genome.fa.s4.2.7.7.80.10.50.1000.16.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  16  of  253  ( 30316 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)
4493789--4493828	13	3.0	13	81	3	53	35	5	2	57	1.34
4506604--4506719	44	2.6	44	77	0	106	30	17	22	30	1.96
4508141--4508184	20	2.2	20	88	8	63	22	4	2	70	1.17
4508135--4508184	21	2.4	21	86	6	66	20	6	4	70	1.25
4511360--4511425	19	3.2	21	87	6	64	36	19	9	34	1.84
4511377--4511474	19	5.2	19	88	7	146	35	15	9	39	1.79
4511377--4511471	36	2.5	36	91	6	145	35	14	9	40	1.79
4513180--4513287	26	4.2	26	91	0	180	31	7	24	37	1.83
4520993--4521100	26	4.2	26	93	0	189	32	7	24	36	1.83
4524305--4524416	45	2.5	45	79	1	127	29	16	27	25	1.97
4524427--4524514	45	2.0	45	83	0	113	30	18	25	26	1.98
4524691--4524777	44	2.0	44	81	0	102	29	14	25	29	1.95
4532113--4532168	24	2.3	24	82	11	69	19	5	5	69	1.28
4539069--4539145	39	2.0	39	92	0	127	36	25	16	20	1.94
4544962--4545049	35	2.5	35	100	0	176	31	14	18	35	1.91
4550862--4551328	253	1.8	254	87	0	693	37	18	14	30	1.90
4554119--4554169	18	2.6	20	71	22	54	66	3	5	23	1.30
4558854--4558929	40	1.9	40	91	0	125	35	35	14	14	1.87
4559133--4559205	34	2.1	35	84	2	94	38	21	12	27	1.89
4559249--4559355	27	4.0	27	77	1	90	29	16	17	35	1.93
4561184--4561209	10	2.6	10	100	0	52	61	26	0	11	1.30
4561354--4561380	2	13.5	2	100	0	54	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4572398--4572448	21	2.4	21	83	0	66	29	7	19	43	1.79
4574423--4574564	32	4.4	33	71	12	98	43	23	13	19	1.86
4574423--4574564	64	2.2	65	84	3	180	43	23	13	19	1.86
4583098--4583130	16	2.1	16	100	0	66	30	24	6	39	1.79
4586711--4586967	127	2.0	127	99	0	505	40	12	12	34	1.81
4588634--4588692	5	11.8	5	98	0	91	45	0	0	54	0.99
4590087--4590129	16	2.8	16	82	3	52	62	13	0	23	1.31
4601909--4601970	34	1.9	31	87	9	88	59	0	0	40	0.97
4605408--4605466	13	4.5	13	70	16	50	59	3	1	35	1.24
4605423--4605472	24	2.0	26	84	7	68	54	4	2	40	1.31
4605975--4606055	39	2.1	39	97	0	153	24	25	4	44	1.74
4607436--4609349	44	44.1	44	88	2	2593	22	30	16	29	1.96
4607436--4609349	260	7.3	260	87	2	2598	22	30	16	29	1.96
4609560--4609678	61	1.9	65	87	6	183	39	10	15	34	1.82
4617484--4617530	24	2.0	24	83	8	60	53	4	2	40	1.32
4618033--4618111	39	2.0	39	92	0	131	22	29	3	44	1.70
4621189--4621317	30	4.3	30	93	0	213	25	48	6	19	1.72
4621838--4621915	23	3.3	25	77	10	74	35	7	5	51	1.53
4621860--4622001	25	5.7	25	71	14	78	30	7	4	56	1.49
4621887--4621993	26	4.0	28	68	19	77	28	6	4	59	1.43
4621795--4621922	23	5.5	23	68	16	59	35	5	3	55	1.39
4621937--4621978	22	1.9	22	90	0	66	28	2	7	61	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621943--4622008	26	2.6	25	85	4	78	30	4	6	59	1.42
4622067--4622122	25	2.3	24	79	14	62	37	16	3	42	1.65
4631917--4631961	12	3.6	13	77	16	51	55	0	4	40	1.20
4633107--4633299	50	3.8	51	71	8	153	30	11	19	38	1.87
4636941--4637108	73	2.3	73	92	1	273	25	17	21	35	1.95
4636873--4637369	261	1.9	261	88	2	746	26	17	19	36	1.94
4637202--4637812	148	4.1	147	88	2	775	30	16	19	33	1.94
4637202--4637812	73	8.3	75	85	3	785	30	16	19	33	1.94
4637884--4637916	14	2.4	14	94	0	57	18	12	6	63	1.48
4637718--4638319	88	6.7	87	78	10	472	27	16	18	37	1.92
4637739--4638264	181	2.9	177	79	9	546	27	16	18	37	1.93
4637739--4638227	95	5.4	91	79	11	395	28	16	18	36	1.93
4638104--4638331	87	2.6	87	81	4	237	30	15	20	33	1.94
4638946--4639073	30	4.3	30	95	0	220	24	49	7	18	1.74
4639548--4639625	23	3.3	25	77	10	74	35	7	5	51	1.53
4639570--4639632	25	2.6	25	82	5	76	34	7	3	53	1.46
4639648--4639689	22	1.9	22	90	0	66	28	2	4	64	1.26
4639778--4639832	23	2.3	25	75	18	62	38	16	1	43	1.58
4639786--4639831	23	2.0	22	87	4	65	41	15	2	41	1.59
4645591--4645647	25	2.2	25	84	9	69	43	0	1	54	1.10
4649854--4649929	38	2.0	38	100	0	152	47	5	5	42	1.48
4656039--4656109	26	2.8	26	81	12	69	15	9	5	69	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4658345--4658381	16	2.4	15	86	8	56	32	2	8	56	1.43
4662894--4662944	26	1.9	27	84	11	70	45	0	0	54	0.99
4662979--4663016	19	2.0	20	89	5	60	21	0	13	65	1.26
4663701--4663781	40	2.0	40	85	0	108	62	9	2	24	1.38
4663767--4663844	20	4.2	19	73	15	58	65	0	2	32	1.06
4663803--4663847	23	2.0	21	87	8	63	71	0	0	28	0.87
4672903--4672945	22	2.0	22	81	9	52	39	0	2	58	1.11
4679457--4679621	83	2.0	83	91	0	267	35	27	8	29	1.86
4683495--4683534	15	2.7	15	92	3	64	30	22	17	30	1.97
4683498--4683545	15	3.2	15	88	5	53	33	20	14	31	1.93
4683508--4683558	17	3.1	16	78	16	50	33	19	11	35	1.88
4683539--4683605	29	2.3	30	81	2	82	28	23	17	29	1.97
4683547--4683619	15	4.8	15	73	15	60	28	28	15	27	1.96
4687182--4687359	92	1.9	92	96	0	329	27	20	23	28	1.99
4687998--4688066	29	2.4	27	75	13	66	28	13	8	49	1.71
4690220--4690269	24	2.1	24	100	0	100	22	8	0	70	1.13
4695907--4695938	16	2.0	16	100	0	64	43	18	6	31	1.75
4699201--4699240	17	2.2	18	86	8	55	55	0	0	45	0.99
4699790--4699850	22	2.8	22	73	14	54	59	1	4	34	1.29
4699804--4699858	9	5.6	9	80	16	56	61	1	3	32	1.24
4699803--4699860	10	5.7	10	76	11	55	62	1	3	32	1.22
4705493--4705558	26	2.5	26	78	7	62	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4706079--4706130	18	2.8	18	73	23	54	65	0	3	30	1.10
4707257--4707298	22	1.9	22	90	0	66	50	0	0	50	1.00
4707529--4707591	28	2.3	25	78	21	65	63	7	1	26	1.31
4707925--4707968	2	22.0	2	100	0	88	50	0	0	50	1.00
4708193--4708230	3	12.7	3	91	0	58	2	36	0	60	1.11
4711627--4711678	17	3.1	16	80	2	59	53	19	5	21	1.65
4713850--4713889	21	2.0	20	85	5	53	7	42	0	50	1.30
4720367--4720391	9	2.8	9	100	0	50	44	20	12	24	1.85
4724335--4724378	22	2.0	22	82	8	54	50	6	0	43	1.29
4724651--4724680	5	5.8	5	96	4	51	43	0	0	56	0.99
4725803--4725841	20	2.0	20	85	10	53	33	5	2	58	1.33
4725796--4725849	28	1.9	28	81	7	65	33	3	1	61	1.25
4727312--4727336	4	6.2	4	100	0	50	76	0	0	24	0.80
4727695--4727755	29	2.0	30	84	6	79	50	4	0	44	1.23
4727757--4727794	20	1.9	20	88	0	58	65	2	0	31	1.06
4728558--4728627	19	3.7	18	79	7	68	34	1	7	57	1.35
4728558--4728657	9	10.4	9	73	13	76	35	1	6	58	1.30
4728575--4728647	30	2.5	28	82	8	83	34	1	6	57	1.34
4728597--4728657	30	2.1	29	84	9	79	34	0	6	59	1.24
4728603--4728647	20	2.2	21	84	7	58	33	0	4	62	1.15
4737869--4737920	18	2.7	19	88	5	70	67	0	3	28	1.08
4750535--4750568	14	2.4	14	90	0	50	20	0	14	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4751351--4751386	2	18.0	2	88	0	54	44	2	2	50	1.31
4757700--4757733	2	17.0	2	100	0	68	0	50	0	50	1.00
4758306--4758505	92	2.2	91	80	9	230	42	12	17	28	1.85
4763364--4763460	48	2.0	48	97	0	185	51	10	7	30	1.63
4766574--4766626	23	2.3	23	83	6	63	39	1	1	56	1.21
4770344--4770398	28	1.9	27	82	17	67	50	7	0	41	1.30
4771746--4771794	23	2.1	23	82	14	57	12	6	2	79	0.99
4779077--4779111	14	2.5	14	90	9	54	8	2	14	74	1.17
4781763--4781909	42	3.3	42	82	8	170	28	25	14	31	1.95
4781781--4781999	95	2.4	94	83	7	254	30	25	14	29	1.95

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