genome.fa.s6.2.7.7.80.10.50.1000.15.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_A06
Parameters: 2 7 7 80 10 50 1000
Length:  115140250

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   

This is table  15  of  345  ( 41358 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)
4677516--4677555	17	2.4	17	86	0	62	65	5	0	30	1.14
4677931--4677964	14	2.3	15	90	5	52	29	2	0	67	1.05
4678041--4678085	19	2.4	19	80	0	54	44	0	13	42	1.43
4683008--4683034	3	9.0	3	100	0	54	66	0	0	33	0.92
4683209--4683267	27	2.1	28	84	3	75	64	6	0	28	1.19
4687638--4687685	25	2.0	25	87	4	71	14	27	20	37	1.92
4687743--4687809	25	2.6	25	83	6	73	19	22	23	34	1.97
4690073--4690107	18	2.0	18	94	5	63	28	51	14	5	1.65
4691249--4691317	29	2.4	29	86	11	106	33	2	4	59	1.32
4691265--4691325	29	2.1	29	82	8	72	29	4	6	59	1.44
4691945--4692194	129	2.0	128	95	1	457	24	14	24	36	1.93
4699068--4699289	40	5.6	40	89	1	311	18	22	28	31	1.97
4709402--4709446	22	2.0	22	82	0	54	15	6	2	75	1.11
4718304--4718366	29	2.2	29	100	0	126	31	22	14	31	1.93
4718519--4718549	2	15.5	2	100	0	62	0	48	0	51	1.00
4719091--4719138	3	16.0	3	86	0	69	35	2	29	33	1.69
4720526--4720637	56	2.0	56	96	0	206	36	6	18	38	1.76
4720930--4721071	67	2.1	67	77	0	149	40	16	18	24	1.91
4722167--4722198	12	2.6	13	85	14	50	37	0	6	56	1.25
4723877--4723954	40	2.0	40	89	0	120	29	12	20	37	1.90
4723920--4724157	78	3.0	78	88	2	361	32	13	21	31	1.93
4725101--4725259	78	2.0	78	96	0	291	30	18	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4725218--4725368	32	4.7	32	82	1	185	34	23	8	33	1.86
4725361--4725633	29	9.4	29	94	0	483	24	28	13	33	1.93
4729998--4730042	23	2.0	23	82	8	56	37	8	13	40	1.76
4732136--4732160	13	1.9	13	100	0	50	40	0	24	36	1.55
4732132--4732173	21	2.0	21	90	0	66	47	0	21	30	1.51
4734587--4734627	20	2.0	20	100	0	82	31	0	24	43	1.54
4741035--4741200	86	1.9	92	85	7	236	35	19	10	34	1.86
4742658--4742708	25	2.2	23	86	10	68	60	0	3	35	1.15
4746799--4746829	12	2.6	12	94	0	53	0	25	0	74	0.82
4746909--4746939	16	1.9	16	93	0	53	54	3	0	41	1.16
4747567--4747988	132	3.2	131	79	3	398	33	18	19	28	1.95
4747773--4748024	132	1.9	132	88	0	378	32	17	19	30	1.95
4757951--4758193	37	6.5	37	80	6	240	29	17	17	36	1.92
4757910--4758178	112	2.4	112	87	0	376	28	18	18	34	1.94
4757872--4758193	75	4.3	74	77	5	288	28	19	18	34	1.95
4764618--4764648	13	2.5	13	94	5	55	48	9	6	35	1.62
4764742--4764771	15	2.0	15	100	0	60	46	6	13	33	1.69
4765472--4765500	2	14.5	2	100	0	58	51	0	0	48	1.00
4766399--4766468	35	2.0	35	91	0	113	30	31	11	27	1.91
4778298--4778522	113	2.0	113	93	0	387	28	17	21	32	1.96
4779259--4779345	20	4.4	18	74	17	59	60	3	0	35	1.13
4779286--4779433	10	14.8	10	65	19	51	57	4	2	35	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4779302--4779345	20	2.3	19	88	11	63	63	0	0	36	0.95
4779951--4780004	20	2.7	20	80	11	74	27	1	3	66	1.19
4780050--4780146	43	2.3	42	79	12	99	32	2	3	61	1.23
4780050--4780141	44	2.1	43	80	11	100	33	2	2	61	1.20
4782643--4782747	53	2.0	53	98	0	201	37	27	9	25	1.87
4783636--4783821	88	2.1	88	100	0	372	33	17	10	38	1.84
4792026--4792067	19	2.2	19	87	8	59	21	0	2	76	0.90
4794857--4794915	25	2.3	26	85	8	86	30	23	25	20	1.98
4806372--4806407	17	2.0	19	89	10	58	13	19	44	22	1.86
4809109--4809143	4	9.2	4	87	12	56	22	0	0	77	0.78
4821228--4821252	7	3.6	7	100	0	50	64	0	0	36	0.94
4823868--4823995	60	2.1	60	81	9	145	25	12	10	51	1.71
4827587--4827641	22	2.3	24	79	14	62	38	3	5	52	1.42
4827714--4827784	5	14.2	5	100	0	142	19	0	19	60	1.36
4837454--4837496	22	2.0	22	81	9	52	27	13	4	53	1.60
4837648--4838124	131	3.6	131	85	1	625	27	17	18	36	1.94
4837648--4838147	263	1.9	262	84	2	671	27	17	18	37	1.93
4848466--4848513	3	16.0	3	100	0	96	66	0	0	33	0.92
4850429--4850453	12	2.1	12	100	0	50	24	36	24	16	1.94
4850614--4850674	9	6.8	9	96	0	95	39	27	9	22	1.86
4855229--4855287	2	30.5	2	89	6	86	44	0	1	54	1.10
4859602--4859654	21	2.5	22	77	17	67	50	5	11	32	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4859607--4859656	22	2.3	23	80	16	61	54	4	8	34	1.49
4861874--4862001	42	3.1	42	88	2	204	27	22	18	31	1.97
4862044--4862163	42	2.8	44	77	7	138	20	22	22	35	1.96
4862646--4862732	43	2.0	43	84	2	111	24	19	19	36	1.95
4869095--4869147	21	2.5	22	71	17	58	50	3	11	33	1.56
4869963--4870005	21	2.1	20	79	16	52	65	6	4	23	1.37
4873809--4878176	728	6.0	728	98	0	8407	36	20	18	25	1.95
4879061--4879101	21	1.9	22	90	5	66	58	12	7	21	1.58
4880170--4880231	20	3.0	21	71	4	63	16	25	30	27	1.96
4883235--4883323	46	2.0	45	89	8	137	33	12	25	28	1.92
4883228--4883339	44	2.5	45	84	5	129	36	12	23	27	1.91
4886177--4886635	230	2.0	230	99	0	900	30	10	23	35	1.88
4887253--4887298	22	2.1	22	95	0	83	15	41	15	28	1.87
4900171--4900298	39	3.3	39	91	2	195	31	17	24	26	1.97
4900171--4900320	78	1.9	78	82	5	187	30	19	25	24	1.98
4901819--4901885	25	2.8	22	84	11	71	10	4	2	82	0.93
4901845--4901895	8	6.0	8	79	20	59	9	3	0	86	0.70
4901848--4901895	18	2.7	18	90	3	71	10	4	0	85	0.73
4901821--4901894	12	6.2	12	77	12	71	10	4	1	83	0.83
4906219--4906272	26	2.0	26	92	3	90	75	0	3	20	0.95
4906230--4906272	4	11.2	4	90	9	72	76	0	0	23	0.78
4906226--4906282	22	2.6	21	86	10	78	75	1	0	22	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4906230--4906282	18	3.1	17	86	10	72	75	1	0	22	0.90
4906226--4906288	14	4.6	14	86	7	76	73	1	0	25	0.93
4913778--4913825	25	1.9	25	91	0	78	47	20	25	6	1.73
4918822--4918855	6	5.7	6	92	0	59	50	0	50	0	1.00
4918822--4918862	18	2.3	18	86	0	55	51	0	46	2	1.14
4918834--4918898	27	2.4	27	82	10	71	46	0	50	3	1.17
4918857--4918917	6	10.7	6	81	10	56	47	0	50	1	1.10
4918873--4918919	21	2.2	21	88	0	67	46	0	51	2	1.13
4918879--4918908	15	2.0	15	93	0	51	46	0	50	3	1.18
4918843--4918917	27	2.7	26	81	8	78	46	0	50	2	1.15
4932225--4932293	29	2.4	29	85	4	77	39	1	5	53	1.34
4935870--4936044	91	1.9	91	94	0	305	23	10	13	52	1.72
4938507--4938558	16	3.2	16	94	0	95	26	0	34	38	1.57
4938794--4938828	18	2.0	17	88	5	52	54	0	0	45	0.99
4938681--4938965	157	1.8	157	96	0	525	43	2	5	48	1.40
4938931--4938965	15	2.2	16	90	5	54	51	0	0	48	1.00
4942182--4942236	28	2.0	28	92	0	92	63	5	29	1	1.27
4942585--4942636	15	3.3	16	81	13	72	67	0	3	28	1.08
4942587--4942705	15	8.1	14	71	18	57	61	0	3	34	1.18
4944279--4944476	41	4.6	42	89	6	292	26	28	15	29	1.96
4944455--4944902	220	2.0	220	89	0	684	26	22	18	33	1.96
4949764--4949815	15	3.3	16	81	13	72	67	0	3	28	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4949784--4949848	26	2.5	25	73	14	60	63	1	1	33	1.13
4953934--4953968	3	11.3	3	93	6	61	65	0	0	34	0.93
4953993--4954046	26	2.2	24	83	6	63	61	3	3	31	1.31
4965263--4965319	22	2.6	21	78	13	62	40	1	0	57	1.09
4966125--4966150	4	6.5	4	100	0	52	23	0	0	76	0.78
4970067--4970152	43	2.0	43	95	4	156	40	0	16	43	1.48
4970068--4970163	43	2.3	40	87	10	122	41	1	14	42	1.52
4974267--4974325	27	2.2	27	82	8	68	30	6	1	61	1.32
4974388--4974412	13	1.9	13	100	0	50	24	8	0	68	1.16
4974641--4974675	12	2.9	12	95	0	61	0	11	0	88	0.51

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