genome.fa.s4.2.7.7.80.10.50.1000.180.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   

This is table  180  of  325  ( 38914 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)
55424399--55424452	28	2.0	28	88	3	83	18	25	25	29	1.98
55424404--55424460	28	2.0	28	86	0	78	21	24	24	29	1.99
55427432--55427562	30	4.5	30	86	8	171	32	13	25	28	1.94
55427432--55427562	58	2.2	58	86	4	174	32	13	25	28	1.94
55435390--55435520	30	4.5	30	86	8	171	32	13	25	28	1.94
55435390--55435520	58	2.2	58	86	4	174	32	13	25	28	1.94
55439507--55439712	42	4.9	42	85	4	247	28	23	16	32	1.96
55439507--55439712	84	2.4	85	84	5	274	28	23	16	32	1.96
55445110--55445186	27	2.8	29	82	7	88	28	19	15	36	1.92
55445492--55445698	52	3.9	53	84	3	249	27	21	12	38	1.90
55445492--55445698	105	2.0	105	83	5	267	27	21	12	38	1.90
55446177--55446333	43	3.7	41	79	13	156	23	19	25	31	1.98
55450141--55450183	23	1.9	22	85	4	59	18	4	25	51	1.66
55450141--55450188	10	4.5	10	80	14	51	20	4	25	50	1.66
55459502--55459895	47	8.4	47	89	0	590	31	8	31	28	1.86
55459499--55459895	94	4.2	94	95	0	677	31	8	31	28	1.86
55461761--55462114	40	8.9	40	92	0	530	21	22	29	25	1.99
55465872--55466265	47	8.4	47	90	0	599	31	8	31	28	1.87
55465869--55466265	94	4.2	94	95	0	677	32	8	31	27	1.87
55467449--55467588	43	3.3	42	82	10	151	22	18	27	31	1.97
55468242--55468284	23	1.9	22	90	4	68	16	4	27	51	1.64
55468242--55468289	10	4.5	10	82	14	60	18	4	27	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55478384--55478440	28	2.1	27	87	9	80	52	8	1	36	1.43
55480104--55480155	9	5.3	9	82	13	50	30	5	1	61	1.30
55480103--55480204	10	10.5	10	73	11	61	26	4	3	64	1.31
55480103--55480214	57	2.0	56	82	8	138	29	5	3	61	1.35
55480114--55480202	47	1.9	46	84	6	117	26	4	4	64	1.32
55480188--55480244	30	1.9	30	85	7	80	40	8	0	50	1.33
55480837--55480872	16	2.3	15	90	4	54	58	0	0	41	0.98
55482369--55482431	9	6.8	9	83	3	63	22	39	1	36	1.64
55482368--55482422	29	1.9	28	88	3	83	23	38	1	36	1.66
55489328--55489375	2	24.0	2	100	0	96	50	0	0	50	1.00
55489710--55489758	24	2.0	24	92	7	82	59	20	0	20	1.38
55492697--55492746	21	2.4	21	96	0	91	26	22	16	36	1.94
55497204--55497340	67	2.0	67	100	0	274	44	10	14	30	1.78
55499686--55499781	3	31.7	3	97	2	183	65	0	1	33	1.00
55501700--55502204	44	11.1	44	71	11	266	27	20	18	33	1.96
55501700--55502231	89	5.9	89	70	12	355	28	20	18	32	1.96
55502269--55502322	24	2.2	24	86	0	72	35	16	14	33	1.90
55502419--55502533	45	2.5	45	83	5	133	26	26	18	29	1.98
55502382--55502583	44	4.5	45	78	3	165	29	22	17	30	1.96
55502108--55502811	351	2.0	352	90	0	1122	28	19	17	34	1.94
55504625--55504678	22	2.5	22	77	17	58	20	9	3	66	1.35
55504712--55504758	3	15.7	3	100	0	94	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55507453--55507510	17	3.5	17	68	15	50	62	0	1	36	1.06
55507837--55507866	14	2.2	14	94	5	53	33	6	20	40	1.78
55508323--55508376	15	3.3	15	74	18	54	44	0	1	53	1.11
55508406--55508435	15	1.9	16	93	6	53	40	0	0	60	0.97
55508933--55508972	2	20.0	2	100	0	80	50	0	0	50	1.00
55509455--55509499	23	2.0	23	91	4	74	31	0	0	68	0.89
55509457--55509506	23	2.2	23	85	3	66	28	2	0	70	0.99
55511711--55511780	27	2.5	28	86	2	97	27	14	25	32	1.94
55515081--55515153	29	2.5	29	93	0	101	26	31	16	26	1.96
55523135--55523207	29	2.5	29	93	0	101	26	31	16	26	1.96
55524977--55525195	24	9.1	24	96	0	375	36	25	18	20	1.95
55528181--55528225	23	2.0	23	91	4	74	31	0	0	68	0.89
55528183--55528232	23	2.2	23	85	3	66	28	2	0	70	0.99
55530438--55530507	27	2.5	28	86	2	97	27	14	25	32	1.94
55533818--55533874	29	2.0	29	100	0	114	28	28	14	29	1.95
55540228--55540390	39	4.2	39	89	0	245	24	32	19	23	1.98
55548110--55548187	25	3.2	25	66	23	76	32	30	3	33	1.76
55548059--55548375	47	6.7	47	86	7	433	29	31	7	32	1.84
55548059--55548375	96	3.3	94	87	6	442	29	31	7	32	1.84
55551802--55551964	80	2.0	80	84	4	213	25	23	27	23	2.00
55551758--55551964	40	5.2	40	79	4	179	26	22	25	25	2.00
55559902--55560109	40	5.2	40	83	0	209	25	23	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55559903--55560109	80	2.6	80	83	4	247	25	23	26	25	2.00
55563985--55564086	7	14.4	7	73	9	64	39	40	0	20	1.53
55563984--55564049	22	3.1	21	78	8	71	36	43	0	19	1.51
55564301--55564404	40	2.6	39	81	7	111	32	21	21	25	1.98
55564638--55564729	39	2.3	40	86	1	123	20	20	25	33	1.97
55575026--55575343	47	6.7	47	75	10	249	28	21	27	22	1.99
55581297--55581336	2	20.0	2	89	0	62	2	2	47	47	1.29
55588249--55588299	17	2.8	17	80	11	57	37	5	3	52	1.44
55588249--55588306	17	3.2	17	78	9	53	36	5	3	55	1.39
55590236--55590381	31	4.7	31	92	0	213	29	27	15	28	1.96
55590405--55590538	42	3.2	42	93	0	223	35	20	12	30	1.90
55591515--55591579	27	2.4	27	82	5	78	24	24	15	35	1.94
55591696--55591874	81	2.2	81	76	7	177	26	9	22	41	1.84
55591630--55592064	27	16.1	27	73	13	148	31	9	20	38	1.84
55594127--55594272	31	4.7	31	96	0	258	28	26	17	28	1.97
55594296--55594424	42	3.1	42	96	0	240	33	20	16	30	1.94
55594577--55594646	25	2.8	25	91	4	106	28	24	22	24	1.99
55595443--55595502	27	2.2	27	79	5	68	28	21	20	30	1.98
55595636--55595786	27	5.6	27	85	7	191	27	7	21	43	1.79
55595661--55595819	54	2.9	54	82	7	189	28	10	20	39	1.86
55595637--55595786	81	1.9	81	90	2	239	28	7	21	43	1.79
55595661--55595826	27	6.1	27	79	10	151	28	10	22	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55595808--55595909	27	3.8	26	74	15	84	36	8	23	31	1.86
55595887--55596033	27	5.5	26	77	8	118	31	9	21	37	1.86
55595889--55596053	54	3.1	53	77	9	176	29	9	22	38	1.85
55598286--55598438	40	3.8	40	94	0	252	28	21	24	25	1.99
55598285--55598479	80	2.4	82	86	5	263	26	21	25	26	2.00
55598296--55598523	40	5.7	39	87	2	190	27	22	25	24	2.00
55598296--55598543	80	3.1	80	81	6	227	27	21	25	25	2.00
55601586--55601643	30	2.0	29	82	3	71	34	22	15	27	1.94
55602914--55603148	25	9.4	25	78	1	229	39	25	15	19	1.91
55602924--55603148	50	4.5	50	93	0	371	39	25	15	19	1.91
55603288--55603410	41	3.0	41	86	0	165	27	29	21	21	1.99
55603732--55603936	81	2.5	81	74	10	184	31	10	19	39	1.85
55603648--55603901	27	9.4	27	76	7	192	29	8	20	41	1.82
55603898--55604028	27	4.9	27	89	0	181	29	20	18	31	1.96
55606836--55606999	25	6.6	25	70	2	123	42	25	12	19	1.86
55606836--55606999	50	3.3	49	88	3	220	42	25	12	19	1.86
55607142--55607265	41	3.0	41	92	0	194	25	29	23	20	1.99
55607531--55607818	27	10.7	26	76	13	142	31	9	19	40	1.82
55607563--55607848	27	10.7	26	77	8	159	30	9	18	40	1.83
55607534--55607818	54	5.3	53	78	7	220	30	8	19	41	1.82
55607573--55607818	80	3.1	79	82	5	253	31	8	19	40	1.82
55607695--55607847	80	1.9	80	81	5	184	30	8	20	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55607807--55607898	27	3.4	27	81	0	103	30	14	15	40	1.86
55607807--55607910	54	1.9	54	84	0	136	31	16	14	37	1.89
55611979--55612048	29	2.5	28	86	6	88	28	25	15	30	1.96
55615549--55615599	25	2.0	25	100	0	102	27	15	15	41	1.88
55629245--55629442	71	2.8	70	88	5	267	32	18	28	20	1.96
55629279--55629442	71	2.3	71	96	0	301	34	18	28	19	1.95
55635345--55635462	41	3.1	41	60	28	98	32	17	28	21	1.96
55635313--55635476	71	2.3	71	100	0	328	35	17	28	18	1.94
55642920--55643037	41	3.1	41	60	28	98	32	17	28	21	1.96
55642888--55643051	71	2.3	71	100	0	328	35	17	28	18	1.94

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   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325