genome.fa.s9.2.7.7.80.10.50.1000.168.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: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   

This is table  168  of  250  ( 29906 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)
54095250--54095294	23	2.0	23	100	0	90	44	26	0	28	1.55
54095712--54095786	31	2.4	31	80	4	80	49	5	4	41	1.44
54096406--54096468	26	2.4	27	78	7	67	58	4	1	34	1.29
54102776--54102889	9	12.0	10	67	28	54	28	2	3	65	1.22
54107326--54107358	16	2.1	16	94	0	57	39	0	3	57	1.14
54115689--54115761	21	3.5	21	92	3	112	30	17	31	20	1.96
54119301--54119401	10	10.5	10	74	12	86	65	0	1	31	1.10
54119310--54119411	19	5.3	20	67	20	67	63	1	2	31	1.20
54120140--54120185	24	1.9	24	86	0	65	56	4	0	39	1.19
54122116--54122142	3	9.0	3	100	0	54	33	0	0	66	0.92
54125717--54125760	3	14.3	3	90	4	70	61	0	0	38	0.96
54136576--54136605	16	1.9	16	93	6	53	23	0	3	73	0.98
54140690--54140807	63	1.9	61	84	6	157	38	11	31	19	1.87
54141508--54141538	16	2.0	16	93	6	55	12	25	16	45	1.83
54146083--54146134	17	3.1	17	77	0	59	53	13	0	32	1.40
54146808--54146846	13	3.0	13	82	10	53	43	0	0	56	0.99
54146808--54146847	14	2.9	14	85	3	55	45	0	0	55	0.99
54146852--54146911	20	2.9	22	79	18	67	51	0	1	46	1.10
54146816--54146902	32	2.8	33	77	13	94	54	0	0	45	1.00
54146869--54146911	22	2.0	20	86	8	59	51	0	2	46	1.13
54146962--54146993	13	2.4	14	85	15	50	43	0	0	56	0.99
54151059--54151105	21	2.2	20	85	11	58	65	4	6	23	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54167317--54167346	10	3.0	10	100	0	60	30	10	20	40	1.85
54171893--54171952	27	2.3	25	81	13	68	60	0	0	40	0.97
54171839--54171961	42	2.7	46	76	12	139	56	1	0	41	1.09
54172615--54172641	2	13.5	2	100	0	54	48	0	0	51	1.00
54174238--54174280	20	2.2	20	86	0	59	41	11	6	39	1.68
54174995--54175235	41	6.3	40	71	18	165	32	23	17	26	1.97
54175050--54175120	36	2.0	36	88	0	106	36	22	16	23	1.94
54175144--54175253	41	2.7	40	83	5	139	32	23	18	25	1.97
54175536--54175611	28	2.7	28	78	11	75	50	22	0	27	1.50
54177539--54177568	14	2.1	15	93	6	53	50	13	0	36	1.42
54181628--54181695	24	2.8	23	86	8	91	27	19	5	47	1.72
54181872--54181927	15	3.8	15	80	20	73	46	0	0	53	1.00
54182032--54182248	9	23.6	9	75	9	134	47	12	0	38	1.48
54182032--54182248	18	12.3	18	74	10	162	47	12	0	38	1.48
54182041--54182272	114	2.0	114	84	3	297	47	12	0	38	1.48
54188197--54188263	31	2.2	31	83	0	80	17	4	17	59	1.53
54195037--54195074	18	2.1	19	90	9	62	28	13	10	47	1.76
54197646--54197670	4	6.2	4	100	0	50	0	24	0	76	0.80
54198484--54198550	31	2.2	31	80	0	80	52	8	17	20	1.72
54214227--54215408	592	2.0	592	94	0	2067	31	14	20	34	1.92
54228298--54228336	20	2.0	20	100	0	78	41	15	10	33	1.81
54233052--54233097	21	2.1	22	88	4	67	34	2	4	58	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54233254--54233302	13	3.5	13	74	15	53	34	2	2	61	1.19
54233848--54233948	50	2.0	50	100	0	202	43	3	21	30	1.71
54235430--54235469	20	2.0	20	85	0	53	30	7	5	57	1.48
54235923--54235980	20	2.8	21	86	5	73	32	1	3	62	1.22
54236096--54236347	87	2.9	87	84	6	300	32	12	8	46	1.73
54236494--54236679	91	2.0	95	80	5	209	45	8	12	33	1.72
54238271--54238389	58	2.1	58	96	0	220	28	14	21	36	1.92
54240779--54240818	19	2.1	19	86	9	55	35	2	0	62	1.09
54242634--54242670	3	12.3	3	88	0	56	62	0	5	32	1.18
54242844--54242885	15	2.8	15	75	13	50	61	2	11	23	1.42
54243238--54243352	30	3.8	30	92	0	194	25	49	3	21	1.65
54243915--54244058	25	5.6	25	74	12	87	34	6	2	56	1.41
54244176--54244256	16	4.8	16	76	23	69	30	2	1	65	1.13
54244205--54244256	8	6.5	8	82	8	61	30	1	1	65	1.14
54252555--54252729	71	2.5	70	85	2	219	28	14	22	34	1.94
54252746--54253072	71	4.5	73	87	6	445	31	15	20	32	1.94
54252965--54253199	129	1.8	125	87	9	348	28	16	21	33	1.95
54252822--54253336	273	1.9	267	87	7	761	29	16	20	33	1.95
54253095--54253534	72	6.4	70	82	13	458	28	16	21	33	1.95
54252555--54253525	343	2.9	340	85	9	1242	29	16	20	34	1.94
54253711--54253889	71	2.6	69	76	15	181	34	13	21	30	1.92
54254090--54254235	75	2.0	72	88	6	213	29	15	18	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54254162--54254359	83	2.4	79	82	9	220	33	14	18	33	1.91
54254173--54254393	83	2.7	85	78	12	219	30	14	18	36	1.90
54254502--54254652	70	2.1	72	80	8	184	24	15	21	38	1.92
54254647--54254873	72	3.1	70	78	9	224	29	14	21	34	1.93
54254865--54254901	15	2.5	15	90	0	56	18	13	8	59	1.58
54254738--54255058	163	2.0	162	83	4	405	24	16	22	35	1.95
54255818--54255856	21	1.9	20	84	5	51	20	38	2	38	1.66
54255877--54256015	30	4.5	31	76	11	108	24	46	3	25	1.69
54255876--54256015	61	2.2	61	82	13	169	25	45	3	25	1.69
54255886--54256000	30	3.7	31	80	12	123	25	45	4	25	1.72
54255913--54256015	31	3.4	28	78	14	98	25	45	3	25	1.70
54261992--54262163	68	2.5	68	85	5	206	29	14	22	33	1.94
54262181--54262516	72	4.5	74	84	7	414	32	15	20	32	1.94
54262328--54262714	210	1.9	203	86	5	544	30	15	20	33	1.93
54262539--54262890	76	4.7	72	82	10	354	30	15	20	34	1.93
54262539--54262868	70	4.4	75	82	7	341	30	15	20	33	1.93
54261992--54262984	355	2.9	354	88	7	1377	30	15	20	34	1.93
54263025--54263163	70	2.0	71	87	5	201	23	16	23	37	1.94
54263156--54263351	71	2.8	70	82	5	234	31	14	21	32	1.94
54263371--54263405	14	2.5	14	95	0	61	17	14	8	60	1.58
54263227--54263834	162	3.8	160	82	8	650	28	16	20	34	1.94
54263535--54263562	14	2.0	14	100	0	56	14	21	7	57	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54263549--54263834	72	3.7	75	83	9	319	33	14	18	33	1.91
54263641--54263859	80	2.7	81	83	7	277	32	14	18	34	1.91
54262589--54264533	972	2.0	963	96	2	3584	27	15	21	35	1.94
54263993--54264134	72	2.0	73	90	1	223	21	16	23	38	1.93
54264130--54264352	70	3.1	72	81	6	254	30	15	21	32	1.94
54264126--54264323	70	2.8	71	83	4	256	31	14	21	32	1.93
54264343--54264377	14	2.5	14	95	0	61	17	14	8	60	1.58
54264197--54264536	162	2.1	162	88	0	502	24	15	21	37	1.93
54264502--54264543	14	2.9	15	85	7	59	14	14	7	64	1.48
54264505--54264554	14	3.6	14	81	7	57	20	12	4	64	1.43
54265302--54265475	30	5.8	30	91	0	276	24	48	3	23	1.66
54265302--54265475	60	2.9	60	96	1	314	24	48	3	23	1.66
54266029--54266148	27	4.6	27	70	9	86	33	7	3	55	1.44
54266041--54266181	25	5.6	25	71	17	85	34	7	2	56	1.41
54266117--54266179	23	2.7	22	85	11	74	34	7	4	52	1.52
54266321--54266368	16	3.1	15	90	6	69	31	2	2	64	1.16
54266321--54266372	8	6.5	8	82	8	61	30	1	1	65	1.14
54266942--54267003	15	4.0	16	73	12	58	67	1	1	29	1.09
54266951--54267003	21	2.5	22	82	11	67	67	1	1	28	1.11
54266936--54267003	3	22.3	3	72	14	50	66	1	2	29	1.15
54270200--54270251	27	1.9	27	84	0	68	44	5	3	46	1.45
54270959--54270988	14	2.1	15	93	6	53	23	0	6	70	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54271393--54271476	29	2.9	28	75	15	82	51	2	0	46	1.14
54278400--54278446	24	2.0	24	100	0	94	42	17	21	19	1.89
54280393--54280436	22	2.0	22	86	0	61	52	0	0	47	1.00
54280456--54280496	13	2.9	14	77	22	50	53	0	0	46	1.00
54280390--54280551	72	2.2	75	80	6	170	48	1	0	49	1.13
54280529--54280585	15	3.5	15	73	17	60	50	0	0	49	1.00
54281013--54281063	20	2.6	21	78	12	63	50	5	0	43	1.26
54281042--54281079	14	2.7	14	88	8	51	39	5	2	52	1.38
54295890--54296106	46	4.7	46	92	1	319	39	15	23	21	1.91
54295841--54296106	138	2.0	130	86	7	372	38	15	24	21	1.92

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