genome.fa.s9.2.7.7.80.10.50.1000.16.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  16  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)
4458759--4459175	131	3.2	131	80	3	331	28	19	25	27	1.99
4459088--4459256	86	1.9	87	89	2	259	34	21	21	23	1.97
4459278--4459786	88	5.8	88	87	0	687	25	22	22	28	1.99
4459302--4459701	44	9.1	44	62	16	132	26	22	23	28	1.99
4459281--4459786	264	1.9	264	89	0	789	26	22	22	28	1.99
4459790--4460106	44	7.0	44	71	9	190	30	19	23	26	1.98
4459281--4459871	264	2.2	264	83	4	728	27	22	21	28	1.99
4459809--4460042	96	2.6	88	78	5	207	29	20	23	26	1.99
4459936--4460037	51	2.0	52	82	5	127	35	22	18	23	1.96
4459986--4460106	45	2.8	44	73	6	102	30	19	21	28	1.98
4461781--4461828	18	2.6	18	87	9	62	20	0	4	75	0.97
4462031--4462065	2	17.5	2	100	0	70	48	0	0	51	1.00
4462881--4463114	127	1.8	127	86	0	342	29	14	16	39	1.88
4462881--4463142	127	2.1	126	84	2	337	29	15	15	39	1.88
4471408--4471459	3	17.0	3	96	4	95	65	1	0	32	1.04
4472498--4472577	42	1.9	42	89	0	124	22	28	36	12	1.91
4472406--4472672	104	2.6	104	84	3	324	25	22	32	20	1.98
4476312--4476376	19	3.6	19	90	8	75	38	12	12	36	1.80
4476320--4476376	19	3.1	19	95	5	100	38	10	14	36	1.80
4476131--4476619	243	2.0	245	97	0	937	40	17	14	27	1.89
4476563--4476651	19	4.8	19	90	8	148	37	10	14	38	1.80
4476571--4476641	35	2.0	36	97	2	135	38	11	14	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4476632--4476674	23	1.9	23	90	4	70	39	4	13	41	1.66
4476943--4476977	18	2.0	17	88	5	52	31	0	0	68	0.90
4479463--4479572	26	4.2	26	96	0	184	34	5	24	35	1.79
4481191--4481303	27	4.2	27	85	3	129	16	23	23	36	1.94
4481189--4481303	54	2.1	54	88	3	169	16	23	23	36	1.94
4493797--4493969	87	2.0	86	88	3	258	49	4	21	24	1.68
4494404--4494448	17	2.6	17	85	3	54	55	2	0	42	1.12
4495453--4495850	202	2.0	202	88	1	591	30	14	24	30	1.94
4496243--4496307	34	1.9	34	87	6	96	27	12	9	50	1.70
4496955--4497000	22	2.0	23	84	12	60	56	2	2	39	1.24
4502688--4502782	26	3.8	23	76	18	68	27	5	2	65	1.25
4503018--4503062	17	2.4	18	82	17	56	26	4	11	57	1.52
4503167--4503213	24	2.0	24	83	8	60	27	6	0	65	1.16
4503195--4503292	41	2.3	43	75	13	96	35	4	4	56	1.37
4503428--4503471	19	2.4	18	85	11	54	29	4	13	52	1.60
4503503--4503534	2	16.0	2	100	0	64	50	0	0	50	1.00
4504106--4504196	36	2.6	34	85	8	121	28	7	8	54	1.58
4504111--4504189	36	2.2	36	95	0	140	29	7	8	54	1.59
4510208--4510512	133	2.3	133	83	1	387	28	19	24	27	1.99
4512429--4512471	19	2.4	18	84	7	52	34	11	13	39	1.82
4512439--4512517	19	4.2	19	85	9	108	36	11	16	35	1.85
4512458--4512495	17	2.5	15	80	19	51	39	13	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4512445--4512516	36	1.9	37	91	5	119	37	12	15	34	1.85
4513749--4513983	117	2.0	118	99	0	463	32	25	12	29	1.93
4519368--4519443	6	12.8	6	80	13	70	82	0	15	1	0.73
4519368--4519443	7	10.6	7	77	14	75	82	0	15	1	0.73
4519371--4519437	15	4.4	15	85	9	91	82	0	16	1	0.75
4519368--4519437	22	3.2	21	81	18	81	82	0	15	1	0.73
4519368--4519443	14	5.3	14	83	13	93	82	0	15	1	0.73
4520291--4520609	44	7.2	44	71	12	215	31	18	23	26	1.97
4520291--4520594	132	2.3	132	92	1	502	32	18	23	25	1.97
4520768--4521481	206	3.5	206	91	0	1122	32	18	21	28	1.96
4520556--4521481	412	2.3	398	89	2	1359	31	18	21	28	1.97
4521886--4521964	19	4.2	19	88	9	117	39	10	15	35	1.81
4521876--4521961	36	2.4	36	78	16	115	39	10	13	36	1.80
4523572--4523613	2	21.0	2	100	0	84	50	0	0	50	1.00
4524673--4525148	131	3.6	133	80	5	418	28	18	18	34	1.95
4526690--4526740	24	2.1	24	92	3	84	56	29	11	1	1.46
4531436--4531464	2	14.5	2	100	0	58	48	0	0	51	1.00
4533698--4533769	3	24.0	3	100	0	144	66	0	0	33	0.92
4535263--4535315	26	2.0	26	82	7	63	26	15	20	37	1.92
4536797--4536930	26	5.2	26	95	2	227	37	25	4	32	1.76
4540787--4540861	18	4.2	18	78	0	78	33	21	13	32	1.92
4540783--4540857	36	2.1	36	87	0	105	32	22	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4545776--4546004	72	3.2	70	71	18	209	31	19	15	32	1.93
4546994--4547025	15	2.1	15	100	0	64	0	18	12	68	1.20
4548460--4548505	3	15.3	3	100	0	92	67	0	0	32	0.91
4549787--4549951	87	1.9	88	91	1	269	44	5	24	24	1.75
4551335--4551387	28	1.9	27	84	3	70	26	26	18	28	1.98
4551476--4551531	20	2.8	20	83	2	69	33	23	16	26	1.95
4553637--4553672	3	12.0	3	87	0	54	63	5	0	30	1.17
4563439--4563480	5	8.8	5	89	10	54	21	0	0	78	0.75
4563436--4563480	22	2.0	22	87	12	65	22	0	0	77	0.76
4565075--4565135	6	10.3	6	91	1	97	18	1	0	80	0.80
4567126--4567185	30	2.0	30	90	0	93	26	1	13	58	1.45
4567717--4567786	35	2.0	35	100	0	140	20	20	11	48	1.79
4568711--4568818	26	4.2	26	93	0	189	32	7	24	36	1.83
4569994--4570023	8	3.8	8	90	0	51	43	26	26	3	1.70
4570413--4570553	27	5.2	27	84	11	191	17	25	23	34	1.96
4570410--4570553	54	2.7	54	94	2	245	16	25	23	34	1.96
4570413--4570571	27	5.9	27	82	10	182	18	24	22	35	1.96
4570413--4570571	81	2.0	80	83	6	205	18	24	22	35	1.96
4573081--4573165	26	3.3	25	85	6	116	35	5	23	35	1.79
4573105--4573226	61	2.0	61	96	0	226	36	7	22	33	1.82
4573132--4573200	35	2.0	35	91	0	111	37	7	21	33	1.81
4573166--4573249	26	3.2	26	94	0	141	33	8	22	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4573081--4573245	87	1.9	87	91	2	269	34	7	23	35	1.82
4574796--4574835	21	1.9	21	90	10	64	17	15	20	47	1.83
4576595--4576637	10	4.2	10	80	16	52	62	4	0	32	1.15
4576619--4576652	14	2.3	15	90	5	52	58	2	0	38	1.13
4576591--4576675	45	1.9	44	81	11	102	60	4	3	31	1.35
4576704--4576751	23	2.1	23	81	14	55	62	2	6	29	1.31
4576759--4576790	3	11.3	3	87	12	50	68	0	0	31	0.90
4576749--4576842	15	6.5	14	72	20	70	60	0	2	37	1.09
4578404--4578960	207	2.7	206	90	1	841	28	21	17	32	1.96
4591061--4591112	23	2.3	23	87	9	72	67	3	1	26	1.18
4591189--4591250	10	5.9	10	73	17	54	64	0	3	32	1.09
4591212--4591309	17	5.6	18	70	23	59	61	0	3	35	1.12
4592728--4592818	19	4.8	19	78	16	100	38	17	7	36	1.79
4592760--4592785	5	5.2	5	100	0	52	38	23	0	38	1.55
4593212--4593380	87	1.9	87	81	2	205	28	20	16	33	1.95
4593446--4594257	205	4.0	205	94	1	1361	29	21	17	31	1.96
4593446--4594257	409	2.0	405	92	2	1360	29	21	17	31	1.96
4601494--4601543	26	2.0	25	88	4	73	66	8	6	20	1.40
4602076--4602136	19	3.3	19	90	6	99	39	14	8	37	1.76
4603875--4603924	28	1.9	24	84	15	64	32	2	0	66	1.03
4603947--4603998	18	2.7	18	82	11	59	48	0	0	51	1.00
4603946--4603986	16	2.5	16	92	4	64	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4605658--4605792	26	5.2	26	95	0	218	33	5	24	37	1.78
4607570--4607855	136	2.1	137	96	0	520	24	18	25	32	1.97
4611106--4611167	32	1.9	32	83	6	81	30	4	4	59	1.39
4612156--4612254	50	2.0	50	93	0	171	24	29	12	34	1.91
4613238--4613274	11	3.3	11	88	3	56	56	0	0	43	0.99
4628568--4628635	3	22.7	3	100	0	136	32	0	0	67	0.91
4629260--4629300	17	2.4	17	84	15	50	19	7	2	70	1.22
4630133--4630172	19	2.0	22	85	14	59	32	47	2	17	1.61
4630234--4630373	27	5.2	28	87	5	166	35	22	23	18	1.95
4631994--4632077	26	3.2	26	96	0	150	35	23	5	34	1.80

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