genome.fa.s6.2.7.7.80.10.50.1000.34.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  34  of  168  ( 20060 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)
9022453--9022534	39	2.0	41	93	4	141	32	2	24	40	1.68
9028745--9028824	40	2.0	40	92	0	133	23	31	3	41	1.72
9029516--9029552	19	1.9	19	94	0	65	32	2	2	62	1.23
9029605--9029642	17	2.2	18	86	9	53	18	5	0	76	0.97
9032964--9032989	6	4.3	6	100	0	52	50	0	15	34	1.45
9033234--9033260	6	4.5	6	100	0	54	51	0	14	33	1.43
9033242--9033281	16	2.5	16	87	0	53	55	0	17	27	1.43
9035232--9035290	31	1.9	31	92	0	100	30	6	13	49	1.68
9039949--9040018	34	2.0	35	86	2	97	50	11	2	35	1.53
9042376--9042462	39	2.2	40	89	4	131	36	2	6	54	1.40
9051108--9051155	24	2.0	25	87	4	71	35	12	16	35	1.87
9052698--9052747	21	2.5	19	84	9	64	54	2	8	36	1.42
9052991--9053029	20	1.9	21	94	5	71	38	0	25	35	1.56
9056297--9056333	2	18.5	2	88	0	56	43	0	5	51	1.24
9056297--9056333	12	3.1	12	96	0	65	43	0	5	51	1.24
9059425--9059449	10	2.5	10	100	0	50	60	0	8	32	1.26
9067914--9067946	13	2.5	13	95	0	57	15	21	6	57	1.59
9084924--9084983	25	2.4	25	80	0	75	31	28	15	25	1.95
9084975--9085063	25	3.6	25	81	3	117	35	26	15	21	1.94
9084954--9085085	50	2.6	50	90	2	194	37	27	15	19	1.93
9084998--9085085	25	3.5	25	82	0	122	35	28	17	19	1.94
9090388--9090614	110	2.1	106	87	7	316	44	14	15	24	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9093797--9093900	44	2.4	44	88	3	147	53	3	19	23	1.61
9094276--9094414	44	3.1	43	80	5	152	25	22	2	48	1.64
9094461--9094604	52	2.7	53	85	9	195	24	21	1	52	1.55
9097582--9097612	7	4.6	7	96	4	55	25	16	16	41	1.88
9097776--9097808	17	2.0	17	88	5	50	0	18	0	81	0.68
9105492--9105966	104	4.6	104	94	1	803	30	29	20	20	1.97
9106925--9106976	25	2.1	25	100	0	104	26	17	19	36	1.94
9119900--9119951	24	2.2	24	89	0	77	50	9	3	36	1.54
9127357--9127406	24	2.1	24	88	0	73	48	10	4	38	1.56
9130065--9130281	92	2.4	92	85	1	285	31	14	22	31	1.94
9129723--9130370	322	2.0	322	83	1	825	32	18	19	29	1.95
9133809--9133844	15	2.4	15	95	0	63	19	27	11	41	1.85
9134972--9135117	54	2.7	54	79	8	154	24	26	20	28	1.99
9148577--9148645	31	2.2	31	84	0	93	30	5	15	47	1.69
9152844--9152884	19	2.2	19	95	0	73	53	0	7	39	1.29
9152865--9152916	25	2.2	25	82	6	63	57	1	7	32	1.38
9154109--9154247	44	3.2	43	73	8	120	27	21	16	34	1.95
9154263--9154541	44	6.3	44	85	0	378	30	23	16	29	1.97
9154263--9154541	132	2.1	133	89	0	416	30	23	16	29	1.97
9162713--9162752	20	2.0	20	90	0	62	32	12	22	32	1.91
9167436--9167504	3	23.0	3	93	0	111	62	0	4	33	1.15
9169676--9170102	46	10.2	45	76	19	433	29	20	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9169748--9170066	36	8.0	36	73	20	253	28	20	13	37	1.90
9169702--9170102	82	4.9	82	95	0	703	28	20	13	36	1.91
9185644--9185699	28	1.9	30	75	13	55	60	0	1	37	1.07
9186698--9186725	7	4.0	7	100	0	56	42	14	0	42	1.45
9190526--9190565	19	2.0	19	85	9	53	45	2	0	52	1.14
9194907--9195127	100	2.2	100	83	6	270	30	17	20	31	1.96
9195661--9195689	15	1.9	15	100	0	58	68	0	0	31	0.89
9196271--9196312	14	2.7	15	82	10	50	42	0	0	57	0.99
9202878--9202913	15	2.3	16	90	4	56	8	22	0	69	1.15
9202877--9202914	16	2.4	17	82	13	53	7	21	0	71	1.11
9214173--9214357	41	4.5	41	93	0	307	23	22	22	30	1.99
9214540--9214564	12	2.1	12	100	0	50	52	8	0	40	1.31
9214997--9215034	2	19.5	2	89	5	60	50	2	0	47	1.15
9220130--9220205	34	2.2	34	88	0	107	18	14	31	35	1.91
9221958--9222062	43	2.4	43	83	0	129	30	28	15	25	1.96
9226609--9226727	60	2.0	60	86	3	168	43	10	10	34	1.75
9227175--9227204	13	2.4	13	94	5	53	70	0	0	30	0.88
9227191--9227271	40	2.0	42	85	4	112	49	6	3	40	1.45
9227513--9227552	20	1.9	22	90	10	66	50	0	0	50	1.00
9227518--9227594	37	2.1	37	87	4	111	49	1	1	48	1.17
9228314--9228384	29	2.5	29	84	11	103	50	1	0	47	1.09
9229990--9230032	16	2.7	16	82	7	52	44	2	16	37	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9232892--9232946	28	2.0	28	82	10	69	63	7	10	18	1.49
9234402--9234448	20	2.4	19	80	13	51	17	4	14	63	1.45
9234701--9234754	25	2.2	24	83	3	63	33	12	29	24	1.92
9235737--9235763	9	3.0	9	100	0	54	11	11	11	66	1.45
9237488--9237600	41	2.7	42	80	4	120	28	15	26	29	1.96
9240121--9240148	13	2.2	13	100	0	56	28	17	14	39	1.89
9244950--9244999	26	1.9	26	88	8	75	36	22	4	38	1.73
9246126--9246186	29	2.1	29	90	6	97	47	16	8	27	1.75
9257877--9257927	2	25.5	2	100	0	102	50	0	0	49	1.00
9257925--9257951	4	6.8	4	100	0	54	51	0	22	25	1.48
9264326--9264427	34	3.2	31	67	23	77	41	3	1	52	1.31
9267353--9267394	20	2.1	20	100	0	84	38	19	9	33	1.84
9273141--9273274	19	6.7	21	77	10	68	39	14	7	38	1.74
9273141--9273198	22	2.6	22	81	7	64	41	17	5	36	1.72
9273177--9273339	19	8.8	19	82	6	210	36	13	10	39	1.79
9273177--9273339	52	3.0	52	88	4	218	36	13	10	39	1.79
9273268--9273320	14	3.4	14	77	22	61	35	15	11	37	1.83
9279678--9279731	19	2.8	19	94	0	99	37	16	9	37	1.81
9279655--9279731	38	1.9	40	87	10	113	38	16	7	36	1.78
9280268--9280736	45	10.7	45	71	12	210	26	22	21	28	1.99
9280409--9280738	44	7.5	43	69	14	140	28	21	20	29	1.98
9280359--9280753	217	1.8	218	92	0	666	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9281124--9281223	44	2.3	44	89	3	148	29	24	21	26	1.99
9281234--9281624	88	4.4	88	90	0	611	20	23	27	28	1.99
9281305--9281619	44	7.2	44	60	7	127	20	23	27	27	1.99
9282957--9282989	14	2.3	15	89	5	50	27	33	12	27	1.92
9283816--9283876	26	2.3	26	83	5	70	57	4	14	22	1.57
9288139--9288253	19	5.6	22	85	9	70	40	16	6	36	1.76
9288175--9288266	19	4.8	19	97	0	175	36	16	9	36	1.82
9288152--9288266	38	2.9	38	90	5	176	38	16	8	36	1.80
9288368--9288398	14	2.2	14	94	0	53	12	0	9	77	0.99
9288446--9288642	51	3.9	52	79	5	206	28	28	18	23	1.98
9288446--9288676	101	2.3	101	80	5	261	29	29	17	24	1.97
9294274--9294305	16	2.0	16	100	0	64	25	12	0	62	1.30
9294534--9294724	51	3.8	51	77	8	219	31	27	16	24	1.97
9294532--9294716	101	1.8	102	89	3	293	31	26	17	24	1.97
9299649--9299725	35	2.2	35	83	4	93	22	31	23	23	1.99
9303302--9303339	11	3.3	12	82	10	53	60	0	0	39	0.97
9304273--9304345	32	2.2	34	85	7	96	30	10	5	53	1.58
9310457--9310602	74	2.0	74	83	0	184	40	11	3	44	1.58
9311355--9311886	264	2.0	264	98	0	1037	42	10	17	29	1.83
9321309--9321385	29	2.7	29	95	4	138	31	23	23	22	1.99
9321337--9321440	25	4.0	26	80	7	86	30	18	25	25	1.98
9321449--9321522	24	3.0	25	75	15	64	32	20	28	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9321500--9321604	24	4.3	25	75	7	83	34	20	27	18	1.95
9332642--9332680	17	2.3	17	86	0	51	20	46	20	12	1.83
9332655--9332714	17	3.5	17	80	8	77	18	41	26	13	1.87
9334429--9334491	30	2.1	30	96	0	117	17	26	31	23	1.97
9338683--9338825	25	5.8	25	71	15	102	31	20	28	19	1.97
9342944--9343009	20	3.3	20	64	8	53	15	31	18	34	1.92
9342928--9343015	40	2.2	40	95	0	158	20	27	19	32	1.97
9354938--9354973	12	2.8	13	87	8	56	5	13	0	80	0.88
9356578--9356607	11	2.7	11	94	0	51	33	0	10	56	1.32
9358402--9358437	3	11.7	3	88	5	54	66	2	0	30	1.06

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