genome.fa.s5.2.7.7.80.10.50.1000.112.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  112  of  208  ( 24913 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)
33815747--33815897	10	16.8	9	67	17	64	64	1	1	31	1.13
33815760--33815807	19	2.5	20	80	13	55	64	2	2	31	1.16
33815773--33815887	28	3.8	29	72	13	90	63	0	1	33	1.11
33815862--33815905	20	2.2	21	84	12	65	61	2	0	36	1.09
33818832--33818874	23	1.9	22	86	13	61	58	0	0	41	0.98
33818852--33818914	28	2.2	28	77	5	65	50	4	3	41	1.39
33818894--33818938	22	2.1	22	91	4	74	51	6	4	37	1.49
33819266--33819439	90	2.0	84	85	9	235	40	14	9	34	1.79
33824391--33824421	2	15.5	2	100	0	62	51	0	0	48	1.00
33824551--33824660	41	2.7	41	92	1	184	20	30	21	27	1.98
33838792--33839156	78	4.7	77	76	9	260	23	23	13	40	1.89
33838869--33839075	113	1.8	115	82	4	274	24	24	12	38	1.90
33838873--33839165	39	7.6	39	75	9	199	22	24	12	40	1.89
33839139--33839375	54	4.4	54	84	4	264	22	21	17	37	1.93
33839134--33839375	108	2.2	109	83	2	292	22	21	17	38	1.93
33839356--33839570	39	5.5	39	78	2	171	19	22	17	40	1.92
33839367--33839571	78	2.6	78	79	3	232	19	23	17	40	1.92
33839549--33839787	54	4.4	54	78	3	266	27	20	13	38	1.90
33839549--33839787	107	2.2	108	80	2	266	27	20	13	38	1.90
33843021--33843139	43	2.7	43	77	8	116	25	26	21	26	1.99
33843115--33843497	44	8.7	44	90	1	507	21	27	22	28	1.99
33855148--33855202	25	2.2	25	74	3	58	63	7	1	27	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33855249--33855296	21	2.2	22	85	7	62	79	2	10	8	1.02
33856521--33856671	71	2.1	71	85	0	203	31	14	13	40	1.85
33857705--33857766	32	1.9	32	83	6	81	29	8	24	38	1.84
33857929--33857960	16	1.9	17	93	6	57	75	0	0	25	0.81
33857926--33857959	18	1.9	17	94	5	59	73	0	0	26	0.83
33865669--33865711	21	2.0	21	90	0	68	13	27	18	39	1.89
33872990--33873046	21	2.8	20	86	5	87	15	31	15	36	1.90
33876174--33876245	37	1.9	38	85	2	101	31	19	16	31	1.94
33876174--33876278	37	2.8	36	79	12	97	31	19	16	33	1.93
33888000--33888077	39	2.0	39	94	0	138	23	12	2	61	1.43
33921335--33921392	30	1.9	31	82	10	75	43	5	5	46	1.48
33923924--33923983	25	2.4	26	81	15	72	35	0	13	51	1.41
33927146--33927273	25	5.2	24	77	11	116	23	21	20	34	1.97
33927146--33927293	49	3.0	49	85	3	190	25	21	19	33	1.97
33931781--33931883	43	2.4	43	88	0	161	29	17	19	33	1.95
33931703--33931902	43	4.7	42	74	7	120	28	16	23	32	1.96
33939280--33939481	43	4.7	42	80	5	183	25	17	26	31	1.97
33939282--33939481	86	2.3	85	78	8	208	25	17	26	31	1.97
33943726--33943920	60	3.0	61	80	17	248	21	17	10	50	1.76
33943786--33943920	73	1.9	73	95	1	245	21	17	10	51	1.75
33956454--33956498	20	2.2	20	88	0	63	31	4	8	55	1.51
33973617--33973662	10	4.9	9	92	7	74	56	21	0	21	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33973617--33973662	19	2.4	19	92	7	76	56	21	0	21	1.42
33973746--33973838	19	5.1	19	73	12	86	30	10	11	47	1.74
33973727--33973848	54	2.3	54	91	0	199	32	10	13	42	1.79
33973941--33973977	10	3.9	9	89	10	56	21	0	21	56	1.42
33973941--33973977	19	1.9	19	94	0	65	21	0	21	56	1.42
33974166--33974237	24	3.1	24	67	25	64	43	12	13	30	1.82
33978893--33978921	13	2.3	13	94	5	51	41	13	17	27	1.87
33983999--33984045	24	2.0	24	84	16	62	51	17	0	31	1.46
33984791--33984821	13	2.5	12	94	5	53	54	0	0	45	0.99
33997390--33997457	34	2.0	34	97	0	127	29	16	14	39	1.88
33999514--33999656	76	1.9	77	86	2	207	40	18	4	37	1.70
33999709--33999757	2	25.0	2	89	4	73	46	4	0	48	1.20
33999703--33999757	19	2.9	19	89	2	67	43	5	1	49	1.36
34002188--34002264	33	2.3	32	80	10	84	31	18	22	28	1.97
34002083--34002312	105	2.2	105	80	6	258	30	16	25	26	1.97
34007764--34008288	126	4.2	126	85	3	705	27	17	17	37	1.92
34007764--34008288	253	2.1	252	87	2	757	27	17	17	37	1.92
34008390--34008501	34	3.4	34	80	7	117	43	16	0	38	1.55
34008439--34008501	30	2.1	31	82	5	76	44	15	1	38	1.57
34008373--34008511	34	4.4	30	75	14	111	45	13	0	40	1.49
34009165--34009228	10	6.3	10	75	14	51	65	3	3	28	1.23
34009196--34009233	10	3.9	10	89	3	60	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)
34012748--34012814	9	7.4	9	81	6	57	41	17	8	31	1.81
34012937--34012970	5	6.8	5	100	0	68	0	0	58	41	0.98
34019566--34019600	18	2.0	17	88	5	52	31	0	5	62	1.18
34021589--34021621	18	1.9	17	88	11	50	54	0	0	45	0.99
34021836--34021868	5	6.6	5	100	0	66	60	0	0	39	0.97
34022033--34022066	17	2.1	16	88	5	50	58	0	5	35	1.22
34022279--34022354	17	4.6	18	77	11	65	47	3	0	48	1.20
34022278--34022324	21	2.3	20	85	10	60	42	4	0	53	1.20
34023159--34023219	25	2.5	24	81	10	61	55	8	3	32	1.45
34031583--34031644	28	2.2	28	80	5	72	33	1	1	62	1.14
34044059--34044248	44	4.3	44	73	3	166	30	18	24	26	1.98
34044083--34044291	88	2.4	88	91	1	339	31	18	21	29	1.96
34044135--34044282	44	3.4	44	74	5	156	31	17	20	29	1.96
34044171--34044577	219	1.9	219	92	0	688	31	19	19	29	1.96
34044909--34044955	22	2.1	23	84	4	60	76	4	6	12	1.12
34046179--34046231	3	17.7	3	76	0	52	32	1	5	60	1.31
34050352--34050409	25	2.3	26	82	14	77	62	5	3	29	1.33
34051113--34051155	4	10.5	4	85	14	61	76	0	2	20	0.89
34051402--34051441	17	2.4	17	100	0	80	10	25	47	17	1.78
34060527--34060614	40	2.2	41	83	6	108	32	7	18	40	1.79
34070989--34071038	16	3.1	16	81	16	59	30	4	2	64	1.23
34073881--34073974	44	2.1	43	86	3	125	56	4	4	35	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34074083--34074342	130	2.0	128	85	4	353	42	12	13	31	1.82
34084517--34085050	196	2.8	196	93	3	908	33	14	11	40	1.82
34087258--34087282	5	5.0	5	100	0	50	80	0	20	0	0.72
34089680--34089716	17	2.1	18	90	5	58	27	21	0	51	1.48
34090197--34090447	45	5.3	45	83	11	313	40	20	19	18	1.91
34090376--34090408	6	5.5	6	100	0	66	48	15	18	18	1.81
34090331--34090447	57	2.1	57	95	0	207	42	19	19	17	1.89
34094314--34094409	49	1.9	51	85	12	137	34	27	12	26	1.92
34098088--34098128	22	1.9	22	85	5	57	56	0	4	39	1.21
34101183--34101248	5	13.6	5	76	17	68	21	3	16	59	1.51
34101198--34101252	19	2.9	19	100	0	110	20	5	14	60	1.54
34109124--34109197	27	2.8	27	77	4	71	39	21	20	18	1.93
34110546--34110608	21	3.2	20	74	24	55	42	19	1	36	1.61
34112023--34112066	23	1.9	22	82	17	54	38	22	0	38	1.55
34112205--34112385	50	3.6	50	84	4	265	30	29	16	23	1.96
34112207--34112388	101	1.8	101	97	0	346	30	29	17	23	1.97
34117154--34117194	17	2.4	17	88	8	57	24	26	2	46	1.65
34149101--34149156	29	1.9	29	85	7	78	60	14	0	25	1.34
34152426--34152456	9	3.4	9	100	0	62	45	12	0	41	1.42
34153091--34153158	20	3.7	20	73	18	74	35	17	2	44	1.64
34157409--34157434	3	8.7	3	100	0	52	65	0	0	34	0.93
34158937--34158976	17	2.3	18	87	12	57	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34158967--34159004	20	2.0	20	89	5	60	36	0	5	57	1.21
34158983--34159020	18	2.1	18	85	9	51	39	0	2	57	1.12
34160800--34160871	33	2.2	32	83	13	87	0	25	2	72	0.98
34165169--34165208	21	1.9	21	89	0	62	10	22	37	30	1.87
34165465--34165507	18	2.4	18	88	0	59	44	9	27	18	1.80
34167353--34167405	22	2.4	21	90	9	88	49	3	24	22	1.66
34169358--34169428	31	2.3	30	71	9	72	30	7	14	47	1.70
34170937--34171013	38	2.0	38	82	9	95	49	2	1	46	1.23
34171587--34171635	22	2.3	21	86	10	64	46	0	6	46	1.27
34171593--34171648	22	2.5	23	76	5	60	46	1	5	46	1.36

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   207   208