genome.fa.s9.2.7.7.80.10.50.1000.33.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   

This is table  33  of  226  ( 27023 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)
14463061--14463123	19	3.4	19	77	4	83	39	9	1	49	1.45
14463204--14463368	82	2.0	82	98	0	321	45	10	6	38	1.63
14463437--14463495	19	3.2	19	76	13	77	49	0	13	37	1.43
14468130--14468303	73	2.4	73	82	6	217	34	22	25	17	1.96
14468130--14468295	25	6.8	24	71	15	74	34	22	24	17	1.96
14468123--14468295	48	3.5	48	70	14	113	35	22	24	17	1.95
14468221--14468296	23	3.2	23	80	9	71	32	22	27	17	1.96
14468377--14468440	25	2.6	25	85	5	85	39	21	23	15	1.92
14470004--14470043	17	2.4	17	84	12	55	37	0	20	42	1.52
14478818--14478978	43	3.8	42	77	11	159	29	25	16	27	1.97
14480340--14480538	33	5.5	33	71	20	148	33	27	19	20	1.96
14480332--14480580	75	3.3	75	91	0	417	32	26	19	21	1.97
14480444--14480582	42	3.5	42	73	16	161	33	28	17	20	1.95
14484037--14484109	26	2.8	26	85	4	76	17	23	23	35	1.95
14486296--14486496	21	9.6	21	80	4	183	46	14	20	17	1.83
14486299--14486483	63	3.0	64	83	6	227	45	15	20	18	1.85
14487614--14487650	9	4.1	9	92	0	65	45	13	10	29	1.77
14488677--14488704	5	5.6	5	100	0	56	21	17	21	39	1.93
14498999--14499082	44	1.9	44	85	4	116	42	11	13	32	1.80
14518996--14519077	26	3.2	26	91	1	130	17	19	20	42	1.89
14519084--14519140	23	2.5	23	82	0	60	19	31	17	31	1.95
14521885--14521924	15	2.7	15	92	0	62	30	7	5	57	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14525987--14526011	7	3.6	7	100	0	50	76	0	0	24	0.80
14525985--14526025	22	1.9	21	85	5	55	73	0	0	26	0.84
14548976--14549084	31	3.4	31	75	16	114	46	0	3	48	1.26
14553778--14553805	2	14.0	2	100	0	56	50	0	0	50	1.00
14560621--14560662	22	1.9	22	85	9	59	28	0	4	66	1.12
14560610--14560661	14	3.5	15	77	12	54	32	0	3	63	1.12
14561573--14561652	30	2.7	31	86	9	121	57	0	2	40	1.12
14561593--14561627	18	1.9	17	88	11	52	60	0	2	37	1.12
14561581--14561636	11	5.4	11	74	22	50	53	0	3	42	1.18
14562136--14562163	2	14.0	2	100	0	56	50	0	0	50	1.00
14562480--14562511	16	1.9	17	93	6	57	65	3	0	31	1.08
14563858--14563911	27	2.0	27	82	7	65	50	0	1	48	1.11
14565425--14565466	3	14.3	3	80	5	50	61	0	38	0	0.96
14565649--14565684	6	6.0	6	93	0	63	16	63	16	2	1.42
14576619--14576652	17	2.0	17	100	0	68	47	17	23	11	1.81
14590582--14590622	18	2.3	18	86	0	55	34	2	2	60	1.23
14613062--14613118	26	2.2	26	84	9	73	17	26	21	35	1.95
14617825--14617929	42	2.5	42	80	0	120	17	21	16	44	1.86
14617866--14617967	42	2.4	42	81	0	114	14	22	17	45	1.85
14617944--14617996	21	2.6	21	82	5	65	11	22	22	43	1.85
14617845--14617983	63	2.2	63	76	2	145	15	22	17	44	1.86
14622123--14622430	67	4.6	67	79	2	287	35	16	23	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14622128--14622430	134	2.3	134	80	3	324	35	16	22	25	1.95
14622438--14622497	27	2.2	27	81	0	75	31	15	31	21	1.94
14636538--14636601	10	6.3	10	76	8	67	78	3	17	1	0.96
14636542--14636601	21	3.0	20	85	7	68	76	3	18	1	1.00
14636527--14636602	17	4.2	18	75	14	68	76	2	17	3	1.06
14637305--14637344	2	20.0	2	100	0	80	50	0	0	50	1.00
14637527--14637640	38	2.9	40	71	9	108	29	14	21	33	1.94
14637525--14637659	40	3.4	39	71	7	121	27	16	24	31	1.96
14638878--14638962	19	4.3	19	78	13	66	64	2	1	31	1.13
14638886--14638963	20	3.8	20	74	17	79	61	2	0	35	1.10
14638868--14638954	39	2.2	41	85	4	115	66	2	1	29	1.11
14638878--14638963	41	2.2	39	91	4	136	63	2	1	32	1.14
14638894--14638977	22	4.1	20	76	14	73	58	3	0	38	1.16
14643667--14643725	24	2.5	23	78	8	64	54	0	1	44	1.10
14643675--14643770	33	2.9	32	70	17	81	50	0	3	46	1.17
14649873--14649934	27	2.4	26	86	7	90	62	1	0	35	1.05
14649879--14649952	28	2.6	27	80	6	85	63	1	0	35	1.03
14649937--14649977	13	3.1	13	89	6	64	70	0	0	29	0.87
14649939--14649977	14	2.9	14	92	3	53	74	0	0	25	0.82
14649939--14649969	7	4.4	7	100	0	62	74	0	0	25	0.82
14665927--14665967	18	2.3	19	83	12	59	24	9	0	65	1.22
14665990--14666079	3	30.0	3	87	0	99	33	7	1	57	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14670871--14670931	5	12.4	5	74	22	58	42	0	0	57	0.98
14670871--14670927	22	2.6	23	80	8	73	42	0	0	57	0.98
14670869--14670932	26	2.6	26	85	7	80	45	0	0	54	0.99
14671063--14671100	3	12.7	3	100	0	76	34	0	0	65	0.93
14671548--14671591	23	1.9	24	90	9	74	54	2	20	22	1.56
14672324--14672449	17	7.4	17	66	19	57	40	12	11	34	1.80
14672529--14672700	17	9.5	16	71	18	74	39	9	14	36	1.79
14672529--14672604	35	2.2	34	83	2	89	42	10	13	34	1.78
14672584--14672626	20	2.2	20	88	8	63	32	2	16	48	1.58
14672600--14672647	23	2.1	23	84	7	62	31	4	16	47	1.65
14672508--14672719	111	1.9	113	81	6	261	37	9	14	38	1.79
14672625--14672719	35	2.7	35	82	12	97	37	10	13	37	1.80
14672531--14672763	94	2.5	92	79	9	217	39	9	14	36	1.79
14672584--14672699	18	6.2	18	74	17	69	37	8	13	40	1.76
14672676--14672751	40	1.9	40	86	7	111	35	9	13	42	1.76
14672584--14672752	18	9.0	18	68	21	62	37	8	14	39	1.77
14672643--14672751	35	2.9	39	81	9	111	37	10	13	38	1.79
14672980--14673058	25	3.2	25	69	18	74	39	5	11	44	1.62
14673386--14673425	3	13.3	3	100	0	80	32	0	0	67	0.91
14673808--14673870	10	6.3	10	73	14	58	0	25	0	74	0.82
14673799--14673843	23	2.0	22	86	4	63	0	15	2	82	0.77
14673799--14673858	30	2.0	30	87	6	86	0	21	1	76	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14673836--14673872	14	2.8	13	84	8	56	0	29	0	70	0.88
14675020--14675070	17	3.0	17	88	0	75	35	13	11	39	1.82
14677055--14677090	13	2.8	13	91	4	56	5	22	5	66	1.34
14677926--14678053	30	4.3	29	73	9	96	40	3	21	34	1.69
14677927--14678053	59	2.1	60	84	5	159	40	3	22	34	1.70
14677926--14678055	31	4.3	31	73	4	106	40	3	21	34	1.69
14678336--14678389	27	2.0	26	85	3	72	24	0	33	42	1.55
14687755--14687793	17	2.3	17	90	0	60	25	15	35	23	1.94
14689521--14689558	10	3.5	11	86	13	53	63	2	0	34	1.09
14691022--14691077	25	2.3	25	82	11	64	67	3	5	23	1.27
14691068--14691119	12	4.2	12	78	7	52	69	3	17	9	1.31
14691973--14692044	37	1.9	38	85	2	101	22	15	27	34	1.94
14695227--14695258	14	2.3	14	100	0	64	25	40	6	28	1.79
14701560--14701613	24	2.3	23	80	3	63	22	12	20	44	1.85
14703860--14703910	25	2.0	25	88	7	75	41	1	0	56	1.10
14705100--14705149	25	2.0	25	88	7	75	46	0	4	50	1.20
14705555--14705683	43	3.0	43	82	13	158	20	19	29	30	1.97
14708742--14708898	71	2.2	70	84	4	208	42	15	10	31	1.81
14709362--14709545	82	2.2	82	89	0	278	33	24	17	23	1.96
14709362--14709549	41	4.6	41	87	0	250	34	23	18	23	1.96
14712878--14712959	23	3.5	23	85	5	103	40	17	10	31	1.84
14716432--14716457	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14717295--14717372	42	1.9	42	86	5	115	55	5	3	35	1.40
14724426--14724466	20	2.0	21	85	4	57	12	26	19	41	1.87
14728274--14728299	2	13.0	2	100	0	52	50	0	0	50	1.00
14732193--14732229	19	1.9	19	94	0	65	37	18	5	37	1.74
14733559--14733595	3	12.3	3	100	0	74	67	0	32	0	0.91
14758875--14759121	42	5.9	42	88	0	363	29	21	19	29	1.98
14759488--14759521	2	17.0	2	100	0	68	50	0	0	50	1.00
14759674--14759704	12	2.6	12	94	0	53	51	41	0	6	1.27
14759678--14759707	14	2.1	14	93	0	51	50	40	0	10	1.36
14770139--14770169	2	15.5	2	93	0	53	45	0	3	51	1.17

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