genome.fa.s1.2.7.7.80.10.50.1000.102.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  102  of  316  ( 37835 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)
31741456--31741495	21	2.0	21	85	5	55	15	35	25	25	1.94
31746271--31746306	18	2.0	18	94	0	63	25	13	16	44	1.85
31752774--31752798	13	1.9	13	100	0	50	8	8	20	64	1.46
31753708--31753804	36	2.6	37	93	3	178	31	5	14	48	1.66
31753799--31753867	9	7.7	9	88	0	102	28	8	15	46	1.76
31754137--31754251	27	4.3	27	85	4	133	40	20	7	31	1.80
31754137--31754414	54	5.1	54	78	6	170	41	20	8	30	1.81
31754137--31754384	81	3.1	81	84	1	300	41	19	8	31	1.81
31754154--31754394	27	8.9	27	83	2	252	40	19	8	30	1.82
31754425--31754477	27	2.0	27	92	0	88	37	11	15	35	1.83
31754579--31754633	27	2.0	27	85	0	74	30	14	23	30	1.94
31754771--31754847	27	2.8	26	78	7	82	20	22	20	36	1.95
31755008--31755067	28	2.2	27	87	3	84	20	26	26	26	1.99
31755031--31755105	33	2.3	33	90	0	114	24	21	25	29	1.99
31762559--31762592	17	1.9	18	88	5	52	55	5	5	32	1.48
31781285--31781604	49	6.7	49	71	14	200	25	29	16	29	1.97
31781336--31781610	142	1.9	142	83	4	358	26	28	16	28	1.97
31785002--31785041	19	2.1	19	100	0	80	27	25	15	32	1.95
31786686--31786742	27	2.1	27	93	0	96	43	8	5	42	1.58
31786686--31786760	27	2.9	27	86	5	84	41	8	5	45	1.56
31787065--31787238	49	3.5	49	85	1	249	29	28	17	25	1.97
31787065--31787246	99	1.8	99	94	2	321	29	28	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31794638--31795001	47	7.7	47	95	0	622	32	8	29	29	1.86
31794972--31795104	70	1.9	70	98	0	257	28	12	27	32	1.92
31795190--31795268	37	2.1	37	88	0	113	24	18	30	26	1.98
31799967--31800055	5	16.8	5	73	19	65	15	6	1	76	1.05
31799962--31800055	6	16.0	6	74	14	63	15	6	1	76	1.04
31799966--31800055	11	8.4	11	69	21	66	15	6	1	76	1.04
31799986--31800055	17	3.8	19	74	14	58	15	5	1	77	1.03
31808246--31808422	49	3.6	47	75	11	178	23	30	19	26	1.98
31808193--31808420	98	2.3	96	82	5	262	23	30	19	26	1.98
31818571--31818705	47	3.0	44	81	10	159	28	17	27	26	1.98
31822856--31823038	40	4.6	40	93	1	296	26	27	23	21	1.99
31845683--31845827	29	5.1	28	77	6	148	28	15	28	26	1.96
31845683--31845827	58	2.5	57	84	6	186	28	15	28	26	1.96
31847349--31847463	55	2.1	56	82	8	137	34	20	24	20	1.96
31847374--31847463	27	3.2	27	82	7	110	32	22	24	21	1.98
31847569--31847689	56	2.2	56	98	0	233	32	8	27	32	1.86
31847569--31847689	28	4.3	28	88	0	179	32	8	27	32	1.86
31847938--31847968	8	3.9	8	91	0	53	3	22	25	48	1.66
31855481--31855561	29	2.9	27	80	10	90	30	19	27	22	1.98
31855677--31855740	28	2.3	28	91	2	103	31	7	28	32	1.85
31863111--31863263	29	5.4	28	80	6	155	28	15	29	26	1.96
31863111--31863257	58	2.6	57	81	7	172	28	15	29	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31868347--31868385	20	2.0	20	100	0	78	38	15	5	41	1.69
31869754--31870196	43	10.3	43	81	6	341	30	22	20	27	1.98
31869754--31870196	86	5.2	86	83	5	391	30	22	20	27	1.98
31869779--31870196	129	3.2	129	83	4	486	29	22	20	28	1.98
31870498--31870545	21	2.3	21	100	0	96	0	58	18	22	1.39
31871101--31871138	19	2.1	18	85	9	51	52	0	7	39	1.31
31878335--31878854	133	3.9	133	98	0	1013	50	17	10	21	1.75
31878848--31878887	8	4.7	9	87	12	66	57	0	0	42	0.98
31878848--31878887	17	2.4	17	91	8	64	57	0	0	42	0.98
31881461--31881486	6	4.3	6	100	0	52	69	30	0	0	0.89
31884008--31884104	41	2.4	40	94	3	176	18	22	24	34	1.96
31884008--31884175	41	4.1	40	83	4	167	21	21	20	36	1.95
31884199--31884224	12	2.2	12	100	0	52	46	30	15	7	1.74
31888744--31889011	40	6.7	40	95	0	473	31	20	26	22	1.98
31897170--31897432	40	6.7	40	92	3	428	31	20	25	22	1.98
31897170--31897432	118	2.2	119	91	3	426	31	20	25	22	1.98
31898691--31898760	1	70.0	1	100	0	140	100	0	0	0	0.00
31898772--31898837	1	66.0	1	100	0	132	0	0	0	100	0.00
31919060--31919154	29	3.3	29	81	0	118	30	14	25	29	1.95
31919069--31919176	58	1.9	57	85	7	150	28	17	26	26	1.98
31922515--31922770	40	6.4	40	89	3	349	26	28	21	22	1.99
31922515--31922770	79	3.2	79	87	3	345	26	28	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31930530--31930712	40	4.6	40	95	1	305	26	27	24	21	1.99
31937171--31937196	3	8.7	3	100	0	52	30	0	0	69	0.89
31938189--31938222	15	2.3	15	89	0	50	47	32	0	20	1.51
31938474--31938668	41	4.8	41	84	3	232	20	21	22	36	1.95
31939281--31939318	14	2.6	15	87	4	51	10	5	21	63	1.46
31941868--31941998	44	3.0	44	85	8	169	28	19	30	21	1.98
31941871--31942032	44	3.5	44	81	12	159	29	19	29	22	1.98
31944377--31944446	31	2.3	31	97	0	131	15	35	34	14	1.88
31947333--31947371	20	2.0	20	100	0	78	41	5	15	38	1.69
31948439--31948488	18	2.8	18	100	0	100	16	38	30	16	1.90
31952462--31952614	29	5.4	28	82	6	173	27	30	15	27	1.96
31955519--31955730	40	5.3	39	83	5	264	27	28	20	23	1.99
31955519--31955730	80	2.7	80	91	0	345	27	28	20	23	1.99
31963589--31963800	40	5.3	39	81	5	246	27	27	20	24	1.99
31963589--31963800	80	2.7	80	90	0	327	27	27	20	24	1.99
31977711--31977896	67	2.8	67	80	9	177	31	16	29	22	1.95
31977735--31977918	67	2.8	64	77	8	194	29	16	29	23	1.96
31984632--31984699	16	4.2	16	90	7	102	27	0	33	38	1.57
31984632--31984699	32	2.1	32	94	0	118	27	0	33	38	1.57
31984829--31985138	157	2.0	157	93	0	530	44	3	4	47	1.41
31988846--31988880	15	2.3	15	90	0	52	54	11	5	28	1.59
31992783--31993009	49	4.7	49	96	1	413	30	8	30	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31993127--31993205	37	2.1	37	88	4	115	25	18	30	25	1.98
32003183--32003304	43	2.9	42	73	7	120	22	14	27	36	1.93
32008833--32009098	46	5.7	46	68	17	156	22	18	27	31	1.97
32008826--32009090	93	2.8	93	89	1	397	22	19	27	30	1.98
32017255--32017424	93	1.8	92	89	3	270	28	27	21	22	1.99
32017247--32017432	46	4.1	45	72	16	123	29	27	20	23	1.99
32019858--32020076	45	5.0	44	88	6	311	24	30	21	23	1.99
32019858--32020076	88	2.5	88	91	5	336	24	30	21	23	1.99
32026466--32026511	23	2.0	23	82	0	56	41	15	19	23	1.89
32029384--32029428	18	2.5	18	81	0	54	44	11	17	26	1.82
32029767--32029963	27	7.3	27	91	1	261	40	17	14	27	1.88
32033336--32033652	27	11.8	26	83	6	330	40	21	13	24	1.89
32033351--32033652	80	3.7	81	89	3	423	40	21	12	24	1.88
32034510--32034534	13	1.9	13	100	0	50	56	4	40	0	1.18
32036496--32036526	16	1.9	16	93	0	53	67	6	9	16	1.39
32036750--32036799	18	2.8	18	84	0	64	46	10	16	28	1.78
32037124--32037399	27	10.3	27	84	0	284	40	20	13	25	1.89
32037146--32037392	107	2.3	108	82	1	298	40	20	12	25	1.88
32037127--32037401	134	2.0	135	85	1	363	41	20	12	25	1.88
32040887--32041034	27	5.5	27	84	0	170	39	20	12	27	1.88
32040867--32041034	54	3.1	54	80	0	174	38	20	11	28	1.88
32041150--32041184	17	2.0	18	88	5	54	17	34	31	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32048819--32048943	59	2.1	59	93	0	214	36	21	7	34	1.81
32052329--32052358	15	2.0	15	100	0	60	40	6	26	26	1.81
32053492--32053542	18	2.8	18	87	0	75	41	7	23	27	1.82
32053879--32054169	54	5.4	54	84	5	372	40	21	12	26	1.88
32053898--32054168	136	2.0	136	89	4	413	40	21	12	25	1.87
32053879--32054169	27	10.7	27	83	2	332	40	21	12	26	1.88
32058626--32058809	67	2.8	63	75	11	167	30	17	29	22	1.97
32065153--32065195	21	2.0	21	100	0	86	48	23	18	9	1.76
32072709--32072735	13	2.1	13	100	0	54	14	37	33	14	1.88
32082058--32082198	23	5.8	24	73	14	87	36	21	19	22	1.95

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