genome.fa.s9.2.7.7.80.10.50.1000.11.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  11  of  284  ( 34012 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)
3549843--3549883	14	2.9	14	77	0	55	21	9	31	36	1.86
3559473--3559523	25	2.0	25	100	0	102	27	27	3	41	1.73
3566719--3566752	11	3.1	11	86	0	50	8	17	0	73	1.08
3572101--3572189	27	3.3	26	79	3	88	33	23	14	28	1.94
3572168--3572239	26	2.7	26	80	2	81	26	25	16	31	1.96
3572125--3572231	27	4.0	26	72	14	76	28	24	17	28	1.97
3572168--3572259	27	3.4	27	78	3	87	28	26	13	32	1.93
3573744--3573938	97	2.0	98	93	1	338	62	6	7	23	1.46
3574160--3574290	60	2.2	60	82	6	149	38	3	15	42	1.65
3574695--3574740	16	2.7	17	83	6	58	56	2	0	41	1.11
3575223--3575259	17	2.2	17	90	4	58	48	2	0	48	1.15
3575482--3575554	30	2.9	24	73	24	69	38	1	6	53	1.36
3575496--3575554	30	2.0	30	89	0	91	37	1	8	52	1.42
3577598--3577638	22	1.9	21	90	5	64	29	9	14	46	1.77
3580214--3580372	43	3.7	43	73	12	139	32	25	15	27	1.95
3584362--3584392	5	6.2	5	100	0	62	19	0	0	80	0.71
3584511--3584564	24	2.2	24	86	0	72	33	1	7	57	1.37
3585772--3585842	20	3.6	19	79	9	63	53	5	4	36	1.44
3585799--3585847	19	2.6	19	84	9	57	53	4	2	40	1.32
3586199--3586238	21	1.9	21	94	0	71	55	12	12	20	1.69
3590084--3590136	17	2.9	17	81	13	70	66	0	3	30	1.10
3590090--3590136	19	2.4	20	79	10	53	63	0	4	31	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590084--3590136	10	5.8	9	82	12	72	66	0	3	30	1.10
3590491--3590550	10	5.8	10	72	20	52	41	1	3	53	1.27
3590493--3590549	20	2.8	20	79	12	62	40	1	3	54	1.28
3590646--3590693	19	2.7	18	84	9	62	20	2	2	75	1.02
3592591--3592634	12	3.5	12	78	9	52	77	2	0	20	0.88
3596015--3596273	29	8.9	29	74	10	181	22	26	12	37	1.90
3596025--3596099	30	2.5	30	86	2	98	25	30	8	36	1.85
3596058--3596273	87	2.5	87	91	2	344	22	27	12	38	1.89
3596034--3596273	58	4.1	58	76	9	204	22	26	12	38	1.89
3600577--3600670	40	2.3	40	85	0	116	22	18	26	32	1.97
3600655--3600727	28	2.6	28	84	0	92	26	13	31	28	1.94
3600682--3600738	28	2.0	28	86	0	78	26	12	31	29	1.92
3605796--3605835	14	2.9	13	85	10	53	60	0	0	40	0.97
3611993--3612041	24	2.0	24	100	0	98	34	8	28	28	1.86
3630552--3630769	40	5.5	40	86	5	257	24	27	22	24	2.00
3631105--3631282	40	4.5	40	87	4	211	24	28	23	23	1.99
3630605--3631880	513	2.5	513	97	0	2412	32	24	16	27	1.96
3631618--3631795	40	4.5	40	87	4	211	24	28	23	23	1.99
3638242--3638458	40	5.5	40	88	4	280	24	27	23	24	2.00
3647146--3647317	40	4.3	40	88	2	222	25	27	21	25	1.99
3647148--3647370	40	5.6	39	83	5	216	25	27	21	25	1.99
3647146--3647370	80	2.8	79	80	7	240	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3647302--3647379	40	1.9	41	82	10	97	26	28	20	24	1.99
3651690--3651716	13	2.1	13	100	0	54	14	33	37	14	1.88
3652583--3653528	51	18.7	51	94	2	1451	25	21	23	29	1.99
3654354--3654379	13	2.0	13	100	0	52	15	7	7	69	1.35
3656646--3656830	67	2.9	64	77	8	196	29	17	29	23	1.97
3663450--3663781	167	2.0	166	97	0	628	33	13	17	34	1.90
3664043--3664934	51	17.5	51	94	2	1512	27	21	22	29	1.99
3664857--3664940	28	3.2	27	67	26	81	23	19	30	26	1.98
3665085--3665136	27	2.0	26	81	11	61	38	1	23	36	1.66
3683683--3683741	29	2.0	31	80	12	70	37	1	20	40	1.63
3699222--3699259	19	2.0	19	100	0	76	36	15	15	31	1.90
3704855--3704912	30	1.9	30	89	0	89	32	15	25	25	1.95
3705252--3705565	94	3.4	91	77	13	268	28	20	27	23	1.99
3705252--3705564	47	6.7	46	74	14	216	29	20	26	23	1.99
3708257--3708616	47	7.7	46	72	15	203	21	29	21	27	1.99
3708253--3708613	94	3.9	94	79	11	384	21	29	21	27	1.98
3708957--3709013	30	1.9	30	92	0	96	28	22	14	35	1.93
3718282--3718319	19	2.0	19	85	10	51	68	0	10	21	1.19
3719705--3719880	46	3.8	46	79	4	192	22	21	27	28	1.99
3719702--3719872	93	1.8	93	91	0	279	22	21	28	27	1.99
3726412--3726507	29	3.3	29	85	5	115	39	11	25	23	1.88
3728258--3728354	43	2.3	43	80	3	106	31	17	26	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3730581--3730786	40	5.2	40	81	7	231	26	26	21	25	2.00
3730565--3730783	79	2.7	81	78	10	227	26	26	21	25	1.99
3738803--3738989	40	4.7	40	82	5	200	26	26	21	25	1.99
3738780--3738953	79	2.2	80	81	10	198	26	25	20	27	1.99
3741196--3741406	104	2.0	104	88	0	314	29	20	19	30	1.97
3741664--3741745	41	2.0	41	90	4	130	28	12	30	29	1.93
3749975--3750029	28	2.0	27	82	3	65	32	5	18	43	1.73
3755320--3755371	27	1.9	27	92	0	86	48	3	13	34	1.61
3762817--3763336	47	11.1	47	98	0	959	30	12	31	25	1.92
3763619--3763710	37	2.5	37	92	0	148	26	17	29	27	1.97
3764948--3765034	27	3.3	26	85	7	113	19	24	21	34	1.96
3772291--3772363	27	2.7	26	79	6	83	19	24	21	34	1.96
3773279--3773393	55	2.1	55	85	0	149	23	27	30	18	1.97
3773294--3773406	55	2.1	55	84	0	145	28	27	25	18	1.98
3785730--3785754	12	2.1	12	100	0	50	32	0	0	68	0.90
3786127--3786167	18	2.4	16	81	14	55	39	12	12	36	1.80
3786132--3786166	18	1.9	18	94	0	61	40	14	14	31	1.86
3791286--3791324	17	2.3	17	100	0	78	43	10	17	28	1.82
3797244--3797536	50	5.9	50	84	5	378	24	29	17	27	1.97
3797198--3797533	100	3.4	99	82	4	383	24	29	18	27	1.98
3803326--3803354	13	2.1	14	93	6	51	89	0	10	0	0.48
3806784--3806859	38	2.0	38	97	0	143	48	15	3	31	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3807860--3807997	58	2.4	57	82	9	149	52	12	10	23	1.70
3807913--3808039	54	2.3	55	79	14	136	51	12	8	26	1.68
3810340--3810551	46	4.7	46	86	6	292	23	23	13	39	1.90
3810369--3810548	87	2.1	87	94	0	324	24	23	13	38	1.91
3815392--3815433	21	2.0	21	100	0	84	47	9	4	38	1.57
3824753--3824833	40	2.0	40	100	0	162	24	12	9	53	1.69
3826111--3826250	70	2.0	69	92	1	235	40	15	5	40	1.68
3832772--3832800	14	2.0	15	93	6	51	13	6	24	55	1.63
3832915--3833043	50	2.5	51	88	5	190	35	17	22	24	1.95
3833019--3833136	31	3.8	31	95	0	209	27	17	27	27	1.98
3833161--3833283	46	2.7	45	85	6	165	29	16	26	27	1.97
3833165--3833325	46	3.6	45	82	9	159	31	15	26	27	1.96
3833211--3833351	42	3.3	42	83	6	140	33	14	24	27	1.94
3838456--3838498	14	3.1	14	79	0	50	48	0	0	51	1.00
3841280--3841349	22	3.1	22	67	17	54	48	11	20	20	1.79
3841325--3841394	22	3.1	22	65	23	56	45	11	20	22	1.82
3841280--3841417	45	3.1	45	86	5	190	44	12	20	22	1.84
3842362--3842433	36	2.0	36	91	0	117	36	9	27	26	1.88
3850148--3850233	43	2.0	43	100	0	172	18	27	9	44	1.80
3855567--3855681	44	2.6	45	84	5	144	36	13	22	27	1.91
3862962--3863050	44	2.0	45	88	4	135	32	12	25	29	1.92
3862964--3863066	44	2.3	45	84	3	127	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)
3866916--3866965	5	10.0	5	79	16	50	20	6	0	74	1.03
3869636--3869713	23	3.5	21	86	6	75	37	20	20	21	1.95
3869645--3869713	23	3.0	23	93	0	111	40	21	17	20	1.91
3869798--3869831	18	1.9	18	88	5	52	26	20	0	52	1.46
3869841--3869914	35	2.1	37	87	10	109	41	18	2	36	1.65
3871731--3871881	42	3.5	42	80	4	160	36	23	21	18	1.95
3871731--3871882	21	7.1	21	83	3	144	36	23	21	19	1.95
3871981--3872033	23	2.3	22	87	9	79	26	28	3	41	1.73
3872793--3872843	25	2.1	24	85	7	68	35	9	9	45	1.71
3873282--3873321	11	3.1	14	76	23	52	22	5	0	72	1.04

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