genome.fa.s4.2.7.7.80.10.50.1000.165.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   254   255   

This is table  165  of  255  ( 30512 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)
54064453--54064742	141	2.1	141	91	0	472	26	16	27	28	1.97
54064482--54064691	47	4.5	47	71	10	169	28	16	26	28	1.97
54092259--54092387	49	2.6	50	82	7	156	27	20	27	23	1.99
54095813--54095847	15	2.3	15	95	0	61	34	34	22	8	1.85
54096750--54096847	23	4.3	21	75	13	79	32	19	21	26	1.97
54103491--54103695	40	5.2	40	88	2	272	23	22	28	25	1.99
54106618--54106739	22	5.3	22	66	21	79	33	13	29	23	1.93
54106596--54106789	47	4.1	47	94	0	325	34	11	29	24	1.90
54115506--54115774	40	6.7	40	93	1	416	23	22	27	26	2.00
54120447--54120522	24	3.3	23	80	9	84	32	18	22	26	1.97
54120447--54120543	46	2.1	46	86	3	133	35	17	22	24	1.95
54120468--54120567	23	4.4	23	69	14	64	32	18	24	26	1.97
54120468--54120567	46	2.2	45	85	5	130	32	18	24	26	1.97
54123960--54124229	46	5.7	47	67	18	134	26	18	30	25	1.98
54133789--54133979	41	4.7	41	83	5	235	30	24	17	27	1.97
54133746--54133968	82	2.7	81	81	5	252	32	24	16	26	1.96
54134294--54134319	9	2.9	9	100	0	52	23	23	0	53	1.46
54135875--54135913	19	2.1	19	85	9	53	51	10	2	35	1.50
54140630--54140711	43	2.0	43	85	4	114	26	28	17	28	1.97
54140663--54140769	56	1.9	56	88	0	160	30	26	14	28	1.95
54142544--54142598	25	2.2	26	90	3	85	34	21	9	34	1.85
54161306--54161481	27	6.5	27	83	3	201	27	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54161307--54161462	82	1.9	81	88	3	233	26	15	28	29	1.96
54161303--54161481	82	2.2	81	82	3	225	27	15	27	30	1.96
54164080--54164230	55	2.8	55	90	4	234	25	13	29	31	1.94
54164080--54164230	27	5.5	28	91	3	220	25	13	29	31	1.94
54167020--54167171	43	3.6	43	77	12	163	26	17	26	28	1.98
54174599--54174821	41	5.5	41	86	6	285	30	27	17	24	1.98
54176670--54176710	21	2.0	21	85	0	55	36	7	31	24	1.83
54179584--54179734	27	5.6	27	85	3	160	27	15	28	28	1.96
54179583--54179734	55	2.8	54	83	4	171	27	15	28	28	1.96
54179584--54179734	82	1.8	82	81	2	187	27	15	28	28	1.96
54195676--54195744	30	2.3	31	89	5	113	30	26	14	28	1.95
54195768--54195858	42	2.2	42	95	0	164	39	21	12	26	1.89
54196004--54196126	26	4.8	26	92	1	196	26	23	23	26	2.00
54196004--54196126	52	2.4	51	97	2	230	26	23	23	26	2.00
54196176--54196250	20	3.8	20	89	6	102	34	18	10	36	1.86
54196193--54196231	11	3.7	11	80	13	55	33	20	10	35	1.86
54196193--54196249	9	5.8	10	76	15	57	35	19	8	36	1.83
54196949--54197029	27	3.0	27	87	7	112	22	25	22	29	1.99
54197181--54197309	27	4.8	27	83	2	161	31	8	20	39	1.83
54197184--54197323	54	2.6	54	85	4	192	31	8	22	37	1.84
54197154--54197308	81	1.9	81	85	2	213	30	9	20	39	1.84
54197275--54197498	54	4.1	54	85	4	157	39	9	22	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54197265--54197567	81	3.7	80	79	3	241	36	9	23	30	1.86
54197302--54197512	27	7.8	27	89	2	307	38	9	24	27	1.85
54197518--54197607	27	3.3	27	81	3	101	34	8	16	40	1.80
54199828--54199906	31	2.5	31	95	0	140	27	25	18	27	1.98
54200134--54200335	26	7.8	26	90	1	309	26	22	23	27	2.00
54200385--54200459	20	3.8	20	87	6	102	36	20	9	34	1.84
54201163--54201241	27	2.9	27	83	10	99	18	25	22	32	1.97
54201303--54201354	27	1.9	27	84	7	70	38	9	11	40	1.74
54201311--54201559	27	9.1	27	80	6	143	33	8	18	39	1.81
54201390--54201524	54	2.5	54	91	2	218	32	8	19	40	1.81
54201390--54201597	54	3.9	54	83	2	175	36	8	19	35	1.83
54201376--54201559	81	2.3	81	76	5	192	34	8	19	37	1.82
54201484--54201688	81	2.5	81	80	3	198	41	9	19	29	1.82
54201520--54201694	27	6.5	27	86	1	210	42	9	22	26	1.83
54201512--54201694	81	2.3	81	84	1	242	42	8	21	27	1.82
54201512--54201694	54	3.4	54	87	1	260	42	8	21	27	1.82
54201700--54201789	27	3.3	27	85	3	119	32	10	17	40	1.83
54204259--54204483	40	5.6	40	90	3	346	25	27	23	24	2.00
54212257--54212520	40	6.6	40	88	3	381	25	28	23	22	2.00
54212257--54212520	119	2.2	120	88	2	388	25	28	23	22	2.00
54221603--54221864	39	6.6	40	89	3	347	23	22	28	25	1.99
54221606--54221897	39	7.4	40	86	5	192	24	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54225990--54226019	16	1.9	16	93	6	53	36	0	13	50	1.42
54228938--54229010	38	1.9	38	88	0	110	31	27	12	28	1.93
54228983--54229112	48	2.7	48	91	1	208	31	21	14	32	1.93
54230096--54230133	6	6.2	6	96	3	67	0	63	0	36	0.95
54231334--54231368	18	2.0	18	88	5	54	28	11	34	25	1.91
54233609--54233654	19	2.4	19	85	3	65	47	13	10	28	1.76
54238114--54238274	89	1.8	87	84	10	220	21	19	29	29	1.98
54251664--54251877	38	5.5	39	85	6	265	23	28	25	23	2.00
54251664--54251877	116	1.8	116	86	4	306	23	28	25	23	2.00
54251664--54251877	78	2.8	75	84	8	252	23	28	25	23	2.00
54261172--54261433	39	6.6	40	89	3	347	23	22	28	25	1.99
54261175--54261466	39	7.4	40	86	5	192	24	21	27	25	1.99
54265557--54265586	16	1.9	16	93	6	53	36	0	13	50	1.42
54268502--54268574	38	1.9	38	88	0	110	31	27	12	28	1.93
54268547--54268676	48	2.7	48	91	1	208	31	21	14	32	1.93
54270884--54270918	18	2.0	18	88	5	54	28	11	34	25	1.91
54273160--54273205	19	2.4	19	85	3	65	47	13	10	28	1.76
54277906--54278081	46	3.8	46	78	10	196	21	21	27	29	1.98
54277903--54278073	93	1.8	93	92	0	288	21	22	27	28	1.99
54285488--54285663	46	3.8	46	78	10	196	22	21	27	28	1.99
54285485--54285655	93	1.8	93	91	0	279	22	22	26	28	1.99
54288016--54288437	137	3.1	135	89	5	634	41	8	4	45	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54289980--54290018	20	2.0	20	85	10	53	33	10	0	56	1.33
54306827--54307080	74	3.4	73	87	7	368	21	25	29	23	1.99
54306827--54307080	38	6.8	38	85	10	344	21	25	29	23	1.99
54310119--54310144	1	26.0	1	100	0	52	100	0	0	0	0.00
54336859--54337123	39	6.8	39	94	0	449	22	25	29	23	1.99
54338849--54338993	40	3.6	40	80	9	154	23	22	27	26	1.99
54338848--54339000	80	1.9	80	81	5	184	24	21	27	26	1.99
54349313--54349707	47	8.4	47	90	1	549	33	10	30	25	1.89
54349826--54349905	37	2.2	37	86	4	108	23	17	31	27	1.97
54360775--54360826	14	3.7	14	81	0	68	28	11	3	55	1.53
54361630--54361682	26	2.0	27	96	3	99	60	7	3	28	1.41
54364247--54364322	38	2.0	38	100	0	152	36	18	7	36	1.80
54366047--54366111	28	2.3	28	94	0	112	30	7	27	33	1.85
54373700--54373789	27	3.2	27	82	7	110	32	22	25	20	1.98
54373895--54373987	28	3.3	28	93	0	159	32	7	25	34	1.84
54377694--54378074	50	7.5	50	74	8	306	32	25	16	25	1.96
54377687--54377875	101	1.9	101	93	0	324	30	24	18	26	1.98
54377684--54378073	151	2.6	152	87	3	536	31	25	17	25	1.97
54379980--54380229	40	6.3	40	92	0	367	24	20	27	27	1.99
54379927--54380229	120	2.5	119	84	3	367	24	20	27	27	1.99
54387248--54387504	40	6.5	39	81	6	207	25	21	28	25	1.99
54387248--54387469	40	5.6	40	85	4	227	24	21	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54387248--54387469	79	2.8	79	82	4	232	24	21	27	26	1.99
54387323--54387504	79	2.3	79	81	2	215	25	20	28	25	1.99
54391661--54392053	40	9.8	40	92	1	590	24	29	21	23	1.99
54402293--54402353	26	2.3	26	85	5	77	27	19	16	36	1.93
54403507--54403543	18	2.0	19	89	5	58	21	16	16	45	1.84
54405904--54405971	21	3.1	21	69	19	66	19	13	27	39	1.89
54418001--54418381	47	8.0	47	95	1	645	31	8	30	28	1.88
54418001--54418379	192	2.0	188	94	2	659	31	8	30	29	1.88
54424500--54424621	21	5.8	21	68	14	72	16	34	26	22	1.95
54424500--54424629	43	3.0	43	80	5	165	16	35	24	23	1.95

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   254   255