genome.fa.s5.2.7.7.80.10.50.1000.136.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  136  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)
42174822--42174866	21	2.1	21	100	0	90	26	0	13	60	1.34
42176137--42176175	19	2.1	19	90	4	62	35	7	2	53	1.43
42176134--42176180	17	2.7	17	81	15	60	42	6	2	48	1.40
42176236--42176272	17	2.2	17	95	0	65	43	2	0	54	1.14
42176252--42176309	26	2.1	28	81	6	66	37	0	1	60	1.07
42176349--42176375	13	2.1	13	100	0	54	44	0	0	55	0.99
42176419--42176458	19	2.0	20	85	4	55	52	0	0	47	1.00
42176380--42176498	62	1.9	61	96	1	220	40	4	3	52	1.38
42176464--42176505	17	2.4	17	88	4	57	33	7	0	59	1.25
42176475--42176513	17	2.3	17	95	0	69	28	2	0	69	1.02
42194482--42194525	21	2.2	20	83	4	52	61	9	13	15	1.56
42194615--42194717	3	34.3	3	72	7	57	57	3	7	31	1.45
42194855--42194921	34	1.9	35	82	14	86	64	4	10	20	1.42
42195100--42195164	29	2.2	29	78	10	71	44	3	9	43	1.51
42199310--42199389	25	3.2	25	81	0	115	13	33	26	26	1.94
42199297--42199394	50	2.0	50	97	0	187	14	34	25	25	1.94
42199595--42199670	25	3.0	25	80	0	107	14	34	25	26	1.94
42199573--42199670	50	2.0	50	97	0	187	14	34	24	26	1.94
42199204--42199802	276	2.2	276	95	1	1071	20	29	25	24	1.99
42204293--42204357	32	2.0	32	100	0	130	30	6	24	38	1.80
42211330--42211363	17	1.9	18	88	5	52	32	0	5	61	1.20
42229088--42229259	93	1.8	93	89	0	272	29	29	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42229079--42229249	46	3.7	44	75	10	164	30	29	19	20	1.97
42231931--42232090	12	13.3	12	71	19	102	66	0	3	30	1.12
42231931--42232090	26	6.0	27	73	15	109	66	0	3	30	1.12
42231933--42231997	8	8.5	8	88	8	91	75	0	0	24	0.81
42232121--42232176	29	2.0	27	82	6	67	66	3	0	30	1.09
42235813--42235875	33	1.9	32	87	3	90	23	22	15	38	1.93
42243279--42243338	27	2.3	27	85	2	77	21	23	20	35	1.96
42244083--42244203	46	2.6	46	93	0	206	33	27	17	22	1.96
42256300--42256360	26	2.3	26	83	13	79	54	16	3	26	1.58
42257326--42257401	22	3.7	21	76	15	68	40	17	6	35	1.75
42257355--42257452	35	2.7	37	87	12	150	35	16	10	37	1.82
42257362--42257452	19	4.9	19	92	8	161	36	15	10	37	1.83
42259102--42259144	15	2.8	16	89	7	70	53	11	0	34	1.37
42259246--42259292	18	2.6	18	76	6	51	2	40	0	57	1.11
42259509--42259556	20	2.3	21	89	3	71	47	4	0	47	1.21
42259938--42259980	14	3.0	14	80	16	52	51	2	0	46	1.13
42265027--42265069	15	2.8	16	89	7	70	53	11	0	34	1.37
42265436--42265483	20	2.3	21	89	3	71	47	4	0	47	1.21
42265865--42265907	14	3.0	14	80	16	52	51	2	0	46	1.13
42266344--42266422	3	26.0	3	76	21	76	69	0	1	29	0.96
42266346--42266422	7	11.0	7	81	13	88	70	0	1	28	0.96
42266346--42266431	28	3.0	28	80	11	95	68	0	1	30	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42266377--42266481	12	8.8	12	70	23	80	63	0	3	31	1.18
42266344--42266431	35	2.5	33	84	10	113	68	0	1	30	0.97
42266511--42266566	27	2.1	27	87	6	80	66	0	1	32	1.03
42273618--42273755	21	6.6	21	80	0	150	16	22	15	45	1.84
42273621--42273755	42	3.2	42	86	0	171	17	22	15	45	1.85
42276703--42276777	36	2.1	37	92	2	125	25	34	18	21	1.96
42276898--42277160	47	5.6	47	91	0	382	29	31	7	31	1.86
42278574--42278598	13	1.9	13	100	0	50	32	16	20	32	1.94
42281058--42281173	40	2.9	40	85	0	133	25	30	21	23	1.99
42281606--42281684	29	2.7	29	86	5	106	27	32	15	24	1.95
42281666--42281811	43	3.4	43	99	0	274	26	34	15	23	1.94
42283664--42283739	37	2.1	37	92	0	125	26	34	18	21	1.96
42283860--42284169	47	6.6	47	92	0	467	29	30	8	31	1.86
42285584--42285608	13	1.9	13	100	0	50	32	16	20	32	1.94
42293273--42293328	7	9.0	6	77	18	53	32	0	3	64	1.11
42293274--42293362	20	4.2	20	74	16	70	31	2	2	64	1.18
42293239--42293349	27	4.5	24	74	15	84	35	2	1	60	1.22
42293268--42293477	21	10.1	21	67	17	102	30	3	3	62	1.27
42293718--42293752	16	2.2	16	94	0	61	22	0	5	71	1.07
42295976--42296026	26	2.0	26	88	3	77	35	0	1	62	1.06
42298172--42298214	23	1.9	22	86	13	61	41	2	4	51	1.35
42322272--42322399	28	4.5	28	88	2	175	28	12	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42322272--42322399	57	2.2	57	88	2	186	28	12	25	32	1.92
42342738--42342835	27	3.5	28	90	2	135	26	13	28	31	1.94
42342766--42342848	27	3.0	27	87	5	96	30	12	25	32	1.92
42344541--42344593	21	2.5	21	78	0	61	49	24	0	26	1.51
42347826--42347892	33	2.0	33	100	0	134	29	20	29	19	1.97
42360397--42360450	26	2.1	26	100	0	108	55	29	0	14	1.40
42370327--42370372	24	1.9	24	95	0	83	26	17	13	43	1.85
42372786--42373292	126	4.0	126	90	1	784	33	17	21	27	1.96
42376781--42376818	18	2.1	18	90	0	58	42	10	23	23	1.85
42378608--42378639	15	2.1	15	94	0	55	71	0	0	28	0.86
42378643--42378699	11	5.3	11	75	12	55	43	1	17	36	1.60
42378642--42378699	21	2.7	21	76	12	64	44	1	17	36	1.59
42381052--42381113	28	2.2	28	83	11	74	46	22	0	30	1.52
42381959--42381996	19	2.0	20	85	15	53	55	5	5	34	1.45
42394152--42394176	7	3.6	7	100	0	50	12	32	56	0	1.36
42394798--42394852	21	2.6	21	77	13	58	32	5	0	61	1.19
42406918--42407458	44	12.3	44	85	2	685	30	14	27	27	1.95
42406948--42407538	88	6.7	88	82	5	348	31	14	26	27	1.94
42408596--42408647	20	2.6	21	87	6	72	11	21	59	7	1.56
42408596--42408647	7	7.7	7	78	8	54	11	21	59	7	1.56
42408596--42408647	27	1.9	27	92	0	86	11	21	59	7	1.56
42409131--42409189	28	2.1	28	84	12	77	37	1	3	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42409209--42409372	13	11.5	15	67	24	63	34	3	2	60	1.25
42410616--42410769	85	1.9	85	85	8	219	48	18	5	28	1.69
42410988--42411030	13	3.3	12	81	15	50	74	2	0	23	0.93
42419611--42419646	18	2.0	18	88	0	54	41	8	2	47	1.48
42421500--42421566	18	3.7	18	81	0	80	32	17	14	34	1.91
42421500--42421570	36	1.9	37	88	2	108	30	16	15	36	1.90
42421688--42421734	6	7.8	6	85	0	67	46	12	19	21	1.82
42422092--42422123	3	10.7	3	100	0	64	65	0	0	34	0.93
42428422--42428531	51	2.1	53	81	11	129	43	18	18	20	1.88
42434582--42434619	20	1.9	20	88	0	58	23	0	7	68	1.16
42435425--42435477	15	3.5	15	71	2	52	37	1	0	60	1.08
42438442--42438549	43	2.5	42	80	10	103	25	16	27	30	1.97
42440926--42441362	47	9.2	47	90	2	667	31	8	30	29	1.86
42440926--42441362	96	4.6	94	91	1	667	31	8	30	29	1.86
42440926--42441362	143	3.1	142	91	3	700	31	8	30	29	1.86
42441480--42441558	37	2.1	37	90	0	122	24	18	31	25	1.98
42444343--42444407	23	2.8	23	83	4	69	29	18	16	35	1.93
42444705--42444799	23	4.1	23	77	10	95	27	16	20	35	1.94
42448229--42448382	46	3.4	45	77	8	154	30	20	19	29	1.97
42448230--42448559	44	7.4	45	75	10	234	28	22	19	29	1.98
42448230--42448571	135	2.5	135	86	0	481	28	22	19	30	1.98
42459126--42459443	127	2.5	126	85	2	429	40	20	13	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42461611--42461656	24	1.9	24	82	8	58	13	10	30	45	1.77
42464894--42464969	35	2.2	35	100	0	152	38	22	19	19	1.94
42470955--42470991	18	2.1	18	90	10	58	24	13	16	45	1.83
42474099--42474130	15	2.2	14	94	5	55	31	31	0	37	1.58
42490507--42490548	21	2.0	21	100	0	84	23	4	28	42	1.74
42491571--42491615	20	2.2	20	96	0	81	60	4	22	13	1.51
42493151--42493176	7	3.7	7	100	0	52	46	11	0	42	1.40
42494097--42494183	42	2.1	42	100	0	174	33	6	20	39	1.79
42495777--42495801	11	2.3	11	100	0	50	32	0	0	68	0.90
42507722--42507751	12	2.5	12	94	0	51	33	50	10	6	1.62

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