genome.fa.s4.2.7.7.80.10.50.1000.167.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  167  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)
54239611--54239835	40	5.7	40	82	6	233	25	28	21	25	1.99
54239767--54239844	40	1.9	41	82	10	97	26	28	20	24	1.99
54246872--54246978	39	2.7	40	88	1	126	27	28	19	25	1.99
54246872--54247094	40	5.6	39	80	5	198	25	28	21	25	1.99
54247026--54247103	40	1.9	41	82	10	97	26	28	20	24	1.99
54250304--54250462	35	4.5	35	75	3	149	30	10	16	42	1.81
54254178--54254235	30	2.0	30	96	3	109	25	17	25	31	1.97
54262217--54262299	38	2.2	38	85	6	107	26	24	25	24	2.00
54263356--54263380	10	2.5	10	100	0	50	68	0	0	32	0.90
54263891--54263945	21	2.7	20	86	8	74	34	12	1	50	1.51
54263867--54263938	28	2.6	28	77	14	69	31	19	0	48	1.49
54267202--54267271	32	2.3	31	76	18	76	10	31	11	47	1.73
54267840--54267918	31	2.5	31	85	0	104	20	25	40	13	1.89
54270384--54270488	41	2.6	41	83	4	124	26	27	14	31	1.95
54282788--54282867	40	2.0	40	92	0	133	42	3	27	26	1.72
54283838--54283879	22	2.0	21	95	4	75	14	40	23	21	1.90
54285888--54285947	31	1.9	31	83	12	79	35	8	18	38	1.81
54290364--54290531	40	4.2	40	82	1	149	26	27	22	23	2.00
54290387--54290531	40	3.6	40	85	4	175	24	26	23	25	2.00
54291718--54291795	38	2.0	40	95	5	142	34	21	12	30	1.91
54298432--54298542	40	2.8	40	83	1	98	25	28	23	22	1.99
54298455--54298598	40	3.6	40	84	6	184	23	26	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54299787--54299862	38	2.0	38	97	0	143	32	23	11	31	1.91
54309227--54309276	24	2.1	24	100	0	100	50	8	8	34	1.61
54313144--54313190	6	8.5	6	77	17	57	36	0	12	51	1.40
54313143--54313186	22	2.0	22	95	0	79	38	0	11	50	1.39
54313144--54313192	10	5.1	10	85	9	66	34	0	14	51	1.43
54314836--54315018	25	7.3	25	70	20	123	21	16	24	37	1.93
54314825--54315099	50	5.5	50	79	4	259	24	16	21	38	1.92
54320684--54320864	25	7.2	25	67	18	99	25	14	22	37	1.92
54320674--54320862	50	3.8	50	80	4	184	25	14	22	37	1.93
54320684--54320913	50	4.6	49	77	10	150	24	15	23	37	1.93
54320755--54320912	25	6.3	25	66	22	91	21	14	25	37	1.92
54334273--54334312	18	2.2	18	86	8	55	60	0	7	32	1.25
54342510--54342550	21	2.0	21	85	0	55	19	31	29	19	1.96
54343726--54343770	19	2.4	19	80	0	54	40	15	15	28	1.88
54349749--54349776	11	2.5	11	100	0	56	39	0	17	42	1.50
54351719--54351743	12	2.1	12	100	0	50	24	0	36	40	1.55
54356906--54356936	10	3.1	10	95	0	53	19	38	9	32	1.84
54356893--54356944	20	2.5	21	73	14	54	26	36	9	26	1.87
54359244--54359320	40	1.9	40	91	0	127	44	9	9	37	1.68
54360093--54360139	17	2.7	18	81	12	62	46	0	2	51	1.13
54360465--54360508	12	3.5	12	77	22	54	45	0	11	43	1.40
54360463--54360516	26	2.1	26	92	0	90	48	0	9	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54363952--54363999	19	2.5	20	86	3	62	62	2	4	31	1.26
54366366--54366401	11	3.2	11	92	7	63	33	0	11	55	1.35
54366366--54366400	12	3.0	12	95	4	63	34	0	8	57	1.29
54367661--54367727	31	2.1	32	86	8	93	26	1	2	68	1.12
54374466--54375105	47	13.6	47	93	2	1068	33	8	28	29	1.86
54375223--54375323	36	2.8	36	93	1	166	24	18	29	26	1.98
54376595--54376876	40	7.1	40	91	2	399	21	21	30	25	1.98
54376601--54376874	79	3.5	78	88	2	388	20	22	31	25	1.98
54376599--54376876	119	2.3	118	88	2	396	21	22	30	25	1.98
54380518--54381249	47	15.6	47	96	1	1315	32	8	29	29	1.87
54380631--54380705	22	3.3	22	63	7	60	30	10	29	29	1.91
54380518--54381249	187	3.9	188	96	0	1315	32	8	29	29	1.87
54381369--54381468	37	2.7	37	96	0	182	25	19	31	25	1.98
54386248--54386285	19	2.0	20	85	15	53	39	23	0	36	1.55
54386515--54386685	93	1.8	93	92	0	288	29	28	20	21	1.98
54386510--54386682	46	3.7	46	79	10	199	30	27	20	21	1.98
54393369--54393406	19	2.0	20	85	15	53	39	23	0	36	1.55
54393636--54393806	93	1.8	93	93	0	297	28	28	21	21	1.98
54393631--54393803	46	3.7	46	79	10	208	29	27	20	21	1.98
54403719--54403890	52	3.2	52	85	6	213	36	12	23	27	1.91
54403748--54403890	28	5.2	28	87	8	215	35	13	25	25	1.92
54403914--54404111	101	2.0	102	90	5	321	33	12	24	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54403914--54404111	51	3.9	51	90	4	303	33	12	24	29	1.92
54408271--54408328	24	2.4	25	85	5	82	36	13	22	27	1.92
54408279--54408339	24	2.7	22	80	9	68	36	14	19	29	1.92
54410061--54410097	15	2.3	17	86	9	51	51	10	0	37	1.37
54410075--54410175	38	2.7	38	78	6	114	52	4	2	39	1.38
54410170--54410224	27	2.0	27	100	0	110	36	3	10	49	1.56
54413799--54413871	33	2.2	33	92	0	119	39	13	4	42	1.64
54421655--54421722	28	2.4	28	82	0	73	22	23	19	35	1.96
54421670--54421785	28	4.1	28	78	4	110	25	18	24	32	1.97
54421737--54421800	28	2.3	28	91	0	101	28	18	23	29	1.98
54423565--54423669	41	2.6	41	80	8	108	40	22	17	20	1.92
54423738--54423772	17	2.1	17	94	0	61	51	31	0	17	1.45
54429099--54429372	43	6.4	42	89	2	377	21	16	30	31	1.96
54429639--54429739	7	14.1	7	93	4	175	16	13	14	54	1.71
54432935--54433107	46	3.7	46	79	10	190	23	20	26	29	1.99
54432933--54433102	93	1.8	93	90	0	277	22	21	27	28	1.99
54449116--54449223	26	4.2	26	91	0	180	32	6	24	37	1.81
54455654--54456766	370	3.0	370	99	0	2172	30	13	24	30	1.94
54456877--54456984	26	4.2	26	92	0	180	33	7	23	36	1.83
54460194--54460402	53	3.9	53	81	5	222	22	24	16	36	1.94
54460181--54460394	108	2.0	107	87	3	304	21	25	16	37	1.93
54460381--54460502	47	2.6	47	92	0	208	27	22	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54473009--54473059	24	2.1	24	85	0	66	52	7	5	33	1.54
54474302--54474478	46	3.8	46	80	11	177	27	20	28	23	1.99
54474504--54474702	49	4.1	48	77	11	192	24	19	29	26	1.98
54476314--54476393	42	2.0	42	85	9	112	20	20	42	17	1.89
54478219--54478410	53	3.7	53	82	6	189	21	24	18	35	1.95
54485517--54485547	16	1.9	16	93	0	53	35	22	0	41	1.54
54485514--54485553	20	2.0	20	85	0	53	37	22	0	40	1.54
54485736--54485985	55	4.7	52	79	10	233	21	24	19	34	1.96
54485783--54485983	108	1.8	110	89	6	320	21	25	19	33	1.97
54487337--54487375	20	1.9	21	89	5	62	25	33	15	25	1.95
54498709--54498761	21	2.5	21	78	9	54	47	1	11	39	1.50
54504646--54504797	40	3.8	40	91	1	234	26	28	21	23	1.99
54511428--54511601	47	3.7	47	82	9	191	23	32	18	25	1.97
54511473--54511646	94	1.9	93	83	6	226	24	31	18	25	1.97
54523172--54523339	46	3.6	46	74	12	155	28	18	30	22	1.97
54524503--54524543	22	1.9	21	95	5	73	9	43	26	19	1.82
54528495--54528530	18	2.0	18	94	0	63	50	13	16	19	1.79
54529675--54529713	2	19.5	2	100	0	78	51	48	0	0	1.00
54534692--54534738	18	2.5	20	82	6	62	31	8	10	48	1.68
54539897--54540054	43	3.7	42	74	7	140	23	17	28	30	1.97
54542707--54542746	19	2.1	19	95	0	71	32	5	37	25	1.77
54545336--54545480	58	2.5	57	80	11	145	33	11	8	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54546491--54546520	12	2.5	12	88	0	51	0	10	0	90	0.47
54549105--54549168	32	2.0	33	84	9	87	67	6	6	20	1.35
54558724--54558929	41	5.0	41	84	0	214	33	17	27	21	1.96
54565937--54566056	41	3.0	41	81	2	127	33	15	27	23	1.95
54567041--54567067	13	2.1	13	100	0	54	14	33	37	14	1.88
54570786--54570856	28	2.5	28	88	8	101	28	14	26	30	1.95
54582631--54582694	23	2.9	22	75	11	69	26	3	0	70	1.02
54593358--54593544	48	3.9	48	82	2	232	18	16	27	36	1.93
54597651--54597687	17	2.2	17	90	0	56	51	5	21	21	1.68
54603822--54604263	47	9.4	47	95	0	767	32	8	29	28	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