genome.fa.s7.2.7.7.80.10.50.1000.155.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: At_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  155  of  290  ( 34714 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)
52808476--52808649	89	2.0	89	97	0	330	30	19	14	35	1.92
52814094--52814239	27	5.4	27	81	3	168	34	19	19	25	1.96
52814892--52814943	27	2.0	26	84	3	68	17	26	21	34	1.95
52814885--52815008	65	2.0	59	81	9	140	21	25	21	31	1.98
52821078--52821129	27	1.9	27	92	0	86	36	11	7	44	1.70
52825205--52825384	48	3.9	48	72	8	165	27	21	23	27	1.99
52825205--52825377	91	1.9	90	85	3	240	27	20	23	27	1.99
52850818--52850861	20	2.2	20	83	4	52	2	25	18	54	1.55
52853233--52853388	28	5.6	28	90	1	233	27	12	26	33	1.92
52867736--52867793	30	2.0	30	82	3	73	39	8	8	43	1.66
52871606--52871713	37	2.9	37	91	0	171	25	31	18	24	1.97
52871854--52871966	48	2.4	48	93	0	190	33	23	5	37	1.78
52873278--52873449	93	1.8	93	95	2	310	28	29	20	20	1.98
52873271--52873446	46	3.8	46	79	14	209	29	29	20	20	1.98
52876966--52877368	200	2.0	200	99	0	797	37	22	12	27	1.90
52881046--52881172	46	2.8	45	89	2	200	29	29	20	20	1.98
52881054--52881192	46	3.0	45	84	5	122	29	28	20	21	1.98
52882471--52882645	48	3.6	48	94	0	305	30	26	6	36	1.83
52882463--52882645	96	1.9	96	96	0	339	30	25	7	36	1.83
52885680--52885947	45	5.9	45	88	1	347	27	30	16	25	1.96
52885675--52885947	135	2.0	138	87	2	399	27	30	16	25	1.96
52890775--52890839	20	3.0	20	64	23	51	35	26	13	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52893337--52893740	46	8.8	46	91	4	636	31	28	18	21	1.97
52900965--52901131	46	3.6	45	75	10	158	29	28	20	21	1.98
52900964--52901135	93	1.8	93	89	0	272	29	28	20	21	1.98
52901058--52901143	46	1.9	45	83	4	111	32	27	18	20	1.96
52903725--52903802	29	2.7	28	84	11	104	25	15	30	28	1.96
52903755--52904082	174	1.9	174	97	0	620	30	14	24	30	1.95
52908960--52909202	27	9.0	27	86	0	315	39	20	8	31	1.83
52908960--52909202	81	3.0	81	90	0	378	39	20	8	31	1.83
52909130--52909380	27	9.3	27	88	2	292	37	20	16	25	1.93
52908952--52909380	54	7.9	53	86	4	287	37	20	13	28	1.91
52908964--52909380	81	5.2	79	84	4	356	37	20	13	28	1.90
52909157--52909380	54	4.2	53	89	3	324	36	20	17	25	1.95
52909726--52909785	22	2.7	22	76	5	59	20	26	25	28	1.99
52909943--52910007	27	2.4	27	79	5	69	18	21	24	35	1.96
52910168--52910297	6	20.8	6	71	18	88	20	19	14	46	1.84
52910158--52910313	31	5.0	31	77	14	151	19	18	14	47	1.82
52910168--52910252	37	2.3	37	89	0	125	20	18	15	45	1.85
52910214--52910279	27	2.5	27	95	4	118	21	21	12	45	1.84
52916154--52916262	28	3.9	28	91	1	157	35	20	25	18	1.95
52916370--52916427	26	2.2	26	84	6	73	27	10	24	37	1.88
52925557--52925639	32	2.5	34	76	7	98	28	19	22	28	1.98
52925557--52925652	32	2.9	30	73	11	75	27	20	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52930849--52930925	32	2.3	34	77	8	86	28	19	23	28	1.98
52932064--52932180	28	4.2	28	82	2	139	36	20	23	18	1.95
52938169--52938354	49	3.8	48	84	3	246	24	17	28	29	1.98
52938158--52938342	99	1.9	99	94	2	327	24	17	29	28	1.97
52943189--52943304	35	3.2	33	71	17	79	37	4	8	50	1.53
52945322--52945451	40	3.3	40	88	5	185	26	27	20	25	1.99
52949211--52949257	17	2.7	17	83	12	51	29	2	14	53	1.53
52956152--52957740	531	3.0	531	98	0	3021	35	15	20	28	1.93
52959151--52959665	270	1.9	270	93	0	888	38	21	13	26	1.90
52964057--52964110	22	2.5	22	96	0	99	46	22	9	22	1.80
52973383--52973415	17	1.9	18	88	11	52	75	3	6	15	1.11
52974788--52974827	16	2.6	16	81	18	57	67	5	0	27	1.11
52977008--52977182	38	4.6	38	89	0	206	34	28	18	18	1.95
52977061--52977171	22	5.6	21	66	23	71	35	29	18	17	1.93
52977276--52977403	60	2.1	60	97	0	238	55	9	7	27	1.59
52981094--52981314	108	2.0	108	91	0	352	23	29	28	17	1.97
52982422--52982550	42	3.0	42	77	5	134	29	25	17	27	1.97
52985001--52985032	16	2.0	16	100	0	64	31	6	0	62	1.20
52985401--52985451	23	2.3	23	87	9	72	23	1	27	47	1.63
52990498--52990556	29	2.0	30	83	3	75	28	8	13	49	1.71
52991037--52991080	23	1.9	23	95	0	79	54	11	4	29	1.56
52991037--52991086	23	2.1	23	88	3	73	54	14	4	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52991737--52991781	21	2.1	21	91	0	72	26	4	15	53	1.61
52995521--52995556	10	3.5	10	85	7	54	75	0	5	19	1.00
52996092--52996131	21	1.9	21	89	0	62	35	12	2	50	1.54
52996186--52996557	152	2.5	151	85	4	475	41	10	5	42	1.62
52997160--52997255	22	4.4	22	95	0	156	15	27	41	15	1.87
53000203--53000233	16	1.9	16	100	0	62	51	3	19	25	1.62
53000240--53000375	42	3.2	43	77	7	136	42	19	16	20	1.89
53000358--53000388	16	1.9	16	93	0	53	54	9	16	19	1.68
53000374--53000689	42	7.5	42	87	2	422	38	22	18	20	1.93
53000241--53000519	142	2.0	142	92	2	463	41	20	16	21	1.90
53001113--53001148	9	3.8	9	89	10	54	0	0	13	86	0.58
53009186--53009224	19	2.1	19	85	0	51	71	7	5	15	1.26
53009688--53009777	27	3.2	27	85	7	119	32	23	24	20	1.98
53024547--53024623	37	2.1	37	95	0	136	32	11	11	44	1.77
53025970--53026034	4	16.5	4	75	15	64	52	0	21	26	1.47
53025971--53026015	15	2.9	15	83	9	56	46	0	24	28	1.53
53027902--53027948	20	2.3	20	81	0	58	31	34	12	21	1.91
53030022--53030147	18	7.1	17	70	16	78	57	3	26	13	1.52
53030123--53030228	48	2.2	47	85	9	135	59	1	24	14	1.45
53031899--53031945	20	2.3	20	85	0	67	29	36	12	21	1.91
53038195--53038449	55	4.8	54	81	7	256	21	25	18	35	1.95
53038242--53038439	108	1.8	110	89	4	312	22	25	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53040446--53040502	10	5.4	10	78	12	60	70	1	7	21	1.20
53040446--53040502	21	2.6	22	86	8	73	70	1	7	21	1.20
53041048--53041335	147	2.0	144	84	4	373	43	11	4	40	1.62
53041785--53041931	73	2.0	73	100	0	294	40	6	8	44	1.61
53042278--53042323	24	2.0	22	87	8	65	41	10	0	47	1.38
53045566--53045712	46	3.2	46	72	7	120	27	18	23	30	1.98
53045568--53045742	92	1.9	92	82	4	219	28	17	23	30	1.97
53052418--53052509	40	2.3	39	81	10	107	27	15	27	30	1.96
53055687--53055716	8	3.8	8	90	0	51	13	0	30	56	1.37
53055689--53055720	9	3.8	9	84	16	50	9	0	34	56	1.32
53055687--53055719	16	2.1	16	100	0	66	12	0	33	54	1.37
53061896--53061928	16	2.1	16	94	0	57	18	3	27	51	1.60
53063588--53063616	5	5.8	5	100	0	58	37	0	20	41	1.53
53065968--53066013	22	2.1	22	100	0	92	43	19	10	26	1.84
53086697--53086975	52	5.4	52	93	0	461	37	15	22	24	1.92
53087000--53087197	51	3.9	51	92	1	326	33	13	24	28	1.93
53100758--53100807	8	6.2	8	81	9	57	12	18	16	54	1.72
53100758--53100807	24	2.1	24	88	0	73	12	18	16	54	1.72
53115534--53116175	326	2.0	321	87	2	919	28	16	24	30	1.96
53115981--53116340	48	7.8	48	70	10	187	28	17	25	29	1.97
53115978--53116301	138	2.3	140	79	10	322	29	16	24	29	1.97
53117438--53117463	13	2.0	13	100	0	52	15	30	38	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53123866--53124781	93	9.8	93	99	0	1787	29	29	18	22	1.97
53126658--53126755	48	2.0	49	90	2	153	28	21	26	23	1.99
53132046--53132078	11	3.1	11	91	4	50	48	30	0	21	1.50
53139891--53140001	27	4.1	27	75	3	107	30	18	19	31	1.96
53139983--53140052	26	2.6	26	90	4	104	40	21	7	31	1.80
53139983--53140349	27	13.7	27	76	7	266	41	21	7	29	1.80
53140584--53140701	41	2.9	41	88	0	182	23	26	26	23	2.00
53143930--53144330	27	14.9	27	81	5	148	39	20	9	30	1.84
53143981--53144344	27	13.4	28	80	7	303	40	20	9	29	1.83
53144604--53144710	41	2.6	40	88	5	160	20	20	30	28	1.98

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