93	6	53	53	6	0	40	1.27
34416469--34416517	24	2.0	24	88	4	71	75	6	6	12	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34417244--34417322	3	26.7	3	74	16	58	34	3	1	60	1.23
34419298--34419475	27	6.6	27	83	3	205	26	15	28	29	1.96
34419299--34419454	82	1.9	81	88	3	233	26	15	28	29	1.96
34419295--34419475	82	2.2	81	83	2	229	27	15	27	29	1.96
34420918--34420980	18	3.4	18	74	12	56	38	7	0	53	1.30
34420918--34420970	9	5.8	9	80	10	54	37	9	0	52	1.34
34421282--34421319	20	1.9	20	89	10	60	28	13	0	57	1.36
34421353--34421665	106	2.9	108	84	6	372	30	15	17	37	1.90
34421856--34421899	21	2.0	22	86	4	63	47	11	4	36	1.60
34433197--34433248	20	2.6	20	93	0	86	40	19	1	38	1.63
34440147--34440198	20	2.6	20	93	0	86	40	19	1	38	1.63
34443382--34443489	56	1.9	55	94	1	189	37	9	12	39	1.76
34448452--34448525	25	2.9	26	84	7	91	29	18	27	24	1.98
34448566--34448705	25	5.6	25	72	22	116	33	20	26	20	1.96
34448460--34448728	49	5.4	48	73	13	151	33	18	26	20	1.96
34448478--34448728	74	3.4	76	77	13	247	34	18	27	19	1.96
34448539--34448720	25	7.4	25	71	23	109	34	20	26	18	1.96
34448852--34448876	8	3.1	8	100	0	50	28	0	12	60	1.32
34451286--34451393	56	1.9	55	94	1	189	37	9	12	39	1.76
34457781--34457827	2	23.5	2	100	0	94	51	0	48	0	1.00
34461856--34462088	50	4.7	50	80	3	213	28	21	28	22	1.99
34462290--34462338	20	2.5	20	81	15	66	57	6	24	12	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34466151--34466255	20	5.2	20	73	11	72	34	20	28	16	1.94
34470741--34470813	36	2.0	36	86	5	103	23	24	8	43	1.81
34473813--34473860	20	2.4	20	92	0	87	31	22	27	18	1.97
34473869--34473982	20	5.7	20	81	2	113	49	17	23	9	1.76
34473874--34473975	40	2.6	40	85	1	134	49	15	25	9	1.75
34474564--34474611	23	2.0	24	84	4	62	29	2	12	56	1.48
34476018--34476047	12	2.5	12	94	0	51	30	40	23	6	1.80
34480822--34480880	27	2.2	26	84	3	73	38	22	20	18	1.93
34482373--34482424	20	2.6	20	90	0	86	40	21	26	11	1.87
34489583--34489732	20	7.6	20	79	3	151	43	15	26	14	1.85

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