genome.fa.s2.2.7.7.80.10.50.1000.12.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  12  of  206  ( 24623 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)
3569078--3569110	18	1.9	17	88	11	50	51	0	12	36	1.39
3572983--3573015	16	2.1	16	88	11	50	42	0	9	48	1.35
3577551--3577599	16	3.1	16	84	0	71	38	6	30	24	1.80
3577859--3577915	19	3.2	19	92	7	93	50	5	0	43	1.24
3577861--3577915	16	3.3	16	83	16	76	49	5	0	45	1.25
3577905--3577958	22	2.5	20	75	18	56	55	5	0	38	1.23
3577850--3578123	121	2.2	121	91	5	437	52	4	0	42	1.24
3577879--3578068	63	3.1	62	72	13	189	52	5	0	41	1.29
3577830--3578123	139	2.1	140	80	11	318	53	4	0	41	1.22
3581027--3581089	30	2.1	30	96	0	117	26	3	12	57	1.51
3582033--3582084	3	17.3	3	100	0	104	67	0	0	32	0.91
3582771--3582808	6	6.3	6	93	0	67	34	47	15	2	1.60
3584626--3584663	19	2.1	19	90	5	60	57	0	10	31	1.32
3590122--3590158	10	3.5	11	85	14	51	56	0	2	40	1.13
3591403--3591435	16	2.1	16	88	11	50	42	0	9	48	1.35
3592325--3592357	17	1.9	17	93	0	57	51	0	6	42	1.26
3596089--3596151	30	2.1	30	96	0	117	26	3	12	57	1.51
3597095--3597146	3	17.3	3	100	0	104	67	0	0	32	0.91
3597881--3597910	15	1.9	15	93	6	51	43	3	0	53	1.17
3598851--3598892	17	2.3	19	84	12	52	16	7	0	76	1.00
3602132--3602170	19	2.1	19	95	0	69	28	10	12	48	1.74
3603958--3603994	19	2.0	20	89	10	60	45	2	10	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3604346--3604376	15	2.0	16	93	6	55	41	0	0	58	0.98
3604499--3604534	17	2.1	17	89	0	54	44	0	0	55	0.99
3604653--3604699	20	2.4	21	79	13	64	25	8	4	61	1.43
3612861--3612910	25	2.0	25	100	0	100	28	24	20	28	1.99
3627548--3627664	30	3.9	30	95	1	198	26	23	6	42	1.79
3627558--3627665	15	7.2	15	67	12	78	25	22	7	44	1.79
3632319--3632442	30	4.1	30	93	1	203	25	24	6	43	1.78
3632329--3632436	15	7.2	15	67	12	78	25	22	7	44	1.79
3635220--3635264	24	1.9	23	82	13	56	28	6	2	62	1.33
3639713--3639992	41	6.8	40	88	4	362	19	22	26	31	1.98
3640583--3640626	21	2.1	21	87	4	63	36	0	15	47	1.46
3640587--3640630	20	2.1	21	91	4	72	31	0	20	47	1.50
3642709--3642879	66	2.6	65	84	4	209	40	18	28	12	1.88
3642850--3642941	21	4.4	21	87	0	76	33	16	43	6	1.73
3643158--3643498	169	2.0	170	97	0	648	29	12	20	37	1.90
3643461--3643772	43	7.3	42	77	8	263	22	18	31	27	1.97
3643481--3643772	86	3.4	86	88	0	352	23	18	31	25	1.97
3643461--3643772	129	2.4	129	82	5	362	22	18	31	27	1.97
3647527--3647573	25	1.9	24	83	12	60	31	6	2	59	1.34
3675079--3675118	20	2.0	20	85	9	55	45	0	10	45	1.37
3679593--3679630	20	1.9	20	88	0	58	60	2	0	36	1.11
3679824--3679888	17	3.8	17	75	17	55	64	0	1	33	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3680205--3680237	16	1.9	18	88	11	52	36	0	0	63	0.95
3688516--3688585	20	3.6	19	73	9	52	41	17	5	35	1.73
3688865--3688912	21	2.4	20	86	13	64	39	16	12	31	1.86
3689268--3689373	19	5.5	19	74	14	76	42	16	8	33	1.78
3689267--3689330	20	3.2	20	74	10	60	43	14	9	32	1.77
3689281--3689393	58	1.9	59	83	1	138	42	17	6	33	1.74
3700574--3700651	40	2.0	40	100	0	156	34	14	10	41	1.79
3703981--3704040	30	2.0	31	86	3	86	40	0	40	20	1.52
3704342--3704372	9	3.4	9	90	0	53	38	22	12	25	1.90
3704723--3704755	13	2.4	14	90	5	50	54	15	15	15	1.71
3710920--3711042	57	2.1	58	80	11	135	26	15	6	52	1.67
3712434--3712480	21	2.2	21	84	0	58	21	6	2	70	1.20
3712456--3712510	18	3.2	17	80	10	67	29	0	1	69	0.99
3712528--3712655	63	2.0	63	98	0	247	23	18	21	36	1.95
3712999--3713078	26	3.1	26	98	0	151	60	3	3	32	1.32
3715947--3715982	18	1.9	19	88	5	56	44	0	0	55	0.99
3718902--3718932	2	15.5	2	100	0	62	51	0	0	48	1.00
3722408--3722496	46	1.9	46	95	0	160	24	16	17	40	1.90
3724876--3724929	8	7.0	8	81	12	51	64	1	7	25	1.30
3724871--3724922	21	2.4	22	75	12	54	65	1	5	26	1.26
3727346--3727419	21	3.5	20	74	15	62	50	1	1	47	1.18
3727520--3727553	17	1.9	18	88	5	52	38	0	2	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3728753--3728854	29	3.5	29	80	11	95	38	3	1	55	1.29
3728775--3728854	28	2.9	28	83	9	92	38	3	1	56	1.25
3728807--3728854	19	2.6	18	87	6	69	39	2	2	56	1.23
3732257--3732297	3	13.7	3	100	0	82	31	0	0	68	0.90
3732846--3732891	14	3.2	14	80	19	51	43	0	0	56	0.99
3740355--3740428	32	2.3	32	97	0	139	29	6	18	44	1.76
3742064--3742127	3	21.3	3	100	0	128	67	0	0	32	0.91
3748847--3748939	31	3.1	30	69	17	77	20	18	7	53	1.68
3748861--3748983	59	2.1	58	79	11	126	26	14	7	52	1.68
3754232--3754272	3	13.7	3	100	0	82	31	0	0	68	0.90
3755258--3755291	14	2.2	16	90	10	54	44	0	0	55	0.99
3760538--3760571	17	1.9	18	88	5	52	61	0	5	32	1.20
3770307--3770342	10	3.7	10	88	7	56	55	2	0	41	1.14
3770368--3770412	21	2.1	22	87	4	65	57	4	0	37	1.19
3774693--3774746	17	3.2	17	86	2	83	25	9	0	64	1.23
3781496--3781524	6	5.0	6	91	8	51	86	0	13	0	0.58
3786649--3786700	20	2.5	21	81	9	61	40	3	7	48	1.50
3792630--3792775	37	4.0	37	91	1	233	25	21	15	36	1.93
3792739--3792953	46	4.6	46	84	9	281	27	23	13	34	1.93
3792782--3792944	52	3.2	52	84	10	216	27	24	12	34	1.92
3792835--3792939	44	2.4	44	90	4	158	27	24	12	35	1.91
3792835--3792957	44	2.8	44	78	13	144	28	24	13	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3795856--3795965	45	2.6	41	77	9	107	31	5	29	33	1.80
3796005--3796314	157	2.0	157	94	0	539	43	3	5	47	1.44
3796068--3796317	82	3.1	82	62	18	182	46	4	3	45	1.40
3799186--3799231	24	1.9	24	90	0	74	28	10	19	41	1.85
3799824--3799887	31	2.1	30	85	2	83	25	4	14	56	1.57
3799944--3799995	21	2.4	22	87	6	70	53	3	5	36	1.43
3800086--3800142	20	2.8	21	75	5	62	52	0	1	45	1.11
3800783--3800875	32	2.9	33	74	15	95	33	7	1	58	1.33
3800772--3800894	64	2.0	62	85	3	165	36	6	0	56	1.31
3800889--3800944	10	5.5	10	81	14	62	33	1	3	60	1.24
3810538--3810586	20	2.5	20	86	6	64	8	32	20	38	1.82
3815434--3815494	28	2.2	28	83	11	74	50	1	0	47	1.10
3815440--3815508	31	2.2	31	82	12	88	53	2	0	43	1.15
3819604--3819711	56	1.9	55	85	5	146	49	12	2	36	1.55
3819907--3819940	17	1.9	18	88	5	52	52	5	0	41	1.25
3828692--3828734	21	2.0	21	86	0	59	25	18	25	30	1.98
3828819--3828857	3	13.3	3	91	5	62	64	0	35	0	0.94
3830319--3830355	17	2.2	16	90	4	56	0	13	2	83	0.74
3830838--3830881	19	2.2	19	88	8	61	52	4	4	38	1.42
3831293--3831428	64	2.1	64	83	5	166	16	22	18	42	1.88
3838100--3838279	62	2.9	60	75	8	175	26	23	25	23	2.00
3838574--3838600	13	2.1	13	100	0	54	37	7	14	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3839102--3839215	58	2.0	58	92	1	194	39	12	16	31	1.86
3844711--3844765	27	2.0	27	100	0	110	10	0	18	70	1.15
3848728--3848761	2	17.0	2	100	0	68	50	0	0	50	1.00
3853203--3853239	18	2.0	19	94	5	67	27	0	5	67	1.12
3853978--3854666	112	6.3	110	80	9	735	25	16	19	38	1.92
3854031--3854666	230	2.9	215	82	8	755	24	16	19	39	1.91
3854299--3854639	118	2.9	115	82	8	424	25	15	19	39	1.90
3856122--3856300	62	2.9	62	94	0	313	51	5	15	27	1.64
3856261--3856349	47	1.9	46	88	4	135	55	2	20	22	1.55
3858524--3859065	112	4.9	109	82	5	597	29	19	15	35	1.93

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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206