genome.fa.s4.2.7.7.80.10.50.1000.18.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  18  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)
5026861--5026967	51	2.1	51	82	3	126	30	14	18	36	1.90
5029665--5029712	19	2.5	20	76	13	55	31	6	2	60	1.33
5029680--5029736	28	2.0	30	82	6	73	38	3	3	54	1.35
5030403--5030432	3	10.3	3	92	7	53	30	0	0	70	0.88
5031048--5031099	24	2.2	24	92	0	86	51	7	3	36	1.49
5038707--5038823	52	2.2	52	100	0	234	32	5	4	58	1.40
5039363--5039408	18	2.5	18	80	16	58	28	10	0	60	1.30
5044454--5044498	23	2.0	23	86	0	63	60	2	2	35	1.22
5046448--5046473	13	2.0	13	100	0	52	53	7	0	38	1.30
5048564--5048602	18	2.3	18	86	8	55	43	12	5	38	1.65
5048759--5048789	15	2.1	15	93	0	53	25	32	6	35	1.82
5052146--5052175	15	2.0	15	93	0	51	23	46	6	23	1.75
5052917--5052955	18	2.3	18	86	8	55	43	12	5	38	1.65
5053535--5053572	15	2.4	16	86	4	51	10	10	0	78	0.95
5053538--5053577	21	2.0	20	85	9	55	10	10	0	80	0.92
5054550--5054673	64	1.9	64	86	0	176	29	16	16	37	1.91
5054800--5055040	44	5.5	44	67	9	141	36	21	24	18	1.95
5054749--5055046	88	3.4	88	92	2	492	36	21	22	19	1.95
5055742--5055786	21	2.1	22	87	4	65	15	8	0	75	1.03
5056499--5056546	12	3.8	12	76	10	51	29	4	4	62	1.32
5056699--5056740	22	1.9	22	90	0	66	23	7	2	66	1.28
5059366--5060020	327	2.0	327	97	0	1247	29	11	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5061938--5061976	5	7.8	5	94	0	51	0	10	25	64	1.25
5065133--5065167	15	2.3	15	90	0	52	20	2	31	45	1.65
5073614--5073652	21	1.9	20	89	5	60	43	0	10	46	1.37
5073613--5073663	10	5.1	10	81	9	59	39	0	9	50	1.35
5075068--5075108	20	2.0	20	100	0	82	39	21	14	24	1.91
5078863--5078935	36	2.0	36	100	0	146	39	8	27	24	1.84
5083618--5083660	22	2.0	22	95	0	77	53	9	4	32	1.53
5084159--5084265	40	2.7	40	83	1	142	51	2	16	28	1.59
5084824--5084890	33	2.0	33	100	0	134	20	23	2	52	1.61
5088665--5088747	43	1.9	43	97	0	157	50	15	4	28	1.64
5089124--5089163	20	1.9	21	85	10	55	57	0	7	35	1.27
5090491--5090534	24	2.0	23	86	13	65	20	38	11	29	1.87
5091502--5091569	24	3.0	23	77	12	68	7	0	13	79	0.93
5091516--5091570	23	2.4	23	76	8	60	5	0	14	80	0.89
5093388--5093435	25	2.0	23	84	8	60	41	2	10	45	1.50
5097736--5097771	18	2.0	18	94	0	63	69	0	30	0	0.89
5100120--5100184	18	3.6	18	68	15	53	35	13	4	46	1.64
5105172--5105270	49	2.0	49	98	0	189	27	27	12	33	1.92
5110314--5110526	64	3.4	64	94	1	349	41	5	7	46	1.53
5110499--5110528	14	2.1	14	93	0	51	56	6	0	36	1.26
5110892--5111113	33	6.8	32	77	7	171	22	16	40	20	1.90
5110893--5111078	63	2.9	63	79	4	167	23	16	40	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5111917--5111943	14	1.9	14	100	0	54	37	7	18	37	1.79
5113135--5113351	104	2.0	109	85	9	295	54	6	4	34	1.46
5117711--5117763	21	2.6	20	85	11	72	5	13	7	73	1.23
5117806--5117835	12	2.5	12	100	0	60	6	16	0	76	0.99
5118548--5118589	4	10.5	4	89	0	66	23	4	0	71	1.05
5118681--5118728	3	16.7	3	78	8	55	29	2	2	66	1.14
5118685--5118729	17	2.6	17	89	0	72	26	4	2	66	1.22
5118999--5119025	12	2.2	12	100	0	54	7	14	29	48	1.71
5119056--5119261	41	5.0	41	86	4	256	33	21	23	20	1.97
5119483--5119546	7	9.0	7	77	3	56	23	3	26	46	1.67
5119499--5119549	15	3.5	15	81	2	59	21	1	29	47	1.62
5120153--5120229	8	10.0	8	85	5	88	66	2	0	31	1.05
5120147--5120227	14	5.3	15	79	8	67	70	2	0	27	1.00
5120148--5120229	22	3.6	22	77	12	85	68	2	0	29	1.03
5120148--5120236	45	2.0	44	84	2	115	66	2	0	31	1.04
5120141--5120231	15	6.0	15	74	12	69	68	4	0	27	1.09
5122933--5122970	18	2.2	18	85	4	51	26	0	2	71	1.00
5122961--5123008	20	2.4	21	82	10	64	22	2	6	68	1.23
5123072--5123125	28	2.0	28	85	3	74	27	3	3	64	1.27
5124248--5124281	10	3.2	10	84	15	50	67	0	0	32	0.91
5132698--5132780	3	27.3	3	73	20	59	63	1	3	31	1.19
5132694--5132787	33	3.0	30	72	22	79	64	1	3	30	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5132698--5132787	21	4.3	21	72	14	71	65	1	3	30	1.16
5133196--5133278	38	2.2	38	95	0	148	21	10	49	18	1.77
5133687--5133956	68	4.0	68	90	2	409	28	23	22	25	1.99
5142643--5142691	19	2.5	20	87	6	66	40	8	20	30	1.81
5142658--5142698	19	2.1	20	86	4	57	48	4	24	21	1.69
5143041--5143100	29	2.1	29	100	0	120	20	28	13	38	1.90
5146405--5146520	26	4.7	26	84	9	120	32	24	15	27	1.95
5146460--5146546	23	3.7	23	82	3	102	33	24	14	27	1.95
5153135--5153261	60	2.1	59	85	4	166	35	7	16	40	1.78
5153746--5153817	37	2.0	35	91	5	117	37	13	8	40	1.75
5154287--5154320	3	11.3	3	100	0	68	67	0	0	32	0.91
5154328--5154377	26	1.9	27	84	8	68	44	12	2	42	1.53
5157914--5157997	26	3.2	26	96	0	150	36	25	4	33	1.77
5163352--5163435	26	3.2	26	96	0	150	36	25	4	33	1.77
5169637--5169678	14	3.0	14	82	6	50	21	0	2	76	0.90
5170317--5171080	381	2.0	382	96	0	1404	25	23	13	37	1.91
5171041--5171194	45	3.4	45	83	3	157	26	20	9	42	1.83
5172103--5172154	26	2.0	26	92	0	86	32	21	1	44	1.63
5172303--5172337	18	2.0	18	88	5	54	54	0	22	22	1.45
5173160--5173361	106	1.9	106	81	2	246	26	19	29	24	1.98
5173320--5173457	42	3.3	42	77	2	143	26	22	31	19	1.98
5174889--5174942	19	2.6	20	77	14	56	37	1	0	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5178442--5178475	6	5.7	6	100	0	68	52	0	0	47	1.00
5181280--5181344	18	3.6	18	68	25	55	60	6	12	21	1.54
5189645--5189681	19	1.9	19	88	0	56	48	2	5	43	1.40
5190326--5190357	16	2.0	16	100	0	64	75	0	0	25	0.81
5193942--5193989	25	1.9	25	100	0	96	27	8	16	47	1.75
5194886--5195084	101	2.0	101	96	0	371	46	9	20	24	1.79
5196062--5196086	12	2.1	12	100	0	50	8	8	40	44	1.63
5210386--5210502	36	3.2	36	62	11	92	29	6	6	56	1.52
5210381--5210530	75	2.0	75	100	0	300	29	5	8	57	1.50
5213928--5213957	6	4.8	6	95	4	51	33	0	3	63	1.11
5215135--5215188	23	2.5	20	75	16	54	59	1	3	35	1.26
5215226--5215332	12	9.1	12	70	25	52	61	1	2	33	1.21
5215247--5215330	11	7.3	11	72	24	66	63	2	2	32	1.20
5217004--5217059	26	2.2	26	100	0	112	26	16	14	42	1.86
5218631--5218678	15	3.0	15	77	14	51	43	2	2	52	1.24
5218631--5218673	17	2.6	17	82	7	54	44	2	2	51	1.27
5218785--5218825	19	2.1	20	86	4	57	51	0	2	46	1.14
5230393--5230432	12	3.2	12	80	19	55	35	0	0	65	0.93
5230389--5230451	25	2.5	25	89	0	90	30	0	3	66	1.07
5231597--5231621	9	2.8	9	100	0	50	68	0	0	32	0.90
5232433--5232498	33	2.0	33	82	11	82	40	16	24	18	1.90
5239632--5239687	26	2.2	26	96	0	103	37	25	7	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5241606--5241645	20	2.0	20	90	9	64	70	2	7	20	1.24
5241831--5241864	17	1.9	18	88	5	52	20	20	5	52	1.67
5242303--5242479	96	1.8	96	85	0	246	31	27	15	25	1.95
5246260--5246293	17	1.9	18	94	5	61	55	0	11	32	1.36
5252642--5252756	42	2.7	41	81	6	124	29	24	14	31	1.95
5252883--5253023	31	4.5	31	92	1	221	24	27	19	28	1.98
5252999--5253127	50	2.5	51	87	5	190	26	22	16	34	1.95
5264358--5264387	11	2.9	10	90	9	51	66	0	0	33	0.92
5267610--5267653	18	2.4	18	85	7	54	52	0	0	47	1.00
5270300--5270370	35	2.0	35	88	0	106	26	25	9	38	1.87

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