genome.fa.s5.2.7.7.80.10.50.1000.154.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  154  of  318  ( 38109 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)
48151557--48151586	12	2.4	13	94	5	53	70	0	0	30	0.88
48151650--48152107	212	2.1	214	94	2	816	40	9	6	43	1.63
48152189--48152232	17	2.4	19	88	7	65	6	9	6	77	1.13
48152661--48152709	17	2.9	17	79	14	57	44	0	2	53	1.12
48157225--48157479	85	3.0	84	89	2	388	42	12	18	25	1.86
48159219--48159254	17	2.1	18	89	5	56	38	22	27	11	1.88
48162231--48162279	20	2.5	20	89	0	80	46	0	14	38	1.44
48178029--48178090	21	3.0	21	75	0	61	20	22	17	38	1.93
48180762--48180800	19	2.1	19	100	0	78	25	25	20	28	1.99
48186735--48186776	21	2.0	20	82	13	50	52	2	7	38	1.42
48195106--48195155	3	16.7	3	95	0	91	30	0	2	68	1.01
48200648--48200751	53	2.0	53	92	0	172	22	15	7	54	1.66
48201154--48201252	46	2.2	46	83	3	128	35	13	25	26	1.92
48207876--48208199	161	2.0	162	99	0	641	23	9	14	52	1.71
48223671--48223714	15	2.6	17	86	13	56	79	2	13	4	0.98
48224928--48225028	46	2.2	46	85	3	132	27	24	12	34	1.92
48225426--48225529	53	2.0	53	92	0	172	54	7	15	22	1.66
48231040--48231095	3	18.7	3	96	0	103	67	1	0	30	1.01
48231532--48231557	3	8.7	3	100	0	52	69	0	0	30	0.89
48245448--48245484	19	2.1	19	90	10	60	29	18	24	27	1.98
48247964--48248025	21	3.0	21	75	0	61	38	17	22	20	1.93
48247970--48248070	40	2.5	41	80	4	114	39	17	19	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48269379--48269476	27	3.5	28	88	5	128	32	28	13	25	1.93
48277666--48277762	28	3.5	28	88	5	126	32	27	13	25	1.93
48284303--48284348	18	2.6	17	89	3	65	6	23	0	69	1.11
48284303--48284357	17	3.2	17	89	2	74	5	23	0	70	1.07
48287190--48287220	14	2.2	14	94	0	53	9	22	0	67	1.19
48287226--48287428	105	1.9	109	88	5	315	27	28	1	41	1.67
48287236--48287507	102	2.6	103	81	9	281	27	26	2	42	1.68
48305623--48305693	22	3.4	21	77	11	74	32	2	18	46	1.63
48309221--48309261	21	1.9	22	85	5	57	34	24	17	24	1.96
48313960--48314026	27	2.5	27	97	2	127	17	22	19	40	1.92
48337601--48337633	16	2.1	16	94	0	57	30	24	15	30	1.95
48360803--48361034	123	1.9	123	92	0	392	40	11	20	28	1.87
48362089--48362256	85	2.0	85	80	4	187	27	14	19	38	1.91
48367668--48367785	56	2.1	56	100	0	236	40	12	14	32	1.84
48368010--48368048	16	2.5	15	84	12	51	38	23	2	35	1.68
48368161--48368348	55	3.5	53	82	6	209	22	24	17	35	1.95
48368336--48368457	47	2.6	47	96	0	217	24	24	14	36	1.93
48370235--48370261	5	5.4	5	100	0	54	18	0	0	81	0.69
48371310--48371412	48	2.1	48	84	10	131	27	33	18	21	1.96
48372020--48372231	41	5.2	41	90	1	257	32	23	23	21	1.98
48372961--48372987	13	2.1	13	100	0	54	48	7	7	37	1.59
48378297--48378437	43	3.3	43	83	1	185	25	17	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48382342--48382380	17	2.3	17	81	0	51	71	0	2	25	0.98
48382316--48382388	24	3.0	23	81	15	85	68	1	4	26	1.15
48382657--48382708	26	1.9	27	85	14	72	30	3	3	61	1.32
48383277--48383335	30	2.0	30	86	0	82	22	30	15	32	1.94
48392706--48392875	46	3.7	45	79	12	186	28	28	20	22	1.99
48392711--48392880	93	1.8	92	91	1	277	28	28	20	21	1.98
48404282--48404311	3	10.0	3	100	0	60	33	0	0	66	0.92
48404377--48404407	12	2.5	13	94	5	55	35	0	6	58	1.24
48404689--48404748	24	2.5	24	81	10	70	35	3	10	51	1.52
48410609--48410656	20	2.4	19	83	10	60	37	4	0	58	1.18
48412992--48413054	30	2.1	30	90	0	99	55	14	3	26	1.54
48413084--48413126	22	2.0	22	85	0	59	55	9	13	20	1.66
48414300--48414481	38	4.8	39	78	4	176	36	26	19	16	1.93
48416803--48416848	19	2.4	19	81	0	65	58	0	0	41	0.98
48418092--48418129	6	6.3	6	96	0	67	13	34	52	0	1.40
48425455--48425509	27	2.0	27	96	0	101	27	34	0	38	1.57
48425920--48425992	24	3.0	24	85	0	101	35	23	28	12	1.91
48429864--48429909	23	2.0	23	91	0	74	23	28	28	19	1.98
48442700--48442884	40	4.7	40	81	7	200	24	21	27	26	1.99
48442753--48442917	79	2.1	79	84	6	210	26	21	27	25	1.99
48450525--48450709	79	2.3	81	82	7	218	25	22	27	25	2.00
48450525--48450709	40	4.7	40	82	6	216	25	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48450578--48450742	79	2.1	79	83	6	201	26	20	27	25	1.99
48459231--48459284	27	2.0	27	92	0	90	51	3	0	44	1.19
48459619--48459652	17	2.0	17	88	0	50	29	0	0	70	0.87
48459857--48459908	16	3.2	16	81	8	52	63	1	0	34	1.06
48460202--48460255	26	2.1	26	100	0	108	40	18	18	22	1.91
48463994--48464067	31	2.4	31	93	0	130	14	32	35	17	1.91
48469720--48469921	101	2.0	101	100	0	404	46	10	15	26	1.79
48473250--48473298	12	3.8	12	75	15	53	24	4	8	63	1.40
48494531--48494577	21	2.3	20	85	10	60	27	4	12	55	1.56
48494638--48494662	12	2.1	12	100	0	50	48	8	12	32	1.69
48495687--48495782	34	2.9	33	87	6	131	48	1	13	36	1.49
48495687--48495796	34	3.3	32	83	9	123	48	0	12	38	1.48
48499310--48499336	12	2.2	12	100	0	54	11	22	33	33	1.89
48510783--48510866	27	3.1	26	69	8	69	55	8	8	27	1.58
48520820--48520862	20	2.2	19	84	12	52	32	2	0	65	1.06
48525808--48525881	25	2.8	26	76	17	71	70	4	1	24	1.13
48528790--48528833	23	1.9	23	100	0	88	27	9	22	40	1.84
48538883--48538912	3	10.0	3	100	0	60	66	0	0	33	0.92
48539491--48539545	20	2.8	21	73	15	64	25	5	1	67	1.22
48539531--48539623	29	3.2	28	73	11	71	30	8	3	58	1.44
48539637--48539713	18	4.0	20	77	11	63	28	3	1	66	1.17
48539632--48539681	19	2.5	20	81	15	59	22	4	0	74	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48539633--48539713	20	4.0	20	75	12	67	29	3	1	65	1.17
48541822--48541846	12	2.1	12	100	0	50	28	24	0	48	1.52
48543158--48543406	50	4.8	50	85	4	284	20	29	24	26	1.99
48543157--48543406	100	2.4	104	88	6	357	20	29	24	26	1.99
48543501--48543532	13	2.5	13	94	0	55	56	12	0	31	1.37
48543744--48543800	30	1.9	29	89	3	87	31	24	3	40	1.72
48544503--48544597	40	2.3	40	89	3	136	1	28	7	63	1.28
48544607--48544672	5	13.2	5	89	10	100	59	0	0	40	0.98
48546635--48546688	8	8.0	7	76	19	53	27	0	1	70	0.98
48546644--48546704	27	2.3	26	85	2	77	31	0	1	67	1.01
48548602--48548635	16	2.1	17	88	5	52	64	2	2	29	1.22
48549408--48549480	30	2.4	31	88	8	107	35	1	0	63	1.04
48549422--48549480	10	5.6	11	71	16	54	35	1	0	62	1.05
48549410--48549495	30	3.0	28	82	12	95	36	1	2	60	1.17
48557230--48557438	104	2.0	104	100	0	418	32	19	11	37	1.87
48563068--48563172	28	3.9	28	85	8	146	36	13	24	25	1.92
48563211--48563308	51	1.9	51	91	0	160	33	13	25	27	1.93
48565008--48565154	41	3.6	40	78	1	168	29	27	21	21	1.98
48572653--48572862	40	5.3	40	92	0	314	24	20	28	26	1.99
48572600--48572862	80	3.3	80	85	2	316	24	20	27	26	1.99
48572600--48572862	120	2.2	120	83	3	325	24	20	27	26	1.99
48572653--48572897	80	3.1	80	85	2	253	25	20	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48576296--48576440	41	3.6	41	81	1	202	28	27	22	21	1.99
48591824--48591849	6	4.3	6	100	0	52	30	0	0	69	0.89
48597916--48597960	10	4.5	10	86	5	56	68	2	4	24	1.19
48599219--48599325	8	11.4	9	75	19	78	41	0	0	57	1.05
48599223--48599336	18	6.2	17	80	16	120	39	0	0	59	1.03
48599239--48599324	11	8.9	11	75	18	61	38	0	0	61	0.96
48603077--48603120	19	2.3	18	88	11	70	34	0	4	61	1.16
48603076--48603119	20	2.3	19	92	4	70	31	0	4	63	1.14
48611478--48611544	21	3.1	21	82	4	71	34	32	2	29	1.73
48611843--48611885	13	3.3	13	93	0	68	76	2	6	13	1.08

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