genome.fa.s10.2.7.7.80.10.50.1000.33.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  33  of  202  ( 24201 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)
9676435--9676479	4	11.2	4	100	0	90	24	0	24	51	1.49
9678337--9678362	7	3.7	7	100	0	52	11	0	0	88	0.52
9679289--9679325	18	2.0	19	89	5	58	0	21	16	62	1.33
9683269--9683356	44	2.0	44	93	0	149	35	7	20	36	1.82
9686925--9686967	20	2.1	21	91	4	70	72	0	2	25	0.97
9688575--9688599	4	6.2	4	100	0	50	24	0	0	76	0.80
9697743--9698291	42	12.9	43	73	9	297	18	28	32	20	1.96
9697761--9698241	85	5.6	85	82	5	442	18	28	32	19	1.96
9698425--9698928	42	11.9	42	76	9	389	20	33	27	18	1.96
9698620--9698928	128	2.4	128	82	3	354	22	32	27	17	1.96
9698425--9698928	85	5.9	85	76	11	346	20	33	27	18	1.96
9701639--9701663	7	3.6	7	100	0	50	36	0	0	64	0.94
9705326--9705373	6	7.8	6	85	2	51	14	20	2	62	1.42
9707867--9707960	45	2.1	45	90	4	145	30	23	18	27	1.97
9715494--9715530	9	4.1	9	85	0	56	29	8	13	48	1.71
9716325--9716355	5	6.4	5	92	7	55	35	0	22	41	1.54
9727970--9728001	16	2.0	16	100	0	64	25	31	6	37	1.81
9730998--9731046	19	2.5	20	77	12	57	36	20	0	42	1.52
9731180--9731284	45	2.3	44	82	7	140	39	18	19	23	1.92
9733934--9733998	25	2.6	25	85	0	94	38	20	16	24	1.93
9737699--9737777	42	1.9	41	84	7	106	20	31	22	25	1.98
9749145--9749180	17	2.1	17	89	0	54	13	16	30	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9750630--9750865	116	2.0	115	93	0	400	25	28	24	21	1.99
9753586--9753646	30	2.0	30	100	0	122	16	16	24	42	1.88
9754600--9754871	148	1.8	148	88	1	411	28	18	16	36	1.93
9757933--9758155	45	5.0	45	81	3	216	43	11	21	23	1.85
9761263--9761296	17	2.1	16	88	5	50	23	29	26	20	1.99
9761324--9761353	14	2.1	14	93	0	51	30	13	30	26	1.94
9761665--9761706	21	2.0	21	86	4	59	38	4	0	57	1.20
9768229--9768412	42	4.3	42	76	10	165	33	16	17	32	1.93
9774156--9774185	7	4.4	7	91	8	53	13	13	0	73	1.10
9774156--9774185	13	2.2	14	94	5	53	13	13	0	73	1.10
9774139--9774249	57	1.9	58	85	8	156	27	16	5	50	1.67
9774157--9774286	57	2.3	57	81	7	140	26	18	4	50	1.66
9774275--9774304	8	3.8	8	90	0	51	16	33	0	50	1.46
9780792--9780846	22	2.5	22	90	0	92	20	23	29	27	1.99
9783616--9783660	22	2.1	22	84	8	58	35	17	15	31	1.92
9790936--9790975	7	6.0	7	91	8	66	15	0	0	85	0.61
9790936--9790975	13	3.1	13	92	7	64	15	0	0	85	0.61
9790936--9790975	20	2.0	20	100	0	80	15	0	0	85	0.61
9790942--9791004	4	16.5	4	73	26	57	17	3	1	77	0.97
9797270--9797572	154	2.0	154	97	0	570	26	21	20	31	1.98
9800693--9800740	12	4.2	12	84	10	64	43	0	0	56	0.99
9800708--9800740	6	5.5	6	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9800898--9800928	2	15.5	2	100	0	62	51	0	0	48	1.00
9802212--9802256	9	5.3	9	84	7	51	15	0	28	55	1.41
9805954--9805987	18	1.9	18	88	5	52	38	2	8	50	1.49
9809561--9809585	12	2.1	12	100	0	50	44	0	8	48	1.32
9810398--9810547	41	3.6	42	88	0	189	25	20	26	27	1.99
9810398--9810531	41	3.3	41	91	0	205	26	21	26	26	2.00
9811999--9812046	24	2.0	24	88	12	71	25	0	12	62	1.30
9813082--9813136	25	2.2	25	81	12	60	49	5	1	43	1.36
9815145--9815206	30	2.1	30	93	0	106	25	3	12	58	1.50
9823421--9823524	42	2.5	42	79	0	127	26	18	15	39	1.90
9828302--9828343	18	2.4	17	84	11	57	42	0	2	54	1.13
9828322--9828379	28	2.1	28	87	6	82	39	0	1	58	1.08
9833170--9833673	44	11.6	43	72	13	293	27	23	20	28	1.99
9833170--9833631	173	2.7	172	79	10	437	27	23	20	28	1.99
9833170--9833654	217	2.2	217	92	0	783	27	24	20	28	1.99
9850048--9850098	20	2.5	19	78	12	57	62	1	1	33	1.17
9850337--9850374	2	19.0	2	94	0	67	52	0	0	47	1.00
9850404--9850456	3	17.7	3	76	7	54	62	3	5	28	1.35
9856413--9856445	14	2.4	14	94	0	57	15	60	9	15	1.58
9858492--9858568	35	2.2	36	88	4	120	27	3	15	53	1.60
9859877--9859953	14	5.0	15	72	20	61	41	16	9	32	1.80
9859893--9859932	20	2.0	20	90	0	62	50	12	10	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9863519--9863855	182	1.9	182	83	1	451	29	18	23	29	1.98
9871341--9871366	11	2.4	11	100	0	52	19	0	7	73	1.07
9871580--9871635	26	2.1	26	81	12	69	23	10	8	57	1.61
9873038--9873090	24	2.2	24	90	6	81	52	7	1	37	1.41
9873994--9874078	44	1.9	44	90	0	134	48	7	10	34	1.65
9874508--9874689	43	4.2	43	90	0	283	23	22	25	28	1.99
9874551--9874732	86	2.1	86	85	2	240	26	23	22	28	1.99
9874699--9874855	43	3.7	41	74	11	136	29	29	18	22	1.97
9874505--9874775	129	2.1	129	78	6	273	26	23	23	26	2.00
9877591--9877654	15	4.1	15	76	9	58	31	4	1	62	1.25
9877898--9877951	22	2.3	23	78	15	58	31	9	1	57	1.41
9883436--9883470	13	2.6	14	86	9	54	65	2	20	11	1.37
9884725--9885430	43	16.7	44	73	11	267	32	22	22	23	1.98
9884728--9885453	83	8.6	83	81	7	489	31	22	21	23	1.98
9884728--9885394	126	5.3	123	80	8	537	32	22	22	23	1.98
9884853--9885339	209	2.3	209	94	0	832	33	21	21	23	1.98
9887037--9887100	15	4.1	15	76	9	58	31	4	1	62	1.25
9889789--9889842	16	3.3	16	89	2	81	33	0	16	50	1.46
9889934--9890010	19	4.5	18	67	32	62	33	1	15	49	1.53
9889903--9890026	49	2.5	49	89	4	176	34	3	13	48	1.59
9889955--9890003	21	2.3	22	80	16	59	32	2	16	48	1.57
9891854--9891893	12	3.3	12	83	13	55	57	12	7	22	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9892358--9892414	11	4.9	11	73	12	51	21	1	47	29	1.61
9892370--9892414	23	2.0	23	90	0	72	24	2	44	28	1.66
9893311--9893380	7	9.9	7	77	9	70	47	48	0	4	1.21
9894260--9894419	84	1.9	84	98	0	311	35	32	15	16	1.90
9894262--9894396	42	3.2	42	67	15	125	36	30	15	17	1.91
9894299--9894435	42	3.2	43	65	20	108	38	33	13	13	1.85
9894260--9894459	84	2.4	84	89	3	278	37	31	16	16	1.90
9894318--9894544	125	1.8	126	88	2	350	36	29	17	17	1.93
9894848--9894946	40	2.5	39	79	9	92	18	20	21	40	1.92
9894847--9894923	41	1.9	41	83	2	102	19	19	22	38	1.93
9901476--9901530	25	2.2	23	78	15	56	54	7	3	34	1.46
9903237--9903401	44	3.7	44	75	10	133	27	25	18	28	1.98
9906338--9906478	26	5.6	25	71	12	94	19	20	21	38	1.94
9913986--9914022	9	4.1	9	92	0	65	29	10	13	45	1.77
9924489--9924529	20	2.0	20	85	4	55	36	7	7	48	1.59
9939850--9939911	6	9.8	6	77	10	61	24	1	0	74	0.91
9939850--9939904	19	2.9	18	89	10	76	27	0	0	72	0.85
9941580--9941875	27	11.0	26	79	6	207	18	18	22	40	1.92
9941591--9941875	81	3.5	81	83	1	340	17	19	21	40	1.91
9941591--9941875	54	5.3	53	82	3	300	17	19	21	40	1.91
9945439--9945664	54	4.2	53	80	5	222	18	17	19	45	1.86
9945439--9945665	27	8.5	27	76	8	189	18	17	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9953922--9953955	17	2.0	17	88	0	50	32	8	2	55	1.45
9955373--9955474	27	3.8	27	92	2	161	31	9	27	31	1.89
9956300--9956383	41	2.0	41	90	0	132	21	17	28	32	1.96
9966861--9966895	17	2.1	17	100	0	70	54	17	5	22	1.64
9967448--9967472	5	5.0	5	100	0	50	20	0	0	80	0.72
9968031--9968079	23	2.1	23	96	0	89	32	2	4	61	1.26
9976907--9977047	40	3.5	40	94	0	246	27	15	25	31	1.96
9990183--9990216	3	11.0	3	93	6	59	67	0	0	32	0.91
9999986--10000438	50	9.1	50	73	6	357	31	24	20	23	1.98
9999982--10000413	100	4.3	100	89	2	604	32	24	20	23	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