genome.fa.s1.2.7.7.80.10.50.1000.112.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  112  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)
33558190--33558229	18	2.3	18	86	4	64	45	12	12	30	1.79
33558337--33558396	23	2.6	23	94	0	102	30	30	15	25	1.95
33562008--33562044	13	2.9	13	88	4	58	16	0	0	83	0.64
33562008--33562046	8	4.6	8	90	9	60	15	0	0	84	0.62
33562176--33562238	16	3.9	16	85	6	83	31	1	19	47	1.59
33562292--33562346	16	3.4	16	87	0	74	36	14	16	32	1.89
33564567--33564622	25	2.2	25	81	12	69	41	1	0	57	1.09
33564817--33564867	24	2.1	25	82	10	61	68	1	13	15	1.30
33567988--33568012	13	1.9	13	100	0	50	24	8	28	40	1.83
33568267--33568302	8	4.5	8	100	0	72	50	0	0	50	1.00
33568273--33568308	16	2.2	16	90	0	54	58	0	0	41	0.98
33568617--33568660	22	2.0	21	91	4	70	40	4	13	40	1.65
33568644--33568714	22	3.2	22	63	21	58	38	8	11	42	1.71
33568639--33568732	44	2.1	44	98	0	179	42	7	12	37	1.71
33568855--33568985	64	2.0	64	94	0	226	42	16	15	25	1.87
33572875--33572924	17	2.8	18	71	14	50	36	32	20	12	1.89
33582176--33582215	20	2.0	20	85	9	55	22	5	12	60	1.52
33582403--33582531	20	6.3	20	73	10	82	20	18	8	52	1.71
33582426--33582532	41	2.6	39	80	11	110	20	15	7	56	1.64
33582770--33582808	20	2.0	20	90	10	62	28	15	2	53	1.55
33582831--33582864	18	1.9	17	88	5	50	29	0	0	70	0.87
33582962--33583012	21	2.5	20	81	9	57	41	7	0	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33583387--33583576	20	9.5	20	66	22	87	55	9	15	19	1.67
33583895--33583951	20	2.8	20	81	0	78	61	8	12	17	1.55
33583860--33583951	40	2.3	40	83	9	107	58	8	15	17	1.61
33583992--33584078	20	4.3	21	76	12	76	55	5	18	20	1.63
33586199--33586255	21	2.8	20	84	7	62	28	5	1	64	1.25
33586204--33586288	25	3.6	24	78	9	86	30	7	3	58	1.41
33586552--33586598	24	2.0	24	82	0	58	27	4	8	59	1.45
33588317--33588439	38	3.2	38	95	0	210	35	21	9	33	1.86
33590032--33590083	15	3.3	16	86	10	72	32	19	7	40	1.80
33592448--33592526	36	2.2	36	95	0	140	54	5	18	21	1.63
33593862--33593906	5	8.8	5	80	4	54	71	0	26	2	0.98
33593871--33593922	20	2.6	21	82	8	56	71	0	23	5	1.07
33593931--33593969	8	4.6	8	81	12	51	71	0	28	0	0.86
33593912--33593950	20	2.0	20	84	0	51	69	0	25	5	1.09
33593932--33593969	9	4.3	9	83	3	51	73	0	26	0	0.83
33593997--33594024	3	9.3	3	100	0	56	67	32	0	0	0.91
33598808--33598915	54	2.0	54	100	0	216	40	16	20	22	1.91
33616422--33616597	31	5.7	31	89	0	246	30	5	15	48	1.68
33616426--33616597	93	1.9	92	90	1	272	30	5	15	48	1.69
33616719--33616837	43	2.8	42	81	6	143	26	17	27	27	1.98
33621022--33621069	19	2.6	18	83	6	51	31	22	25	20	1.98
33621042--33621078	19	1.9	19	88	0	56	29	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33621559--33621592	11	3.0	11	91	4	50	55	0	0	44	0.99
33628421--33628448	2	14.0	2	100	0	56	50	0	0	50	1.00
33628574--33628641	26	2.6	25	77	6	73	36	0	0	63	0.95
33630044--33630129	42	2.0	42	95	0	154	37	15	10	37	1.81
33639392--33639472	24	3.5	22	81	9	81	55	1	1	41	1.15
33639378--33639431	6	9.0	6	100	0	108	66	0	0	33	0.92
33639416--33639472	22	2.5	24	88	5	82	50	1	1	45	1.22
33639446--33639487	16	2.6	16	96	0	75	47	2	4	45	1.36
33652167--33652191	12	2.1	12	100	0	50	44	8	8	40	1.63
33664418--33664468	21	2.4	22	83	6	61	7	21	1	68	1.25
33673532--33673642	52	2.1	53	89	1	170	35	14	18	32	1.91
33679525--33679598	32	2.2	33	92	4	123	32	0	36	31	1.58
33680113--33680138	10	2.6	10	100	0	52	69	11	0	19	1.18
33682605--33682694	42	2.1	42	85	0	117	24	26	21	27	1.99
33691220--33691272	26	2.1	25	89	3	79	71	16	0	11	1.13
33691486--33691535	13	3.8	13	82	10	66	26	6	26	42	1.78
33693638--33693695	29	2.0	28	83	9	73	48	8	12	31	1.70
33704909--33704959	17	3.1	16	76	23	52	56	0	3	39	1.18
33705891--33705928	17	2.2	18	90	4	60	52	0	2	44	1.14
33706622--33706667	17	2.5	19	83	16	62	32	8	0	58	1.28
33708332--33708603	139	2.0	139	98	0	526	40	6	14	38	1.72
33709493--33709593	38	2.7	38	90	0	166	17	18	26	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33710275--33710317	17	2.5	17	100	0	86	23	32	27	16	1.96
33714269--33714355	44	2.0	44	97	0	165	26	13	11	48	1.77
33714276--33714344	22	3.1	22	64	15	61	26	11	13	49	1.75
33717962--33718350	45	8.7	44	86	3	456	47	15	15	21	1.82
33717999--33718068	21	3.2	21	64	25	54	52	11	14	21	1.72
33718066--33718137	24	3.1	24	66	18	62	48	15	16	19	1.81
33718045--33718158	21	5.1	21	66	18	70	49	13	16	21	1.79
33721083--33721129	21	2.2	22	81	11	62	61	4	0	34	1.15
33721774--33721863	27	3.4	27	78	9	105	25	18	17	37	1.93
33721785--33721879	27	3.6	25	78	8	84	24	18	13	43	1.87
33721815--33721892	27	3.0	27	79	3	79	29	21	11	37	1.89
33724718--33724949	119	1.9	119	97	0	437	19	18	22	39	1.93
33725695--33725814	59	2.0	60	98	1	233	42	6	5	45	1.52
33727166--33727214	18	2.7	18	90	3	71	57	2	0	40	1.10
33727169--33727222	10	5.7	10	76	12	51	62	3	0	33	1.12
33727169--33727221	19	2.8	19	88	2	72	62	3	0	33	1.13
33727169--33727220	18	2.8	18	85	5	68	61	3	0	34	1.14
33727187--33727222	10	3.7	10	88	7	56	66	5	0	27	1.13
33736074--33736116	16	2.7	16	77	0	50	48	2	2	46	1.27
33736228--33736269	20	2.1	20	82	8	50	52	0	0	47	1.00
33745595--33745703	38	2.8	39	76	6	105	22	21	25	30	1.99
33753835--33753883	20	2.6	18	75	12	53	46	14	4	34	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33753835--33753887	19	2.7	21	75	18	60	43	15	3	37	1.64
33758069--33758102	16	2.1	17	88	5	52	32	0	0	67	0.91
33758689--33758740	23	2.3	23	89	0	77	38	1	9	50	1.46
33772001--33772811	70	11.6	70	78	1	629	29	26	18	25	1.98
33772001--33772821	210	3.9	208	76	4	716	29	26	18	25	1.98
33772713--33772852	70	2.0	70	87	1	183	35	26	14	24	1.93
33772844--33773016	70	2.5	70	83	0	229	27	25	19	27	1.98
33786886--33786932	24	2.0	24	83	8	60	27	36	17	19	1.93
33790550--33790589	19	2.1	19	85	0	53	27	0	12	60	1.33
33791737--33791818	26	3.3	26	69	10	89	25	7	13	53	1.65
33791636--33791893	49	4.9	51	88	6	310	23	8	15	53	1.68
33793267--33793308	11	3.5	12	81	9	50	38	7	21	33	1.81
33796648--33796676	13	2.1	14	93	6	51	10	6	13	68	1.37
33805218--33805463	98	2.4	102	85	5	320	21	30	21	26	1.98
33805169--33805463	50	5.8	51	82	6	298	21	29	21	27	1.99
33812074--33812143	34	2.0	36	86	8	99	7	24	8	60	1.51
33812796--33813143	27	12.9	27	84	3	425	43	18	17	20	1.88
33813338--33813411	26	2.8	26	89	0	112	13	18	24	43	1.86
33813529--33813613	28	3.1	28	93	1	136	21	22	27	29	1.99
33813529--33813641	28	3.8	31	78	16	96	22	22	27	28	1.99
33813918--33813989	36	2.0	36	88	0	108	48	9	6	34	1.63
33818217--33818306	37	2.4	36	80	12	101	73	3	17	5	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33818276--33818305	6	5.2	6	96	4	53	86	0	13	0	0.57
33823472--33823515	20	2.4	19	82	14	56	72	2	11	13	1.21
33829326--33829388	7	9.0	7	84	11	85	69	0	14	15	1.18
33830781--33831305	132	4.0	132	90	1	783	28	17	24	29	1.97
33831430--33831596	50	3.3	50	75	0	172	29	23	21	24	1.99
33831451--33831606	50	3.1	50	77	0	177	32	22	20	25	1.98
33834576--33834749	55	3.3	53	85	8	221	26	8	12	52	1.66
33835566--33835601	18	1.9	19	88	5	56	36	16	2	44	1.63
33840899--33841091	50	3.7	51	80	6	176	26	19	29	24	1.98
33840947--33841140	50	3.9	49	77	6	167	27	21	28	22	1.99

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