genome.fa.s4.2.7.7.80.10.50.1000.121.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_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  121  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)
38335300--38335364	30	2.2	30	91	0	103	29	3	13	53	1.55
38342352--38342547	43	4.6	42	76	8	155	29	25	17	28	1.97
38342352--38342593	85	2.8	85	85	3	283	29	26	16	27	1.97
38342404--38342621	85	2.5	85	85	4	269	29	24	17	27	1.97
38344551--38344871	46	6.8	48	76	12	263	26	17	31	24	1.97
38355454--38355551	7	13.6	7	89	6	151	15	0	38	45	1.46
38355454--38355551	22	4.5	22	90	3	155	15	0	38	45	1.46
38359023--38359124	50	2.0	50	96	0	186	36	14	22	26	1.93
38359021--38359142	50	2.6	44	78	14	145	34	16	22	26	1.95
38359118--38359290	31	5.6	31	86	5	251	26	19	27	27	1.99
38359317--38359438	47	2.6	46	85	1	154	28	15	26	29	1.96
38359409--38359523	42	2.7	42	83	4	151	30	14	26	27	1.95
38361553--38361583	13	2.3	14	94	5	55	54	29	0	16	1.42
38361553--38361583	7	4.6	7	92	8	55	54	29	0	16	1.42
38367600--38367823	67	3.4	63	74	10	182	32	17	27	23	1.97
38368982--38369012	16	1.9	16	100	0	62	12	22	19	45	1.84
38368985--38369020	16	2.2	16	90	0	54	13	19	22	44	1.86
38370937--38371026	40	2.2	40	84	0	108	24	22	27	25	2.00
38370962--38371038	40	1.9	40	81	0	91	23	20	28	27	1.99
38375036--38375216	47	3.9	47	91	0	274	33	11	28	26	1.90
38375065--38375136	22	3.1	22	64	24	58	33	13	29	23	1.93
38375110--38375185	23	3.2	25	62	24	63	28	13	34	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38375216--38375368	48	3.3	48	84	10	212	35	6	27	30	1.82
38375216--38375408	94	2.1	89	80	7	208	34	8	28	28	1.87
38375514--38375585	37	1.9	37	94	0	126	22	19	30	27	1.98
38376099--38376403	149	2.0	153	96	3	564	28	17	18	35	1.94
38376975--38377157	50	3.6	48	80	8	177	25	15	24	34	1.95
38380938--38381420	49	10.1	49	88	4	736	31	9	30	28	1.88
38380938--38381420	47	10.1	48	88	4	717	31	9	30	28	1.88
38380938--38381420	96	5.0	96	96	0	797	31	9	30	28	1.88
38395310--38395359	24	2.1	24	96	0	91	40	26	18	16	1.90
38396925--38396966	20	2.1	20	91	8	68	14	19	19	47	1.82
38412715--38412793	37	2.1	37	90	0	122	25	29	18	26	1.98
38412912--38413420	47	10.7	47	93	1	813	28	29	9	32	1.88
38412912--38413420	239	2.1	235	91	2	824	28	29	9	32	1.88
38418447--38418662	119	1.8	120	83	7	287	25	21	26	26	1.99
38418440--38418664	40	5.7	40	84	5	269	24	21	27	26	2.00
38418447--38418697	119	2.1	119	80	7	269	26	20	26	26	1.99
38426552--38426776	40	5.7	40	84	5	278	24	21	27	25	1.99
38426552--38426783	119	1.9	119	81	6	272	25	21	27	25	1.99
38429411--38429444	13	2.6	13	90	0	50	55	2	0	41	1.15
38429554--38429586	16	2.0	17	88	5	50	54	3	0	42	1.15
38434867--38434945	33	2.4	34	82	2	88	26	26	21	25	1.99
38444729--38444818	31	2.9	30	83	9	110	12	18	13	55	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38447106--38447157	24	2.2	24	100	0	104	32	7	21	38	1.82
38452565--38452633	31	2.2	32	92	2	113	8	15	15	59	1.60
38452591--38452637	16	2.9	16	75	12	51	8	14	12	63	1.50
38456700--38456744	13	3.7	13	80	17	60	35	0	13	51	1.41
38456695--38456744	23	2.2	23	92	3	84	36	0	12	52	1.39
38475287--38475417	38	3.2	38	71	17	127	30	23	17	28	1.97
38475332--38475549	48	4.6	48	84	1	278	31	21	16	30	1.95
38475294--38475506	95	2.4	88	85	7	270	31	23	15	29	1.95
38475338--38475549	95	2.2	95	93	0	361	31	21	16	31	1.95
38478167--38478204	15	2.6	15	87	4	51	57	10	15	15	1.64
38482584--38482853	46	5.7	48	72	11	155	24	27	18	29	1.98
38490365--38490488	28	4.4	28	92	1	185	26	12	27	33	1.93
38497754--38497931	27	6.6	27	79	3	115	28	28	16	26	1.97
38497754--38497931	54	3.3	55	80	10	204	28	28	16	26	1.97
38497775--38497930	82	1.9	81	85	3	215	28	28	16	26	1.97
38505779--38505956	27	6.6	27	79	3	115	28	28	16	26	1.97
38505779--38505956	54	3.3	55	80	10	204	28	28	16	26	1.97
38505800--38505955	82	1.9	81	85	3	215	28	28	16	26	1.97
38510867--38511044	27	6.6	27	74	6	119	28	16	26	29	1.97
38510864--38511044	82	2.2	81	81	4	204	28	16	25	29	1.97
38518853--38519030	27	6.6	27	74	6	119	28	16	26	29	1.97
38518850--38519030	82	2.2	81	81	4	204	28	16	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38520782--38520905	28	4.4	28	92	1	185	26	12	27	33	1.93
38527797--38528012	48	4.5	48	97	0	387	32	8	29	29	1.86
38528188--38528284	37	2.6	37	93	0	158	25	20	28	24	1.99
38529564--38529841	40	6.9	40	87	3	360	21	21	28	27	1.99
38529563--38529841	80	3.5	80	88	2	398	22	21	28	27	1.99
38531177--38531349	46	3.7	46	77	13	192	22	21	26	28	1.99
38531175--38531344	93	1.8	93	93	0	295	22	22	27	28	1.99
38532690--38532765	29	2.7	29	89	2	109	23	14	26	35	1.93
38536298--38536649	48	7.4	48	94	3	615	34	7	27	29	1.85
38536299--38536649	187	1.9	190	93	3	618	34	7	27	29	1.85
38536821--38536923	37	2.8	37	95	1	190	22	20	32	25	1.98
38545512--38545603	39	2.3	40	87	5	125	23	23	27	25	2.00
38545828--38545995	47	3.6	47	90	0	255	33	8	30	27	1.86
38553014--38553123	55	2.0	55	98	0	211	36	13	19	30	1.90
38554128--38554186	6	9.7	6	79	17	68	47	15	18	18	1.83
38554137--38554216	31	2.5	31	86	6	99	50	12	17	20	1.78
38554353--38554454	27	3.8	26	84	5	114	36	19	24	19	1.95
38554613--38554674	22	2.8	22	78	11	65	35	20	19	24	1.96
38555101--38555273	27	6.4	27	87	0	240	24	21	19	34	1.96
38555102--38555643	54	10.3	54	83	6	628	26	20	17	35	1.95
38555101--38555643	81	6.9	81	84	6	646	26	20	17	35	1.95
38555281--38555662	27	14.2	27	86	2	464	27	19	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38555700--38555816	27	4.3	27	84	6	123	29	9	22	39	1.85
38555886--38555960	27	2.8	27	89	0	114	41	8	20	30	1.81
38555620--38556059	229	1.9	228	82	1	540	32	10	20	37	1.85
38555939--38556144	27	7.6	27	82	0	241	33	8	18	38	1.82
38557180--38557335	43	3.7	43	78	5	136	32	28	18	20	1.96
38559811--38559857	23	2.0	23	100	0	94	34	17	12	36	1.87
38560377--38560420	15	2.9	15	83	10	54	56	18	15	9	1.65
38560395--38560437	15	2.9	15	86	6	52	53	20	11	13	1.71
38562863--38562980	59	2.0	59	100	0	236	35	28	15	20	1.93
38564647--38564685	21	1.9	21	89	5	62	48	10	5	35	1.59
38576905--38576948	22	2.0	22	90	0	70	34	6	20	38	1.79
38578912--38579180	49	5.6	49	71	11	182	25	28	17	27	1.98
38578912--38579123	93	2.2	95	79	11	231	27	29	17	25	1.98
38586148--38586282	29	4.7	29	77	11	138	28	14	32	25	1.94
38591207--38591379	49	3.6	47	75	14	156	25	28	16	28	1.97
38591207--38591478	93	2.9	93	81	5	235	25	29	16	28	1.97
38592881--38592918	20	1.9	20	89	10	60	39	10	7	42	1.69
38596428--38596534	48	2.2	48	85	3	135	39	20	17	22	1.93
38600233--38600280	25	1.9	25	86	0	69	33	25	16	25	1.96
38600394--38600488	23	4.1	23	90	5	156	28	18	21	31	1.97
38600393--38600509	23	5.0	24	87	7	134	28	19	22	29	1.98
38600703--38600766	31	2.1	31	93	0	110	37	15	23	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38602157--38602289	35	3.8	35	83	2	160	45	21	7	25	1.78
38619410--38619543	35	3.8	35	77	11	121	42	20	10	26	1.84
38627456--38627834	47	8.1	47	93	0	571	31	8	31	27	1.88
38640633--38640856	40	5.7	40	82	7	233	25	28	20	25	1.99
38640633--38640857	79	2.8	78	80	6	247	25	28	20	25	1.99
38640788--38640865	40	1.9	41	82	10	97	26	28	20	24	1.99
38648575--38648799	40	5.7	40	82	6	233	25	28	21	25	1.99
38648731--38648808	40	1.9	41	82	10	97	26	28	20	24	1.99
38650493--38650629	43	3.2	43	77	8	127	27	26	19	26	1.99
38655479--38655681	53	3.8	54	76	3	194	21	22	18	37	1.94

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