genome.fa.s5.2.7.7.80.10.50.1000.28.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_A05
Parameters: 2 7 7 80 10 50 1000
Length:  102776486

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   
          321   322   323   324   325   

This is table  28  of  325  ( 38985 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)
10462954--10462998	21	2.0	23	87	8	67	31	31	4	33	1.78
10465122--10465154	17	1.9	17	93	0	57	21	0	3	75	0.93
10469218--10469243	13	2.0	13	100	0	52	15	15	38	30	1.88
10472313--10472388	27	2.9	26	77	18	77	60	0	1	38	1.05
10472471--10472555	34	2.5	33	77	9	84	56	2	1	40	1.20
10472495--10472552	27	2.2	26	81	9	71	60	3	1	34	1.24
10472528--10472570	20	2.3	18	80	8	50	62	2	2	32	1.20
10472733--10472766	14	2.4	14	90	9	52	20	0	0	79	0.73
10476793--10476836	14	3.1	14	84	12	63	52	2	0	45	1.13
10478261--10478292	10	3.2	10	95	0	55	56	0	0	43	0.99
10482181--10482234	16	3.4	15	87	10	72	66	1	1	29	1.12
10482177--10482234	24	2.4	24	82	5	73	67	1	1	29	1.11
10482177--10482234	8	7.2	8	80	7	64	67	1	1	29	1.11
10482418--10482484	14	4.9	14	69	18	52	61	1	2	34	1.20
10482395--10482472	31	2.5	31	81	6	79	58	3	5	32	1.38
10482336--10482559	25	9.0	25	68	16	92	55	4	6	33	1.44
10482348--10482494	27	5.6	27	73	9	108	54	4	7	33	1.50
10483049--10483193	30	4.8	30	87	0	218	24	3	47	24	1.67
10483049--10483192	60	2.4	60	94	0	243	25	3	47	23	1.67
10483942--10483991	14	3.6	14	81	7	57	64	4	12	20	1.43
10484014--10484348	76	4.5	75	84	5	462	30	23	16	29	1.96
10483971--10484348	152	2.5	152	85	5	480	32	22	16	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10484129--10485119	256	3.9	252	75	15	782	36	19	16	28	1.93
10484384--10484617	78	3.1	75	85	7	300	36	20	16	26	1.93
10484385--10484781	71	5.2	71	77	16	309	36	18	16	29	1.92
10484498--10484850	155	2.2	155	83	9	441	34	18	16	30	1.93
10484759--10484792	13	2.7	13	90	4	52	64	0	14	20	1.28
10484716--10484882	88	1.9	86	81	9	203	41	16	13	28	1.86
10484874--10485192	77	4.3	74	81	7	331	34	20	15	30	1.93
10485041--10485356	160	1.9	162	87	4	467	33	20	16	29	1.94
10485105--10485277	89	2.0	87	89	5	267	36	18	13	30	1.90
10485198--10485426	75	3.1	75	85	9	333	31	22	17	28	1.96
10487900--10488050	53	2.8	53	86	4	196	29	27	15	27	1.96
10491837--10491890	16	3.4	15	87	10	72	66	1	1	29	1.12
10491833--10491890	24	2.4	24	82	5	73	67	1	1	29	1.11
10491833--10491890	8	7.2	8	80	7	64	67	1	1	29	1.11
10491998--10492062	25	2.8	24	83	6	80	52	6	7	33	1.55
10492051--10492118	30	2.3	29	84	2	82	58	4	4	32	1.37
10492081--10492137	25	2.3	25	84	0	69	59	1	3	35	1.25
10492171--10492216	25	1.9	25	86	8	69	60	0	4	34	1.16
10492709--10492823	30	3.8	30	90	0	176	22	3	48	25	1.66
10492709--10492823	60	1.9	60	94	0	203	22	3	48	25	1.66
10503062--10503188	66	1.9	66	95	0	227	47	11	13	27	1.78
10504776--10504847	13	4.9	14	73	18	58	36	1	51	11	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10504776--10504865	45	2.0	43	91	4	144	35	3	51	10	1.52
10504911--10505124	30	7.2	30	92	1	353	51	0	8	38	1.40
10504911--10505124	29	7.2	29	91	3	347	51	0	8	38	1.40
10505930--10505986	16	3.6	16	75	17	64	38	12	1	47	1.51
10505924--10505988	32	2.0	32	100	0	130	41	12	3	43	1.58
10533986--10534023	4	9.5	4	94	0	58	26	5	23	44	1.74
10555411--10555440	3	10.0	3	100	0	60	66	0	33	0	0.92
10557146--10557184	21	1.9	20	84	5	51	30	10	2	56	1.46
10559119--10559170	26	2.0	26	92	0	86	53	1	25	19	1.55
10563094--10563226	65	2.0	65	100	0	266	37	17	12	33	1.86
10563731--10563940	81	2.7	78	82	4	267	24	10	35	29	1.89
10565917--10566843	231	4.0	231	94	0	1631	21	13	30	34	1.92
10567327--10567351	2	12.5	2	100	0	50	48	0	0	52	1.00
10568791--10568847	19	2.9	19	73	2	51	64	1	1	31	1.13
10574650--10574693	21	2.0	21	82	4	52	50	0	0	50	1.00
10574900--10574940	19	2.2	19	100	0	82	75	0	0	24	0.80
10576131--10576202	34	2.1	34	100	0	144	47	19	11	22	1.80
10582907--10582952	19	2.4	19	83	16	60	28	0	2	69	1.00
10589680--10589736	24	2.4	24	96	0	105	24	22	14	38	1.91
10599038--10599075	20	1.9	20	88	0	58	60	5	5	28	1.40
10603843--10603947	50	2.1	50	98	1	203	30	7	21	40	1.81
10609368--10609408	21	2.0	21	85	9	57	31	0	2	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10618358--10618393	14	2.5	15	90	4	56	38	2	5	52	1.39
10624044--10624161	53	2.2	53	87	7	166	27	13	27	31	1.94
10629708--10629873	53	3.1	53	88	6	221	25	15	28	30	1.96
10652767--10652800	18	1.9	18	88	5	52	26	0	8	64	1.22
10659199--10659262	24	2.7	25	80	9	80	65	3	1	29	1.17
10659199--10659258	8	7.5	8	85	7	68	65	3	1	30	1.19
10659386--10659453	23	2.9	24	78	12	70	55	5	7	30	1.51
10659386--10659469	23	3.7	22	76	16	66	55	5	7	30	1.51
10659416--10659469	22	2.3	24	84	9	67	51	7	7	33	1.58
10659490--10659616	24	5.5	24	68	18	74	59	2	3	35	1.26
10660091--10660262	30	5.8	30	91	2	276	21	3	49	25	1.65
10660981--10661029	14	3.6	14	89	8	66	65	4	12	18	1.41
10661008--10661644	74	8.3	75	76	12	555	34	21	16	27	1.95
10661467--10661494	14	2.0	14	100	0	56	57	7	21	14	1.61
10661313--10661795	164	3.0	161	86	5	634	34	22	16	27	1.95
10661476--10661644	73	2.3	74	86	2	241	36	21	17	24	1.94
10661624--10661658	14	2.5	14	95	0	61	60	8	14	17	1.58
10661551--10661723	91	1.9	87	84	9	224	35	23	16	24	1.94
10661313--10661787	162	2.9	160	86	4	625	33	22	16	27	1.95
10684791--10684854	30	2.1	30	100	0	128	29	6	28	35	1.82
10692738--10692772	16	2.2	16	89	0	52	68	2	0	28	1.04
10694495--10694557	30	2.1	30	96	0	117	26	3	12	57	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10694638--10694678	17	2.3	19	80	16	52	21	0	9	68	1.18
10695720--10696269	273	2.0	273	99	0	1082	42	3	16	36	1.66
10697655--10697699	23	2.0	22	82	4	54	33	2	15	48	1.57
10697950--10698104	24	6.3	25	77	7	131	16	27	22	32	1.96
10698002--10698155	24	6.4	24	72	8	80	20	29	18	31	1.96
10698072--10698168	24	4.0	25	74	6	83	22	25	17	34	1.96
10705049--10705080	16	2.0	16	100	0	64	37	0	12	50	1.41
10707169--10707303	67	2.0	67	92	0	225	25	21	12	40	1.89
10724412--10724436	3	8.3	3	100	0	50	68	0	0	32	0.90
10724687--10724735	24	2.0	25	88	4	73	51	0	2	46	1.12
10725486--10725535	17	2.7	20	78	18	70	10	0	44	46	1.37
10729964--10730013	17	2.7	20	78	18	70	10	0	44	46	1.37
10731761--10731794	17	2.0	17	94	0	59	44	50	0	5	1.26
10736400--10736433	17	2.0	17	94	0	59	44	50	0	5	1.26
10745954--10746019	18	3.3	18	66	22	51	28	4	13	53	1.60
10745933--10746019	42	2.1	42	97	0	165	27	5	13	52	1.63
10749556--10749584	13	2.1	14	93	6	51	51	0	3	44	1.18
10750358--10750398	19	2.2	19	86	8	57	68	0	31	0	0.90
10751078--10751124	15	3.1	15	78	0	58	34	2	14	48	1.56
10751436--10751504	27	2.4	27	85	7	84	17	4	39	39	1.69
10751632--10751672	19	2.2	19	87	12	59	46	0	24	29	1.53
10756863--10756887	12	2.1	12	100	0	50	48	8	20	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10757761--10757794	12	2.9	12	86	4	52	32	0	0	67	0.91
10757918--10757980	30	2.1	30	96	0	117	57	9	3	30	1.46
10758011--10758041	14	2.2	14	94	0	53	61	12	6	19	1.53
10768216--10768330	40	2.9	40	85	5	144	36	20	11	32	1.88
10768270--10768352	40	2.1	40	88	0	121	37	16	10	34	1.84
10770010--10770034	10	2.5	10	100	0	50	72	0	0	28	0.86
10775431--10775513	30	2.8	30	74	13	82	40	7	9	42	1.65
10784508--10784551	23	2.0	23	82	13	56	59	2	13	25	1.46
10785237--10785288	26	2.0	26	82	17	63	57	1	0	40	1.10
10810311--10810427	51	2.3	51	92	0	198	29	23	13	34	1.93

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   
          321   322   323   324   325