genome.fa.s15.2.7.7.80.10.50.1000.16.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_D02
Parameters: 2 7 7 80 10 50 1000
Length:  67659327

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   

This is table  16  of  216  ( 25871 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)
5076710--5076741	2	16.0	2	93	0	55	53	0	46	0	1.00
5080660--5080702	19	2.3	18	80	4	50	41	0	4	53	1.21
5094271--5094313	9	4.8	9	94	0	68	39	27	9	23	1.85
5096716--5096752	18	2.1	18	100	0	74	40	16	16	27	1.89
5111243--5111848	44	13.7	43	75	8	497	27	16	25	30	1.97
5111241--5111852	132	4.6	132	93	1	1023	28	16	25	29	1.97
5111458--5111903	88	5.1	88	76	9	290	28	15	25	29	1.96
5112006--5112322	40	7.8	40	77	9	300	30	24	21	23	1.99
5112007--5112338	82	4.0	82	88	3	443	32	24	19	23	1.98
5112089--5112322	122	1.9	122	80	8	271	30	24	20	23	1.99
5117206--5117708	47	10.6	47	92	3	760	28	28	8	34	1.87
5117206--5117708	96	5.3	96	93	2	786	28	28	8	34	1.87
5119153--5119272	56	2.1	56	98	0	231	22	23	9	45	1.81
5121718--5122105	125	3.1	125	91	2	613	27	18	14	39	1.89
5122040--5122219	100	1.8	99	87	1	270	24	18	11	46	1.81
5121770--5122426	351	1.9	350	89	2	1023	26	17	13	41	1.87
5122128--5122857	125	5.7	126	79	9	744	27	17	14	41	1.87
5122128--5122814	127	5.4	132	79	11	627	27	17	13	41	1.87
5138462--5138559	46	2.1	46	98	0	187	32	14	25	27	1.94
5139888--5139914	13	2.1	13	100	0	54	37	0	14	48	1.45
5144111--5144151	21	2.0	21	90	0	64	29	21	29	19	1.98
5153735--5153787	24	2.3	23	80	6	61	7	16	11	64	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155256--5155301	25	1.9	23	86	8	65	28	13	19	39	1.89
5155620--5155686	25	2.6	25	76	9	64	46	8	1	43	1.44
5156130--5156171	11	3.8	11	80	0	57	69	23	2	4	1.20
5156123--5156171	22	2.2	22	92	7	82	67	22	4	6	1.30
5162594--5162767	87	2.0	87	98	0	339	44	16	3	36	1.64
5163063--5163116	23	2.4	22	81	3	63	59	3	1	35	1.26
5163064--5163113	11	4.5	11	77	5	55	60	4	2	34	1.27
5170730--5170768	3	13.0	3	100	0	78	33	0	33	33	1.58
5176796--5176829	9	3.8	9	84	0	50	50	2	0	47	1.16
5178255--5178285	4	7.8	4	92	0	53	45	25	3	25	1.69
5178255--5178285	16	1.9	16	100	0	62	45	25	3	25	1.69
5191484--5191573	40	2.3	40	86	5	121	25	8	14	51	1.71
5198594--5198660	34	1.9	35	84	3	91	44	13	8	32	1.75
5204668--5204740	36	2.0	37	91	2	121	60	5	0	34	1.20
5211173--5211227	28	2.0	29	85	7	78	25	0	0	74	0.82
5211202--5211242	21	1.9	21	85	5	55	21	0	4	73	1.02
5212874--5212964	47	2.0	47	86	4	132	23	18	6	51	1.69
5223292--5223321	15	1.9	16	93	6	53	60	3	0	36	1.14
5237331--5237398	31	2.2	31	91	0	109	30	14	32	22	1.94
5238186--5238232	17	2.6	18	80	6	51	53	0	4	42	1.20
5247292--5247463	83	2.1	83	97	0	326	34	22	11	31	1.89
5249561--5249625	23	2.9	22	80	11	78	43	18	18	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5252601--5252762	41	4.0	41	80	7	177	21	18	25	33	1.96
5252605--5252758	82	1.9	82	83	5	204	21	19	25	33	1.97
5254096--5254165	35	2.0	35	100	0	140	40	17	8	34	1.80
5261134--5261177	19	2.3	19	88	7	63	27	4	2	65	1.23
5261134--5261178	11	4.1	11	79	0	54	26	4	2	66	1.22
5268537--5268591	25	2.3	24	82	14	62	60	5	0	34	1.20
5271298--5271390	39	2.5	37	80	7	98	27	29	22	20	1.98
5271566--5271610	22	2.0	24	82	8	58	37	22	0	40	1.54
5271560--5271610	23	2.2	23	82	10	59	37	21	0	41	1.54
5272471--5272508	15	2.5	15	91	0	58	2	18	7	71	1.23
5272654--5272721	31	2.3	28	78	9	73	41	2	1	54	1.24
5272700--5272738	21	1.9	20	84	5	51	46	2	0	51	1.14
5277637--5277679	21	2.0	21	82	8	52	23	20	4	51	1.66
5278814--5278853	20	2.0	20	85	9	55	2	15	5	77	1.04
5279030--5279068	21	1.9	20	84	5	51	46	2	0	51	1.14
5281424--5281452	12	2.4	12	100	0	58	27	0	0	72	0.85
5281981--5282028	23	2.1	22	84	3	60	33	10	2	54	1.46
5282017--5282046	13	2.3	13	94	0	51	33	0	0	66	0.92
5288704--5288735	5	6.4	5	100	0	64	59	0	0	40	0.97
5299159--5299931	86	8.9	85	83	3	807	29	22	23	24	1.99
5299788--5299940	43	3.5	44	72	7	150	28	22	24	24	2.00
5299920--5300323	44	9.2	44	70	12	231	31	19	21	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5299951--5300323	87	4.3	84	76	10	329	31	19	21	27	1.97
5300028--5300280	46	5.7	46	72	12	206	31	20	20	26	1.98
5299920--5300323	175	2.3	175	95	0	727	31	19	21	27	1.97
5300074--5300311	131	1.8	129	81	5	291	30	21	20	27	1.98
5305795--5305826	5	6.4	5	100	0	64	59	0	0	40	0.97
5308869--5308918	25	2.0	26	88	4	75	60	6	6	28	1.44
5309495--5309538	14	2.8	16	86	13	56	47	0	0	52	1.00
5309904--5309940	13	3.0	13	84	7	51	54	0	0	45	1.00
5309932--5310000	24	2.9	23	87	8	86	56	0	5	37	1.23
5309908--5310000	23	4.0	23	81	5	98	54	0	4	40	1.20
5311380--5311410	2	15.5	2	100	0	62	48	0	0	51	1.00
5317109--5317208	42	2.4	42	94	0	173	37	15	28	20	1.92
5328052--5328118	30	2.2	31	78	5	73	28	19	14	37	1.91
5328857--5328955	49	2.1	46	83	9	119	34	3	55	7	1.42
5328982--5329046	30	2.2	30	85	0	85	38	16	18	26	1.92
5332977--5333045	29	2.5	29	80	15	83	49	0	0	50	1.00
5332977--5333048	26	2.7	26	76	16	74	50	0	0	50	1.00
5332977--5333050	17	3.9	19	72	22	59	50	0	0	50	1.00
5336798--5336822	11	2.3	11	100	0	50	40	0	0	60	0.97
5347320--5347437	50	2.5	44	77	16	128	31	24	4	39	1.74
5347366--5347396	16	1.9	16	93	0	53	25	32	0	41	1.56
5347350--5347449	50	2.0	50	96	0	182	32	23	4	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5347416--5347459	16	2.8	16	89	0	61	29	31	2	36	1.70
5348563--5348604	21	1.9	23	85	9	61	33	11	19	35	1.88
5352279--5352311	11	3.3	10	88	12	50	57	0	42	0	0.98
5359676--5359709	15	2.3	15	94	0	59	58	11	14	14	1.63
5361901--5363475	132	11.9	132	94	0	2704	30	25	16	27	1.97
5370142--5370175	15	2.3	15	94	0	59	58	11	14	14	1.63
5375393--5375605	106	2.0	106	85	3	286	29	16	14	39	1.88
5378469--5378514	24	2.0	23	83	12	58	58	15	2	23	1.48
5379924--5379961	18	2.1	19	90	5	60	60	5	0	34	1.19
5384582--5384733	10	15.3	9	68	21	67	36	2	2	58	1.26
5384608--5384689	19	4.3	19	72	15	71	34	3	3	58	1.33
5384601--5384700	29	3.5	28	74	15	96	35	3	3	59	1.28
5384601--5384681	39	2.1	39	84	9	103	34	3	2	59	1.29
5385136--5385191	29	1.9	29	85	7	78	33	5	1	58	1.31
5385143--5385198	20	2.9	18	80	19	60	30	7	3	58	1.42
5384286--5385883	656	2.5	650	81	7	1759	35	6	11	45	1.68
5385293--5385344	19	2.6	19	87	6	68	36	1	1	59	1.19
5385789--5385835	20	2.3	20	88	0	67	29	0	4	65	1.11
5392533--5392634	24	4.3	24	81	5	127	27	12	10	49	1.74
5393465--5393523	31	1.9	31	92	0	100	22	22	3	52	1.61
5393615--5393716	22	4.3	23	80	13	102	39	20	24	15	1.92
5398331--5398410	41	2.0	41	92	0	133	27	21	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5398665--5398718	12	4.2	12	77	13	63	44	9	3	42	1.54
5401398--5401485	22	3.9	22	74	12	79	38	19	25	17	1.92
5401397--5401523	25	5.3	24	77	12	120	40	20	22	16	1.91
5403913--5403962	24	2.1	24	96	0	91	42	4	22	32	1.72
5407670--5407828	84	1.9	84	83	5	205	32	27	16	23	1.96
5407674--5407837	43	3.9	42	75	12	156	32	28	17	21	1.96
5413566--5413631	8	7.4	8	72	21	51	57	4	4	33	1.39
5414192--5414238	24	2.0	24	86	0	67	53	0	8	38	1.32
5416658--5416693	17	2.1	17	100	0	72	47	25	0	27	1.52
5417909--5418045	40	3.4	40	95	0	247	27	21	21	29	1.98

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