genome.fa.s8.2.7.7.80.10.50.1000.14.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  14  of  279  ( 33431 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)
4370337--4370733	24	17.0	24	74	13	303	15	26	18	39	1.90
4370337--4370753	42	9.9	42	80	2	390	15	26	17	40	1.90
4371849--4371889	6	6.8	6	88	0	55	0	53	0	46	1.00
4371847--4371897	15	3.6	15	82	12	63	1	54	0	43	1.11
4372234--4372265	15	2.1	15	100	0	64	18	68	0	12	1.20
4372231--4372268	18	2.1	18	95	0	67	18	68	0	13	1.21
4372227--4372262	12	3.0	12	87	0	54	25	66	0	8	1.19
4372243--4372298	3	18.7	3	88	0	58	5	62	0	32	1.18
4374304--4374399	50	1.9	50	85	4	131	45	0	0	54	0.99
4375817--4375846	3	10.0	3	92	0	51	36	0	63	0	0.95
4376111--4377000	444	2.0	444	85	3	1200	31	8	36	23	1.85
4377108--4377170	24	2.6	24	92	0	99	47	14	11	26	1.77
4377359--4377789	12	35.9	12	73	5	208	40	16	23	19	1.91
4377371--4377766	42	9.4	42	80	3	323	40	17	23	18	1.91
4377371--4377766	84	4.7	84	79	4	379	40	17	23	18	1.91
4377573--4377784	18	11.4	18	74	6	118	38	18	27	14	1.90
4378035--4378138	30	3.5	30	82	0	136	9	15	44	30	1.78
4378061--4378322	129	2.0	129	90	0	407	14	9	46	29	1.75
4378035--4378267	30	7.5	30	71	12	130	12	10	46	30	1.75
4379962--4380028	29	2.2	29	78	5	71	28	10	16	44	1.80
4380051--4380140	29	3.0	29	83	3	99	34	15	12	37	1.85
4381107--4381169	31	2.1	31	82	11	78	49	14	4	31	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4380978--4381162	90	2.0	91	85	3	248	50	13	5	30	1.64
4394125--4394154	12	2.5	12	94	0	51	46	0	6	46	1.29
4394236--4394282	16	2.7	17	80	9	51	63	4	0	31	1.13
4394239--4394287	17	2.7	19	78	15	59	61	8	0	30	1.25
4394501--4394586	3	29.3	3	73	19	60	66	1	3	29	1.16
4394506--4394586	18	4.4	18	77	13	76	66	1	3	28	1.16
4394917--4394989	23	3.2	23	76	16	71	60	28	1	9	1.37
4394915--4394980	21	3.0	21	82	8	62	57	30	1	10	1.42
4395677--4395845	48	3.6	48	76	3	198	28	18	27	24	1.98
4395865--4395995	49	2.7	49	79	4	140	29	17	26	26	1.98
4396256--4396919	330	2.0	330	97	0	1265	26	16	17	39	1.90
4416078--4416119	21	2.0	21	81	9	50	47	0	0	52	1.00
4417010--4417045	15	2.2	18	85	14	51	33	0	0	66	0.92
4417214--4417253	19	2.1	19	100	0	80	40	5	5	50	1.46
4417731--4417769	19	2.1	19	100	0	78	41	0	15	43	1.46
4419752--4419976	46	4.8	47	75	11	151	28	19	29	22	1.98
4421582--4421645	32	2.0	32	93	0	110	40	4	17	37	1.70
4430583--4430625	21	2.0	22	95	4	79	11	9	4	74	1.20
4433904--4433950	22	2.2	22	84	3	60	21	36	29	12	1.91
4435152--4435301	56	2.6	58	80	10	166	32	24	16	27	1.96
4446523--4446550	13	2.2	13	100	0	56	14	32	35	17	1.90
4449489--4449608	55	2.2	55	83	0	141	27	31	22	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4450149--4450180	16	2.0	16	100	0	64	43	6	18	31	1.75
4460407--4460450	18	2.4	18	92	0	70	38	15	13	31	1.87
4460566--4460684	51	2.3	53	82	4	134	41	15	21	21	1.90
4461928--4461971	16	2.8	16	86	10	63	56	2	0	40	1.11
4473917--4473948	15	2.1	16	88	11	50	46	18	0	34	1.49
4482997--4483066	31	2.3	29	76	9	68	27	1	7	64	1.28
4485339--4485368	15	2.0	15	93	0	51	33	10	13	43	1.77
4486939--4487030	33	2.7	33	86	3	121	23	20	38	17	1.93
4487481--4487524	19	2.3	19	88	0	61	29	18	15	36	1.92
4491866--4492050	79	2.3	82	84	7	238	25	27	22	24	2.00
4491847--4492050	40	5.1	40	82	8	238	25	27	22	25	2.00
4500648--4500721	23	3.2	23	74	11	87	20	1	25	52	1.54
4500658--4500734	24	3.2	24	75	10	95	18	2	25	53	1.57
4500639--4500743	47	2.2	47	96	0	201	20	3	25	49	1.66
4514327--4514370	3	14.7	3	82	17	56	65	0	2	31	1.05
4517458--4519357	694	2.7	690	81	5	2131	34	12	22	30	1.91
4520575--4520673	45	2.3	41	81	8	108	25	17	24	33	1.96
4548096--4551568	702	4.9	700	81	3	3763	34	12	21	31	1.90
4548096--4551568	703	4.9	703	81	4	3638	34	12	21	31	1.90
4551092--4552052	484	2.0	484	85	2	1297	34	12	20	31	1.90
4567750--4567932	40	4.5	40	78	5	163	24	14	27	33	1.94
4570799--4570864	23	2.8	24	83	4	89	45	22	15	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4572289--4572491	53	3.8	54	76	4	187	38	17	22	21	1.93
4574641--4574720	33	2.4	33	77	8	90	21	43	10	25	1.83
4575061--4575295	48	4.9	48	91	0	371	48	11	11	28	1.73
4581161--4581227	25	2.9	24	72	14	61	61	1	0	37	1.05
4581869--4581916	22	2.1	24	85	14	66	54	0	6	39	1.26
4592437--4592503	4	16.5	4	80	14	75	2	22	0	74	0.95
4592436--4592495	14	4.5	13	80	14	52	3	21	0	75	0.95
4592435--4592503	26	2.8	26	89	10	101	4	21	0	73	1.00
4597842--4597912	34	2.1	35	86	2	99	36	14	14	35	1.86
4598368--4598430	6	10.5	6	94	0	99	55	0	44	0	0.99
4598347--4598431	6	14.3	6	83	11	68	58	1	40	0	1.05
4598461--4598520	21	2.9	21	87	0	84	30	25	18	26	1.98
4600023--4600074	25	2.1	24	82	3	59	17	19	23	40	1.91
4603349--4603398	5	9.4	5	95	4	73	18	6	0	76	0.99
4610481--4610509	2	14.5	2	100	0	58	48	0	0	51	1.00
4620342--4620434	47	2.0	48	86	2	134	45	24	11	18	1.83
4623701--4624229	68	7.8	69	74	6	362	33	13	21	31	1.92
4623701--4624396	136	5.1	136	76	5	465	33	13	21	31	1.92
4623704--4624329	204	3.1	202	79	3	601	33	13	21	31	1.92
4623720--4624293	68	8.4	68	73	4	316	33	13	21	31	1.92
4634594--4634813	46	4.8	44	76	12	178	20	27	20	30	1.98
4641113--4641335	46	4.8	45	79	11	222	23	28	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4641111--4641331	94	2.4	92	84	7	279	23	28	18	29	1.98
4664119--4664179	27	2.3	26	83	8	70	42	21	14	21	1.88
4669979--4670065	44	2.0	44	100	0	174	40	20	6	32	1.79
4672235--4672454	27	8.1	27	82	7	196	31	11	19	37	1.87
4672232--4672454	54	4.1	54	84	3	252	31	11	19	37	1.88
4672232--4672454	81	2.8	80	78	6	243	31	11	19	37	1.88
4672775--4672809	17	2.0	17	88	5	52	17	40	28	14	1.88
4674160--4674191	11	2.9	11	90	0	55	43	15	0	40	1.47
4676142--4676192	22	2.3	22	79	0	57	31	21	25	21	1.98
4676576--4676627	27	1.9	27	96	0	95	23	25	23	28	1.99
4676583--4676768	27	6.9	27	78	4	162	29	11	20	38	1.88
4676616--4676768	53	2.8	53	82	6	166	30	8	18	42	1.80
4676623--4676803	80	2.3	80	78	5	197	29	8	19	41	1.81
4678535--4678566	6	5.7	6	85	14	50	43	18	0	37	1.51
4678535--4678566	11	2.9	11	100	0	64	43	18	0	37	1.51
4678776--4678807	6	5.7	6	85	14	50	43	18	0	37	1.51
4678776--4678807	11	2.9	11	100	0	64	43	18	0	37	1.51
4678456--4678940	241	2.0	241	100	0	970	30	32	9	27	1.88
4682524--4682617	46	2.1	46	84	4	120	30	30	19	19	1.96
4690030--4690201	93	1.8	93	95	2	310	28	29	20	20	1.98
4690023--4690198	46	3.8	46	79	14	209	29	29	20	20	1.98
4703259--4703288	6	5.0	6	100	0	60	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4703501--4703525	12	2.1	12	100	0	50	32	0	0	68	0.90
4707134--4707421	49	5.9	49	91	3	440	32	10	12	44	1.76
4710141--4710253	49	2.3	49	87	0	154	61	13	2	22	1.44
4715926--4715956	15	2.1	15	100	0	62	67	0	12	19	1.22
4730876--4730920	22	2.0	22	100	0	90	37	17	8	35	1.81
4733223--4733255	14	2.4	14	94	0	57	15	33	9	42	1.78
4735075--4735140	7	8.6	7	78	18	53	53	1	1	43	1.19
4735062--4735140	27	2.8	31	76	20	91	49	2	1	46	1.23
4735072--4735137	8	8.4	8	70	21	50	51	1	1	45	1.19
4763976--4764003	3	9.3	3	100	0	56	67	0	32	0	0.91

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