genome.fa.s1.2.7.7.80.10.50.1000.172.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_A01
Parameters: 2 7 7 80 10 50 1000
Length:  115637255

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   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   

This is table  172  of  349  ( 41854 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)
55690412--55690445	3	11.3	3	100	0	68	35	0	0	64	0.94
55693377--55693430	22	2.5	22	90	0	81	40	29	20	9	1.83
55703301--55703336	18	2.0	18	88	0	54	50	0	19	30	1.48
55725679--55725811	47	2.8	47	83	1	176	21	15	27	35	1.93
55733627--55733798	40	4.3	40	87	2	213	25	27	21	25	1.99
55733627--55733851	80	2.8	79	80	7	231	25	27	21	25	1.99
55733783--55733860	40	1.9	41	82	10	97	26	28	20	24	1.99
55733980--55734008	13	2.2	13	100	0	58	37	17	6	37	1.76
55755449--55755661	40	5.3	40	93	2	326	24	23	26	25	2.00
55756114--55756369	80	3.2	80	91	3	385	23	22	27	26	1.99
55756114--55756343	40	5.8	40	93	1	374	23	22	28	26	1.99
55764196--55764423	40	5.8	40	94	2	374	23	22	28	25	1.99
55764196--55764449	40	6.4	39	92	3	370	24	22	27	25	2.00
55767750--55767921	67	2.6	66	81	7	170	31	16	29	22	1.96
55767774--55767957	67	2.8	64	78	8	203	28	16	30	23	1.96
55772139--55772286	64	2.2	68	78	10	160	31	16	28	22	1.96
55772088--55772346	68	3.9	64	75	9	204	29	15	29	25	1.96
55776066--55776106	5	8.2	5	100	0	82	80	0	0	19	0.71
55781284--55781322	17	2.3	17	90	0	60	58	12	0	28	1.34
55786502--55786602	31	3.4	29	73	18	86	72	0	3	23	1.02
55786549--55786604	5	11.0	5	81	14	62	78	0	1	19	0.84
55790207--55790251	22	2.0	22	95	0	81	46	20	4	28	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55799690--55799722	13	2.6	13	90	4	50	39	0	12	48	1.40
55803144--55803188	21	2.2	20	84	4	54	31	26	24	17	1.97
55805116--55805181	13	4.8	13	75	18	62	18	4	0	77	0.94
55805116--55805161	6	7.5	6	82	4	56	15	4	0	80	0.86
55808080--55808112	13	2.6	13	90	4	50	39	0	12	48	1.40
55811520--55811786	49	5.6	49	89	3	384	28	29	8	33	1.86
55817943--55818002	23	2.6	23	100	0	120	38	13	13	35	1.84
55831320--55831381	32	1.9	32	100	0	124	38	25	6	29	1.81
55832544--55832581	20	2.0	19	85	10	51	52	15	26	5	1.64
55841374--55841411	20	2.0	19	85	10	51	52	15	26	5	1.64
55841927--55841958	14	2.4	13	90	10	55	18	6	12	62	1.50
55842946--55842993	25	1.9	25	100	0	96	33	8	20	37	1.83
55847066--55847249	78	2.3	81	84	6	234	25	22	27	24	2.00
55847066--55847249	40	4.7	40	83	8	225	25	22	27	24	2.00
55847119--55847272	80	2.0	77	84	6	202	26	21	27	24	1.99
55851040--55851263	40	5.7	40	85	6	287	25	28	21	24	1.99
55851040--55851263	79	2.8	79	85	5	292	25	28	21	24	1.99
55855402--55855588	39	4.7	40	78	7	159	27	19	27	25	1.99
55859333--55859413	41	2.0	41	85	4	110	25	11	25	37	1.89
55866889--55866972	43	2.0	43	87	0	123	36	26	11	25	1.90
55870383--55870409	7	3.9	7	100	0	54	55	0	0	44	0.99
55875501--55875844	189	1.8	188	79	6	399	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55875674--55875952	105	2.7	105	88	3	395	31	15	23	29	1.95
55875674--55875952	104	2.7	103	88	4	391	31	15	23	29	1.95
55876694--55876725	14	2.3	14	94	0	55	6	0	43	50	1.27
55877566--55877637	25	2.9	25	95	0	135	30	31	4	33	1.77
55880682--55880729	19	2.6	18	83	6	69	33	4	0	62	1.14
55880592--55880784	62	3.2	61	74	14	220	36	5	2	55	1.35
55880883--55881006	9	14.1	9	75	17	100	45	14	2	37	1.58
55880891--55881108	16	13.0	16	68	12	116	45	14	2	37	1.60
55880885--55881081	80	2.3	85	82	8	242	45	14	3	37	1.60
55881041--55881112	9	8.2	9	77	9	60	48	15	0	36	1.45
55881034--55881108	34	2.2	34	85	4	98	50	14	0	34	1.43
55885942--55885979	14	2.5	15	83	16	51	39	13	0	47	1.42
55885952--55885980	14	2.1	14	100	0	58	34	13	0	51	1.42
55886145--55886173	14	2.1	14	93	6	51	34	0	6	58	1.25
55886599--55886650	21	2.5	21	93	0	86	30	23	46	0	1.53
55886931--55886997	31	2.2	31	83	0	80	17	7	17	56	1.63
55887072--55887186	44	2.7	44	86	2	153	26	25	20	27	1.99
55887072--55887192	42	2.8	42	82	6	145	24	23	19	31	1.98
55902823--55902874	21	2.5	21	78	9	61	71	5	5	17	1.26
55914391--55914609	46	4.7	45	74	14	158	28	19	29	22	1.98
55915670--55915710	22	1.9	22	90	5	66	12	43	26	17	1.84
55938414--55938445	14	2.3	14	100	0	64	46	12	6	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55939966--55940037	37	1.9	37	94	0	126	20	29	5	44	1.74
55941476--55941518	21	2.0	21	100	0	86	44	9	23	23	1.82
55947143--55947181	20	2.0	20	85	10	53	58	7	2	30	1.39
55957589--55957700	47	2.4	47	79	13	110	30	15	23	31	1.95
55959096--55959205	40	2.8	40	81	2	114	26	27	19	27	1.99
55965853--55966433	47	12.4	47	94	0	995	32	8	29	29	1.87
55966552--55966630	37	2.1	37	88	4	115	25	18	30	25	1.98
55985680--55985740	30	2.0	30	87	0	86	31	22	6	39	1.80
55986644--55986863	46	4.6	48	79	6	200	28	20	27	23	1.99
55986644--55986844	94	2.1	92	85	7	262	29	19	27	23	1.98
55986877--55987008	49	2.7	49	78	5	142	29	20	25	25	1.99
55996242--55996320	37	2.1	37	88	0	113	26	30	18	24	1.98
55996439--55997000	47	11.7	47	94	2	901	29	29	8	32	1.87
55996439--55996979	49	11.3	49	93	3	908	29	29	8	32	1.86
55996439--55997000	96	5.9	96	94	2	954	29	29	8	32	1.87
55999181--55999300	56	2.1	56	95	3	215	22	25	9	43	1.82
56002247--56002323	24	3.2	24	96	0	136	33	3	42	19	1.69
56003754--56003864	27	4.2	26	84	7	134	18	25	22	34	1.96
56003754--56003864	54	2.1	53	89	1	168	18	25	22	34	1.96
56010136--56010212	24	3.2	24	96	0	136	32	5	41	20	1.75
56011641--56011751	27	4.2	26	84	7	134	18	25	22	34	1.96
56011641--56011751	54	2.1	53	89	1	168	18	25	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56015226--56015279	26	2.0	27	85	3	74	27	20	18	33	1.96
56015380--56015507	27	4.8	27	89	0	186	19	21	21	38	1.94
56017353--56017385	16	2.1	16	100	0	66	15	18	24	42	1.88
56029292--56029459	40	4.2	40	83	4	106	25	27	23	23	2.00
56029315--56029459	40	3.6	40	85	4	193	23	26	24	25	2.00
56029908--56029983	38	2.0	38	97	0	143	31	22	13	32	1.92
56031955--56032094	27	5.3	27	79	6	135	41	20	8	29	1.82
56031955--56032084	52	2.5	53	81	9	149	40	20	9	30	1.84
56032005--56032131	27	4.7	26	81	3	101	38	23	7	29	1.83
56032116--56032256	27	5.3	27	88	0	194	34	20	20	24	1.96
56032087--56032268	81	2.3	80	76	6	197	34	20	17	28	1.95
56032501--56032551	27	1.9	26	84	4	66	19	27	17	35	1.94
56032591--56032650	27	2.3	27	85	2	77	21	23	20	35	1.96
56032767--56032869	6	16.8	6	74	11	93	17	15	14	52	1.75
56032767--56032869	43	2.4	42	85	9	138	17	15	14	52	1.75
56033410--56033458	20	2.5	20	93	0	80	32	2	14	51	1.54
56043026--56043192	83	2.0	83	97	0	316	31	28	10	29	1.90
56045079--56045109	16	1.9	16	93	0	53	29	12	25	32	1.93
56045448--56045472	10	2.5	10	100	0	50	12	44	20	24	1.85
56052916--56053088	46	3.7	46	78	11	192	21	19	27	30	1.98
56052914--56053083	93	1.8	93	91	2	279	21	20	28	30	1.98
56053313--56053350	19	2.0	20	85	15	53	36	0	23	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56060491--56060662	45	3.7	46	79	11	208	22	20	27	29	1.98
56060887--56060924	19	2.0	20	85	15	53	36	0	23	39	1.55
56062762--56062828	33	2.0	33	100	0	134	29	20	20	28	1.98
56062795--56062887	44	2.2	42	86	7	125	25	21	22	30	1.99
56062839--56062954	43	2.7	42	74	7	108	25	18	24	31	1.98
56064212--56064245	18	1.9	18	88	5	52	47	0	14	38	1.45
56068544--56068569	9	2.9	9	100	0	52	11	0	23	65	1.25
56095904--56096125	40	5.6	40	87	3	279	27	22	26	24	2.00
56098328--56098414	39	2.2	39	89	0	129	27	26	22	22	2.00
56106972--56107090	50	2.4	51	85	4	152	28	18	23	29	1.98

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   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349