genome.fa.s9.2.7.7.80.10.50.1000.212.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  212  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)
66624212--66624385	49	3.6	49	82	0	197	29	18	16	35	1.93
66625586--66625701	45	2.8	39	76	15	108	19	21	21	37	1.95
66625607--66625707	45	2.2	45	91	0	157	19	19	20	39	1.93
66625687--66625735	6	7.8	6	86	2	62	18	20	16	44	1.86
66627222--66627258	2	18.5	2	100	0	74	48	0	0	51	1.00
66627349--66627381	9	3.7	9	88	11	50	78	0	0	21	0.75
66629966--66629998	16	2.1	16	100	0	66	27	12	12	48	1.76
66639380--66639613	112	2.1	110	89	3	364	29	15	13	42	1.84
66648807--66648843	19	1.9	19	100	0	74	45	10	10	32	1.74
66648919--66648952	17	2.1	17	88	5	52	32	17	0	50	1.47
66653455--66653622	86	2.0	86	93	0	291	45	10	18	25	1.82
66654098--66654247	9	15.9	9	73	18	92	32	1	5	60	1.27
66654098--66654204	29	3.7	29	73	19	89	33	0	5	60	1.20
66654100--66654247	19	7.9	17	67	22	66	32	1	5	60	1.27
66655438--66655464	14	1.9	14	100	0	54	25	0	0	74	0.83
66657647--66657709	22	2.9	21	73	17	58	68	4	4	22	1.28
66660827--66660857	2	15.5	2	100	0	62	51	0	0	48	1.00
66663318--66663356	20	2.0	20	90	10	62	66	0	0	33	0.92
66671893--66672180	29	9.9	29	81	3	276	21	27	13	36	1.92
66671897--66672180	87	3.3	87	84	5	340	21	27	13	36	1.91
66675222--66675393	41	4.2	41	93	0	281	22	23	5	48	1.71
66683546--66683603	27	2.1	27	90	0	89	27	20	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66686521--66686591	28	2.6	27	80	8	72	47	16	12	22	1.80
66686639--66686698	27	2.2	28	82	11	79	28	18	23	30	1.98
66687982--66688016	18	1.9	18	94	0	61	65	0	5	28	1.15
66699157--66699231	30	2.5	30	80	12	82	28	2	2	66	1.18
66699295--66699349	16	3.6	16	70	20	55	32	0	7	60	1.24
66699512--66699539	2	14.0	2	100	0	56	50	0	0	50	1.00
66702337--66702493	27	5.8	27	74	7	102	38	17	15	27	1.91
66706874--66706923	25	2.0	25	100	0	100	32	28	8	32	1.86
66710411--66710468	27	2.1	27	90	0	89	27	20	18	32	1.97
66713313--66713383	28	2.6	27	80	8	72	47	16	12	22	1.80
66713360--66713490	27	4.8	26	70	13	75	38	14	17	29	1.89
66713387--66713490	27	3.8	27	75	10	86	36	14	20	28	1.92
66714716--66714750	18	1.9	18	94	0	61	65	0	5	28	1.15
66716065--66716096	6	5.3	6	96	0	55	21	15	12	50	1.77
66717050--66717171	54	2.3	54	82	0	145	18	27	26	27	1.98
66720683--66720707	12	2.1	12	100	0	50	16	0	0	84	0.63
66731564--66731620	26	2.2	26	81	6	62	28	3	5	63	1.33
66731576--66731626	26	2.0	26	88	0	75	27	1	5	64	1.27
66731701--66731755	16	3.6	16	70	20	55	32	0	7	60	1.24
66739219--66739353	44	3.1	44	67	6	121	23	18	28	28	1.98
66739161--66739358	87	2.3	87	88	0	288	25	21	26	26	1.99
66739207--66739343	43	3.2	43	64	6	114	25	18	28	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66739337--66740061	44	16.6	44	72	7	449	29	16	24	29	1.97
66739259--66740143	256	3.4	264	91	3	1412	28	17	24	29	1.97
66740035--66740146	44	2.5	44	81	4	136	26	22	24	26	2.00
66740024--66740165	44	3.2	45	74	6	128	30	21	23	24	1.99
66740024--66740191	88	1.9	88	80	2	194	27	25	23	23	2.00
66740179--66740311	44	3.0	44	92	0	221	27	18	25	27	1.98
66740569--66740868	44	6.9	43	70	11	150	31	20	21	26	1.98
66740911--66741035	45	2.8	45	85	2	153	29	24	24	20	1.99
66740560--66741079	215	2.4	216	83	8	571	30	21	22	25	1.98
66742529--66742565	16	2.2	18	85	9	51	37	0	5	56	1.22
66745654--66745711	27	2.1	27	90	0	89	27	20	18	32	1.97
66749445--66749515	28	2.6	27	80	8	72	47	16	12	22	1.80
66750821--66750855	18	1.9	18	94	0	61	65	0	5	28	1.15
66768767--66768795	6	4.8	6	100	0	58	17	0	0	82	0.66
66769878--66769941	24	2.7	24	80	0	83	60	0	3	35	1.12
66769877--66769943	35	1.9	34	85	11	91	61	0	2	35	1.12
66773170--66773221	11	5.0	10	77	9	50	69	3	3	23	1.22
66775751--66775776	12	2.2	12	100	0	52	15	7	0	76	0.99
66780148--66780199	18	2.9	18	77	11	61	32	0	0	67	0.91
66780626--66780658	17	1.9	18	88	11	52	48	0	9	42	1.35
66783215--66783326	59	1.9	59	82	10	140	45	13	16	24	1.83
66783502--66783542	21	2.0	21	90	9	66	34	4	2	58	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66783508--66783567	21	3.0	20	83	7	68	35	6	3	55	1.43
66791316--66791346	2	16.0	2	93	6	55	51	0	0	48	1.00
66792928--66793140	42	5.0	42	67	6	119	33	21	16	28	1.95
66793412--66793520	41	2.7	41	88	0	137	33	25	23	17	1.96
66799696--66799802	35	3.1	35	84	2	135	14	14	28	42	1.85
66802970--66803019	24	2.1	24	85	10	68	52	2	10	36	1.47
66805069--66805127	24	2.5	24	100	0	118	45	8	23	22	1.79
66805192--66805270	38	2.1	38	97	0	149	35	6	24	34	1.81
66807645--66809386	880	2.0	886	91	1	2818	29	15	19	34	1.93
66818238--66818286	25	2.0	25	83	0	62	48	24	8	18	1.75
66818906--66818957	25	2.1	25	85	3	70	55	28	5	9	1.55
66817164--66819721	726	3.6	718	87	4	3449	37	15	11	34	1.84
66819772--66819799	2	14.0	2	100	0	56	50	0	0	50	1.00
66820152--66820187	14	2.5	15	90	4	56	36	13	13	36	1.85
66820184--66820223	20	2.0	20	90	0	62	27	10	12	50	1.72
66821674--66821834	76	2.1	76	97	1	304	17	16	11	54	1.71
66822067--66822098	14	2.3	14	100	0	64	37	6	25	31	1.81
66822100--66822165	21	3.1	21	75	16	64	34	12	22	30	1.91
66823801--66823827	12	2.2	12	100	0	54	14	7	0	77	0.97
66825531--66826163	313	2.0	313	98	0	1212	30	15	14	38	1.88
66841122--66841279	54	2.9	53	88	3	244	25	31	15	27	1.96
66842754--66842825	24	3.0	24	70	9	67	37	1	2	58	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66845367--66845406	21	1.9	21	89	0	62	67	0	5	27	1.11
66848961--66849001	16	2.6	16	88	0	55	73	14	7	4	1.22
66855256--66855312	9	6.3	9	91	0	87	40	19	10	29	1.85
66855344--66855381	20	2.0	20	89	5	60	23	0	10	65	1.23
66867178--66867242	32	2.0	32	96	0	121	35	35	3	26	1.72
66867629--66867696	29	2.3	29	75	12	75	38	1	1	58	1.16
66868445--66868478	10	3.4	10	91	0	50	29	61	8	0	1.26
66870128--66870360	117	2.0	116	98	0	448	27	31	3	38	1.72
66871629--66871675	23	2.0	24	83	4	60	40	0	2	57	1.11
66877014--66877061	24	2.0	24	87	0	69	52	12	4	31	1.58
66878979--66879026	24	2.0	24	87	0	69	52	12	4	31	1.58
66881214--66882722	456	3.3	456	83	2	1440	22	25	22	30	1.99
66881127--66882676	684	2.3	684	80	2	1653	22	25	22	29	1.99
66881139--66882722	228	6.9	227	83	2	1284	22	25	22	30	1.99
66885172--66885206	9	3.8	9	85	7	52	31	2	0	65	1.07
66885175--66885222	17	2.6	19	87	6	64	29	2	0	68	1.01
66885430--66885470	2	20.5	2	100	0	82	48	0	0	51	1.00
66887578--66888806	228	5.4	228	84	1	1045	21	26	21	30	1.98
66887590--66888855	456	2.8	455	80	2	1238	21	26	21	30	1.99
66902915--66903589	345	1.9	350	86	4	952	28	16	15	40	1.88
66909028--66909058	15	2.1	15	100	0	62	19	6	12	61	1.53
66914768--66914964	104	1.9	104	90	1	313	36	15	14	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66915435--66915465	16	1.9	16	93	0	53	25	3	0	70	1.02
66917321--66917357	9	4.1	9	89	0	56	32	10	10	45	1.74
66917411--66917441	9	3.4	9	90	0	53	38	22	12	25	1.90
66924304--66924389	36	2.4	36	88	2	118	8	27	10	53	1.63
66927527--66927576	18	3.0	17	85	8	59	42	0	2	56	1.11
66927566--66927733	47	3.6	45	70	18	130	45	2	4	47	1.37
66927492--66927699	91	2.3	91	90	0	326	46	2	3	47	1.35
66927513--66927674	44	3.6	43	69	19	125	45	1	3	49	1.27
66927512--66927588	28	2.8	28	76	9	61	42	0	3	53	1.19
66927849--66927903	24	2.2	26	81	12	71	45	0	1	52	1.11

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