genome.fa.s1.2.7.7.80.10.50.1000.13.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  13  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)
3919253--3919285	17	1.9	17	88	11	50	66	0	0	33	0.92
3919253--3919286	18	1.9	17	88	5	50	67	0	0	32	0.91
3919542--3919599	22	2.6	22	81	7	64	41	15	5	37	1.70
3919571--3919649	35	2.2	37	86	13	121	35	16	10	37	1.82
3919592--3919647	17	3.5	15	88	9	60	35	16	10	37	1.83
3919578--3919649	19	3.9	19	89	10	123	36	15	11	37	1.83
3919768--3919807	21	2.0	20	85	5	53	10	2	15	72	1.21
3927422--3927477	20	2.8	20	81	7	53	57	8	3	30	1.47
3928417--3928450	11	3.2	11	91	4	52	47	0	52	0	1.00
3928540--3928590	13	3.8	13	80	12	59	21	0	3	74	0.98
3928979--3929013	18	1.9	18	94	0	61	2	0	25	71	1.00
3930357--3930400	22	2.0	23	90	4	72	63	6	9	20	1.46
3930734--3930758	13	1.9	13	100	0	50	16	32	8	44	1.76
3932582--3932638	30	1.9	30	96	0	105	24	19	14	42	1.88
3933091--3933151	26	2.3	27	83	8	81	49	36	0	14	1.44
3933108--3933150	22	2.0	22	90	0	68	51	32	0	16	1.45
3934661--3934699	20	2.0	20	100	0	78	43	15	5	35	1.69
3937160--3937207	21	2.3	21	96	3	89	43	8	16	31	1.78
3941981--3942013	14	2.3	15	89	5	50	60	6	0	33	1.21
3954402--3954515	45	2.6	45	84	4	133	29	20	18	31	1.96
3954425--3954705	140	2.0	140	86	1	393	27	20	18	33	1.96
3954565--3954921	44	8.2	44	71	9	183	28	22	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3955170--3955291	64	1.9	64	96	0	226	37	15	15	31	1.89
3959830--3959867	19	2.0	19	85	10	51	47	7	26	18	1.76
3965240--3965268	12	2.4	12	100	0	58	24	0	0	75	0.80
3965380--3965409	3	10.0	3	100	0	60	33	0	0	66	0.92
3966432--3966568	40	3.4	40	82	8	154	29	25	18	26	1.98
3969167--3969641	177	2.7	177	88	1	702	29	18	24	27	1.98
3969167--3969595	88	4.9	87	68	7	245	29	17	24	27	1.98
3969593--3970155	44	13.0	44	72	6	353	31	20	22	25	1.98
3969659--3970206	130	4.2	130	90	0	812	30	20	22	25	1.98
3969787--3970200	86	4.8	86	73	6	327	29	21	23	25	1.99
3970240--3970629	44	8.9	44	64	8	139	28	22	18	29	1.98
3970211--3970654	88	5.0	88	89	1	604	28	22	19	29	1.98
3970673--3970804	65	2.0	65	95	0	237	28	16	27	27	1.97
3970741--3970897	44	3.5	44	82	5	192	29	15	26	28	1.96
3972467--3972493	6	4.5	6	100	0	54	14	0	0	85	0.61
3972768--3972827	3	20.0	3	100	0	120	33	0	0	66	0.92
3972878--3972922	23	1.9	24	90	4	74	17	4	0	77	0.92
3973035--3973080	3	15.3	3	100	0	92	34	0	0	65	0.93
3980264--3980370	40	2.7	40	88	5	155	29	27	17	25	1.98
3980268--3980420	40	3.8	40	84	6	130	29	24	17	28	1.97
3981986--3982215	41	5.9	40	74	15	178	34	23	16	26	1.95
3982124--3982227	41	2.5	40	80	9	120	30	24	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3982012--3982214	112	1.8	112	86	3	300	33	23	16	27	1.96
3984537--3984566	14	2.1	15	93	6	53	50	13	0	36	1.42
3987057--3987106	23	2.2	23	100	0	100	34	16	16	34	1.90
3987224--3987661	241	1.8	241	95	2	767	34	18	14	33	1.91
3987780--3987906	9	13.6	9	78	8	128	46	21	0	31	1.57
3987780--3987873	38	2.5	38	91	3	147	46	20	0	32	1.51
3987969--3988006	18	2.3	16	86	13	51	50	21	0	28	1.49
3992233--3992263	15	2.0	16	93	6	55	32	16	51	0	1.44
3992540--3992606	31	2.2	31	83	0	80	17	4	17	59	1.53
3992680--3992838	43	3.7	42	88	4	237	24	32	20	23	1.98
3992680--3992838	86	1.8	87	93	1	275	24	32	20	23	1.98
3999438--3999538	40	2.5	40	91	3	168	28	28	19	22	1.98
3999512--3999587	40	1.9	40	94	0	134	31	21	15	31	1.94
4002174--4002647	177	2.7	177	87	1	684	29	18	24	27	1.98
4002616--4003203	44	13.6	42	71	9	301	30	20	22	26	1.98
4002755--4003212	44	10.7	43	74	3	332	29	20	23	26	1.99
4002665--4003212	130	4.2	130	90	0	785	30	20	22	26	1.98
4002793--4003206	86	4.8	86	73	7	329	28	20	24	26	1.99
4003245--4003556	44	7.1	44	63	9	125	29	21	18	29	1.97
4003217--4003660	88	5.0	88	87	1	586	29	22	18	29	1.97
4003679--4003810	65	2.0	65	95	0	237	28	16	27	27	1.97
4003744--4003903	44	3.6	44	80	8	182	29	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4005768--4005848	3	27.0	3	100	0	162	33	0	0	66	0.92
4005900--4005944	23	1.9	24	90	4	74	17	4	0	77	0.92
4006057--4006090	3	11.3	3	100	0	68	35	0	0	64	0.94
4007560--4007657	52	1.9	51	85	2	133	41	4	5	48	1.44
4007620--4007675	28	2.0	30	82	10	73	42	3	1	51	1.29
4008437--4008525	44	2.0	44	100	0	178	35	6	8	48	1.61
4009499--4009554	28	2.1	26	83	6	67	44	0	0	55	0.99
4018924--4018965	18	2.3	18	84	8	50	59	11	4	23	1.51
4019143--4019303	3	54.3	3	71	14	86	63	2	3	31	1.23
4025064--4025105	16	2.6	16	77	11	50	19	0	4	76	0.96
4030215--4030320	54	2.0	54	96	0	194	43	16	20	18	1.88
4043136--4043174	6	6.5	6	93	0	60	43	38	17	0	1.50
4043140--4043177	18	2.1	18	95	0	67	42	42	15	0	1.47
4044382--4044640	73	3.5	73	96	0	473	28	6	23	41	1.78
4048886--4049071	73	2.5	73	97	0	354	28	6	24	40	1.79
4055926--4055958	16	2.1	16	88	11	50	42	0	9	48	1.35
4060724--4060786	30	2.1	30	96	0	117	26	3	12	57	1.51
4062005--4062044	20	2.0	20	100	0	80	25	10	10	55	1.64
4062772--4062982	52	4.2	50	79	9	216	23	15	29	31	1.95
4063928--4063966	20	2.0	20	94	0	69	15	41	25	17	1.89
4064346--4064383	18	2.1	18	100	0	76	44	10	18	26	1.82
4065284--4065355	22	3.4	21	70	12	58	56	1	1	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4075867--4075896	15	1.9	15	93	6	51	50	3	0	46	1.18
4093955--4093999	2	22.5	2	100	0	90	48	0	0	51	1.00
4104991--4105109	46	2.6	46	94	0	211	29	26	21	22	1.99
4116497--4116521	12	2.1	12	100	0	50	52	0	0	48	1.00
4119382--4119408	12	2.2	12	100	0	54	25	18	14	40	1.89
4121360--4121400	21	2.0	21	95	0	73	19	26	21	31	1.97
4124239--4124265	12	2.2	12	100	0	54	25	18	14	40	1.89
4125410--4125452	20	2.2	20	82	0	50	27	2	11	58	1.46
4131422--4131461	6	6.7	6	97	0	62	57	0	25	17	1.40
4131421--4131474	6	8.8	6	89	2	54	61	0	22	16	1.35
4132836--4132860	11	2.3	11	100	0	50	16	8	16	60	1.58
4133308--4133357	21	2.4	21	96	3	93	40	20	16	24	1.91
4141700--4141799	9	10.9	9	70	12	69	36	2	15	47	1.57
4141700--4141805	27	3.9	27	72	14	81	35	1	16	46	1.58
4142062--4142458	205	2.0	202	87	2	580	54	4	6	34	1.47
4142062--4142458	103	3.9	103	89	2	579	54	4	6	34	1.47
4145880--4145920	22	1.9	22	85	14	59	31	4	2	60	1.30
4149837--4149978	20	7.1	20	68	23	93	51	2	1	44	1.25
4149837--4150011	60	2.9	60	94	1	316	50	2	1	44	1.26
4150493--4150546	21	2.6	21	81	0	81	53	33	1	11	1.47
4150527--4150581	28	2.0	28	85	7	76	56	18	0	25	1.42
4151249--4151283	17	2.0	17	88	5	52	65	14	0	20	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152218--4152252	18	2.1	17	89	10	54	45	0	17	37	1.48
4153687--4154090	41	9.9	41	86	1	531	17	19	25	37	1.93
4164502--4164541	21	2.0	20	85	5	53	55	20	0	25	1.44
4166312--4166344	17	2.0	17	94	5	59	36	15	0	48	1.45
4166630--4166856	92	2.5	92	91	0	355	20	23	14	40	1.90
4166625--4166852	46	5.0	46	89	1	314	21	23	14	40	1.90
4175365--4175400	6	6.2	6	96	3	65	69	0	0	30	0.89
4182061--4182102	22	1.9	22	95	0	75	38	0	2	59	1.10
4182033--4182106	8	10.1	7	69	13	51	37	0	2	59	1.12
4182051--4182084	16	2.1	16	100	0	68	44	0	0	55	0.99

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