genome.fa.s13.2.7.7.80.10.50.1000.15.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: At_chr11
Parameters: 2 7 7 80 10 50 1000
Length:  102024878

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   

This is table  15  of  310  ( 37082 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)
3841716--3841792	38	2.0	39	87	2	111	29	24	11	33	1.91
3841745--3841853	53	2.1	53	87	0	155	28	22	12	36	1.91
3847757--3847806	17	2.9	17	82	5	57	4	24	0	72	1.02
3848030--3848068	20	2.0	20	85	10	53	28	15	12	43	1.83
3848938--3848999	26	2.4	26	97	0	115	40	11	8	40	1.70
3854457--3854500	17	2.5	17	81	7	52	31	36	20	11	1.88
3858460--3858493	11	3.1	11	86	0	50	32	52	14	0	1.42
3859178--3859219	13	3.3	13	83	6	59	52	16	14	16	1.75
3868477--3868510	18	2.0	17	88	11	52	17	26	17	38	1.92
3873985--3874018	14	2.3	15	90	5	52	26	2	8	61	1.40
3874422--3874517	15	5.6	18	70	20	71	40	8	6	44	1.60
3874411--3874516	53	2.0	53	100	0	212	41	9	5	43	1.61
3875169--3875234	34	2.0	34	85	8	91	51	0	3	45	1.16
3889750--3889805	29	1.9	29	92	0	94	25	26	37	10	1.88
3893827--3893854	5	5.6	5	100	0	56	35	0	0	64	0.94
3894087--3894128	17	2.5	17	81	11	50	45	2	2	50	1.27
3898854--3899043	7	25.1	7	65	19	53	60	2	3	34	1.26
3898874--3898921	22	2.4	19	75	21	53	54	0	6	39	1.26
3898938--3899061	12	10.5	12	70	19	91	63	1	3	31	1.20
3898937--3899094	27	5.9	27	70	20	95	62	2	3	32	1.25
3898997--3899075	31	2.5	30	78	13	88	64	1	3	30	1.19
3898969--3899061	34	2.8	32	80	12	91	63	1	3	32	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3900877--3901351	119	4.0	119	89	0	698	31	20	16	32	1.94
3909362--3909409	15	3.3	15	81	16	57	39	12	25	22	1.89
3913400--3913523	12	10.5	12	68	19	82	62	1	4	31	1.23
3913399--3913556	27	5.9	27	67	20	93	61	2	3	32	1.27
3913431--3913523	34	2.8	32	77	12	82	62	1	4	32	1.22
3915821--3916286	127	3.7	124	78	7	485	36	19	16	28	1.93
3915834--3916286	252	1.8	250	82	5	590	36	19	15	27	1.93
3916670--3916793	64	1.9	64	83	6	162	37	17	16	28	1.92
3921954--3922014	30	2.0	30	90	0	95	32	16	22	27	1.96
3927962--3928525	127	4.4	127	79	4	559	36	20	16	26	1.94
3928052--3928526	255	1.9	253	84	4	652	35	20	16	27	1.94
3931596--3931620	5	5.0	5	100	0	50	0	0	20	80	0.72
3932691--3932766	38	2.0	38	97	0	143	39	7	22	30	1.82
3936319--3936768	220	2.0	220	89	0	686	30	21	22	25	1.98
3936763--3936880	45	2.6	46	80	12	136	27	17	24	29	1.97
3936763--3936969	46	4.6	45	71	13	140	30	19	22	27	1.98
3937161--3937281	45	2.7	45	92	0	188	25	23	25	25	2.00
3945852--3945911	25	2.5	22	73	10	57	41	1	0	56	1.09
3946316--3946357	23	1.9	21	85	9	57	23	0	4	71	1.05
3946348--3946466	60	2.0	60	96	0	220	32	0	14	52	1.41
3946515--3946702	60	3.0	60	85	9	234	29	0	13	56	1.38
3946480--3946721	130	1.8	132	84	5	330	33	0	12	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3946761--3946805	18	2.5	19	82	10	58	15	0	17	66	1.25
3949009--3949082	33	2.2	33	80	0	85	14	45	8	31	1.74
3949009--3949162	66	2.3	66	77	4	150	15	44	11	29	1.81
3951822--3952170	174	2.0	174	96	1	637	36	22	22	18	1.95
3956962--3957018	30	1.9	30	85	0	78	26	35	26	12	1.92
3962419--3962471	16	3.2	16	94	5	97	24	0	37	37	1.56
3962452--3962542	45	2.0	45	85	2	121	27	6	28	37	1.82
3972180--3972304	64	2.0	64	83	0	160	38	14	12	34	1.84
3976970--3977004	17	2.1	17	100	0	70	17	34	17	31	1.93
3993286--3993325	19	2.1	19	100	0	80	50	10	15	25	1.74
3998430--3998481	25	2.1	25	96	0	95	38	15	19	26	1.91
4001578--4001753	63	2.8	63	78	2	185	27	28	14	29	1.95
4009869--4010827	46	20.8	46	95	0	1641	40	14	23	21	1.90
4016911--4016948	17	2.2	17	100	0	76	15	23	28	31	1.96
4020723--4020749	13	2.1	13	100	0	54	33	0	14	51	1.43
4022860--4022899	18	2.2	18	86	8	55	60	0	0	40	0.97
4022859--4022914	19	3.1	18	80	10	60	58	1	0	39	1.08
4024124--4024198	36	2.1	36	87	0	105	52	6	5	36	1.51
4024219--4024253	15	2.2	17	90	10	56	60	25	5	8	1.49
4024589--4024625	19	1.9	19	88	0	56	32	2	0	64	1.07
4024940--4024987	14	3.4	14	85	2	60	56	0	0	43	0.99
4025656--4025687	15	2.1	15	100	0	64	25	0	12	62	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4025875--4025914	21	1.9	21	84	0	53	50	0	7	42	1.30
4046415--4046445	15	2.1	14	94	5	53	90	0	9	0	0.46
4059131--4059196	25	2.6	24	81	11	62	37	1	6	54	1.34
4059882--4060086	42	4.8	43	76	8	172	30	20	20	28	1.98
4059882--4060230	42	8.0	43	73	15	157	32	20	20	26	1.97
4059894--4060086	84	2.3	85	79	6	205	29	21	20	27	1.98
4060092--4060231	42	3.3	42	88	4	210	33	20	21	25	1.97
4060425--4060464	20	2.0	20	100	0	80	45	10	10	35	1.71
4061333--4061370	19	2.1	19	90	9	62	65	0	2	31	1.06
4061503--4061532	15	1.9	16	93	6	53	70	0	3	26	1.03
4063232--4063306	11	6.8	11	82	0	87	60	28	8	4	1.43
4063215--4063310	22	4.4	22	83	7	115	60	28	7	4	1.42
4063488--4063523	18	2.0	18	94	0	63	16	41	5	36	1.72
4069654--4069689	11	3.4	11	88	7	56	69	0	8	22	1.15
4069823--4069850	3	9.3	3	100	0	56	64	0	35	0	0.94
4072216--4072343	44	2.9	44	81	4	159	26	19	21	32	1.97
4072170--4072343	88	2.0	89	82	6	219	28	20	19	31	1.97
4072409--4072576	44	3.8	44	79	0	138	29	22	17	29	1.97
4072450--4072576	44	2.9	43	82	3	155	29	24	17	28	1.97
4073966--4074013	24	2.0	24	100	0	96	33	25	8	33	1.86
4083927--4083968	22	1.9	22	95	0	75	19	11	23	45	1.83
4085243--4085297	20	2.8	19	78	13	58	3	43	0	52	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4085445--4085484	6	6.7	6	83	11	55	17	0	0	82	0.67
4091580--4091624	19	2.3	20	88	7	67	44	6	22	26	1.77
4096398--4096428	6	5.2	6	100	0	62	16	19	48	16	1.81
4105907--4105955	25	2.0	24	84	7	64	16	10	2	71	1.22
4108047--4108144	47	2.1	47	84	3	126	33	10	29	26	1.89
4108118--4108300	46	4.0	46	93	0	276	34	9	30	24	1.88
4110505--4110539	17	2.1	17	89	10	54	31	0	0	68	0.90
4110506--4110548	21	2.0	21	91	8	70	30	2	0	67	1.03
4110737--4110804	22	3.0	22	71	10	57	32	4	4	58	1.37
4111741--4111773	16	1.9	18	88	11	52	60	0	30	9	1.27
4117085--4117143	30	2.0	30	83	6	75	37	11	16	33	1.86
4119896--4119984	41	2.2	41	91	0	142	35	20	21	22	1.96
4119896--4120018	41	3.0	41	84	4	115	35	20	21	22	1.96
4123932--4124015	26	3.2	26	96	0	150	36	25	4	33	1.77
4124886--4124936	19	2.6	20	78	12	61	29	37	0	33	1.58
4124955--4124992	19	2.0	19	94	0	67	23	31	23	21	1.98
4126480--4126509	14	2.2	13	94	5	51	50	0	13	36	1.42
4127276--4127341	27	2.4	27	100	0	132	37	6	15	40	1.72
4127577--4127626	23	2.2	23	100	0	100	34	16	16	34	1.90
4127749--4128202	241	1.9	242	97	0	865	35	18	14	32	1.91
4128224--4128313	9	9.3	9	75	13	81	45	22	1	31	1.60
4128245--4128297	27	2.0	27	96	0	97	45	22	1	30	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133862--4133908	21	2.2	21	96	0	85	21	21	57	0	1.41
4135352--4135386	17	2.1	17	88	0	52	20	0	5	74	1.02
4138353--4138442	19	4.8	19	93	5	157	35	14	11	38	1.82
4138353--4138442	36	2.4	37	90	7	146	35	14	11	38	1.82
4140254--4140303	25	2.0	25	100	0	100	52	8	16	24	1.70
4144511--4144598	29	3.1	28	75	15	83	31	10	2	55	1.46
4144833--4144898	24	2.7	23	84	13	80	34	3	1	60	1.21
4149470--4149494	9	2.8	9	100	0	50	92	8	0	0	0.40
4150074--4150115	15	2.9	15	86	13	61	80	2	16	0	0.81
4151946--4152121	46	3.8	45	81	10	212	21	21	29	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   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310