genome.fa.s3.2.7.7.80.10.50.1000.133.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  133  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)
40009776--40010086	33	8.8	33	69	21	166	21	18	27	32	1.97
40009809--40009944	42	3.5	41	77	17	171	22	17	27	32	1.96
40009772--40009944	75	2.3	75	95	0	310	21	17	28	32	1.96
40009848--40010046	102	2.0	102	92	0	335	21	17	28	32	1.96
40009746--40010081	177	1.9	177	93	0	573	21	18	28	31	1.97
40010726--40010765	20	2.0	20	100	0	80	30	15	25	30	1.95
40015098--40015218	43	2.9	42	83	2	145	29	14	26	28	1.95
40015751--40015787	15	2.5	15	95	0	65	18	8	18	54	1.68
40017470--40017711	50	4.8	50	91	0	367	20	31	22	24	1.98
40017806--40017835	13	2.3	13	94	0	51	50	13	3	33	1.58
40025830--40025908	35	2.4	33	83	10	92	27	1	7	63	1.29
40025917--40026050	10	13.9	9	71	13	81	59	1	4	34	1.26
40025917--40026041	19	6.4	19	73	17	69	59	1	4	35	1.26
40026004--40026050	21	2.4	19	85	7	58	65	0	4	29	1.11
40026388--40026434	19	2.5	18	83	16	60	55	0	8	36	1.31
40026488--40026559	31	2.4	30	84	6	92	55	11	4	29	1.53
40029266--40029297	15	2.1	16	88	11	50	62	0	31	6	1.20
40032896--40032924	13	2.3	13	94	5	51	55	0	0	44	0.99
40033220--40033267	25	2.0	24	83	4	60	16	10	2	70	1.24
40033520--40033566	23	2.0	24	83	4	60	68	6	6	19	1.34
40034472--40034518	19	2.5	18	80	16	51	72	4	0	23	1.02
40034453--40034512	10	6.0	10	75	14	52	68	5	0	26	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40034906--40034970	3	21.7	3	100	0	130	33	0	0	66	0.92
40035562--40035588	14	1.9	14	100	0	54	51	11	7	29	1.64
40037529--40037562	18	1.9	18	88	5	52	29	2	5	61	1.34
40040867--40040904	20	2.0	20	89	5	60	47	7	2	42	1.46
40050954--40050978	3	8.3	3	100	0	50	68	0	32	0	0.90
40052577--40052710	6	22.5	6	66	10	51	61	8	1	27	1.34
40052577--40052678	48	2.1	48	81	3	116	59	10	1	27	1.41
40061536--40061587	21	2.4	21	78	9	61	21	19	25	34	1.96
40067987--40068199	111	1.9	111	83	1	275	34	12	11	42	1.78
40068844--40068868	7	3.6	7	100	0	50	0	12	12	76	1.04
40072219--40072244	5	5.2	5	100	0	52	80	0	19	0	0.71
40072102--40072393	158	1.8	160	86	4	421	47	11	12	28	1.76
40073114--40073168	22	2.4	23	84	6	67	47	3	1	47	1.30
40075239--40075273	16	2.1	17	89	5	54	45	11	20	22	1.82
40077754--40077794	17	2.4	17	91	0	64	46	4	9	39	1.58
40078241--40078315	37	2.1	36	87	2	105	52	1	20	26	1.55
40078831--40078884	23	2.2	25	84	12	69	18	9	22	50	1.75
40079326--40079433	52	2.1	51	91	5	173	31	8	22	37	1.84
40081183--40081268	28	3.1	27	81	1	100	34	22	13	29	1.93
40088180--40088220	19	2.2	18	86	4	55	41	0	9	48	1.36
40090132--40090187	28	2.0	28	92	0	94	62	1	12	23	1.39
40096897--40096945	18	2.5	20	83	9	66	24	0	6	69	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40096898--40096951	14	3.9	13	80	17	56	22	0	5	72	1.05
40096897--40096955	23	2.6	25	80	19	67	23	0	6	69	1.12
40099006--40099056	20	2.5	20	87	0	66	21	35	15	27	1.94
40099022--40099085	20	3.2	20	86	2	83	14	37	17	31	1.89
40103786--40103844	29	2.0	29	93	0	100	52	6	6	33	1.54
40105181--40105270	30	3.0	30	80	3	92	31	16	16	35	1.92
40106498--40106522	12	2.1	12	100	0	50	24	36	24	16	1.94
40106683--40106768	9	9.6	9	89	0	127	39	25	10	24	1.87
40106683--40106769	27	3.2	27	96	0	156	40	25	10	24	1.86
40107893--40108112	45	4.9	45	82	2	212	32	22	15	30	1.95
40108125--40108225	55	1.9	53	82	8	125	26	27	16	28	1.97
40111253--40111325	29	2.4	30	81	4	76	49	6	12	31	1.67
40113111--40113160	3	16.7	3	83	8	66	32	4	0	64	1.12
40113107--40113160	21	2.5	22	88	5	76	31	3	0	64	1.11
40113208--40113278	26	2.7	26	75	12	74	32	4	11	52	1.56
40114716--40114752	19	1.9	19	100	0	74	37	0	0	62	0.96
40114717--40114759	19	2.2	19	91	4	68	37	0	2	60	1.10
40117270--40117319	9	5.3	9	79	9	55	56	2	4	38	1.30
40118943--40118970	2	14.0	2	100	0	56	50	0	0	50	1.00
40120340--40120371	7	4.6	7	100	0	64	56	15	0	28	1.40
40128085--40128142	9	6.4	9	91	0	98	41	24	10	24	1.86
40128085--40128142	27	2.1	27	100	0	116	41	24	10	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40128182--40128210	6	4.8	6	100	0	58	17	0	17	65	1.27
40128251--40128294	18	2.4	18	85	7	54	15	2	40	40	1.60
40128597--40128999	27	14.9	27	82	0	421	44	19	18	16	1.86
40129371--40129473	28	3.7	28	88	2	145	26	22	25	26	2.00
40130909--40130949	21	2.0	21	85	0	55	19	41	14	24	1.89
40131146--40131217	2	36.5	2	97	2	137	50	0	0	50	1.00
40131474--40131711	23	10.2	23	76	2	206	40	17	13	28	1.87
40131491--40131721	46	5.0	47	89	1	313	41	16	13	29	1.86
40131756--40131797	2	21.0	2	85	0	57	52	0	2	45	1.13
40131756--40131796	16	2.6	16	92	0	73	53	0	2	43	1.13
40131817--40132445	311	2.0	311	98	0	1204	40	17	8	34	1.80
40132456--40132572	44	2.7	44	78	11	132	29	27	17	25	1.98
40132883--40132911	15	1.9	15	100	0	58	55	20	0	24	1.44
40139596--40139620	9	2.8	9	100	0	50	56	8	0	36	1.29
40140060--40140133	11	7.5	10	72	23	59	54	0	2	43	1.14
40140089--40140120	16	2.0	16	93	0	55	59	0	0	40	0.97
40140059--40140160	28	3.6	28	83	11	118	57	0	2	39	1.14
40140071--40140178	38	2.8	38	86	8	132	58	0	2	38	1.13
40164864--40164894	3	10.3	3	100	0	62	32	0	67	0	0.91
40178767--40178795	2	14.5	2	100	0	58	51	0	0	48	1.00
40180852--40180909	29	2.0	30	82	3	73	51	6	3	37	1.46
40181672--40181708	6	6.2	6	90	0	56	2	2	81	13	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40181677--40181718	18	2.3	18	84	12	50	4	0	78	16	0.91
40181806--40181858	24	2.3	23	75	18	56	37	0	3	58	1.16
40184051--40184158	42	2.6	42	82	2	128	17	22	18	41	1.90
40191257--40191313	25	2.3	24	84	3	69	50	0	0	49	1.00
40191289--40191327	16	2.4	16	84	12	53	48	2	0	48	1.15
40191378--40191417	20	2.1	19	86	13	55	42	0	5	52	1.23
40192643--40192701	30	2.0	30	96	0	109	25	1	15	57	1.47
40192826--40192856	11	2.8	11	90	0	53	67	0	0	32	0.91
40192826--40192860	11	3.1	11	91	4	52	65	0	0	34	0.93
40200446--40200496	20	2.5	20	87	6	68	45	17	1	35	1.60
40203275--40203322	18	2.7	18	83	9	62	16	4	14	64	1.43
40205314--40205351	20	1.9	20	88	0	58	28	7	13	50	1.69
40205299--40205364	34	1.9	34	87	0	96	33	7	12	46	1.69
40205969--40206016	2	25.0	2	91	8	82	52	0	0	47	1.00
40206155--40206198	21	2.1	21	100	0	88	34	34	13	18	1.90
40209705--40209746	7	6.1	7	88	5	68	11	47	0	40	1.40
40209708--40209747	13	3.0	13	85	7	62	10	50	0	40	1.36
40213954--40214000	24	2.0	24	82	0	58	57	6	6	29	1.49
40215552--40215590	17	2.4	16	84	16	53	30	0	2	66	1.05
40229881--40230014	40	3.4	39	76	9	139	32	27	16	23	1.96
40230941--40231004	22	3.0	22	82	15	73	28	6	0	65	1.16
40230940--40230991	14	3.9	14	80	9	56	25	7	0	67	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40230941--40231000	4	14.0	4	74	19	50	28	5	0	66	1.12
40230972--40231011	21	2.0	21	85	9	57	37	5	0	57	1.21
40234266--40234318	27	2.0	27	84	0	70	58	15	0	26	1.37
40234588--40234637	16	3.1	16	80	13	57	62	0	0	38	0.96
40234994--40235176	22	8.9	20	68	18	90	32	0	12	55	1.37
40235130--40235430	49	6.2	49	90	0	471	31	0	12	54	1.41
40235130--40235518	27	16.1	25	74	21	334	32	0	12	53	1.43
40234994--40235443	19	25.2	19	66	23	187	32	0	12	54	1.40
40235338--40235547	48	4.6	46	78	14	179	32	0	14	52	1.46
40235534--40235574	21	1.9	22	90	5	66	39	0	4	56	1.21

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