genome.fa.s5.2.7.7.80.10.50.1000.104.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  104  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)
31578995--31579059	13	5.2	13	75	10	57	24	4	0	70	1.06
31579012--31579069	24	2.4	25	80	5	75	20	10	0	68	1.18
31579001--31579067	12	5.3	13	81	10	61	22	5	0	71	1.07
31578982--31579131	14	10.8	13	67	20	72	18	6	2	73	1.16
31584054--31584084	12	2.6	12	94	0	53	9	22	0	67	1.19
31585564--31585589	13	2.0	13	100	0	52	15	15	0	69	1.20
31585541--31585689	57	2.6	57	81	4	174	30	16	7	46	1.74
31599952--31599985	14	2.5	14	95	4	61	50	35	0	14	1.44
31603371--31603598	25	9.4	25	87	2	261	20	23	17	38	1.93
31603511--31603597	22	3.8	22	82	10	86	17	26	19	36	1.94
31603935--31604099	45	3.6	45	88	0	222	24	13	24	36	1.93
31606607--31606659	24	2.2	24	82	0	61	45	15	20	18	1.85
31608292--31608325	16	2.2	16	89	5	52	26	8	14	50	1.72
31612677--31612849	39	4.4	39	83	1	213	16	28	21	32	1.95
31612675--31612849	78	2.2	78	87	2	244	16	29	21	33	1.95
31628531--31628581	26	2.0	26	92	0	84	39	25	21	13	1.90
31628760--31629007	27	9.2	27	82	6	245	20	20	18	40	1.92
31628775--31629007	81	2.9	81	83	2	299	21	19	18	40	1.92
31638663--31638694	3	10.7	3	93	0	55	0	31	0	68	0.90
31639752--31639793	21	2.0	20	86	13	59	19	9	50	21	1.75
31640318--31640350	15	2.2	15	89	10	50	57	0	0	42	0.98
31649356--31649485	55	2.4	55	98	0	251	25	26	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31658333--31658611	29	9.6	29	73	10	135	24	27	13	34	1.93
31658426--31658500	30	2.5	30	89	2	107	28	21	9	41	1.84
31658334--31658611	117	2.4	117	83	1	335	24	28	13	34	1.93
31658544--31658606	30	2.2	30	85	5	85	28	30	12	28	1.93
31658556--31658621	30	2.2	29	84	7	87	24	28	15	31	1.95
31660835--31661020	29	6.4	29	79	7	198	38	22	13	25	1.91
31660835--31661020	58	3.2	59	90	6	283	38	22	13	25	1.91
31660860--31661039	87	2.1	87	84	2	227	36	23	13	26	1.93
31665292--31665433	44	3.3	42	80	4	158	31	23	18	26	1.97
31665502--31665535	16	2.1	16	88	0	50	55	8	0	35	1.31
31668058--31668089	13	2.5	13	94	0	55	21	43	6	28	1.77
31670012--31670043	16	2.0	16	93	0	55	31	0	21	46	1.52
31670658--31670820	7	23.0	7	73	9	80	42	36	1	19	1.62
31670771--31670815	15	3.0	15	86	0	54	42	37	0	20	1.52
31670832--31670877	14	3.3	14	84	0	65	47	36	0	15	1.45
31671013--31671061	14	3.5	14	79	17	57	30	44	2	22	1.64
31671036--31671074	21	1.9	21	94	5	71	35	43	0	20	1.52
31671466--31671751	41	6.8	41	82	8	281	35	27	16	20	1.94
31671580--31671796	41	5.3	40	86	3	166	34	28	16	20	1.94
31671580--31671793	82	2.6	82	81	1	241	35	27	16	20	1.94
31676647--31676709	28	2.2	28	88	0	99	33	23	23	19	1.97
31676814--31676896	26	3.2	26	83	6	105	42	24	14	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31684539--31684698	28	5.3	34	76	19	92	29	23	24	22	1.99
31684572--31684689	28	4.2	28	92	1	193	30	24	24	20	1.99
31686271--31686321	26	2.0	26	88	0	75	37	19	17	25	1.94
31693062--31693107	24	1.9	24	82	8	58	47	13	21	17	1.81
31693307--31693356	25	2.0	25	100	0	100	52	12	4	32	1.57
31694360--31694414	27	2.0	27	92	0	92	34	5	7	52	1.52
31705999--31706083	25	3.4	25	86	3	109	31	17	20	30	1.95
31708209--31708262	16	3.4	16	89	0	81	33	1	35	29	1.69
31708241--31708350	45	2.6	43	80	9	129	33	5	29	31	1.80
31708475--31708516	15	2.7	16	82	14	52	52	2	0	45	1.13
31708523--31708709	61	3.1	60	71	14	195	48	6	2	41	1.44
31708478--31708770	120	2.4	121	93	1	491	49	4	3	42	1.39
31708594--31708645	15	3.6	15	80	12	56	53	1	0	44	1.11
31708478--31708774	59	5.0	57	68	16	183	49	4	3	42	1.39
31708711--31708993	91	3.0	93	84	6	315	48	3	2	45	1.33
31708818--31708961	47	3.1	46	65	23	113	49	3	2	45	1.31
31708786--31708993	91	2.3	91	92	0	335	46	3	2	46	1.35
31708811--31708953	44	3.2	43	68	16	119	48	2	2	46	1.28
31708836--31708974	47	3.0	47	68	17	137	49	4	2	43	1.34
31712583--31712621	19	2.1	19	95	0	69	43	10	46	0	1.37
31713433--31713484	19	2.4	22	72	24	56	65	5	25	3	1.32
31713439--31713479	19	2.2	19	95	0	73	65	4	26	2	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31717799--31717839	19	2.2	19	100	0	82	60	9	9	19	1.55
31718083--31718110	13	2.2	13	100	0	56	64	14	7	14	1.48
31718094--31718133	17	2.2	19	86	8	57	75	7	10	7	1.20
31720772--31720890	56	2.1	56	98	0	229	38	16	19	25	1.92
31727557--31727624	34	2.0	34	100	0	136	38	20	5	35	1.77
31727557--31727647	34	2.6	34	87	6	103	37	23	4	35	1.75
31728176--31728231	22	2.5	23	82	2	69	51	1	1	44	1.22
31728207--31728246	16	2.5	16	87	0	53	50	2	5	42	1.37
31728280--31728354	24	3.2	24	65	24	68	45	6	8	40	1.60
31728278--31728376	47	2.1	47	100	0	198	43	6	7	43	1.56
31728768--31728819	21	2.5	22	78	9	63	61	7	0	30	1.24
31732339--31732421	26	3.2	26	80	10	98	26	25	6	42	1.78
31739675--31739780	3	35.3	3	85	0	140	66	29	1	1	1.12
31741202--31741264	32	2.0	32	100	0	126	31	19	9	39	1.83
31745053--31745117	32	2.0	32	100	0	130	32	18	12	36	1.88
31748662--31748720	2	29.5	2	100	0	118	50	0	49	0	1.00
31749059--31749097	20	1.9	21	85	15	55	30	2	2	64	1.21
31749532--31749593	27	2.3	27	80	0	79	24	25	25	24	2.00
31749586--31749709	26	4.7	26	82	1	149	27	24	8	39	1.85
31753162--31753233	36	2.0	36	94	0	126	40	12	18	29	1.87
31756936--31756997	26	2.4	26	80	0	70	38	11	12	37	1.80
31756969--31757950	498	2.0	490	91	2	1579	30	18	17	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31758802--31758949	49	3.0	49	84	2	206	20	15	25	37	1.92
31764620--31764664	22	2.0	22	83	8	56	42	6	8	42	1.62
31766292--31766347	28	2.0	28	96	0	103	26	25	8	39	1.85
31777342--31777369	14	2.0	14	100	0	56	7	7	7	78	1.09
31781387--31781455	26	2.6	26	86	2	84	28	27	8	34	1.87
31784338--31784618	95	3.0	95	89	0	393	35	22	18	24	1.96
31797046--31797261	120	1.8	120	83	8	273	46	22	5	25	1.72
31798657--31798767	7	15.9	7	87	0	123	31	32	0	36	1.58
31812344--31812440	28	3.1	34	62	32	90	29	11	13	45	1.78
31812357--31812452	33	3.2	33	65	27	93	31	10	14	43	1.79
31814137--31814213	28	2.8	28	86	4	93	32	6	11	49	1.65
31814170--31814236	29	2.3	29	84	2	82	35	0	14	49	1.44
31819689--31819772	29	2.9	29	82	8	100	35	3	10	50	1.55
31828963--31829004	21	2.0	22	90	4	68	11	4	0	83	0.79
31834902--31835358	54	8.4	54	76	3	335	27	19	14	38	1.90
31834935--31835238	162	1.9	162	84	2	414	27	17	14	40	1.89
31834934--31835348	162	2.5	162	80	4	397	27	19	14	38	1.90
31835459--31835520	23	2.7	23	80	5	72	35	19	1	43	1.61
31835578--31835628	23	2.2	24	85	3	68	17	19	13	49	1.80
31836484--31836562	27	3.0	27	74	9	81	39	11	0	49	1.39
31838414--31838554	49	2.8	49	82	2	165	21	26	23	28	1.99
31843309--31843352	18	2.4	18	88	3	70	50	13	15	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31845853--31846021	41	4.1	41	88	3	223	19	20	29	30	1.97
31846537--31846649	7	15.9	7	70	14	52	19	0	40	39	1.52
31851643--31851848	43	4.9	41	78	12	204	21	17	31	29	1.97
31851666--31851847	84	2.1	86	83	7	228	20	18	32	29	1.96
31851624--31851866	43	5.7	43	75	10	187	23	16	30	30	1.96
31853403--31853471	34	2.0	34	97	0	129	27	10	17	44	1.80
31853981--31854071	20	4.3	20	71	17	67	67	13	14	5	1.40
31854024--31854072	20	2.5	20	90	6	73	67	16	14	2	1.33
31859617--31859685	34	2.0	34	97	0	129	27	10	17	44	1.80
31863312--31863336	11	2.3	11	100	0	50	40	28	0	32	1.57

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