genome.fa.s3.2.7.7.80.10.50.1000.123.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_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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   

This is table  123  of  325  ( 38900 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)
39466743--39466803	20	3.0	20	83	9	79	32	13	26	27	1.93
39469234--39469277	22	2.0	22	90	0	70	27	36	2	34	1.70
39471070--39471101	16	2.0	16	100	0	64	50	25	12	12	1.75
39471450--39471673	45	5.0	45	97	0	421	26	20	15	37	1.92
39472852--39472924	30	2.5	29	82	4	85	5	21	1	71	1.14
39481716--39481767	23	2.3	22	75	21	54	9	23	1	65	1.32
39485115--39485161	20	2.3	20	82	7	60	21	14	36	27	1.93
39486560--39486636	15	5.1	16	80	13	76	76	2	2	18	1.02
39486568--39486636	14	4.7	15	84	12	81	79	1	2	15	0.92
39486678--39486702	12	2.1	12	100	0	50	92	0	8	0	0.40
39486680--39486759	32	2.5	32	81	15	103	78	3	8	8	1.06
39487647--39487692	20	2.2	20	84	3	56	65	0	26	8	1.21
39494153--39494206	23	2.2	25	78	15	60	62	3	22	11	1.43
39499763--39499806	22	2.0	22	95	0	79	25	36	4	34	1.76
39500120--39500144	13	1.9	13	100	0	50	72	0	0	28	0.86
39500768--39500801	15	2.3	15	89	0	50	35	29	32	2	1.73
39504382--39504478	30	3.2	30	72	8	99	27	26	16	28	1.97
39505139--39505182	22	2.0	22	95	0	79	25	36	4	34	1.76
39506952--39507057	48	2.2	48	81	9	128	14	23	1	60	1.44
39507033--39507158	18	7.1	17	69	16	78	14	26	2	56	1.51
39509709--39509754	20	2.3	20	84	0	65	21	13	34	30	1.91
39510793--39510839	20	2.3	20	81	0	58	29	34	12	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39512374--39512408	9	3.8	9	88	3	52	85	2	8	2	0.79
39512359--39512417	21	2.7	21	82	12	66	76	3	15	5	1.10
39515232--39515278	20	2.3	20	81	0	58	29	34	12	23	1.92
39521614--39521658	24	1.9	23	86	4	63	13	22	0	64	1.28
39524784--39524830	20	2.3	21	71	10	53	34	19	23	23	1.97
39525619--39525650	14	2.3	14	100	0	64	6	6	6	81	0.99
39525619--39525673	23	2.3	25	84	12	80	9	5	5	80	1.03
39526025--39526072	14	3.4	14	85	0	60	43	6	31	18	1.75
39532519--39532569	11	4.6	11	83	9	68	9	5	3	80	1.01
39532519--39532569	12	4.5	12	83	14	72	9	5	3	80	1.01
39532519--39532569	21	2.3	22	93	6	86	9	5	3	80	1.01
39532921--39532966	14	3.3	14	84	6	58	39	6	32	21	1.79
39539556--39539608	21	2.5	20	73	11	52	28	1	3	66	1.20
39543417--39543469	23	2.4	22	76	20	56	9	18	1	69	1.25
39565823--39566066	47	5.2	47	90	0	371	27	31	8	32	1.87
39565967--39566045	25	3.3	25	66	16	76	31	29	5	34	1.79
39569444--39569639	39	5.0	39	79	6	184	23	19	27	29	1.98
39576289--39576484	39	5.0	39	85	4	220	22	20	28	28	1.99
39582945--39583060	39	3.0	39	97	0	214	24	21	28	25	1.99
39582945--39583108	78	2.1	78	83	7	201	23	22	28	26	1.99
39585015--39585045	15	2.1	15	93	0	53	16	19	9	54	1.68
39587421--39587481	10	6.1	10	74	12	54	32	9	24	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39587422--39587482	20	3.0	20	83	9	79	32	9	26	31	1.89
39589891--39589941	20	2.5	20	96	0	93	37	9	23	29	1.87
39593984--39594052	15	4.6	15	83	0	84	11	17	13	57	1.64
39593975--39594062	30	3.0	30	81	8	99	10	17	15	56	1.66
39595082--39595136	27	2.0	27	100	0	110	47	12	21	18	1.82
39596013--39596188	46	3.8	45	79	10	203	21	21	28	28	1.98
39596010--39596180	93	1.8	93	93	0	297	21	21	29	27	1.99
39598186--39598342	43	3.7	41	73	13	140	24	19	25	30	1.98
39600276--39600315	19	2.1	19	85	0	53	30	20	25	25	1.99
39620268--39620371	24	4.3	23	80	8	111	33	17	25	24	1.96
39620268--39620373	48	2.2	48	83	8	135	33	16	24	24	1.96
39621376--39621940	302	1.9	300	83	3	733	36	17	9	36	1.82
39623367--39623402	16	2.2	16	90	0	54	58	19	13	8	1.61
39623625--39623738	29	4.0	29	85	3	124	27	14	32	25	1.95
39630371--39630530	47	3.4	47	91	0	239	31	6	31	30	1.82
39630649--39630727	37	2.1	37	85	0	104	24	16	31	27	1.96
39631942--39632213	40	6.8	40	90	0	418	24	21	27	25	1.99
39635989--39636244	47	5.4	47	88	1	377	32	7	30	29	1.85
39635989--39636244	96	2.7	94	88	2	377	32	7	30	29	1.85
39636362--39636440	37	2.1	37	90	0	122	24	18	31	25	1.98
39641523--39641588	30	2.2	30	97	0	123	36	13	24	25	1.92
39646770--39646946	67	2.6	67	82	7	200	31	15	31	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39649230--39649263	16	2.1	16	94	0	59	47	38	5	8	1.59
39650738--39650848	29	3.9	28	82	5	116	24	16	34	25	1.95
39655951--39655992	21	2.0	21	100	0	84	42	19	4	33	1.72
39656347--39656394	21	2.4	18	75	21	51	16	31	12	39	1.86
39656349--39656391	21	2.0	21	95	0	77	18	30	13	37	1.90
39659289--39659460	93	1.8	93	91	2	283	29	29	20	21	1.98
39659280--39659456	46	3.8	46	78	11	200	29	28	19	22	1.98
39662555--39662622	26	2.6	25	76	17	66	32	30	19	17	1.95
39663036--39663097	22	2.8	22	73	9	63	33	24	22	19	1.97
39663239--39663361	41	3.0	42	85	4	178	27	26	21	25	1.99
39663621--39664041	27	15.6	27	75	5	114	29	9	18	41	1.82
39663618--39663863	55	4.5	54	76	7	178	30	9	17	43	1.81
39663676--39664048	81	4.6	80	75	7	270	30	9	19	41	1.82
39663682--39663998	54	5.9	54	75	5	203	29	9	18	43	1.81
39663957--39664048	26	3.4	27	79	8	98	29	11	18	40	1.86
39664038--39664141	27	3.8	26	82	5	109	27	21	18	32	1.96
39666771--39666832	22	2.8	22	72	13	56	35	24	22	17	1.95
39666975--39667095	41	3.0	41	87	0	161	28	29	19	21	1.98
39667331--39667401	27	2.6	27	81	0	79	30	12	21	35	1.91
39667353--39667720	27	13.6	27	80	4	258	30	10	19	39	1.85
39667351--39667720	54	6.8	54	78	7	313	30	10	19	40	1.85
39667351--39667720	81	4.6	81	77	3	332	30	10	19	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39667670--39667781	27	4.2	27	75	2	91	32	11	16	40	1.84
39667770--39667873	27	3.9	27	90	0	163	27	22	17	32	1.96
39670513--39670574	22	2.8	22	72	13	56	35	24	22	17	1.95
39670716--39670836	41	3.0	41	87	0	161	28	29	19	21	1.98
39671073--39671143	27	2.6	27	81	0	79	30	12	21	35	1.91
39671095--39671522	27	15.9	27	77	7	244	30	10	19	39	1.86
39671093--39671463	54	6.9	54	79	3	325	29	10	19	40	1.85
39671093--39671462	81	4.6	81	77	3	332	30	10	19	40	1.85
39671470--39671522	25	2.1	26	85	3	72	33	11	16	37	1.85
39671511--39671614	27	3.9	27	90	0	163	27	22	17	32	1.96
39674457--39674641	40	4.6	40	85	3	255	23	27	23	24	2.00
39682497--39682680	40	4.6	40	79	4	219	25	27	22	24	2.00
39685552--39685616	22	3.0	22	82	8	78	32	20	24	23	1.98
39685759--39685879	41	3.0	42	82	4	140	28	28	20	23	1.99
39686144--39686299	27	5.8	28	81	7	153	30	7	17	44	1.77
39686144--39686299	54	2.9	54	84	6	190	30	7	17	44	1.77
39686175--39686502	27	12.1	27	77	10	226	29	8	20	42	1.81
39686201--39686514	81	3.9	81	80	4	305	28	8	20	42	1.81
39686229--39686542	54	5.8	55	76	8	220	28	9	20	41	1.83
39686447--39686541	27	3.5	27	75	11	86	29	11	20	38	1.87
39686525--39686619	26	3.6	27	91	2	149	32	11	20	35	1.88
39688888--39688986	49	2.0	49	94	2	171	26	22	9	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39697310--39697353	19	2.4	18	85	7	54	40	9	0	50	1.34
39707386--39707481	48	2.0	48	100	0	192	25	14	29	31	1.95
39715504--39715557	27	2.0	27	85	0	72	38	14	7	38	1.75
39722702--39722749	21	2.3	22	82	7	55	20	10	6	62	1.49
39724673--39724890	40	5.5	40	87	3	280	26	27	22	23	2.00
39733640--39734241	49	12.6	49	93	2	962	29	29	8	32	1.87
39733640--39734241	96	6.3	95	92	3	903	29	29	8	32	1.87
39738500--39738682	48	3.9	48	72	12	180	26	23	21	28	1.99
39738522--39738690	93	1.8	93	88	2	259	26	22	21	30	1.99
39740118--39740142	9	2.8	9	100	0	50	52	0	24	24	1.48

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