genome.fa.s8.2.7.7.80.10.50.1000.167.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  167  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)
48802414--48802479	14	4.7	14	71	14	55	27	0	39	33	1.57
48802439--48802478	21	1.9	21	84	0	53	27	0	40	32	1.57
48806770--48806859	43	2.1	42	85	4	126	35	8	10	45	1.69
48807134--48807359	42	5.3	43	84	5	241	20	17	30	30	1.96
48807129--48807359	86	2.7	85	82	6	256	21	17	29	31	1.96
48807451--48807495	22	2.1	21	91	4	72	42	28	17	11	1.84
48808149--48808187	19	2.1	19	85	9	53	28	5	10	56	1.54
48809016--48809053	20	1.9	20	89	10	60	26	0	13	60	1.33
48809689--48809885	102	1.9	101	85	5	270	45	10	12	31	1.76
48810249--48810313	17	3.7	17	73	13	51	49	0	1	49	1.10
48812594--48812633	21	1.9	21	100	0	80	47	5	15	32	1.66
48812863--48812899	19	2.0	19	89	5	58	32	0	10	56	1.34
48812868--48812906	18	2.0	20	85	9	55	38	0	10	51	1.36
48816992--48817338	27	12.9	27	80	7	318	42	17	13	26	1.86
48817008--48817343	54	6.2	54	81	7	355	42	17	13	26	1.86
48816992--48817326	81	4.2	80	81	7	376	42	18	13	25	1.87
48817480--48817576	26	3.7	26	81	2	79	19	23	21	35	1.96
48817505--48817608	26	4.0	26	83	2	129	20	23	22	34	1.97
48817506--48817633	26	4.9	26	84	5	118	20	23	21	35	1.96
48819934--48819962	14	2.1	14	100	0	58	31	27	20	20	1.98
48821831--48821876	21	2.1	22	88	4	67	21	6	2	69	1.22
48824788--48824826	19	2.0	20	90	5	62	48	2	7	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48825829--48825963	40	3.4	38	75	9	121	26	17	23	32	1.96
48826255--48826285	9	3.4	9	90	0	53	22	16	22	38	1.92
48826338--48826374	9	4.1	9	92	0	65	45	13	10	29	1.77
48826410--48826452	21	2.0	21	82	8	52	23	34	0	41	1.55
48828721--48828774	28	2.0	27	89	10	85	38	11	3	46	1.57
48830760--48830793	3	11.3	3	100	0	68	32	0	0	67	0.91
48835591--48835620	15	2.0	15	93	0	51	3	26	0	70	1.03
48846708--48847053	126	2.8	125	88	1	480	30	15	21	32	1.94
48850083--48850300	116	1.9	116	92	1	366	43	10	9	37	1.70
48850297--48850352	29	1.9	29	92	0	94	25	1	26	46	1.63
48850382--48850705	45	6.8	45	80	13	382	25	1	26	47	1.60
48850403--48850698	51	6.1	51	82	10	395	24	1	27	46	1.61
48850382--48850705	95	3.4	95	95	0	576	25	1	26	47	1.60
48850545--48850766	119	1.9	116	87	4	329	25	1	26	45	1.63
48850306--48850770	23	19.7	23	71	18	289	26	1	26	46	1.61
48851284--48851318	18	1.9	18	100	0	70	34	5	31	28	1.81
48851971--48852002	7	4.6	7	100	0	64	59	12	0	28	1.34
48853180--48853257	22	3.5	22	98	1	147	39	0	32	28	1.57
48853180--48853275	44	2.2	43	89	10	142	41	0	33	25	1.55
48853196--48853274	11	7.2	11	70	24	60	43	0	34	22	1.54
48853695--48854056	10	38.0	9	65	21	59	36	2	3	57	1.29
48854016--48854057	19	2.2	19	86	0	57	30	2	4	61	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48854159--48854191	18	1.9	17	88	11	50	75	6	3	15	1.11
48855470--48855500	3	10.3	3	100	0	62	32	0	0	67	0.91
48859438--48859518	36	2.2	37	81	12	89	59	3	0	37	1.15
48861868--48861933	21	3.0	21	79	12	69	39	4	4	51	1.43
48861873--48861933	24	2.8	21	80	11	68	42	3	3	50	1.34
48865566--48865592	6	4.5	6	100	0	54	85	0	0	14	0.61
48866835--48867260	113	3.8	111	89	5	596	24	1	17	56	1.49
48866835--48867260	219	1.9	225	87	5	634	24	1	17	56	1.49
48868552--48868576	13	1.9	13	100	0	50	32	0	0	68	0.90
48872554--48872596	18	2.2	19	84	12	52	55	16	4	23	1.59
48872650--48872718	26	2.6	26	93	2	111	40	11	0	47	1.40
48872783--48872858	27	2.8	27	86	4	91	25	27	28	18	1.98
48872998--48873037	20	2.0	21	85	5	55	25	0	10	65	1.24
48873099--48873127	3	9.7	3	100	0	58	0	0	31	68	0.89
48873313--48873349	12	3.1	12	92	0	56	21	0	16	62	1.33
48873939--48873983	18	2.5	18	77	0	54	28	8	46	15	1.76
48884190--48884259	31	2.3	31	94	0	131	42	15	14	27	1.86
48886991--48887043	24	2.2	24	83	10	63	26	9	3	60	1.45
48887206--48887272	27	2.4	29	73	12	77	32	8	8	49	1.65
48889053--48889174	23	5.3	23	88	0	190	30	26	21	22	1.99
48889053--48889172	46	2.6	46	94	0	213	30	26	21	21	1.99
48889261--48889288	8	3.5	8	100	0	56	35	28	10	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48891224--48891270	2	23.5	2	95	0	85	53	0	0	46	1.00
48892389--48892516	42	3.0	42	78	15	136	31	27	18	22	1.97
48896381--48896430	21	2.4	21	79	0	55	18	30	0	52	1.46
48898368--48898454	21	4.1	21	74	12	79	35	19	21	22	1.96
48898637--48898698	18	3.4	18	72	16	65	35	20	0	43	1.53
48898635--48898732	36	2.6	37	87	7	128	32	19	1	46	1.57
48898784--48898823	16	2.5	16	88	11	64	25	25	0	50	1.50
48899490--48899524	14	2.5	14	90	9	54	0	14	5	80	0.89
48899706--48899755	21	2.5	20	76	3	55	52	2	0	46	1.12
48916442--48916479	20	1.9	20	100	0	76	39	0	0	60	0.97
48917899--48917923	6	4.2	6	100	0	50	84	0	0	16	0.63
48926919--48926985	21	3.1	21	76	6	55	74	2	11	10	1.17
48931203--48931285	43	1.9	43	82	0	103	45	12	7	34	1.69
48934185--48934230	11	4.2	11	86	8	58	23	28	0	47	1.52
48934185--48934227	10	4.0	10	82	11	50	23	30	0	46	1.52
48936058--48936100	18	2.4	18	88	0	59	18	27	9	44	1.80
48936514--48936609	34	2.9	33	79	13	110	41	6	5	46	1.51
48939767--48940183	126	3.3	126	90	0	665	27	21	18	32	1.97
48940216--48940489	94	2.9	96	79	3	295	41	18	2	37	1.65
48946378--48946426	24	2.0	24	100	0	98	32	12	8	46	1.71
48951948--48952080	66	2.0	66	92	0	221	37	17	6	39	1.74
48953895--48953933	2	19.5	2	100	0	78	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)
48955757--48955800	22	2.0	23	82	8	56	22	11	0	65	1.24
48962801--48963050	49	5.1	50	73	7	192	32	19	26	21	1.97
48962810--48963050	98	2.5	97	84	2	311	31	19	27	20	1.97
48963177--48963350	53	3.2	53	72	11	149	30	19	25	24	1.98
48981812--48981861	20	2.5	20	87	12	68	56	8	0	36	1.29
48981841--48981887	24	1.9	25	86	4	69	48	2	2	46	1.25
48983685--48983710	2	13.0	2	100	0	52	50	0	0	50	1.00
48984997--48985021	2	12.5	2	100	0	50	48	0	0	52	1.00
48985297--48985335	18	2.2	18	85	0	51	30	10	2	56	1.46
48990311--48990351	20	2.0	20	95	0	73	7	19	39	34	1.80
48992334--48992368	16	2.1	18	89	10	56	42	0	0	57	0.99
49003975--49004016	3	14.0	3	84	0	57	40	0	33	26	1.56
49007307--49007376	27	2.6	27	90	4	106	17	22	41	18	1.90
49007595--49007632	19	2.0	19	89	0	58	50	7	5	36	1.54
49015290--49015339	16	3.2	16	67	16	50	52	10	0	38	1.35
49015342--49015376	15	2.2	16	90	5	54	45	2	0	51	1.16
49018318--49018369	25	2.3	21	81	15	59	38	1	0	59	1.08
49018903--49018967	31	2.1	31	86	8	89	63	1	1	33	1.13
49021941--49021997	11	5.1	11	73	12	53	66	3	0	29	1.08
49031416--49031467	13	4.1	13	80	5	61	44	5	1	48	1.38
49035144--49035179	8	4.5	8	90	10	56	63	0	0	36	0.94
49036954--49036994	15	2.7	15	88	3	55	46	0	2	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49037407--49037456	23	2.2	22	82	13	57	40	10	4	46	1.56
49041729--49041791	19	3.6	16	76	16	54	63	3	0	33	1.10
49041729--49041787	18	3.4	17	81	11	57	64	3	0	32	1.10
49060418--49060497	24	3.3	24	77	7	72	46	1	1	51	1.17
49060430--49060496	25	2.6	26	79	9	75	50	1	1	46	1.19
49091701--49091742	17	2.4	17	92	4	66	35	26	9	28	1.88
49091702--49091742	9	4.7	9	84	6	57	34	26	9	29	1.88
49091748--49091847	40	2.5	40	93	1	166	52	15	7	26	1.67
49096196--49096246	22	2.3	22	93	0	93	27	31	0	41	1.56
49096222--49096306	40	2.1	40	86	4	118	34	22	0	43	1.53

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