genome.fa.s4.2.7.7.80.10.50.1000.153.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  153  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)
49736787--49736842	18	3.1	18	87	7	69	71	1	1	25	1.05
49741293--49741534	40	6.1	40	90	3	348	26	27	22	23	2.00
49751233--49751346	47	2.4	48	81	8	119	25	31	18	24	1.97
49751839--49751896	30	1.9	30	92	0	98	27	25	13	32	1.94
49753973--49754289	47	6.7	47	77	11	244	27	16	30	24	1.97
49753973--49754289	94	3.3	96	76	13	270	27	16	30	24	1.97
49756692--49756875	40	4.7	40	82	8	207	23	22	27	26	2.00
49779120--49779423	40	7.6	40	84	6	382	25	26	23	24	2.00
49781294--49781556	47	5.7	47	80	11	235	25	30	16	28	1.97
49782856--49782975	56	2.1	56	98	0	231	45	9	23	22	1.81
49784423--49785314	47	18.8	47	96	1	1541	32	8	29	29	1.87
49784423--49785314	143	6.3	141	95	1	1541	32	8	29	29	1.87
49784423--49785314	190	4.7	188	95	1	1541	32	8	29	29	1.87
49785433--49785511	37	2.1	37	88	0	113	22	18	32	25	1.97
49787366--49787669	40	7.6	40	84	6	209	24	22	27	25	2.00
49787449--49787754	120	2.6	120	86	2	393	25	21	27	25	2.00
49787484--49787760	40	6.9	40	87	0	358	25	21	26	25	2.00
49789004--49789123	56	2.1	56	98	0	231	45	9	23	22	1.81
49790980--49791394	47	8.7	47	95	2	749	31	8	29	30	1.86
49790980--49791394	96	4.4	92	96	1	613	31	8	29	30	1.86
49790980--49791394	143	2.9	143	94	2	748	31	8	29	30	1.86
49791372--49791421	16	3.4	16	70	30	56	36	0	28	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49791366--49791422	28	2.0	28	100	0	114	35	0	28	36	1.58
49791272--49791515	122	2.0	122	99	0	479	32	6	29	31	1.83
49791319--49791469	75	2.0	75	98	0	293	32	5	29	32	1.80
49791394--49791566	47	3.7	47	91	0	265	32	8	30	28	1.86
49791685--49791763	37	2.1	37	90	0	122	24	18	31	25	1.98
49798964--49799005	22	1.9	22	85	9	59	35	4	11	47	1.61
49814990--49815014	7	3.6	7	100	0	50	28	28	0	44	1.55
49817571--49817749	79	2.2	80	81	7	204	25	27	22	24	2.00
49817565--49817749	40	4.7	40	82	7	216	25	27	22	24	2.00
49818917--49819094	84	2.1	85	98	1	349	26	27	8	37	1.85
49820245--49820373	47	2.7	47	91	0	204	24	29	18	27	1.98
49820433--49820560	46	2.7	46	84	7	143	25	31	16	26	1.96
49823031--49823251	46	4.7	46	71	13	155	28	18	29	23	1.98
49823169--49823297	47	2.8	48	75	12	124	27	17	30	24	1.97
49823037--49823297	140	1.9	141	81	4	321	27	18	30	23	1.98
49827984--49828024	13	3.1	14	83	13	52	36	0	7	56	1.27
49834531--49834765	39	6.0	40	91	3	345	24	22	27	26	2.00
49834532--49834765	79	3.0	78	90	5	341	24	22	26	26	2.00
49837830--49837876	23	2.0	23	83	0	58	23	31	8	36	1.85
49839200--49839245	6	7.7	6	88	9	67	28	2	0	69	1.00
49867334--49867453	56	2.1	56	98	0	231	22	23	9	45	1.81
49868751--49869017	47	5.7	48	79	12	238	27	16	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49870891--49871198	40	7.6	40	85	4	400	24	23	26	25	2.00
49870891--49871198	123	2.5	122	86	5	426	24	23	26	25	2.00
49870891--49871198	163	1.9	163	95	0	562	24	23	26	25	2.00
49879489--49879652	46	3.5	44	80	10	159	23	31	17	28	1.97
49879536--49879700	46	3.5	46	81	7	147	22	29	19	28	1.98
49879488--49879681	93	2.1	94	80	11	220	22	31	18	27	1.97
49895452--49895521	27	2.5	28	95	2	124	27	12	28	31	1.93
49895452--49895534	27	3.0	27	87	5	96	30	12	25	32	1.92
49895424--49895535	28	4.0	27	81	6	98	29	13	25	31	1.94
49897599--49897727	39	3.3	39	86	2	125	44	10	10	34	1.73
49897616--49897764	39	3.8	39	88	1	210	44	8	9	37	1.68
49897616--49897764	77	1.9	78	86	1	210	44	8	9	37	1.68
49898408--49898456	21	2.4	20	87	12	73	73	0	18	8	1.07
49898414--49898456	20	2.1	21	91	8	72	72	0	20	6	1.08
49900395--49900526	50	2.6	52	84	6	189	35	14	12	37	1.83
49904730--49904987	40	6.5	40	89	3	396	24	22	28	25	1.99
49910565--49910737	27	6.4	27	87	0	211	34	17	21	27	1.95
49918083--49918255	27	6.4	27	86	0	211	34	17	21	26	1.96
49923455--49923533	31	2.5	31	95	0	140	22	25	18	32	1.97
49923845--49923892	11	4.6	11	80	12	57	33	18	12	35	1.89
49933719--49933757	19	2.1	19	85	0	51	71	7	5	15	1.26
49934210--49934296	28	3.2	27	80	12	108	33	24	24	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49934400--49934463	28	2.3	28	91	5	103	29	7	29	32	1.86
49940606--49941185	48	12.1	48	93	0	989	36	6	25	31	1.82
49941155--49941208	26	2.1	26	100	0	108	38	0	22	38	1.54
49941110--49941248	74	1.9	74	92	3	235	37	3	24	34	1.73
49941389--49941528	37	3.8	37	95	0	244	24	19	31	25	1.98
49945924--49945962	19	2.1	19	85	0	51	71	7	5	15	1.26
49946624--49946684	28	2.2	28	88	5	88	31	8	27	32	1.86
49948385--49948597	41	5.2	41	85	1	286	19	22	24	34	1.96
49948380--49948637	122	2.1	122	79	6	272	19	21	23	35	1.96
49953272--49953515	40	6.1	40	90	1	330	22	24	28	24	2.00
49961034--49961071	7	5.4	7	93	0	67	42	42	0	15	1.47
49965201--49965294	40	2.3	40	83	7	111	26	17	29	26	1.97
49974678--49974713	15	2.4	15	90	0	54	8	16	16	58	1.61
49976885--49977071	49	3.8	49	91	0	275	25	17	27	29	1.97
49979739--49979816	41	1.9	41	94	0	138	44	21	6	26	1.76
49988245--49988377	43	3.1	43	91	4	200	11	24	32	32	1.90
49993683--49993790	38	2.8	38	85	0	135	23	24	25	27	2.00
49993762--49993858	43	2.3	41	89	3	140	11	23	32	31	1.90
49993835--49993867	16	2.1	16	100	0	66	12	33	30	24	1.91
50005389--50005564	46	3.8	45	79	10	194	22	21	27	28	1.99
50005386--50005556	93	1.8	93	91	2	281	22	21	28	28	1.99
50008844--50008893	20	2.4	21	83	3	57	44	6	2	48	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50018549--50018824	39	7.1	39	89	0	399	23	28	23	24	1.99
50018544--50018824	117	2.4	117	93	0	463	23	28	22	25	1.99
50034501--50034808	47	6.5	47	94	1	517	32	8	29	29	1.87
50040611--50040684	29	2.6	29	82	4	87	27	14	32	25	1.95
50048758--50048820	26	2.3	27	83	8	83	36	25	11	26	1.90
50048928--50049039	27	4.1	27	87	3	145	18	22	22	36	1.95
50058726--50058827	37	2.8	37	93	0	168	26	29	18	25	1.98
50058946--50059636	47	14.6	47	92	1	1139	29	28	8	32	1.87
50058946--50059636	190	3.6	190	94	0	1161	29	28	8	32	1.87
50065573--50065612	7	6.0	7	82	11	57	25	0	0	75	0.81
50065574--50065612	19	2.0	20	90	5	62	25	0	0	74	0.82
50069939--50070063	47	2.7	46	81	9	146	28	19	28	23	1.98
50069942--50070108	46	3.6	46	78	10	146	31	19	26	22	1.98
50069942--50070204	140	1.9	141	79	7	302	31	19	26	22	1.97
50083627--50083706	25	3.2	25	79	10	92	26	25	20	28	1.99
50083641--50083718	25	3.1	25	76	10	79	29	24	15	30	1.95
50087280--50087341	31	2.1	30	82	17	76	45	8	17	29	1.77
50103115--50103144	15	2.0	15	100	0	60	20	20	13	46	1.83
50105365--50105433	33	2.1	33	100	0	138	42	34	5	17	1.73
50113043--50113273	40	5.8	40	85	3	306	24	21	29	25	1.99
50113053--50113273	80	2.8	80	91	2	338	23	21	29	25	1.99
50113043--50113293	120	2.1	118	85	2	342	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50121141--50121372	40	5.8	41	86	3	312	24	21	28	25	1.99
50121141--50121392	120	2.1	119	86	2	353	24	21	28	26	1.99
50121141--50121372	80	2.9	80	90	1	358	24	21	28	25	1.99
50125373--50125640	47	5.7	46	73	11	190	22	29	19	28	1.98
50125373--50125637	94	2.8	93	77	11	283	22	29	19	28	1.98
50129525--50129608	28	3.0	28	91	0	132	36	14	16	32	1.89
50131365--50131518	40	3.9	40	80	0	157	18	25	16	38	1.92
50133527--50133794	40	6.7	40	93	0	439	24	23	29	22	1.99
50135173--50135290	40	3.0	40	82	0	146	18	24	17	38	1.92
50136750--50136791	20	2.1	20	95	0	75	30	7	14	47	1.71

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