genome.fa.s8.2.7.7.80.10.50.1000.186.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  186  of  190  ( 22705 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)
55413984--55414126	60	2.4	60	81	3	155	34	11	11	42	1.77
55419760--55419786	5	5.4	5	100	0	54	40	0	18	40	1.51
55421159--55421187	6	4.8	6	100	0	58	17	48	17	17	1.82
55421833--55421900	28	2.4	30	80	11	81	55	4	1	38	1.29
55424611--55424660	25	2.0	25	96	0	91	56	18	0	26	1.42
55431714--55431738	2	12.5	2	100	0	50	52	0	0	48	1.00
55433783--55433809	7	3.9	7	100	0	54	29	0	0	70	0.88
55434620--55434886	52	5.1	52	71	18	228	36	7	2	53	1.44
55434687--55434841	20	7.5	20	67	18	68	36	9	1	52	1.44
55434666--55434942	54	5.2	54	71	16	238	36	9	2	51	1.48
55434672--55434942	50	5.2	49	74	18	244	35	9	2	52	1.49
55434620--55434942	104	3.0	106	93	2	533	35	8	3	52	1.47
55434700--55434942	52	4.6	51	71	21	182	35	9	2	52	1.49
55434860--55434909	16	3.1	16	77	13	57	38	6	4	52	1.45
55434897--55434934	20	1.9	20	88	0	58	31	13	0	55	1.38
55434971--55435013	21	2.0	21	100	0	86	32	0	0	67	0.91
55434974--55435019	21	2.2	21	92	0	74	34	4	0	60	1.16
55444387--55444432	19	2.3	20	82	10	60	58	4	2	34	1.30
55445797--55445843	24	2.0	24	82	0	58	59	8	8	23	1.54
55462004--55462061	21	2.8	20	75	10	55	58	12	3	25	1.49
55463703--55463813	55	2.0	55	100	0	222	27	23	25	24	2.00
55464852--55464886	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55473391--55473421	12	2.6	12	89	0	53	16	0	0	83	0.64
55473410--55473460	26	2.0	26	92	7	86	33	1	0	64	1.05
55473444--55473483	11	3.5	11	83	6	53	40	2	2	55	1.27
55473415--55473508	40	2.5	37	86	8	134	40	2	1	56	1.18
55473459--55473519	30	2.1	29	84	3	77	44	1	1	52	1.20
55473492--55473527	18	1.9	19	94	5	65	36	0	0	63	0.94
55474084--55474118	18	1.9	18	88	0	52	68	0	2	28	1.04
55481780--55481914	40	3.5	37	76	9	119	25	17	25	31	1.97
55484112--55484142	8	3.9	8	100	0	62	38	0	0	61	0.96
55484195--55484251	26	2.1	27	81	9	64	64	3	31	0	1.10
55485395--55485494	41	2.6	37	73	6	92	22	20	30	28	1.98
55490314--55490338	12	2.1	12	100	0	50	40	0	0	60	0.97
55494464--55494509	21	2.2	21	96	3	85	26	13	8	52	1.69
55498654--55498695	17	2.5	17	88	0	66	33	0	2	64	1.07
55499509--55499547	21	2.0	20	90	10	62	15	5	2	76	1.06
55510067--55510108	22	2.0	22	85	4	59	64	2	11	21	1.38
55510067--55510111	21	2.1	21	84	8	56	66	2	11	20	1.33
55511866--55511899	2	17.0	2	100	0	68	50	0	0	50	1.00
55513645--55513699	26	2.1	26	83	6	67	50	0	0	49	1.00
55516527--55516551	13	1.9	13	100	0	50	36	0	0	64	0.94
55519909--55519934	6	4.3	6	100	0	52	19	15	0	65	1.27
55520405--55520527	12	10.2	12	85	3	149	68	0	30	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55522046--55522104	28	2.1	28	87	0	82	40	8	1	49	1.43
55534526--55534992	156	3.0	155	84	2	630	26	22	21	28	1.99
55556060--55556109	4	12.5	4	100	0	100	50	26	0	24	1.50
55581384--55581610	122	1.8	124	84	3	316	26	11	17	44	1.82
55583686--55583751	31	2.2	29	82	15	80	54	0	0	45	0.99
55583704--55583754	16	3.2	16	70	13	52	50	0	0	49	1.00
55583818--55583843	9	2.9	9	100	0	52	42	0	0	57	0.98
55583898--55583947	25	2.0	25	96	0	91	50	0	4	46	1.20
55591653--55591682	15	2.1	14	93	6	51	90	0	10	0	0.47
55592454--55592551	33	2.9	35	73	19	91	46	4	0	48	1.20
55592502--55592558	30	1.9	30	82	13	73	47	3	0	49	1.18
55592730--55592754	13	1.9	13	100	0	50	40	16	8	36	1.77
55599272--55599341	29	2.5	28	74	4	70	45	1	5	47	1.35
55605867--55605891	12	2.1	12	100	0	50	48	0	44	8	1.32
55615983--55616169	92	2.0	92	97	0	356	29	6	27	35	1.83
55616879--55616917	5	7.6	5	82	5	51	41	17	0	41	1.50
55620060--55620157	22	4.5	22	88	0	124	26	26	14	32	1.94
55620923--55620947	13	1.9	13	100	0	50	40	44	0	16	1.47
55624745--55625291	273	2.0	273	99	0	1085	38	12	15	32	1.85
55630753--55630816	25	2.6	25	89	0	101	18	21	20	39	1.93
55640646--55640673	4	7.0	4	100	0	56	25	0	0	75	0.81
55640884--55640943	31	1.9	32	82	3	77	23	11	8	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55641091--55641151	20	3.2	20	68	17	58	52	8	0	39	1.31
55641266--55641335	29	2.3	29	87	4	95	35	10	12	41	1.77
55649767--55649831	29	2.2	28	78	10	69	47	4	3	44	1.39
55654396--55654436	16	2.7	15	80	3	55	4	14	7	73	1.22
55654459--55654524	7	8.6	7	78	18	53	53	1	1	43	1.19
55654446--55654524	27	2.8	31	76	20	91	49	2	1	46	1.23
55654456--55654521	8	8.4	8	70	21	50	51	1	1	45	1.19
55656926--55656963	13	2.9	13	88	0	58	23	13	23	39	1.90
55657552--55657595	22	2.0	21	91	4	70	40	4	13	40	1.65
55657576--55657655	38	2.1	38	97	0	151	36	8	13	41	1.76
55658557--55658596	18	2.1	20	86	9	57	27	5	0	67	1.11
55658572--55658639	3	22.7	3	73	16	52	32	5	2	58	1.37
55659261--55659403	72	2.0	70	86	2	196	28	21	17	32	1.96
55669028--55669104	39	1.9	40	92	5	129	55	9	1	33	1.39
55675147--55675174	2	14.0	2	100	0	56	50	0	0	50	1.00
55676414--55676454	20	2.0	20	100	0	82	14	19	21	43	1.87
55678615--55678655	17	2.2	19	83	12	50	26	2	4	65	1.25
55683221--55683286	25	2.8	23	74	19	64	50	7	3	39	1.46
55683516--55683544	3	9.7	3	100	0	58	0	34	0	65	0.93
55691771--55691810	21	1.9	21	100	0	80	50	2	17	30	1.59
55702154--55702199	20	2.3	20	77	3	58	56	4	2	36	1.31
55702978--55703017	21	2.0	21	85	9	57	52	5	15	27	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55704951--55705015	31	2.1	32	85	5	89	52	3	6	38	1.42
55704951--55705034	31	2.7	30	83	3	87	50	4	7	38	1.51
55708123--55708159	16	2.4	15	86	8	56	32	0	0	67	0.91
55725640--55725664	10	2.5	10	100	0	50	60	0	0	40	0.97
55726407--55726452	22	2.1	22	87	0	65	67	4	2	26	1.21
55740442--55740505	6	10.7	6	85	6	58	23	17	54	4	1.61
55740442--55740505	18	3.6	17	85	4	65	23	17	54	4	1.61
55740442--55740513	12	6.0	12	82	6	74	22	16	55	5	1.62
55741477--55741522	24	1.9	24	95	0	83	28	13	32	26	1.93
55741491--55741710	72	3.1	72	90	0	359	30	26	23	20	1.99
55741873--55741906	6	5.7	6	96	0	59	29	35	0	35	1.58
55747819--55747891	38	1.9	38	100	0	146	57	13	10	17	1.64
55748007--55748106	50	2.0	50	90	3	157	39	11	18	32	1.85
55749096--55749159	27	2.4	28	89	5	96	59	0	1	39	1.07
55749121--55749254	36	3.6	37	89	7	202	60	0	2	36	1.12
55749190--55749247	16	3.4	16	71	13	53	56	0	3	39	1.16
55763722--55763767	24	2.0	24	82	4	58	36	0	21	41	1.54
55764808--55764842	18	2.0	17	88	5	52	34	0	0	65	0.93
55772259--55772431	43	4.0	43	99	0	337	43	23	4	27	1.73
55774450--55774482	16	2.1	16	100	0	66	57	18	0	24	1.40
55775898--55775932	16	2.2	16	94	0	61	42	14	25	17	1.86
55776492--55776526	2	17.5	2	100	0	70	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)
55777490--55777529	20	2.0	20	100	0	80	35	25	25	15	1.94
55783922--55783961	19	2.0	21	85	9	57	62	0	0	37	0.95
55785667--55785749	43	1.9	43	87	0	121	51	13	6	28	1.64
55792093--55792132	14	2.9	14	85	10	55	47	15	2	35	1.58
55794904--55794989	44	2.0	43	88	6	131	19	37	19	23	1.94
55795261--55795671	124	3.3	124	90	0	633	32	17	20	29	1.95
55800261--55800290	13	2.3	13	100	0	60	40	43	0	16	1.48
55800819--55800943	48	2.6	48	94	1	214	43	10	2	44	1.51
55801787--55801868	16	5.2	16	68	11	55	70	3	24	1	1.10
55802189--55802215	13	2.1	13	100	0	54	33	0	37	29	1.58

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