genome.fa.s1.2.7.7.80.10.50.1000.161.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  161  of  187  ( 22383 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)
47530895--47530932	18	2.1	18	85	9	51	36	0	5	57	1.21
47536876--47536915	21	1.9	21	85	10	55	45	2	5	47	1.38
47537988--47538033	24	1.9	24	86	0	65	47	0	4	47	1.21
47542231--47542286	20	2.8	21	76	7	64	28	28	17	25	1.98
47542280--47542319	19	2.1	19	86	9	55	20	15	27	37	1.92
47544089--47544138	21	2.5	20	90	6	75	54	0	12	34	1.38
47550499--47550566	36	1.9	35	84	3	91	30	4	17	47	1.68
47553410--47553443	6	5.7	6	92	0	59	32	17	50	0	1.47
47557117--47557157	17	2.4	18	84	11	52	31	0	2	65	1.05
47561364--47561422	31	1.9	31	89	0	91	37	10	8	44	1.69
47573600--47573662	30	2.1	30	88	5	92	38	7	11	42	1.70
47574019--47574058	14	2.6	16	84	11	57	5	15	0	80	0.88
47581967--47582098	50	2.6	50	81	7	151	26	25	29	18	1.98
47600712--47600743	7	4.6	7	96	0	55	3	15	9	71	1.24
47600848--47600875	14	2.0	14	100	0	56	42	0	14	42	1.45
47600963--47600992	10	2.8	11	90	10	53	0	30	0	70	0.88
47603897--47603946	18	2.7	19	78	9	59	20	64	14	2	1.39
47611813--47611846	17	2.0	17	88	0	50	64	0	5	29	1.17
47611870--47611927	30	1.9	30	82	0	71	65	6	3	24	1.33
47612099--47612183	10	8.4	10	67	21	52	29	4	1	64	1.21
47612099--47612154	21	2.8	20	82	15	62	25	5	1	67	1.21
47612119--47612184	29	2.2	30	82	12	75	33	4	0	62	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47614044--47614211	91	1.8	92	89	3	268	37	14	8	38	1.78
47621942--47621971	2	15.5	2	93	6	53	53	0	0	46	1.00
47622683--47622737	27	2.1	27	82	3	67	52	5	7	34	1.52
47641567--47641596	13	2.3	13	100	0	60	20	6	13	60	1.55
47642362--47642403	15	2.7	16	82	14	52	45	0	2	52	1.13
47642353--47642394	15	2.9	15	82	10	52	47	0	0	52	1.00
47642337--47642588	140	1.8	139	96	0	468	46	2	3	47	1.34
47642489--47642523	18	2.0	17	88	5	52	45	0	0	54	0.99
47642759--47642794	16	2.2	16	100	0	72	38	36	0	25	1.56
47661634--47661691	28	2.0	29	93	3	100	43	0	6	50	1.29
47663212--47663300	46	2.0	45	84	2	115	53	3	8	33	1.49
47663428--47663453	5	5.2	5	100	0	52	80	0	0	19	0.71
47664898--47665116	116	1.9	116	90	0	348	26	24	18	31	1.97
47670997--47671039	21	2.0	21	95	0	77	65	9	2	23	1.34
47674684--47674749	28	2.3	29	84	5	89	40	1	4	53	1.31
47680684--47680716	17	1.9	17	100	0	66	36	0	0	63	0.95
47680664--47680717	28	1.9	28	92	0	90	38	1	0	59	1.08
47691233--47691275	19	2.2	20	88	12	63	39	0	4	55	1.20
47691627--47691669	2	21.5	2	100	0	86	51	0	0	48	1.00
47696829--47696867	2	20.5	2	84	10	55	53	0	0	46	1.00
47703212--47703258	21	2.2	22	92	3	78	21	38	19	21	1.94
47706504--47706538	9	4.0	9	85	7	54	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47713337--47713380	2	22.5	2	95	4	81	50	0	0	50	1.00
47713702--47713735	17	2.0	17	94	0	59	50	11	8	29	1.69
47714720--47714797	22	3.5	22	91	0	129	33	28	0	38	1.57
47715134--47715167	15	2.3	15	90	5	52	26	0	5	67	1.13
47715132--47715189	24	2.3	23	78	21	64	27	0	5	67	1.12
47717315--47717477	28	6.2	28	82	13	220	46	23	0	28	1.57
47717301--47717723	51	8.8	51	80	14	433	47	21	2	29	1.62
47717301--47717484	28	7.1	27	79	17	196	46	21	1	30	1.61
47717471--47717508	17	2.2	17	95	0	67	52	15	2	28	1.56
47717452--47717622	40	4.0	40	81	18	218	48	19	2	29	1.63
47717508--47717568	28	2.2	28	88	5	88	44	26	1	27	1.64
47717562--47717599	17	2.2	17	100	0	76	52	15	5	26	1.64
47717579--47717649	28	2.8	24	87	12	99	49	21	4	25	1.67
47717526--47717718	68	2.8	68	84	10	243	48	20	2	28	1.62
47717634--47717666	17	1.9	17	93	0	57	57	6	3	33	1.38
47717397--47717653	91	2.8	90	91	5	385	48	20	2	28	1.63
47717664--47717723	28	2.1	29	84	9	79	45	25	1	28	1.63
47717301--47717706	23	17.3	23	75	19	326	47	20	2	29	1.62
47720303--47720504	83	2.4	84	95	0	361	31	23	21	23	1.98
47720415--47720639	125	1.8	124	90	2	362	31	23	16	29	1.96
47721100--47721138	17	2.3	17	86	8	53	58	15	0	25	1.37
47721808--47721905	44	2.2	44	87	5	135	31	5	28	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47722018--47722146	57	2.2	56	76	18	129	51	3	1	42	1.29
47725225--47725278	14	3.2	17	82	15	60	62	3	22	11	1.43
47725225--47725264	19	2.2	18	86	8	55	62	5	20	12	1.48
47725254--47725298	19	2.5	18	82	17	58	66	0	26	6	1.16
47726765--47726815	25	2.0	26	92	3	86	37	1	0	60	1.08
47727760--47727795	17	2.0	19	89	10	58	63	0	8	27	1.23
47728303--47728333	8	3.9	8	91	0	53	64	0	9	25	1.24
47740494--47740557	25	2.5	24	85	5	74	56	1	3	39	1.25
47740512--47740558	25	1.9	25	91	4	78	55	2	2	40	1.24
47743615--47743658	23	1.9	23	85	0	61	43	0	0	56	0.99
47746166--47746271	56	1.9	56	86	0	149	20	10	21	47	1.80
47751627--47751669	18	2.4	18	88	7	61	46	0	0	53	1.00
47754802--47754844	22	2.0	22	100	0	86	32	18	18	30	1.95
47755063--47755126	23	2.6	25	78	9	78	21	14	25	39	1.91
47757238--47757287	26	1.9	27	88	8	77	50	6	14	30	1.66
47757243--47757299	24	2.3	25	82	8	64	49	8	8	33	1.65
47758392--47758420	11	2.6	11	100	0	58	17	6	55	20	1.65
47758873--47759776	44	20.6	44	69	13	223	27	20	20	31	1.97
47759016--47759343	129	2.5	127	86	6	430	27	20	19	31	1.97
47759048--47759511	129	3.6	129	82	6	419	27	20	19	32	1.97
47759168--47759644	172	2.7	172	84	2	587	27	19	19	32	1.97
47759320--47759555	128	1.8	129	85	2	332	27	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47759567--47759792	89	2.6	87	80	6	249	27	22	18	31	1.97
47759536--47759776	133	1.8	133	80	5	290	28	21	19	30	1.98
47759057--47759795	44	17.0	42	72	9	299	27	20	20	32	1.97
47759783--47760758	50	19.4	50	72	5	635	25	20	21	32	1.98
47759786--47760450	100	6.6	100	83	3	767	25	21	21	31	1.98
47759813--47760755	150	6.3	150	75	3	732	25	20	21	31	1.98
47760376--47760755	199	1.9	200	90	3	606	25	21	21	31	1.98
47772249--47772306	2	29.0	2	100	0	116	50	0	0	50	1.00
47772404--47772444	2	20.5	2	100	0	82	48	0	0	51	1.00
47773528--47773575	20	2.3	21	78	7	53	45	2	4	47	1.33
47775116--47775167	24	2.2	24	92	0	86	51	7	3	36	1.49
47776857--47777052	100	2.0	100	88	0	293	31	16	12	38	1.87
47779584--47779638	24	2.5	21	78	16	65	47	7	1	43	1.41
47779593--47779638	24	1.9	24	90	0	74	47	6	2	43	1.41
47779858--47780369	255	2.0	255	95	0	925	37	14	14	34	1.86
47784622--47784655	17	1.9	18	88	5	52	35	26	0	38	1.57
47786571--47786620	12	3.9	13	77	12	59	60	2	0	38	1.09
47797641--47797677	17	2.1	19	85	10	51	64	2	2	29	1.21
47797825--47797862	18	2.1	19	85	14	53	55	2	0	42	1.14
47798096--47798131	17	2.0	19	89	10	58	52	0	8	38	1.32
47800212--47800306	38	2.5	38	89	3	147	38	22	8	30	1.83
47811612--47811710	45	2.2	44	86	8	146	22	21	2	54	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47818027--47818051	13	1.9	13	100	0	50	36	0	16	48	1.46
47818256--47818296	17	2.4	17	91	0	73	0	19	14	65	1.26
47818257--47818296	8	4.7	9	84	12	57	0	20	12	67	1.22
47837356--47837418	27	2.3	27	81	5	65	44	12	23	19	1.85
47845787--47845818	15	2.1	15	94	0	55	68	9	6	15	1.36
47847193--47847388	41	4.8	41	88	1	286	30	22	20	26	1.98
47847193--47847388	81	2.4	82	88	0	304	30	22	20	26	1.98
47852884--47852923	14	2.9	14	84	0	53	40	12	0	47	1.41
47852925--47853011	38	2.3	38	88	11	126	33	21	1	43	1.60
47852954--47853012	20	3.0	20	80	9	86	33	22	0	44	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