genome.fa.s9.2.7.7.80.10.50.1000.16.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_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  16  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)
4618347--4618424	16	4.8	16	71	10	52	48	0	0	51	1.00
4618491--4618550	17	3.5	17	71	11	50	55	0	0	45	0.99
4623161--4623185	12	2.1	12	100	0	50	60	8	0	32	1.26
4629853--4629905	23	2.3	23	87	3	81	56	1	30	11	1.45
4633211--4633240	15	2.0	15	93	0	51	50	0	10	40	1.36
4633207--4633269	27	2.3	26	76	10	63	38	0	11	50	1.38
4633265--4633296	10	3.3	10	95	4	57	31	6	0	62	1.20
4636786--4636817	12	2.7	12	100	0	64	18	37	0	43	1.51
4639630--4639668	16	2.3	18	86	8	55	20	7	2	69	1.26
4643104--4643152	21	2.5	20	83	9	64	65	4	0	30	1.11
4646560--4646589	15	2.0	15	100	0	60	46	0	13	40	1.43
4646614--4646661	20	2.5	20	86	10	64	25	6	2	66	1.26
4650326--4650369	20	2.2	20	84	15	56	20	2	0	77	0.88
4651802--4651831	15	2.0	15	93	0	51	50	0	10	40	1.36
4651856--4651899	20	2.3	19	84	11	54	29	2	2	65	1.16
4656426--4656551	43	2.9	43	87	0	189	26	18	23	31	1.97
4658495--4658534	5	7.6	5	94	5	62	82	0	0	17	0.67
4658495--4658534	11	3.7	11	90	9	57	82	0	0	17	0.67
4658863--4658918	29	1.9	29	92	0	94	32	25	12	30	1.92
4663978--4664003	10	2.6	10	100	0	52	65	7	0	26	1.20
4665596--4666371	253	3.0	257	96	1	1438	32	18	14	34	1.91
4669701--4669751	24	2.1	24	88	0	75	21	3	35	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4677764--4677819	24	2.3	24	78	9	60	39	0	0	60	0.97
4678902--4678960	31	1.9	31	89	0	91	35	13	11	38	1.82
4679904--4679968	32	2.0	32	100	0	130	27	3	30	38	1.72
4681955--4682068	28	3.9	28	73	19	99	24	26	21	27	2.00
4682097--4682152	20	2.8	20	83	2	69	33	23	16	26	1.95
4683395--4683469	15	5.1	14	73	12	53	64	0	32	4	1.12
4683448--4684029	298	2.0	298	100	0	1164	31	24	15	28	1.95
4684825--4684868	19	2.4	18	85	7	54	40	9	0	50	1.34
4691018--4691057	20	2.0	20	90	0	62	27	10	12	50	1.72
4691003--4691069	34	1.9	35	90	3	109	31	8	13	46	1.74
4691156--4691194	20	2.0	20	94	0	69	48	2	0	48	1.15
4691225--4691277	17	3.2	15	80	17	52	41	1	1	54	1.22
4691448--4691487	14	2.9	14	84	0	53	32	7	17	42	1.77
4694306--4694356	18	2.8	18	75	0	66	39	3	43	13	1.63
4698626--4698678	26	2.0	27	85	7	74	24	13	22	39	1.90
4700160--4700267	26	4.2	26	91	2	173	36	23	7	33	1.83
4701213--4701440	116	2.0	109	94	5	393	28	31	14	25	1.95
4705552--4705599	21	2.3	21	85	7	62	31	54	2	12	1.49
4707326--4707433	26	4.2	26	91	2	173	36	23	7	33	1.83
4732818--4732889	30	2.4	30	97	2	135	26	16	22	34	1.95
4739426--4740747	477	2.8	471	96	1	2409	42	11	10	35	1.76
4745122--4745153	15	2.1	15	94	0	55	31	9	0	59	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746178--4746437	41	6.4	41	89	2	382	18	23	22	35	1.96
4748220--4748404	79	2.3	81	83	7	227	24	22	27	24	2.00
4748221--4748404	40	4.6	40	82	9	207	25	22	27	24	2.00
4748273--4748437	79	2.1	79	83	6	201	26	21	27	24	1.99
4779298--4779938	44	14.6	44	85	3	727	30	14	26	29	1.95
4781450--4781516	29	2.3	29	82	7	84	32	4	0	62	1.15
4781710--4781745	18	2.0	18	89	10	56	27	0	5	66	1.13
4783521--4783685	27	6.1	27	87	4	219	35	22	24	18	1.96
4783521--4783685	54	3.1	54	90	2	253	35	22	24	18	1.96
4785297--4785405	26	4.2	26	96	1	184	36	24	4	33	1.76
4789270--4789309	19	2.0	22	85	14	59	32	47	2	17	1.61
4789371--4789536	27	6.1	27	86	4	212	35	22	24	18	1.95
4789371--4789536	54	3.1	54	92	1	262	35	22	24	18	1.95
4789642--4789717	26	2.8	27	84	4	91	34	13	18	34	1.89
4791159--4791268	26	4.2	26	96	2	186	37	24	3	34	1.73
4793720--4793794	29	2.6	29	85	8	91	60	1	2	36	1.20
4793771--4793812	20	2.1	20	86	8	59	66	2	4	26	1.23
4800624--4800664	3	13.7	3	90	10	66	65	0	2	31	1.05
4800906--4800952	23	2.0	23	100	0	94	40	12	12	34	1.82
4802493--4802559	31	2.1	32	83	5	82	16	22	7	53	1.67
4804044--4804207	83	2.0	83	96	0	301	42	7	20	30	1.79
4825102--4825250	74	2.0	74	100	0	298	33	28	10	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4831115--4831162	15	3.4	15	75	13	57	16	0	8	75	1.04
4831115--4831182	27	2.5	28	83	9	79	14	2	7	75	1.14
4831190--4831229	18	2.2	19	86	4	55	7	17	0	75	1.03
4832426--4832660	92	2.6	92	78	2	249	26	24	18	29	1.98
4833039--4833124	25	3.4	25	81	0	109	26	15	18	39	1.90
4846391--4846442	15	3.4	15	77	15	61	69	0	3	26	1.06
4846388--4846446	31	2.0	30	90	6	93	67	0	3	28	1.06
4848357--4848399	17	2.6	16	85	10	59	74	2	6	16	1.14
4848358--4848402	20	2.2	20	84	7	56	75	2	6	15	1.11
4851664--4851705	18	2.3	18	91	0	66	40	4	9	45	1.58
4853389--4853710	78	4.0	79	78	8	269	39	13	14	31	1.86
4853552--4853721	89	2.0	85	82	4	205	40	11	14	34	1.81
4854317--4854838	260	2.0	260	96	0	956	41	9	18	30	1.82
4854782--4854925	69	2.1	69	100	0	288	45	9	13	31	1.76
4855625--4855671	22	2.1	22	100	0	94	31	4	17	46	1.67
4857196--4857220	9	2.8	9	100	0	50	52	0	0	48	1.00
4857618--4857663	14	3.1	17	74	25	50	36	0	4	58	1.18
4858189--4858216	3	9.3	3	100	0	56	67	0	0	32	0.91
4862002--4862030	13	2.1	14	93	6	51	20	24	37	17	1.93
4862236--4862308	32	2.3	32	95	0	128	17	9	38	34	1.83
4864827--4864969	72	2.0	72	87	0	205	18	27	17	37	1.93
4868086--4868538	144	3.2	142	83	6	526	30	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4868138--4868607	144	3.3	140	84	5	507	31	19	13	35	1.90
4870582--4870620	14	2.8	14	92	0	60	43	5	15	35	1.69
4879539--4879685	66	2.2	69	85	7	194	30	18	9	41	1.82
4879569--4879666	34	2.9	33	69	10	83	27	18	10	43	1.82
4882183--4882227	21	2.2	20	84	11	56	44	44	2	8	1.47
4883669--4883721	26	2.0	27	85	7	74	24	15	22	37	1.92
4885207--4885314	26	4.2	26	91	2	173	36	23	7	33	1.83
4886490--4886524	17	2.1	17	94	0	61	31	0	2	65	1.07
4886495--4886545	3	17.0	3	80	8	50	31	3	1	62	1.24
4886823--4886867	15	3.1	15	81	6	58	37	0	6	55	1.26
4886824--4886867	13	3.2	13	83	6	52	36	0	6	56	1.26
4887121--4887166	20	2.3	21	77	11	60	34	4	6	54	1.46
4898467--4898542	39	1.9	40	86	7	111	55	14	19	10	1.68
4899424--4899456	15	2.3	15	89	5	50	15	12	9	63	1.51
4899372--4899875	86	5.8	85	78	10	442	26	16	18	37	1.93
4899597--4899627	13	2.4	13	94	0	53	16	12	6	64	1.47
4899679--4899712	16	2.1	16	88	0	50	17	11	2	67	1.34
4899365--4899836	173	2.7	172	82	9	525	27	16	19	36	1.93
4899357--4899874	260	2.0	255	81	8	600	26	16	18	37	1.92
4901511--4901545	17	2.1	17	94	0	61	31	0	2	65	1.07
4901846--4901881	15	2.4	15	85	0	54	36	0	8	55	1.30
4902142--4902187	20	2.3	21	77	11	60	34	4	6	54	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4906621--4906718	19	5.2	19	90	7	155	37	9	16	36	1.80
4906610--4906727	36	3.1	35	76	19	105	36	10	15	38	1.81
4908674--4908719	23	2.0	24	91	4	76	36	8	10	43	1.71
4915319--4915579	126	2.1	126	88	2	380	28	16	16	38	1.90
4915334--4915637	126	2.4	126	84	4	373	25	16	18	39	1.90
4915412--4915674	126	2.1	126	79	8	277	27	17	16	38	1.91
4917423--4917530	26	4.2	26	91	0	171	32	5	24	37	1.78
4919901--4920187	143	2.0	143	98	0	556	21	21	24	32	1.98
4920403--4920448	19	2.4	19	89	7	67	21	21	10	45	1.82
4922638--4922676	16	2.4	16	83	8	53	82	2	15	0	0.79

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