genome.fa.s9.2.7.7.80.10.50.1000.15.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  15  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)
4164432--4164464	12	2.8	12	95	0	57	45	9	0	45	1.35
4168214--4168345	43	3.1	43	90	1	203	26	18	24	30	1.98
4170258--4170292	5	6.6	5	93	6	52	82	0	0	17	0.66
4170258--4170292	11	3.2	11	88	11	54	82	0	0	17	0.66
4174700--4174728	11	2.7	11	94	5	51	82	0	0	17	0.66
4175747--4175772	10	2.6	10	100	0	52	65	7	0	26	1.20
4187641--4188165	259	2.0	257	97	1	982	32	19	14	34	1.92
4193227--4193390	40	4.2	39	85	6	215	23	22	27	26	1.99
4193618--4193659	22	1.9	22	85	9	59	33	9	14	42	1.78
4201240--4201416	40	4.4	40	84	4	225	24	22	27	25	2.00
4201644--4201685	22	1.9	22	85	9	59	33	9	14	42	1.78
4215623--4215689	34	2.0	34	85	8	93	37	0	0	62	0.95
4216765--4216823	31	1.9	31	85	0	82	37	13	10	38	1.79
4217767--4217831	32	2.0	32	100	0	130	27	3	30	38	1.72
4230465--4230572	26	4.2	26	91	2	173	36	23	7	33	1.83
4235973--4236025	26	2.0	27	85	7	74	24	15	22	37	1.92
4237499--4237606	26	4.2	26	91	2	173	36	23	7	33	1.83
4240413--4240608	91	2.2	91	88	1	295	26	15	25	32	1.95
4240504--4241004	132	3.8	132	90	0	788	25	15	24	33	1.95
4241248--4241295	21	2.3	21	77	0	51	27	2	25	45	1.64
4241313--4241347	15	2.3	15	95	0	61	8	0	31	60	1.27
4241283--4241369	37	2.3	39	78	5	99	18	0	27	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4241327--4241370	22	2.0	22	86	0	61	11	0	36	52	1.38
4241985--4242102	44	2.6	45	87	4	166	36	15	15	33	1.89
4244766--4244808	6	6.8	6	86	5	59	30	0	2	67	1.03
4244915--4245251	37	9.1	37	71	11	154	25	21	14	38	1.91
4244914--4245239	73	4.4	72	81	5	350	24	21	14	39	1.91
4244954--4245338	73	5.3	72	78	6	373	25	22	14	37	1.93
4244954--4245338	37	10.5	35	75	11	283	25	22	14	37	1.93
4244954--4245297	147	2.4	146	82	3	388	25	22	14	37	1.92
4245269--4245345	38	2.0	38	85	9	104	24	23	18	33	1.96
4246595--4246871	39	7.1	39	92	0	446	23	24	29	23	1.99
4250696--4250863	40	4.2	40	82	1	185	24	26	22	26	2.00
4255527--4255656	29	4.5	29	87	6	192	33	14	26	26	1.95
4255525--4255656	57	2.3	57	89	5	203	32	14	26	26	1.95
4263513--4263642	29	4.5	29	87	6	192	33	14	26	26	1.95
4263511--4263642	57	2.3	57	89	5	203	32	14	26	26	1.95
4266733--4266887	39	4.1	39	83	8	194	23	24	29	23	1.99
4284638--4284709	30	2.4	30	92	2	126	27	15	22	34	1.94
4292017--4292088	30	2.4	30	97	2	135	26	16	22	34	1.95
4292601--4292644	22	2.0	22	86	0	61	9	18	25	47	1.77
4295736--4297072	476	2.8	477	96	0	2478	42	11	10	35	1.76
4301397--4301422	2	13.0	2	100	0	52	50	0	0	50	1.00
4301435--4301466	15	2.1	15	94	0	55	31	9	0	59	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302495--4302672	41	4.4	41	85	4	218	19	22	22	35	1.95
4302605--4302704	41	2.5	40	80	6	103	20	19	15	46	1.85
4305829--4306459	144	4.4	144	81	7	647	30	19	13	36	1.90
4311093--4311125	12	2.5	13	90	9	50	36	0	12	51	1.39
4311666--4311753	38	2.2	41	82	9	103	51	5	3	39	1.43
4312772--4312805	8	4.2	8	88	0	50	76	0	2	20	0.92
4314329--4314364	18	2.0	18	89	10	56	27	0	5	66	1.13
4314642--4314666	9	2.8	9	100	0	50	24	12	8	56	1.62
4326024--4326619	44	13.6	44	83	3	628	31	14	25	29	1.94
4328120--4328199	29	2.9	29	78	12	89	36	3	0	60	1.15
4330768--4330799	15	2.1	15	100	0	64	18	18	34	28	1.95
4331427--4331496	29	2.5	29	84	11	85	58	1	2	37	1.22
4338374--4338435	3	20.7	3	93	6	108	66	0	0	33	0.92
4339655--4339699	21	2.0	22	83	8	56	48	2	13	35	1.54
4340212--4340278	31	2.1	32	83	5	82	16	22	7	53	1.67
4343621--4343649	15	1.9	15	100	0	58	34	0	0	65	0.93
4344491--4344664	85	2.0	85	89	0	267	27	31	20	21	1.98
4344480--4344668	43	4.4	43	87	1	263	27	30	20	21	1.98
4349856--4349918	23	2.7	23	72	18	67	57	6	1	34	1.34
4350384--4350445	21	3.0	22	77	15	69	35	45	0	19	1.51
4350509--4350593	21	3.9	21	75	11	89	45	24	1	28	1.60
4350493--4350586	46	2.0	46	91	0	152	43	24	2	29	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4350758--4351140	41	9.4	41	93	2	621	18	22	23	35	1.95
4350758--4351156	122	3.3	122	91	2	624	18	23	23	34	1.96
4374741--4374772	16	2.0	16	100	0	64	31	0	12	56	1.37
4375502--4375549	15	3.4	15	75	13	57	16	0	8	75	1.04
4375502--4375569	27	2.5	28	83	9	79	14	2	7	75	1.14
4375577--4375616	18	2.2	19	86	4	55	7	17	0	75	1.03
4376875--4377067	92	2.1	92	81	1	226	26	21	18	33	1.97
4377426--4377511	25	3.4	25	81	0	109	26	15	18	39	1.90
4378634--4378659	2	13.0	2	100	0	52	50	0	0	50	1.00
4380348--4380372	11	2.3	11	100	0	50	60	0	0	40	0.97
4381648--4381678	2	16.0	2	93	6	55	48	0	0	51	1.00
4382649--4382756	38	2.8	38	91	0	162	20	24	27	27	1.99
4382728--4382903	43	4.1	43	90	1	257	11	23	34	30	1.91
4384431--4384534	48	2.2	48	82	6	122	29	22	30	17	1.96
4390812--4390852	21	2.0	21	90	0	64	19	29	21	29	1.98
4401445--4401469	2	12.5	2	100	0	50	52	0	0	48	1.00
4401654--4401705	15	3.4	15	77	15	61	69	0	3	26	1.06
4401651--4401709	31	2.0	30	90	6	93	67	0	3	28	1.06
4403628--4403670	17	2.6	16	85	10	59	74	2	6	16	1.14
4403629--4403673	20	2.2	20	84	7	56	75	2	6	15	1.11
4405665--4405695	12	2.6	12	94	0	53	9	12	41	35	1.76
4408518--4408840	79	4.0	79	80	7	303	39	14	14	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4408681--4408851	89	2.0	86	83	3	216	40	11	14	33	1.82
4409432--4409951	259	2.0	259	95	0	925	41	9	17	31	1.81
4409900--4410038	69	2.0	68	97	1	260	44	8	14	32	1.75
4417081--4417109	13	2.1	14	93	6	51	20	24	37	17	1.93
4417314--4417386	32	2.3	32	95	0	128	17	9	38	34	1.83
4428665--4428802	66	2.0	69	87	8	203	30	17	9	42	1.81
4428695--4428792	34	2.9	33	69	10	83	27	19	9	43	1.81
4430083--4430128	22	2.1	22	100	0	92	56	4	8	30	1.49
4430325--4430420	50	2.0	49	85	6	133	42	1	6	50	1.34
4432739--4432781	21	2.1	20	87	12	61	48	20	11	18	1.79
4432793--4432845	26	2.0	27	85	7	74	24	15	22	37	1.92
4434319--4434426	26	4.2	26	93	0	189	36	24	7	32	1.83
4435603--4435637	17	2.1	17	94	0	61	31	0	2	65	1.07
4435608--4435661	3	18.0	3	81	7	56	31	3	1	62	1.23
4435941--4435976	15	2.4	15	85	0	54	36	0	8	55	1.30
4436242--4436281	22	1.9	22	90	10	66	37	2	5	55	1.35
4440716--4440832	19	6.2	19	92	6	193	38	9	15	36	1.80
4440706--4440830	36	3.4	34	80	17	144	38	9	15	36	1.80
4440716--4440832	55	2.1	57	91	6	193	38	9	15	36	1.80
4442797--4442843	24	2.0	24	95	0	85	38	8	10	42	1.70
4448515--4448542	2	14.0	2	100	0	56	50	0	0	50	1.00
4448659--4448685	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4449497--4449757	126	2.1	126	88	2	380	27	16	16	39	1.90
4449542--4449815	126	2.2	126	84	5	340	26	16	16	40	1.89
4451601--4451708	26	4.2	26	92	0	180	32	6	24	37	1.81
4454441--4454486	19	2.4	19	85	7	58	23	21	8	45	1.80
4456674--4456712	16	2.4	16	83	8	53	82	2	15	0	0.79
4457572--4457722	48	3.0	52	85	4	202	22	15	8	53	1.68
4457610--4457693	26	3.2	26	66	25	68	20	14	9	55	1.66
4458471--4458595	64	2.0	64	91	0	205	28	15	16	39	1.89
4458770--4458954	45	4.2	44	68	8	115	25	16	28	30	1.96
4458662--4459097	131	3.3	129	84	3	550	27	19	25	27	1.99

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