genome.fa.s12.2.7.7.80.10.50.1000.176.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  176  of  320  ( 38372 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)
58235220--58235375	82	1.9	81	86	3	224	28	28	16	26	1.97
58253171--58253195	8	3.1	8	100	0	50	48	0	12	40	1.40
58254692--58254756	31	2.1	31	94	0	112	36	16	9	36	1.81
58258861--58258888	12	2.3	12	100	0	56	35	35	28	0	1.58
58299959--58300039	17	4.6	17	70	20	60	56	3	3	35	1.35
58300260--58300322	30	2.1	30	88	5	92	41	0	38	20	1.53
58301689--58301752	31	2.1	31	84	0	83	23	18	15	42	1.89
58301960--58302042	25	3.4	25	90	5	125	30	20	20	28	1.98
58302090--58302156	20	3.3	20	95	4	118	34	19	10	35	1.86
58302076--58302156	40	2.0	39	84	13	103	34	18	11	35	1.86
58302090--58302145	11	5.5	11	75	16	66	33	19	10	35	1.87
58302090--58302162	9	7.4	10	73	17	64	35	19	9	35	1.84
58309737--58309800	31	2.1	31	87	0	92	25	25	14	35	1.93
58310008--58310090	25	3.4	25	90	5	125	30	20	20	28	1.98
58310138--58310204	20	3.3	20	95	4	118	34	19	10	35	1.86
58310124--58310204	40	2.0	39	84	13	103	34	18	11	35	1.86
58310138--58310193	11	5.5	11	75	16	66	33	19	10	35	1.87
58310138--58310210	9	7.4	10	73	17	64	35	19	9	35	1.84
58313342--58313477	43	3.2	42	85	3	164	29	27	18	24	1.98
58313492--58313545	28	2.0	28	85	3	74	64	3	3	27	1.27
58313639--58313686	20	2.4	21	82	10	64	68	6	2	22	1.23
58315429--58315517	44	2.0	44	97	0	169	46	12	13	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58319170--58319232	32	2.0	32	100	0	126	47	14	3	34	1.60
58319288--58319333	22	2.1	22	83	0	56	45	28	0	26	1.54
58319352--58319396	14	3.2	14	80	0	54	48	24	0	26	1.51
58319513--58319544	14	2.3	14	94	0	55	56	21	0	21	1.43
58319567--58319614	25	1.9	25	83	8	62	39	39	0	20	1.53
58319595--58319663	28	2.4	29	79	11	79	44	30	0	24	1.54
58320932--58321069	27	5.1	27	87	8	176	36	21	24	17	1.95
58323016--58323140	40	3.1	40	83	2	144	23	18	20	37	1.94
58329388--58329565	27	6.6	27	83	3	205	26	15	28	29	1.96
58329389--58329544	82	1.9	81	88	3	233	26	15	28	29	1.96
58329385--58329565	82	2.2	81	83	2	229	27	15	27	29	1.96
58340739--58340781	19	2.4	18	85	11	61	23	0	4	72	1.04
58341448--58341480	17	1.9	17	100	0	66	15	12	30	42	1.83
58341525--58341564	21	1.9	21	94	0	71	20	15	32	32	1.93
58341530--58341574	21	2.1	21	87	0	63	17	15	31	35	1.92
58348325--58348506	40	4.6	40	82	6	217	25	23	25	25	2.00
58348325--58348506	80	2.3	80	86	3	242	25	23	25	25	2.00
58357179--58357259	24	3.4	24	92	0	135	17	23	17	41	1.89
58359714--58359739	13	2.0	13	100	0	52	15	23	0	61	1.33
58362101--58362335	39	6.0	39	92	0	380	25	28	23	22	1.99
58364598--58364632	17	2.1	17	88	0	52	5	22	0	71	1.07
58364606--58364644	18	2.1	18	85	9	51	2	23	0	74	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58368085--58368188	39	2.7	39	90	0	172	26	28	21	23	1.99
58376716--58376759	19	2.3	19	88	7	63	0	31	0	68	0.90
58376690--58376745	15	3.7	15	83	11	69	1	32	1	64	1.14
58376715--58376771	19	3.2	18	75	24	59	1	35	0	63	1.05
58376988--58377030	3	14.3	3	85	0	59	32	0	4	62	1.15
58376989--58377048	12	5.1	12	75	4	50	26	3	5	65	1.29
58381172--58381526	82	4.4	82	91	2	522	24	28	21	24	1.99
58381172--58381527	40	8.8	41	90	3	490	25	28	21	24	1.99
58381172--58381527	122	2.9	122	88	2	529	25	28	21	24	1.99
58389189--58389309	38	3.1	38	84	2	152	33	23	20	21	1.97
58390226--58390668	221	2.0	221	99	0	868	31	19	10	38	1.85
58399587--58399771	81	2.3	81	85	3	239	34	7	18	40	1.78
58399558--58399777	27	8.1	27	76	9	182	32	8	20	38	1.83
58403153--58403294	60	2.4	60	88	2	207	25	16	27	30	1.97
58416164--58416195	10	3.3	10	95	4	57	71	6	0	21	1.07
58420636--58420725	46	2.0	46	88	0	135	34	23	11	31	1.90
58428917--58428980	31	2.1	31	90	0	101	25	23	15	35	1.94
58429173--58429318	49	3.0	47	84	9	186	26	23	21	28	1.99
58429174--58429318	25	6.0	24	85	9	179	26	23	21	28	1.99
58429376--58429432	9	5.9	9	73	15	51	35	21	8	35	1.84
58429364--58429434	20	3.5	20	94	0	124	32	21	11	35	1.89
58429369--58429423	11	5.4	11	70	16	55	30	20	12	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58431210--58431432	40	5.6	39	82	5	207	25	27	21	26	1.99
58431364--58431441	40	1.9	41	82	10	97	26	28	20	24	1.99
58438549--58438718	40	4.3	40	88	3	218	25	28	20	25	1.99
58438549--58438773	80	2.8	79	80	7	213	26	27	20	25	1.99
58441154--58441231	27	2.9	27	79	11	88	21	20	21	35	1.96
58441362--58441501	54	2.6	54	84	0	190	32	7	20	39	1.81
58441252--58441450	110	1.8	108	82	4	256	32	9	19	39	1.84
58441277--58441555	27	10.3	27	80	6	172	35	8	18	37	1.82
58441249--58441501	81	3.1	80	72	11	217	32	9	19	38	1.83
58441479--58441738	27	9.6	27	83	3	281	41	8	21	28	1.82
58441480--58441738	81	3.2	81	83	0	329	41	8	21	28	1.82
58441731--58443362	409	4.0	409	99	0	3246	31	27	18	23	1.97
58447336--58447379	20	2.2	20	84	8	54	34	6	20	38	1.79
58447330--58447370	20	2.0	20	100	0	82	34	9	21	34	1.87
58448614--58448739	40	3.0	41	78	11	107	34	13	23	27	1.93
58452517--58452548	9	3.7	9	91	8	57	9	9	0	81	0.88
58452518--58452550	8	4.0	8	92	7	57	12	12	0	75	1.04
58452517--58452550	17	2.0	17	100	0	68	11	11	0	76	1.02
58452519--58452556	17	2.2	17	90	0	58	10	15	0	73	1.09
58455031--58455097	28	2.4	27	78	9	73	19	17	23	38	1.93
58456051--58456089	14	2.8	14	92	7	62	38	5	20	35	1.75
58456548--58456599	15	3.2	15	73	19	50	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58456679--58456734	22	2.6	22	83	5	62	51	0	0	48	1.00
58462191--58462372	28	6.5	28	94	1	294	33	27	12	26	1.92
58467234--58467370	28	4.9	28	91	3	197	34	27	11	27	1.91
58469790--58469849	29	2.1	29	90	6	95	45	11	8	35	1.71
58478677--58478729	25	2.1	25	85	0	70	32	22	24	20	1.98
58480224--58480255	17	1.9	16	93	6	55	50	12	0	37	1.41
58483449--58483705	27	9.5	27	90	0	379	35	21	16	27	1.95
58483723--58483862	27	5.2	26	87	5	192	17	18	21	42	1.90
58483696--58483862	54	3.1	51	82	6	190	20	17	20	40	1.91
58483724--58483862	53	2.6	53	87	5	192	17	18	20	42	1.89
58484063--58484166	27	3.9	27	83	2	129	17	17	22	43	1.88
58484063--58484167	54	1.9	54	86	3	149	17	17	21	43	1.87
58483756--58484373	308	2.0	307	97	0	1164	23	23	21	32	1.98
58500224--58500492	40	6.7	40	97	0	484	29	20	27	21	1.98
58508833--58509061	40	5.7	40	97	0	413	30	20	27	21	1.98
58511128--58511281	28	5.5	28	94	1	247	27	12	27	33	1.92
58519263--58519387	28	4.5	28	89	4	173	27	11	28	33	1.91
58519291--58519400	28	4.0	27	89	5	134	30	10	25	33	1.90
58522404--58522451	17	2.8	17	87	3	69	12	22	41	22	1.88
58529404--58529477	35	2.1	35	90	5	114	24	8	18	48	1.75
58532105--58532238	35	3.6	39	75	10	115	33	21	11	33	1.89
58538312--58538355	21	2.1	21	91	0	70	34	20	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58545691--58545735	19	2.4	19	84	0	54	15	33	37	13	1.86
58548094--58548153	24	2.5	24	83	0	66	55	13	16	15	1.70
58552985--58553153	42	3.9	42	72	6	115	31	13	24	30	1.94
58562146--58562193	23	2.1	23	96	0	87	31	8	16	43	1.78
58565697--58565756	20	3.0	20	71	9	59	31	6	16	45	1.74
58565985--58566046	28	2.2	28	82	5	81	40	3	16	40	1.64
58565918--58566046	48	2.7	47	80	5	143	41	7	14	36	1.75
58566194--58566285	20	4.6	20	74	17	84	35	8	13	42	1.75
58566174--58566285	40	2.8	40	84	9	156	35	8	14	41	1.77
58566324--58566388	20	3.2	20	76	10	62	43	10	12	33	1.77

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