genome.fa.s2.2.7.7.80.10.50.1000.155.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  155  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)
46950038--46950285	130	1.9	129	86	2	354	31	15	23	29	1.95
46950214--46950422	103	2.0	103	80	7	237	37	15	19	27	1.92
46954536--46954615	42	1.9	42	89	5	126	27	23	16	32	1.96
46961526--46961598	36	2.0	36	100	0	146	27	10	13	47	1.76
46978258--46978457	97	2.1	97	93	1	339	46	19	25	9	1.79
46978861--46978922	21	3.1	20	81	6	65	33	3	33	29	1.74
46978872--46978922	21	2.4	21	86	0	75	35	3	31	29	1.76
46979616--46979670	21	2.7	21	91	5	87	36	9	14	40	1.78
46979628--46979706	21	3.7	21	82	12	81	35	5	16	43	1.70
46979649--46979706	22	2.6	22	86	7	82	34	3	17	44	1.65
46980091--46980134	23	2.0	22	90	4	70	38	0	0	61	0.96
46980092--46980143	23	2.3	23	83	9	63	38	1	0	59	1.08
46985183--46985229	24	1.9	25	91	4	78	78	0	21	0	0.75
46985185--46985229	6	7.3	6	82	12	56	80	0	20	0	0.72
46986542--46986839	44	6.8	44	93	3	503	25	18	26	29	1.98
46987020--46987246	50	4.5	50	71	3	152	28	22	25	23	1.99
46986920--46987196	150	1.8	150	88	0	419	30	22	22	24	1.99
46987070--46987271	100	2.0	100	90	0	314	29	22	22	24	1.99
46986914--46987246	150	2.2	150	82	2	400	30	22	23	24	1.99
46987285--46987716	44	9.9	43	73	8	282	31	20	21	26	1.98
46987276--46987713	220	2.0	219	97	0	822	30	20	22	26	1.98
46988279--46988376	19	4.8	19	84	13	124	37	7	16	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46988280--46988376	40	2.4	41	87	6	144	38	7	15	39	1.75
46988766--46988807	15	2.9	14	83	13	50	38	0	0	61	0.96
46988775--46988820	23	2.0	23	83	8	58	39	2	0	58	1.10
46993070--46993112	19	2.5	16	82	14	50	44	0	0	55	0.99
46993077--46993114	17	2.3	16	83	16	51	42	0	0	57	0.98
46993403--46993454	27	1.9	27	84	0	68	46	5	0	48	1.26
46996855--46996948	47	2.0	47	100	0	188	36	34	10	19	1.86
46997749--46997784	19	1.9	18	88	5	54	50	8	16	25	1.73
47003021--47003205	101	1.8	102	92	3	320	22	17	28	30	1.97
47003017--47003212	51	3.9	51	83	4	245	22	17	29	30	1.97
47003127--47003207	26	3.2	26	62	28	64	22	14	29	33	1.94
47003209--47003303	45	2.1	45	94	0	163	28	18	22	30	1.97
47005249--47005313	17	3.9	16	78	9	69	20	15	47	16	1.82
47005254--47005313	16	3.7	16	78	8	59	20	15	46	18	1.84
47007183--47007261	17	4.7	17	82	1	79	21	12	46	18	1.82
47008039--47008555	54	9.6	54	75	7	361	38	12	18	30	1.89
47008039--47008555	108	4.8	109	77	5	460	38	12	18	30	1.89
47008022--47008532	269	1.9	267	83	4	661	37	13	19	30	1.89
47008672--47008754	29	2.9	29	92	0	139	44	4	34	15	1.68
47010177--47010210	3	11.0	3	87	6	50	61	0	2	35	1.11
47013947--47014103	29	5.4	29	83	3	199	35	12	28	24	1.91
47013947--47014190	58	4.2	58	79	5	260	36	13	27	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47013969--47014205	29	8.1	28	82	3	195	35	14	26	22	1.93
47018086--47018137	13	3.9	13	80	7	52	17	5	9	67	1.38
47018508--47018545	20	1.9	20	84	10	51	50	0	5	44	1.24
47018508--47018546	21	1.9	20	84	5	51	51	0	5	43	1.24
47021122--47021167	22	2.0	23	87	4	67	58	0	8	32	1.28
47021585--47021637	3	17.0	3	81	14	63	60	0	5	33	1.20
47021580--47021637	16	3.6	17	80	17	70	58	0	6	34	1.25
47022877--47023499	45	14.0	45	79	2	558	30	24	16	29	1.96
47022877--47023499	89	7.0	89	77	7	519	30	24	16	29	1.96
47022907--47023499	134	4.4	134	83	3	640	30	23	16	29	1.96
47022907--47023499	268	2.2	267	84	2	751	30	23	16	29	1.96
47024784--47024848	28	2.3	28	85	15	89	16	21	0	61	1.34
47035480--47035519	19	2.1	19	90	0	62	40	17	2	40	1.63
47046894--47046926	12	2.9	12	91	8	52	60	0	0	39	0.97
47049480--47049522	13	3.2	13	77	6	50	25	2	13	58	1.48
47052410--47052469	31	2.0	30	86	3	84	35	13	8	43	1.74
47056728--47056788	30	2.0	30	100	0	122	26	39	14	19	1.90
47061750--47061873	40	3.2	40	74	14	132	31	22	19	26	1.98
47062754--47062798	23	2.0	23	86	4	65	0	22	0	77	0.76
47064243--47064415	40	4.3	40	88	4	251	34	17	2	45	1.63
47064245--47064414	13	12.8	13	68	19	93	35	17	2	44	1.63
47066862--47067065	50	4.1	50	78	3	196	30	15	22	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47066865--47066951	25	3.5	24	70	13	77	24	17	27	31	1.97
47072151--47072194	18	2.5	17	78	10	52	40	15	2	40	1.60
47072487--47072534	19	2.5	19	80	6	53	50	8	20	20	1.74
47079085--47079172	7	11.9	7	80	12	88	22	4	0	72	1.02
47079085--47079165	4	20.5	4	72	22	57	22	3	0	74	0.98
47079262--47079306	19	2.4	19	96	0	81	20	28	24	26	1.99
47080207--47080258	4	13.2	4	81	18	65	73	1	0	25	0.94
47080829--47080863	15	2.4	15	90	4	54	48	0	8	42	1.33
47084102--47084283	43	4.3	43	85	2	224	27	28	19	24	1.98
47084102--47084283	86	2.1	85	88	1	265	27	28	19	24	1.98
47089565--47089753	73	2.5	74	82	4	236	23	25	21	29	1.99
47089663--47089975	113	2.8	114	90	0	486	26	27	21	23	1.99
47093757--47093889	61	2.2	59	81	7	162	42	3	3	51	1.32
47094437--47094487	25	2.1	25	96	3	95	41	3	15	39	1.66
47097096--47097134	19	2.1	19	90	0	60	46	12	12	28	1.79
47102397--47102527	35	3.6	35	73	11	129	19	22	22	34	1.97
47102354--47102636	75	3.8	75	84	0	343	22	20	20	36	1.95
47109139--47109237	47	2.1	47	90	0	153	19	13	22	45	1.84
47111422--47111486	34	1.9	33	85	14	89	9	16	0	73	1.07
47113426--47113534	42	2.6	41	82	5	112	17	23	17	41	1.90
47113468--47113528	21	2.9	21	69	9	52	16	31	16	36	1.91
47113468--47113566	42	2.4	42	84	0	126	16	28	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47113410--47113566	84	1.9	84	81	2	190	17	26	16	40	1.90
47114940--47114982	11	3.6	11	82	17	59	67	4	25	2	1.22
47114940--47114995	11	4.5	13	79	18	57	66	5	25	3	1.29
47114940--47114995	25	2.2	25	93	0	94	66	5	25	3	1.29
47123686--47123742	26	2.2	26	81	12	64	43	22	19	14	1.86
47126881--47126917	14	2.8	13	84	8	56	59	0	2	37	1.12
47127258--47127307	22	2.3	23	80	16	63	74	14	6	6	1.21
47127258--47127307	21	2.4	21	82	0	64	74	14	6	6	1.21
47129048--47129123	39	2.0	38	86	2	107	40	3	7	47	1.51
47129102--47129145	22	2.0	22	90	0	70	45	0	13	40	1.44
47137608--47137680	13	5.5	13	80	9	76	36	20	0	42	1.52
47137621--47137689	27	2.6	26	86	4	102	33	21	0	44	1.53
47137621--47137689	13	5.2	13	72	16	61	33	21	0	44	1.53
47137610--47137689	40	2.0	40	87	4	117	36	22	0	41	1.54
47137748--47137805	25	2.3	25	93	0	98	32	24	22	20	1.98
47144060--47144244	51	3.6	51	77	7	162	24	17	27	30	1.97
47144062--47144250	101	1.9	100	88	3	263	24	17	27	30	1.97
47151006--47151070	19	3.4	19	81	10	71	27	10	21	40	1.87
47151035--47151076	19	2.2	19	83	8	50	35	7	26	30	1.83
47160712--47160742	14	2.2	14	100	0	62	32	12	12	41	1.81
47160944--47160968	13	1.9	13	100	0	50	68	16	0	16	1.22
47163090--47163213	45	2.8	45	81	4	117	26	24	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47163234--47163342	44	2.5	44	87	3	157	31	21	18	29	1.97
47163403--47163559	51	3.1	51	66	0	134	29	26	17	26	1.97
47163587--47163737	51	3.0	51	75	1	133	28	26	16	28	1.97
47163421--47163973	169	3.3	169	90	1	874	27	26	17	29	1.97
47164005--47164239	44	5.9	37	74	18	179	29	26	19	24	1.99
47164004--47164110	34	3.0	35	86	4	153	29	27	19	23	1.98
47164042--47164239	88	2.4	83	82	9	237	28	26	19	24	1.99
47164078--47164239	44	3.7	44	88	1	236	29	25	19	25	1.99
47172595--47172645	3	16.3	3	88	8	75	64	3	0	31	1.11
47173222--47173246	5	5.0	5	100	0	50	20	0	0	80	0.72

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