genome.fa.s3.2.7.7.80.10.50.1000.51.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  51  of  150  ( 17918 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)
15072039--15072083	20	2.3	19	84	7	54	31	11	33	24	1.90
15075158--15075204	20	2.3	20	85	7	60	27	29	17	25	1.97
15083675--15083706	4	7.8	4	96	3	55	21	0	0	78	0.76
15083716--15083750	17	2.1	17	100	0	70	34	5	5	54	1.48
15087493--15087567	33	2.2	34	90	2	116	42	12	6	38	1.68
15091753--15091802	18	2.5	20	87	9	68	74	2	20	4	1.08
15092204--15092302	39	2.5	40	90	6	159	55	12	12	20	1.68
15098337--15098441	48	2.1	48	81	10	115	64	2	25	6	1.32
15114442--15114831	197	2.0	199	84	7	517	39	12	14	33	1.84
15126784--15126869	11	7.6	11	69	19	52	70	2	13	12	1.25
15126830--15126857	11	2.5	11	100	0	56	78	7	0	14	0.95
15126832--15126869	20	1.9	20	88	0	58	73	5	5	15	1.19
15127766--15127799	18	1.9	18	88	5	52	55	0	20	23	1.43
15127789--15127825	17	2.3	16	90	9	58	70	0	16	13	1.17
15132939--15132993	23	2.4	23	90	0	83	23	9	25	41	1.83
15141746--15142353	304	2.0	304	94	0	1074	33	24	10	31	1.89
15146918--15146967	18	2.5	20	87	9	68	72	4	20	4	1.18
15148837--15148891	23	2.4	23	90	0	83	38	27	10	23	1.88
15155399--15155448	18	2.5	20	87	9	68	72	4	20	4	1.18
15175816--15175865	21	2.4	21	90	6	75	30	6	38	26	1.80
15176336--15176368	17	1.9	17	93	0	57	21	18	12	48	1.80
15177833--15177876	21	2.2	20	84	12	54	36	15	0	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15180633--15180733	40	2.6	40	82	3	125	38	4	6	49	1.51
15192512--15192588	20	3.8	20	91	0	109	23	28	0	48	1.51
15192526--15192558	15	2.1	16	88	5	50	21	27	0	51	1.48
15194548--15194668	62	2.0	62	100	0	242	39	21	14	23	1.91
15199662--15199790	65	2.0	65	90	0	204	30	15	24	29	1.96
15200400--15200460	13	4.8	12	76	9	59	34	22	8	34	1.84
15202587--15202685	45	2.2	45	83	0	126	41	18	19	21	1.91
15203091--15203138	3	16.3	3	95	4	89	31	0	0	68	0.90
15203896--15203929	11	2.8	12	86	13	52	0	23	0	76	0.79
15204253--15204278	4	6.5	4	100	0	52	46	0	0	53	1.00
15204253--15204325	32	2.3	32	86	9	105	49	1	0	49	1.09
15205418--15205450	12	3.0	11	91	8	50	9	9	9	72	1.28
15219438--15219488	12	4.3	12	78	9	52	17	25	3	52	1.61
15219690--15219932	50	4.8	50	79	6	213	24	26	21	27	1.99
15222487--15222847	40	9.1	39	83	8	285	30	16	31	22	1.95
15222514--15222847	80	4.2	80	87	3	451	29	16	31	22	1.96
15222514--15222847	120	2.8	120	87	1	467	29	16	31	22	1.96
15223208--15223954	385	1.9	385	98	0	1431	28	24	20	25	1.99
15232423--15232485	30	2.1	30	90	0	99	30	25	7	36	1.84
15239652--15239684	3	11.0	3	100	0	66	33	0	0	66	0.92
15243848--15243917	28	2.6	28	86	4	99	25	10	12	51	1.71
15245829--15245908	18	4.3	19	78	10	78	53	1	0	45	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15245837--15245904	21	3.5	20	86	6	68	50	1	0	48	1.10
15245870--15245912	17	2.6	17	85	3	52	46	2	0	51	1.13
15251251--15251319	33	2.1	33	91	5	113	30	28	21	18	1.97
15256399--15256438	20	2.0	20	100	0	80	45	0	5	50	1.23
15258315--15258384	36	1.9	36	100	0	140	42	0	27	30	1.56
15259373--15259402	14	2.1	15	93	6	53	20	10	26	43	1.83
15261507--15261544	19	2.0	19	85	10	51	21	42	0	36	1.53
15270284--15270311	14	2.0	14	100	0	56	35	7	0	57	1.26
15284461--15284750	41	7.0	41	79	15	328	32	25	18	23	1.97
15284457--15284750	84	3.5	84	97	0	527	31	25	19	23	1.98
15284760--15284902	50	2.8	51	88	6	227	28	29	16	25	1.96
15290071--15290117	22	2.2	21	88	7	76	29	4	19	46	1.68
15290076--15290123	22	2.2	22	100	0	96	31	4	22	41	1.73
15296485--15296677	50	3.8	50	89	2	289	20	30	22	26	1.98
15297015--15297072	30	1.9	30	89	0	89	31	24	3	41	1.71
15308931--15309013	25	3.4	24	80	5	94	26	22	20	30	1.98
15308950--15309033	25	3.4	24	81	3	78	28	22	20	28	1.98
15309173--15309213	15	2.5	17	76	15	50	51	9	14	24	1.72
15321742--15321791	22	2.4	20	86	6	64	34	0	4	62	1.14
15321742--15321789	10	4.7	10	80	12	53	33	0	2	64	1.05
15329538--15330093	27	20.6	27	84	2	521	41	20	16	21	1.90
15338174--15338210	17	2.2	17	95	0	65	21	18	8	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15339020--15339130	28	4.0	28	89	0	168	29	18	25	27	1.98
15339277--15339551	27	10.2	27	86	5	353	18	18	18	44	1.87
15339277--15339551	81	3.4	81	86	5	396	18	18	18	44	1.87
15344003--15344044	22	2.1	19	86	13	57	45	2	0	52	1.13
15351314--15351383	27	2.6	27	72	17	81	31	10	21	37	1.86
15355662--15355824	59	2.8	59	85	5	199	35	23	15	25	1.94
15355633--15355821	88	2.2	86	83	6	229	35	22	15	25	1.94
15355633--15355824	29	6.6	29	81	4	190	35	22	15	26	1.94
15357280--15357516	96	2.5	94	82	3	267	39	21	18	20	1.92
15357307--15357534	96	2.4	96	82	2	271	39	23	18	19	1.93
15357307--15357546	32	7.5	33	79	4	199	39	23	18	19	1.93
15357546--15357602	26	2.2	26	87	0	78	35	21	22	21	1.96
15357564--15357653	27	3.4	27	79	11	80	32	23	24	20	1.98
15357840--15358128	27	10.7	27	84	5	164	22	19	17	39	1.92
15357847--15358142	81	3.6	81	81	8	264	21	19	19	39	1.93
15357970--15358145	27	6.5	27	90	4	257	19	21	20	39	1.93
15361721--15361768	24	2.0	24	87	0	69	39	8	12	39	1.73
15365712--15366452	368	2.0	369	88	1	1094	33	13	19	33	1.91
15367093--15367135	22	2.0	22	86	9	61	55	0	2	41	1.12
15367091--15367138	11	4.3	12	75	15	50	54	0	2	43	1.12
15374645--15374679	17	2.1	17	94	0	61	51	5	14	28	1.65
15379618--15379642	7	3.6	7	100	0	50	28	12	0	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15385660--15385776	20	5.8	20	72	4	92	11	30	19	37	1.88
15388269--15388324	22	2.5	22	88	0	76	42	10	7	39	1.67
15390062--15390100	20	1.9	21	84	5	53	41	12	2	43	1.56
15396973--15397035	31	2.0	31	100	0	126	19	6	38	36	1.77
15403962--15404000	10	3.9	10	90	10	62	69	7	2	20	1.26
15403963--15404000	19	2.0	20	94	5	69	68	7	2	21	1.28
15403958--15404008	11	5.0	10	81	11	59	66	5	5	21	1.35
15404041--15404089	25	1.9	25	87	4	71	55	2	16	26	1.52
15405070--15405124	6	9.7	6	84	7	71	65	1	18	14	1.36
15410075--15410209	25	5.4	25	81	0	144	30	20	19	30	1.97
15412042--15412184	29	5.0	29	73	8	139	36	13	26	23	1.92
15412020--15412186	86	1.9	87	90	1	264	35	13	26	23	1.93
15414567--15414599	8	4.1	8	100	0	66	24	24	0	51	1.48
15416521--15416545	8	3.1	8	100	0	50	24	24	0	52	1.48
15418005--15418034	11	2.7	11	89	0	51	16	16	36	30	1.91
15425828--15425874	24	1.9	25	83	12	62	14	12	10	61	1.56
15433175--15433213	12	3.2	12	88	0	51	17	5	15	61	1.51
15436603--15436645	23	1.9	22	90	4	68	53	0	0	46	1.00
15436711--15436747	14	2.6	14	100	0	74	45	10	13	29	1.77
15443069--15443183	51	2.3	51	83	3	133	27	21	22	27	1.99
15446470--15446503	16	2.1	16	88	0	50	20	14	20	44	1.87
15451572--15451603	15	2.1	15	100	0	64	37	28	15	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15457196--15457954	132	5.8	132	88	1	1078	30	19	25	25	1.98
15457492--15457672	44	4.1	44	68	16	122	30	18	28	22	1.98
15465660--15465730	30	2.4	30	90	0	115	18	39	4	38	1.70
15465660--15465744	30	2.8	30	82	7	109	17	40	5	36	1.74
15472905--15472964	21	2.9	20	80	12	68	21	6	8	63	1.45
15481238--15481262	13	1.9	13	100	0	50	36	0	0	64	0.94
15482031--15482114	43	1.9	45	90	4	136	29	19	1	50	1.55
15483598--15483638	3	13.7	3	100	0	82	31	0	0	68	0.90
15488244--15488346	41	2.5	41	88	0	143	29	25	20	25	1.99
15488568--15488593	2	13.0	2	100	0	52	50	0	0	50	1.00

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