genome.fa.s8.2.7.7.80.10.50.1000.168.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  168  of  190  ( 22705 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)
49096305--49096355	10	4.9	11	76	11	54	31	0	0	68	0.90
49096292--49096355	30	2.1	31	94	2	112	34	0	0	65	0.93
49097437--49097461	7	3.6	7	100	0	50	28	0	12	60	1.32
49098113--49098147	18	1.9	18	88	0	52	25	34	8	31	1.86
49098406--49098461	24	2.3	24	90	0	85	46	30	21	1	1.62
49098691--49099027	28	11.7	29	85	4	389	51	23	0	24	1.48
49098694--49098759	29	2.6	24	72	22	62	53	27	0	19	1.46
49098691--49099027	57	5.8	57	84	5	417	51	23	0	24	1.48
49099151--49099175	10	2.5	10	100	0	50	44	8	0	48	1.32
49102287--49102625	126	2.7	126	94	0	599	33	21	15	30	1.94
49102898--49102946	23	2.1	23	96	0	89	10	51	4	34	1.55
49103189--49103229	20	2.0	20	100	0	82	14	14	4	65	1.42
49104319--49104368	13	3.9	13	82	15	68	18	18	2	62	1.43
49104314--49104367	12	4.3	12	82	13	56	20	18	1	59	1.47
49109417--49109475	27	2.3	27	83	11	72	32	25	0	42	1.55
49109441--49109485	23	1.9	24	81	4	56	33	24	0	42	1.55
49109625--49109649	3	8.3	3	100	0	50	32	32	0	36	1.58
49109648--49109683	3	12.0	3	100	0	72	66	0	0	33	0.92
49110320--49110355	13	2.6	14	82	8	56	0	25	0	75	0.81
49110398--49110442	24	1.9	24	95	4	83	8	13	2	75	1.13
49110398--49110457	24	2.5	24	86	10	79	11	13	1	73	1.18
49110928--49110976	9	5.6	9	81	13	66	55	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49112059--49112310	134	1.9	133	95	0	459	40	13	17	29	1.87
49119544--49119585	2	21.0	2	100	0	84	50	0	0	50	1.00
49124995--49125085	47	1.9	47	86	4	130	34	5	4	56	1.43
49125392--49125443	24	2.2	24	100	0	104	13	15	15	55	1.69
49125511--49125826	109	2.9	108	89	4	494	29	17	18	34	1.94
49129357--49129428	11	6.4	11	78	15	76	83	0	16	0	0.65
49129357--49129434	14	5.8	14	73	19	60	80	0	19	0	0.71
49129357--49129428	23	3.1	23	80	9	85	83	0	16	0	0.65
49130678--49130902	45	5.0	45	76	8	235	28	27	23	21	1.99
49130669--49130891	44	5.0	44	76	10	238	28	25	23	22	1.99
49130669--49130902	89	2.6	89	91	0	378	29	26	23	21	1.99
49130934--49131281	44	8.0	42	71	16	174	29	18	24	27	1.98
49130935--49131221	132	2.2	132	95	0	511	28	19	24	28	1.98
49131284--49131428	50	2.9	50	69	0	128	29	20	22	27	1.98
49131283--49131476	100	1.9	100	88	2	291	29	21	22	26	1.99
49131484--49131911	44	9.9	44	71	8	220	29	20	21	27	1.98
49131484--49131858	129	2.9	127	88	3	534	29	21	22	27	1.99
49131486--49131823	85	4.0	84	71	10	256	28	21	23	27	1.99
49133422--49133497	30	2.5	31	82	6	93	43	7	1	47	1.40
49133515--49133605	47	1.9	47	86	4	130	34	5	4	56	1.43
49134012--49134325	109	2.9	107	90	2	486	30	17	19	33	1.95
49134913--49134973	32	1.9	32	83	12	81	44	4	1	49	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49136054--49136113	29	2.1	29	84	6	77	41	1	5	51	1.33
49138312--49138371	29	2.1	29	81	6	68	51	0	3	45	1.17
49142537--49142634	50	2.0	50	97	0	187	42	19	5	32	1.73
49144366--49144418	22	2.4	22	87	0	70	37	18	30	13	1.89
49144366--49144429	22	2.9	22	83	4	67	37	20	28	14	1.91
49147384--49147427	11	4.0	11	80	11	54	27	11	0	61	1.30
49147382--49147427	22	2.0	23	87	4	67	28	10	0	60	1.30
49149538--49149576	20	2.0	20	100	0	78	41	0	23	35	1.55
49152931--49152964	15	2.3	15	94	0	59	0	20	0	79	0.73
49153699--49153731	15	2.2	15	100	0	66	51	6	6	36	1.51
49158702--49158835	30	4.5	30	70	7	92	33	14	3	48	1.61
49161215--49161255	2	21.5	2	90	9	68	51	0	0	48	1.00
49161887--49161911	2	12.5	2	100	0	50	48	0	0	52	1.00
49162517--49162542	13	2.0	13	100	0	52	0	7	0	92	0.39
49174587--49174626	9	4.4	9	90	0	62	42	22	7	27	1.80
49184127--49184167	20	2.0	20	86	9	57	29	0	0	70	0.87
49184127--49184175	18	2.6	18	84	15	55	32	0	0	67	0.91
49185346--49185478	40	3.3	40	81	6	162	30	18	25	25	1.98
49185529--49185656	41	3.1	41	80	11	156	21	21	27	30	1.98
49185835--49185953	14	8.4	14	75	7	78	17	1	31	49	1.57
49185893--49185953	7	8.6	7	83	3	77	18	0	31	50	1.47
49185893--49186026	7	18.6	7	73	14	67	22	0	31	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49185893--49186026	14	9.3	14	72	12	74	22	0	31	46	1.52
49185986--49186026	8	5.4	8	85	2	50	24	0	29	46	1.53
49186289--49186319	14	2.2	14	94	0	53	35	0	29	35	1.58
49186950--49187017	19	3.3	19	74	21	73	23	23	5	47	1.73
49189713--49189749	18	2.1	18	100	0	74	43	0	5	51	1.24
49190577--49190633	27	2.2	26	81	9	62	26	8	1	63	1.34
49190820--49191115	43	6.9	43	89	1	409	20	17	34	26	1.95
49192429--49193028	114	5.3	113	86	2	808	22	23	24	30	1.99
49193627--49193879	92	2.8	89	88	6	368	26	1	28	43	1.66
49193862--49193928	7	9.4	7	83	15	50	5	0	49	44	1.27
49193862--49193922	14	4.2	14	87	4	77	4	0	49	45	1.23
49193862--49193922	21	2.8	21	87	5	77	4	0	49	45	1.23
49193942--49193980	18	2.2	18	90	4	62	35	7	20	35	1.81
49194289--49194333	21	2.2	20	88	11	65	80	0	6	13	0.91
49198941--49199069	66	2.0	66	90	3	206	42	17	24	15	1.88
49198941--49199105	66	2.5	66	85	2	179	41	18	25	13	1.88
49199136--49199193	21	2.8	21	81	0	71	36	10	44	8	1.69
49199564--49199688	43	2.9	43	78	5	119	23	17	28	30	1.97
49201604--49201638	2	17.5	2	93	0	61	51	0	0	48	1.00
49201665--49201729	31	2.3	27	80	15	76	49	9	3	38	1.51
49208749--49208940	42	4.6	42	83	3	217	47	16	19	16	1.82
49208752--49208918	21	8.0	21	68	0	109	47	17	19	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49210082--49210114	7	4.7	7	100	0	66	72	0	0	27	0.85
49217477--49217506	2	15.0	2	100	0	60	50	50	0	0	1.00
49230963--49230997	18	1.9	18	94	0	61	34	0	0	65	0.93
49234333--49234382	20	2.7	18	84	6	64	52	4	0	44	1.20
49238890--49238931	22	1.9	22	85	9	59	30	2	2	64	1.19
49240755--49240904	32	4.7	32	83	0	147	32	10	15	42	1.80
49247442--49247486	23	2.0	23	86	0	63	46	4	8	40	1.55
49257391--49257416	5	5.2	5	100	0	52	38	19	19	23	1.93
49257365--49257416	26	2.0	26	81	7	61	34	15	26	23	1.94
49258332--49258368	9	4.1	9	92	0	65	29	10	13	45	1.77
49258421--49258451	9	3.4	9	90	0	53	38	22	12	25	1.90
49258680--49258740	22	2.7	22	89	2	86	49	0	1	49	1.10
49258714--49258755	16	2.6	16	96	0	75	47	0	7	45	1.30
49258744--49258953	68	3.1	68	95	1	370	40	4	9	45	1.58
49258828--49258855	9	3.1	9	100	0	56	32	0	10	57	1.33
49258896--49258923	9	3.1	9	100	0	56	32	0	10	57	1.33
49258994--49259029	16	2.2	16	100	0	72	25	0	36	38	1.56
49259010--49259100	45	2.0	45	85	2	121	27	6	28	37	1.82
49262825--49263173	171	2.0	171	98	0	680	39	14	12	33	1.83
49263175--49263237	17	3.5	17	69	12	54	34	3	12	49	1.57
49263172--49263246	37	2.0	37	94	0	114	36	4	14	45	1.64
49263245--49263275	9	3.4	9	95	0	53	25	9	22	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49265365--49265414	3	17.0	3	80	12	59	32	4	0	64	1.12
49266765--49266797	16	2.0	17	88	5	50	48	0	3	48	1.17
49268174--49268224	24	2.1	24	85	0	66	50	7	3	37	1.50
49272570--49272621	24	2.2	24	85	0	68	50	7	3	38	1.50
49277085--49277136	26	2.0	27	88	7	81	53	7	0	38	1.30
49277129--49277259	52	2.6	51	82	9	146	50	2	5	41	1.37
49279238--49279277	2	20.0	2	100	0	80	50	0	0	50	1.00
49280427--49280460	14	2.5	14	90	4	52	11	8	44	35	1.72
49284723--49284761	19	2.0	20	90	9	64	46	0	0	53	1.00
49284931--49284978	13	3.7	13	77	0	60	35	25	6	33	1.81

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