genome.fa.s9.2.7.7.80.10.50.1000.189.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   

This is table  189  of  292  ( 35004 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)
56369649--56369718	28	2.5	26	80	13	77	35	2	4	57	1.33
56370266--56370354	3	30.0	3	75	10	76	32	7	1	58	1.34
56374690--56374800	47	2.4	47	84	6	154	35	23	16	25	1.95
56381943--56382053	47	2.4	47	84	6	154	35	23	16	25	1.95
56383396--56383427	12	2.5	13	90	10	57	37	15	0	46	1.46
56385077--56385108	2	16.0	2	100	0	64	50	0	0	50	1.00
56385330--56385388	25	2.5	24	81	13	68	38	11	5	44	1.63
56385595--56385655	3	20.3	3	100	0	122	65	0	0	34	0.93
56395932--56395964	14	2.3	15	89	5	50	24	15	6	54	1.63
56395921--56395964	22	2.0	23	82	8	56	27	15	4	52	1.63
56403076--56403124	3	16.3	3	100	0	98	67	0	0	32	0.91
56406278--56406304	14	1.9	14	100	0	54	22	22	7	48	1.75
56409184--56409248	27	2.4	27	92	0	103	21	26	13	38	1.91
56409338--56409485	31	4.8	31	94	0	251	26	28	18	26	1.98
56409305--56409485	93	1.9	94	87	2	265	26	28	17	28	1.97
56409478--56409590	33	3.5	33	85	4	149	26	23	12	38	1.90
56409877--56409917	19	2.2	19	100	0	82	34	7	14	43	1.73
56410698--56410740	21	2.0	21	100	0	86	37	18	9	34	1.83
56411314--56411363	11	4.5	11	80	14	66	60	4	0	36	1.16
56411311--56411360	23	2.3	21	89	6	73	60	4	0	36	1.16
56412716--56412799	39	2.2	39	97	2	161	29	4	15	50	1.65
56414884--56414954	27	2.6	26	82	4	88	14	28	36	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56415273--56415332	30	2.2	27	82	14	70	65	3	5	26	1.29
56415083--56415943	151	5.7	151	90	2	1290	55	7	7	29	1.54
56416126--56416158	15	2.2	15	94	0	57	51	0	0	48	1.00
56416274--56416313	16	2.5	15	84	11	53	12	5	2	80	0.98
56416281--56416313	16	2.0	16	94	5	57	12	6	3	78	1.04
56416592--56416634	19	2.2	20	87	8	61	69	2	2	25	1.12
56420427--56420472	20	2.3	20	85	3	58	43	2	0	54	1.12
56421100--56421143	23	2.0	22	86	4	61	61	0	2	36	1.09
56427268--56427325	30	1.9	31	82	3	73	29	1	13	55	1.49
56427451--56427480	2	15.0	2	100	0	60	50	0	0	50	1.00
56432988--56433060	21	3.5	21	77	7	60	15	4	20	60	1.51
56435779--56435841	28	2.2	28	86	5	83	26	1	15	55	1.50
56435777--56435831	28	2.0	28	92	0	92	25	1	14	58	1.47
56436772--56436828	30	1.9	30	92	7	98	21	33	31	14	1.92
56438000--56438048	15	3.2	15	80	11	55	53	0	2	44	1.12
56440287--56440467	46	3.8	46	88	4	229	43	13	23	19	1.87
56442069--56442234	46	3.6	46	92	0	260	41	15	22	20	1.90
56442069--56442282	92	2.3	95	84	4	272	42	14	21	20	1.88
56455678--56455703	12	2.2	12	100	0	52	50	23	0	26	1.50
56456069--56456144	38	2.0	38	100	0	152	34	7	10	47	1.67
56457569--56457598	13	2.4	13	94	5	53	23	0	6	70	1.11
56457801--56458020	43	5.1	43	89	1	323	25	19	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56457801--56458020	87	2.5	86	90	1	341	25	19	31	24	1.98
56458095--56458161	31	2.2	31	83	0	80	59	17	4	17	1.53
56458096--56458173	31	2.5	31	78	4	75	61	19	3	15	1.48
56463903--56464030	9	13.6	9	76	9	121	32	0	21	46	1.57
56463903--56464030	57	2.2	57	84	0	166	32	0	21	46	1.57
56464152--56464856	241	2.9	241	97	0	1320	33	15	17	33	1.91
56464898--56464957	24	2.5	24	88	0	93	45	8	20	26	1.79
56464898--56464968	24	3.0	24	78	12	83	45	7	19	28	1.76
56465016--56465149	64	2.1	64	95	0	241	47	4	9	38	1.57
56468894--56468928	17	2.0	17	88	5	52	65	14	0	20	1.26
56470981--56471089	37	2.9	37	94	0	182	26	32	19	22	1.97
56471183--56471450	47	5.7	47	96	0	484	29	29	8	32	1.87
56478898--56479027	29	4.5	29	85	6	156	31	13	26	28	1.94
56486793--56486922	29	4.5	29	85	6	156	31	13	26	28	1.94
56492407--56492602	40	4.7	40	78	15	173	26	26	21	26	1.99
56492450--56492551	50	2.0	50	90	3	161	23	25	21	29	1.99
56492410--56492589	90	2.0	90	82	8	224	25	26	21	27	1.99
56494701--56494995	141	2.1	142	97	1	556	21	10	28	38	1.87
56495639--56495799	29	5.6	29	92	0	232	28	14	31	25	1.95
56495635--56495819	87	2.1	87	82	1	228	28	15	31	24	1.95
56503622--56503842	78	2.8	79	81	11	274	26	26	20	25	1.99
56503622--56503844	40	5.7	40	88	7	289	26	26	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56504552--56504585	2	17.0	2	93	0	59	50	2	0	47	1.16
56510124--56510252	44	2.8	45	82	4	152	35	13	23	27	1.93
56510230--56510275	23	2.0	23	100	0	92	34	17	21	26	1.95
56533329--56533514	4	46.5	4	92	0	309	24	3	25	46	1.69
56537238--56537437	49	4.0	49	82	8	226	25	18	28	28	1.98
56537243--56537436	50	3.9	49	81	6	221	25	19	28	27	1.98
56539102--56539170	23	3.0	22	76	18	68	71	4	8	15	1.28
56543927--56544011	30	2.9	29	91	6	136	16	28	28	27	1.97
56546632--56546992	49	7.4	49	96	0	614	29	8	32	29	1.87
56546751--56546835	27	3.3	27	65	15	81	30	4	34	30	1.78
56547095--56547216	37	3.3	37	97	0	226	25	19	33	21	1.97
56558821--56558864	22	2.0	22	100	0	88	27	9	9	54	1.62
56562109--56562168	31	1.9	31	83	10	77	45	5	11	38	1.63
56562873--56563169	34	9.8	30	68	23	144	36	1	19	42	1.61
56562873--56563015	64	2.2	64	91	2	225	35	2	19	41	1.66
56562996--56563036	21	1.9	22	90	5	66	46	2	14	36	1.58
56562921--56563098	85	2.1	84	88	5	261	38	1	18	42	1.58
56563065--56563197	35	4.0	34	69	19	82	35	0	21	42	1.58
56563013--56563169	62	2.5	64	84	7	198	37	0	18	43	1.55
56562873--56563161	147	1.9	150	91	2	476	37	1	19	41	1.62
56563110--56563169	30	2.0	30	81	9	70	33	1	20	45	1.61
56563254--56564012	126	6.0	126	90	0	1131	38	16	16	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56563256--56564012	254	3.0	253	91	1	1205	39	16	16	27	1.90
56563254--56564012	380	2.0	378	89	1	1151	38	16	16	27	1.91
56567244--56567297	21	2.6	21	84	0	72	5	18	42	33	1.73
56567540--56567581	18	2.3	18	87	0	57	40	7	28	23	1.81
56567642--56567700	30	2.0	30	89	0	91	11	10	44	33	1.75
56569167--56569205	20	2.0	20	85	5	53	64	2	2	30	1.21
56569167--56569248	19	4.5	19	68	18	57	64	2	2	30	1.19
56569143--56569265	53	2.3	54	94	1	212	62	2	1	33	1.18
56569164--56569239	19	4.3	18	69	21	61	65	2	2	28	1.19
56576694--56576763	27	2.6	27	79	0	77	11	31	38	18	1.86
56582875--56582922	19	2.6	19	93	3	80	41	4	8	45	1.53
56597920--56597945	10	2.6	10	100	0	52	80	0	0	19	0.71
56597930--56597973	22	2.0	22	82	8	54	61	2	0	36	1.09
56602259--56602305	18	2.6	18	81	15	53	76	4	6	12	1.12
56602497--56602532	7	5.0	7	86	6	54	66	0	2	30	1.06
56602497--56602532	15	2.5	14	86	8	54	66	0	2	30	1.06
56602517--56602621	10	10.2	10	69	20	65	60	0	8	31	1.27
56602670--56602731	26	2.5	25	79	7	63	61	4	1	32	1.27
56602799--56602857	15	3.9	16	77	16	63	66	0	3	30	1.08
56602799--56602860	23	2.8	23	81	11	69	64	0	3	32	1.09
56602795--56602860	20	3.2	20	72	21	55	63	0	3	33	1.10
56604639--56604723	39	2.2	40	87	6	120	23	24	30	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56611796--56611891	28	3.2	28	68	18	86	34	3	23	38	1.71
56611791--56611906	61	1.9	62	96	1	216	37	3	23	36	1.72
56612386--56612604	120	1.8	119	83	7	291	30	10	23	35	1.89
56612599--56612687	39	2.2	40	80	9	112	23	23	29	23	1.99
56615561--56616199	44	14.5	44	89	0	938	27	27	15	29	1.96
56620924--56620950	13	2.1	13	100	0	54	29	33	7	29	1.85
56628098--56628135	7	5.3	7	87	6	58	68	0	2	28	1.03
56628095--56628225	10	12.5	10	70	20	72	61	0	6	31	1.22
56628272--56628333	26	2.5	25	79	7	63	61	4	1	32	1.27
56628381--56628417	12	3.0	12	84	7	56	59	0	5	35	1.20

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292