genome.fa.s9.2.7.7.80.10.50.1000.194.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  194  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)
61734450--61734635	102	1.8	102	92	0	318	20	20	26	31	1.98
61734330--61734662	177	1.9	177	92	1	560	20	19	28	31	1.97
61741718--61741751	12	2.8	12	87	12	52	23	5	0	70	1.09
61741701--61741744	17	2.7	15	82	10	52	20	6	0	72	1.07
61742757--61742800	14	3.2	13	87	9	61	88	6	4	0	0.62
61742757--61742800	22	2.0	22	86	4	61	88	6	4	0	0.62
61748517--61748574	30	1.9	30	82	0	71	41	8	20	29	1.82
61748932--61749050	33	3.3	33	70	22	105	18	17	26	36	1.93
61748965--61749097	42	3.4	41	73	18	147	21	15	29	33	1.94
61748928--61749103	75	2.3	75	93	0	298	20	18	27	33	1.96
61749020--61749205	102	1.8	102	92	0	318	20	20	26	31	1.98
61748900--61749232	177	1.9	177	91	1	542	20	19	27	31	1.97
61754114--61754273	63	2.5	64	84	6	216	30	5	17	46	1.69
61759501--61759724	54	4.1	54	83	3	290	19	15	18	46	1.84
61759499--61759724	81	2.8	80	82	7	271	19	15	18	46	1.84
61759498--61759724	27	8.4	27	79	8	223	19	15	18	46	1.85
61774249--61774378	66	2.0	66	98	0	251	32	7	26	33	1.85
61774778--61774820	10	4.7	9	83	13	52	23	0	2	74	0.93
61774778--61774820	18	2.3	19	92	4	70	23	0	2	74	0.93
61774777--61774823	19	2.5	19	86	10	69	25	0	2	72	0.96
61775800--61776029	117	2.0	117	94	1	408	31	14	17	36	1.90
61787472--61787589	58	2.0	58	96	0	218	44	12	11	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61790806--61790842	9	4.1	9	85	0	56	45	10	10	32	1.74
61791368--61791396	9	3.2	9	100	0	58	31	0	0	68	0.89
61793680--61793750	21	3.4	21	84	0	88	18	28	33	19	1.95
61795180--61795208	13	2.1	14	93	6	51	6	27	0	65	1.18
61805802--61805858	30	1.9	29	85	3	78	45	0	35	19	1.50
61806073--61806109	9	4.1	9	92	0	65	29	10	13	45	1.77
61806162--61806192	9	3.4	9	90	0	53	38	22	12	25	1.90
61809056--61809182	26	4.9	26	78	7	123	22	11	30	35	1.90
61809048--61809174	52	2.5	52	83	8	145	22	12	31	33	1.91
61821646--61821700	24	2.3	23	75	9	56	21	23	18	36	1.95
61821615--61821711	49	2.0	49	82	8	117	21	24	18	35	1.96
61830823--61830892	27	2.7	25	74	8	68	18	27	20	34	1.96
61830856--61830939	24	3.5	24	78	14	82	20	27	21	30	1.98
61835301--61835332	6	5.3	6	100	0	64	53	31	0	15	1.43
61842405--61842429	13	1.9	13	100	0	50	80	4	0	16	0.87
61846028--61846067	19	2.0	20	85	4	55	65	15	5	15	1.44
61846028--61846067	20	2.0	20	85	9	55	65	15	5	15	1.44
61858073--61858160	45	2.0	45	95	0	158	32	25	19	22	1.97
61858172--61858358	51	3.7	50	82	4	241	31	28	17	22	1.96
61858170--61858354	101	1.8	101	92	3	318	31	28	17	22	1.96
61859709--61859795	5	14.7	6	68	23	51	43	3	1	51	1.26
61859658--61859787	61	2.1	61	91	0	206	43	3	3	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61859680--61859784	31	3.4	30	72	12	97	41	3	1	52	1.30
61859770--61859795	11	2.4	11	100	0	52	42	0	0	57	0.98
61861941--61861992	18	2.7	20	74	17	56	59	0	3	36	1.16
61862037--61862103	34	1.9	35	90	3	109	46	10	8	34	1.70
61863750--61863790	21	2.0	21	85	9	57	46	2	0	51	1.14
61865014--61865053	17	2.4	17	86	0	53	5	2	5	87	0.73
61865013--61865061	11	4.2	12	85	12	59	8	2	4	85	0.79
61865630--61865703	3	24.7	3	82	10	89	31	4	1	63	1.21
61865808--61865836	2	14.5	2	100	0	58	48	0	0	51	1.00
61867316--61867368	27	2.0	27	84	0	70	20	7	5	66	1.38
61868126--61868168	10	4.2	10	82	11	52	30	0	2	67	1.03
61868589--61868623	3	11.7	3	100	0	70	65	0	0	34	0.93
61874667--61874752	21	4.0	23	79	11	110	38	23	20	17	1.93
61874667--61874753	44	2.0	41	86	6	120	37	22	20	18	1.94
61875060--61875091	16	1.9	17	93	6	57	25	21	0	53	1.46
61875359--61875402	3	14.7	3	86	9	63	63	2	0	34	1.07
61875359--61875402	19	2.2	20	92	4	72	63	2	0	34	1.07
61875535--61875596	30	2.2	28	82	8	72	45	3	0	51	1.17
61876236--61876325	43	2.1	44	83	6	112	31	11	8	48	1.69
61881245--61881297	2	26.5	2	81	7	54	45	3	3	47	1.39
61881819--61881917	42	2.4	42	93	1	164	24	22	30	23	1.99
61888614--61888680	26	2.5	26	85	2	89	25	1	37	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61888889--61888919	14	2.2	14	94	0	53	58	0	0	41	0.98
61897579--61897608	15	2.0	15	93	0	51	10	6	10	73	1.25
61898691--61898723	13	2.5	13	100	0	66	45	0	15	39	1.46
61905861--61906068	40	5.2	40	84	2	258	13	17	25	43	1.86
61911389--61911440	21	2.5	22	81	12	65	57	0	28	13	1.36
61913880--61913904	6	4.2	6	100	0	50	20	0	0	80	0.72
61920161--61920195	11	3.4	11	88	11	56	51	0	0	48	1.00
61922202--61922226	10	2.5	10	100	0	50	32	8	0	60	1.26
61922651--61922749	23	4.3	23	84	2	119	32	25	19	23	1.97
61922632--61922732	46	2.2	46	83	3	123	34	21	17	25	1.96
61922651--61922749	46	2.2	46	88	0	153	32	25	19	23	1.97
61924743--61924802	3	20.0	3	92	0	102	36	0	0	63	0.95
61924956--61924989	12	2.8	12	90	0	50	44	11	2	41	1.56
61931216--61931262	24	2.0	24	83	8	60	34	17	4	44	1.68
61931498--61931586	45	2.0	45	95	0	160	33	23	17	24	1.96
61931597--61931783	51	3.7	50	78	4	196	32	26	16	25	1.96
61931594--61931779	101	1.8	99	86	5	248	33	25	16	24	1.96
61933844--61933943	41	2.5	40	88	1	137	25	15	23	37	1.93
61936661--61936846	93	2.0	93	100	0	372	44	11	19	24	1.84
61939486--61939526	22	1.9	21	85	5	55	41	0	2	56	1.13
61939880--61939926	19	2.4	20	86	13	71	29	2	2	65	1.15
61943712--61943785	26	2.9	24	74	18	69	31	0	2	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61947019--61947118	41	2.4	41	81	3	119	44	31	0	25	1.54
61947798--61947830	5	6.6	5	89	10	50	81	3	0	15	0.80
61947822--61947875	20	2.8	18	79	17	56	66	1	7	24	1.27
61948728--61948769	13	3.5	13	78	18	54	50	11	0	38	1.40
61948728--61948801	23	3.2	23	86	0	103	50	9	1	39	1.44
61948802--61948837	18	2.0	18	88	0	54	58	2	2	36	1.27
61950045--61950082	13	3.0	13	92	3	60	65	5	23	5	1.34
61951216--61951347	25	5.5	24	84	7	171	16	21	21	40	1.91
61952170--61952216	17	2.8	17	86	0	67	38	10	17	34	1.84
61957553--61957615	32	2.0	32	90	0	99	42	11	15	30	1.82
61959294--61959461	23	7.2	22	72	9	120	42	35	2	19	1.67
61959294--61959408	45	2.5	46	83	4	135	43	35	2	18	1.64
61959299--61959457	50	3.4	46	81	8	169	43	33	3	20	1.67
61974583--61974623	19	2.1	19	86	4	55	58	2	0	39	1.11
61989113--61989213	20	5.1	20	71	13	82	38	19	27	13	1.90
61992292--61992356	30	2.2	31	81	10	82	49	4	0	46	1.22
61992378--61992415	19	2.0	20	84	5	51	50	5	0	44	1.24
61993025--61993057	4	8.2	4	100	0	66	24	0	27	48	1.51
61995708--61995758	20	2.3	23	87	9	72	33	3	3	58	1.35
61996046--61996089	2	22.0	2	95	0	79	50	2	0	47	1.13
62000484--62000563	8	9.8	8	77	17	67	85	1	11	2	0.77
62000483--62000563	29	2.8	29	83	10	94	85	1	11	2	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62000483--62000536	1	54.0	1	77	0	54	88	1	7	1	0.64
62000483--62000565	7	11.9	7	75	13	73	84	1	12	2	0.78
62000832--62001053	97	2.3	97	90	1	356	29	15	8	46	1.75
62001899--62002110	89	2.4	89	79	7	223	26	23	24	25	2.00
62002093--62002260	84	2.0	87	85	4	234	28	16	25	30	1.96
62002938--62003036	40	2.5	39	83	4	126	31	21	15	32	1.94
62004624--62004672	20	2.3	23	86	10	68	32	4	4	59	1.35
62004864--62004932	2	34.5	2	74	11	52	43	5	2	47	1.42
62007001--62007057	30	1.9	29	85	3	78	59	3	17	19	1.51
62008240--62008274	15	2.2	16	95	5	63	5	5	31	57	1.46

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