genome.fa.s4.2.7.7.80.10.50.1000.199.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  199  of  255  ( 30512 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)
66344785--66344839	16	3.2	17	82	10	58	58	10	7	23	1.57
66352294--66352339	19	2.4	19	92	3	74	23	15	15	45	1.84
66352417--66352472	24	2.3	24	87	0	76	41	5	5	48	1.49
66354401--66354442	3	14.0	3	100	0	84	66	0	0	33	0.92
66354491--66354529	20	2.0	20	89	0	60	66	0	2	30	1.05
66366432--66366603	93	1.8	93	92	2	292	27	29	21	22	1.99
66366424--66366599	46	3.8	46	77	14	200	28	28	21	22	1.99
66368821--66368966	57	2.5	58	77	4	152	34	20	17	26	1.95
66370281--66370369	25	3.6	25	76	8	92	40	25	11	22	1.87
66370256--66370385	50	2.6	50	85	0	170	38	23	13	24	1.90
66370354--66370401	25	1.9	25	86	0	69	35	20	16	27	1.94
66373795--66374014	49	4.6	49	72	9	186	25	29	20	25	1.99
66373795--66374105	49	6.6	48	72	9	185	24	28	19	27	1.98
66394591--66394619	2	14.5	2	100	0	58	51	0	48	0	1.00
66397489--66397533	22	2.1	22	88	8	67	40	2	6	51	1.41
66399370--66399427	17	3.3	17	80	7	71	79	3	0	17	0.87
66399370--66399426	8	6.6	8	75	15	51	78	3	0	17	0.88
66399539--66399573	11	3.2	11	88	11	54	0	54	0	45	0.99
66400039--66400106	3	22.3	3	73	8	57	30	0	7	61	1.23
66400046--66400117	23	3.1	23	82	11	67	31	1	11	55	1.43
66400125--66400174	13	3.8	13	75	20	50	28	8	0	64	1.22
66400207--66400242	3	12.0	3	87	0	54	30	2	0	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66400509--66400570	20	3.2	20	80	15	67	33	3	1	61	1.22
66400924--66401019	18	5.1	19	67	20	58	35	12	1	51	1.47
66402631--66402668	13	2.9	13	100	0	76	28	23	15	31	1.96
66409207--66409251	19	2.5	18	86	10	65	17	2	6	73	1.15
66411972--66412016	19	2.5	18	89	10	74	20	0	6	73	1.05
66412044--66412118	37	2.0	37	94	0	132	21	29	8	41	1.81
66412768--66412823	22	2.6	22	88	5	89	10	37	30	21	1.87
66412768--66412837	20	3.4	20	86	7	88	12	38	28	20	1.89
66414742--66414773	7	4.6	7	96	0	55	71	9	15	3	1.24
66415219--66415298	19	4.2	20	78	10	80	60	1	5	33	1.27
66415227--66415298	28	2.6	28	84	2	92	59	1	5	33	1.29
66415266--66415298	17	1.9	17	93	0	57	63	3	6	27	1.32
66415226--66415304	9	8.7	9	73	12	54	56	1	5	36	1.29
66415321--66415379	30	2.0	29	83	12	75	52	1	6	38	1.38
66415457--66415529	9	7.6	9	73	15	58	61	4	5	28	1.37
66415473--66415527	19	2.7	19	86	8	65	61	5	5	27	1.40
66415473--66415527	9	5.5	10	77	16	60	61	5	5	27	1.40
66416963--66417003	22	1.9	21	85	5	55	63	7	9	19	1.48
66418753--66418808	23	2.4	23	82	5	69	28	1	1	67	1.10
66419878--66419916	19	2.1	19	90	9	62	46	2	23	28	1.65
66432605--66432636	5	6.6	5	92	7	57	81	0	0	18	0.70
66432606--66432636	9	3.3	9	95	4	53	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66435047--66435093	13	3.4	14	82	8	60	63	27	2	6	1.30
66435489--66435514	12	2.2	12	100	0	52	76	0	15	7	0.99
66436853--66436881	3	9.7	3	100	0	58	34	34	0	31	1.58
66443913--66443968	28	1.9	29	82	7	69	26	1	23	48	1.61
66452446--66452547	29	3.6	29	83	1	116	27	27	16	28	1.97
66452807--66452837	8	3.9	8	95	0	53	12	25	22	38	1.90
66454345--66454392	20	2.3	20	86	10	62	54	0	22	22	1.45
66454518--66454692	81	2.1	81	97	1	332	32	6	17	43	1.75
66455620--66455659	20	2.0	20	85	0	53	22	17	5	55	1.61
66462687--66462839	80	1.9	80	85	2	209	23	17	19	39	1.92
66464106--66464146	19	2.2	19	100	0	82	48	24	9	17	1.76
66468241--66468305	32	2.0	32	100	0	130	41	18	6	33	1.75
66472669--66472773	56	1.9	56	84	5	142	35	20	24	20	1.96
66472694--66472773	27	2.9	27	88	5	115	32	21	25	21	1.98
66472889--66472952	28	2.3	28	94	0	110	31	7	28	32	1.85
66473200--66473231	8	4.0	8	91	0	55	3	25	25	46	1.67
66475722--66475760	21	1.9	21	89	5	62	15	23	25	35	1.94
66478394--66478483	45	2.0	45	97	0	171	52	11	4	32	1.57
66482970--66483026	30	1.9	30	96	0	105	38	21	14	26	1.91
66484272--66484324	22	2.4	22	100	0	106	15	24	32	28	1.95
66491112--66491139	12	2.3	12	100	0	56	46	17	0	35	1.49
66491853--66491929	40	1.9	40	89	0	118	38	32	14	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66501223--66501324	42	2.4	42	78	15	104	36	22	16	24	1.94
66501192--66501348	44	3.7	42	72	13	126	31	24	18	24	1.97
66516386--66516546	43	3.8	43	93	0	263	26	32	18	22	1.97
66520382--66520562	40	4.6	40	90	2	276	25	25	23	24	2.00
66527269--66527312	22	2.0	22	86	8	63	38	9	15	36	1.80
66527540--66527720	40	4.6	40	90	2	276	25	27	23	23	2.00
66530506--66530557	22	2.3	23	80	9	63	21	3	0	75	0.97
66530882--66530926	14	3.2	14	90	0	63	48	31	0	20	1.49
66530931--66530970	19	2.0	21	85	9	57	50	2	0	47	1.14
66531467--66531510	18	2.5	19	75	24	51	43	22	4	29	1.73
66531698--66531957	41	6.3	41	88	2	362	17	24	23	34	1.96
66531697--66531988	41	7.1	40	82	8	153	18	23	22	35	1.96
66532012--66532037	12	2.2	12	100	0	52	46	30	15	7	1.74
66534323--66534407	27	3.1	28	85	5	86	15	21	23	40	1.91
66534340--66534407	27	2.5	26	88	6	100	14	22	22	41	1.90
66542738--66542819	6	13.3	6	73	19	71	50	14	15	19	1.79
66542752--66542819	25	2.7	25	86	0	100	50	14	16	19	1.79
66543035--66543085	27	1.9	26	84	4	66	35	17	27	19	1.94
66542965--66543104	67	2.1	68	87	2	201	31	21	27	19	1.97
66543330--66543760	27	16.0	27	86	1	524	25	21	18	35	1.95
66543751--66543937	27	7.0	27	82	8	202	33	5	19	41	1.76
66543751--66543930	54	3.4	53	86	3	245	32	5	19	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66543751--66543937	80	2.3	81	84	5	245	33	5	19	41	1.76
66561490--66561642	43	3.7	44	73	14	153	27	15	24	32	1.95
66561503--66561577	37	2.0	37	89	5	116	24	13	25	37	1.91
66561619--66561688	34	2.1	34	94	0	122	35	14	20	30	1.92
66563306--66563471	81	2.0	81	95	0	296	26	23	20	29	1.99
66570582--66570664	42	2.0	42	87	0	121	31	30	15	22	1.95
66570509--66570662	84	1.8	84	81	2	193	29	27	15	26	1.96
66570705--66570846	37	3.9	37	85	7	184	23	30	19	26	1.98
66570705--66570843	74	1.9	74	91	4	228	24	30	18	25	1.98
66571723--66571764	12	3.8	12	81	18	63	38	9	23	28	1.86
66571716--66571764	21	2.3	21	100	0	98	40	10	20	28	1.85
66573536--66573610	28	2.7	28	85	0	96	32	29	12	26	1.92
66579715--66579753	19	2.1	19	100	0	78	41	0	43	15	1.46
66581643--66581675	13	2.6	13	90	4	50	39	0	12	48	1.40
66585077--66585121	21	2.2	20	84	4	54	31	22	26	20	1.98
66587034--66587090	16	3.6	15	80	17	62	19	1	0	78	0.83
66587029--66587102	6	11.8	6	78	8	76	18	2	0	78	0.87
66587034--66587122	12	7.9	11	75	13	76	20	3	0	76	0.93
66587029--66587122	5	18.2	5	74	23	72	20	3	0	76	0.92
66587029--66587096	26	2.6	26	90	6	102	19	1	0	79	0.81
66588940--66588983	10	4.2	10	80	8	52	63	18	18	0	1.31
66588940--66588983	21	2.1	21	87	8	63	63	18	18	0	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66590665--66590871	27	7.6	27	89	3	297	27	13	28	30	1.94
66590665--66590871	55	3.8	55	95	0	342	27	13	28	30	1.94
66598705--66598884	27	6.5	28	92	3	285	25	13	29	31	1.94
66598705--66598884	55	3.3	55	94	0	306	25	13	29	31	1.94
66601827--66601910	34	2.4	35	84	4	107	21	27	23	27	1.99
66610063--66610102	17	2.2	17	86	8	53	22	45	22	10	1.82
66612985--66613077	42	2.2	42	84	5	116	31	21	16	31	1.95
66614219--66614245	13	2.1	13	100	0	54	48	22	0	29	1.51
66619229--66619483	55	4.8	53	78	8	252	34	18	25	20	1.96
66619236--66619436	108	1.8	109	87	6	300	32	18	26	21	1.97

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