genome.fa.s7.2.7.7.80.10.50.1000.128.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  128  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)
43466059--43466266	56	3.7	56	87	3	285	28	15	22	32	1.95
43466059--43466269	112	1.9	112	88	2	316	28	16	22	32	1.96
43485530--43485582	21	2.5	21	84	0	70	1	24	0	73	0.93
43485539--43485576	15	2.4	17	86	8	53	2	18	0	78	0.86
43491332--43491487	64	2.3	64	89	7	222	35	4	25	34	1.76
43491748--43491948	59	3.4	60	79	4	185	39	2	20	36	1.68
43491499--43492575	61	17.2	61	71	12	444	36	3	23	36	1.72
43492060--43492568	63	8.0	63	73	11	285	35	3	22	38	1.71
43492185--43492302	60	2.0	60	81	3	139	37	3	18	40	1.68
43492066--43492476	129	3.3	124	80	9	404	37	2	22	36	1.70
43492749--43492792	23	1.9	23	90	0	70	27	0	18	54	1.44
43493846--43493908	30	2.1	31	82	5	76	50	12	1	34	1.50
43495066--43495128	31	2.1	31	90	3	101	25	3	12	58	1.49
43498765--43498851	42	2.1	41	83	12	106	39	6	11	42	1.68
43500479--43500523	18	2.4	19	85	7	65	73	8	8	8	1.26
43500669--43500743	3	26.0	3	76	8	75	64	2	33	0	1.08
43500742--43500767	3	8.7	3	100	0	52	34	0	65	0	0.93
43501516--43501561	17	2.7	17	96	0	83	58	0	4	36	1.18
43501376--43501712	165	2.0	166	90	1	523	57	5	6	30	1.48
43501533--43502059	150	3.5	151	89	2	810	57	5	7	28	1.50
43501809--43501844	12	2.8	13	87	4	56	75	0	2	22	0.94
43502620--43502651	16	2.0	16	100	0	64	56	18	0	25	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43503395--43503575	87	2.1	87	95	1	328	48	13	4	33	1.63
43507018--43507065	20	2.4	19	86	13	69	14	4	39	41	1.65
43522006--43522057	26	2.0	27	85	11	72	23	5	21	50	1.70
43534052--43534121	6	11.7	6	81	6	61	38	18	21	21	1.93
43534052--43534121	18	3.9	18	77	7	70	38	18	21	21	1.93
43536808--43536893	41	2.1	41	91	0	136	30	11	20	37	1.89
43538746--43538784	20	2.0	20	89	0	60	35	20	12	30	1.90
43538766--43538794	13	2.2	13	100	0	58	34	31	6	27	1.83
43541022--43541116	34	2.9	32	83	7	127	36	1	14	47	1.52
43541170--43541444	126	2.2	127	88	2	392	36	16	17	29	1.92
43544959--43545000	18	2.3	19	80	12	52	42	7	26	23	1.80
43558089--43558114	7	3.7	7	100	0	52	46	0	0	53	1.00
43561268--43561296	14	2.0	15	93	6	51	68	0	24	6	1.13
43569918--43569980	31	2.0	31	84	6	83	38	0	0	61	0.96
43575388--43575454	32	2.1	31	81	13	75	29	1	4	64	1.22
43583852--43583925	36	2.1	36	97	0	139	27	14	21	36	1.93
43585320--43585365	21	2.2	21	84	7	58	41	6	30	21	1.78
43584353--43587148	932	3.0	932	96	0	4982	33	12	23	29	1.92
43586252--43586297	21	2.2	21	84	7	58	41	6	30	21	1.78
43590165--43590210	21	2.2	21	84	7	58	41	6	30	21	1.78
43591097--43591142	21	2.2	21	84	7	58	41	6	30	21	1.78
43589735--43592925	932	3.4	932	98	0	6085	33	12	23	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43592029--43592074	21	2.2	21	84	7	58	41	6	30	21	1.78
43596178--43596209	15	2.2	15	94	5	57	25	9	0	65	1.22
43607907--43607935	14	2.1	14	93	6	51	82	0	17	0	0.66
43607979--43608017	16	2.4	16	91	0	60	69	0	30	0	0.89
43609099--43609328	46	5.0	46	95	0	352	38	14	24	22	1.92
43611622--43611778	27	5.8	27	87	0	188	30	19	7	42	1.79
43611622--43611778	81	1.9	81	84	2	208	30	19	7	42	1.79
43611730--43612089	27	13.3	27	73	12	112	39	19	8	32	1.83
43611609--43611805	54	3.7	53	79	1	169	34	18	7	39	1.79
43611609--43611805	81	2.4	81	77	2	207	34	18	7	39	1.79
43611771--43612003	54	4.3	53	80	4	236	41	21	8	29	1.82
43611771--43612005	81	2.9	80	84	4	294	40	21	8	29	1.82
43611927--43612029	54	1.9	54	84	4	136	40	18	9	31	1.83
43615918--43616037	26	4.7	26	89	3	172	26	22	21	29	1.99
43616185--43616276	42	2.2	42	92	0	148	29	14	21	34	1.93
43617992--43618030	16	2.4	16	91	0	60	69	0	30	0	0.89
43620126--43620338	46	4.6	46	87	2	284	41	14	23	20	1.89
43624575--43624607	12	2.8	12	100	0	66	24	36	33	6	1.80
43632473--43632581	43	2.5	43	91	2	175	27	33	23	14	1.94
43633265--43633619	47	7.6	45	71	15	183	23	28	19	28	1.98
43633261--43633616	94	3.8	93	78	8	334	23	28	19	28	1.98
43633261--43633619	141	2.6	140	77	10	329	23	28	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43637007--43637411	222	1.8	224	88	1	625	27	19	18	35	1.94
43642027--43642083	27	2.1	27	80	9	62	38	12	26	22	1.89
43645233--43645301	36	1.9	36	90	0	111	33	11	21	33	1.90
43645540--43645622	38	2.1	39	95	4	150	45	26	4	22	1.72
43646506--43646547	13	3.2	13	86	3	57	71	2	2	23	1.10
43648773--43648813	19	2.2	19	83	12	50	58	4	4	31	1.40
43653567--43653624	13	4.5	13	84	0	62	41	18	8	31	1.81
43657076--43657128	23	2.5	21	80	14	63	52	0	16	30	1.44
43659673--43659771	30	3.4	28	76	8	90	37	13	25	24	1.91
43659699--43659800	30	3.4	30	79	1	114	38	13	22	25	1.91
43659647--43659834	60	3.2	59	78	4	200	37	11	25	25	1.90
43659802--43659864	30	2.1	30	88	5	92	38	12	28	20	1.89
43659850--43659924	30	2.5	30	88	0	105	37	8	25	29	1.84
43667385--43667476	46	2.0	46	100	0	184	39	10	15	34	1.82
43670771--43670825	22	2.4	22	84	9	65	63	3	1	30	1.22
43672502--43672563	16	3.8	16	76	6	54	14	19	1	64	1.37
43673533--43673600	31	2.2	31	86	0	100	45	10	10	33	1.72
43680932--43681321	132	3.0	131	84	3	462	27	17	18	35	1.94
43692783--43693177	133	3.0	133	87	0	538	28	20	24	26	1.99
43695915--43696302	132	2.9	131	85	1	499	26	18	19	35	1.95
43704006--43704067	31	2.0	31	87	0	88	35	6	16	41	1.74
43705138--43705436	148	2.0	148	99	0	589	36	9	12	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43714667--43714772	35	3.0	35	98	0	203	27	16	13	42	1.86
43715230--43715441	105	2.0	105	98	0	406	33	6	22	37	1.80
43716459--43716510	15	3.2	15	73	19	50	44	0	1	53	1.11
43716608--43716648	16	2.7	16	88	7	59	43	0	2	53	1.13
43716585--43716642	25	2.4	22	83	13	62	44	0	1	53	1.10
43721485--43721511	13	2.1	13	100	0	54	51	7	14	25	1.68
43724738--43724808	35	2.0	35	97	0	133	28	33	23	14	1.94
43725428--43725491	16	4.1	15	74	23	53	50	1	0	48	1.10
43725487--43725524	12	3.2	12	92	7	60	50	0	0	50	1.00
43726897--43726946	17	2.8	18	68	20	50	42	2	2	54	1.23
43734720--43734807	23	3.8	23	80	4	97	40	18	12	28	1.87
43734748--43734812	12	5.4	12	69	12	53	41	18	13	26	1.88
43734848--43734878	4	7.8	4	100	0	62	51	22	0	25	1.48
43735822--43735855	9	3.9	9	84	7	52	44	0	2	52	1.16
43746280--43746321	21	2.0	21	90	0	66	45	0	14	40	1.45
43746291--43746330	21	1.9	21	85	10	55	47	0	7	45	1.31
43746944--43747013	25	2.8	25	86	0	77	21	22	18	37	1.94
43747932--43748056	42	3.0	42	97	0	232	20	24	32	23	1.98
43761076--43761235	24	6.7	24	72	5	126	32	30	14	22	1.94
43762247--43762278	2	16.0	2	100	0	64	0	0	50	50	1.00
43762665--43762866	63	3.2	64	83	4	232	27	25	19	27	1.99
43764928--43764968	16	2.5	17	92	4	66	36	34	4	24	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43765876--43765909	16	2.1	16	94	0	59	41	0	8	50	1.34
43768974--43769032	24	2.5	24	88	0	91	44	0	25	30	1.55
43769099--43769162	20	3.3	20	70	12	71	34	3	15	46	1.62
43769085--43769185	37	2.7	37	100	0	202	33	1	13	50	1.53
43769085--43769179	17	5.2	17	66	14	64	34	2	12	50	1.52
43769186--43769295	9	11.6	9	86	7	139	22	9	30	38	1.85
43769187--43769295	29	3.8	29	87	7	122	22	9	30	37	1.86
43776339--43776371	17	1.9	17	88	11	50	27	12	0	60	1.32
43776417--43776454	5	7.6	5	96	0	67	63	0	2	34	1.09
43776482--43776527	14	3.1	15	82	11	51	43	6	0	50	1.28

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