genome.fa.s5.2.7.7.80.10.50.1000.98.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  98  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)
29368254--29368492	120	2.0	120	95	0	433	40	10	8	40	1.70
29367978--29368386	92	4.4	92	96	0	746	38	11	10	38	1.76
29370639--29370688	9	5.6	9	90	0	82	36	20	32	12	1.89
29371761--29371804	9	5.1	9	83	10	65	56	9	0	34	1.31
29371772--29371807	16	2.2	16	95	0	63	55	8	0	36	1.30
29371877--29371918	16	2.6	16	92	0	66	42	7	0	50	1.30
29371892--29371947	23	2.5	23	82	2	69	44	1	0	53	1.11
29374810--29376177	683	2.0	683	89	2	2077	33	16	21	28	1.95
29382169--29382214	21	2.3	20	78	14	51	30	6	17	45	1.73
29383712--29383754	20	2.2	19	84	12	52	55	11	16	16	1.68
29383712--29383754	19	2.2	19	84	12	52	55	11	16	16	1.68
29384129--29384231	20	4.7	20	70	20	71	42	2	4	49	1.39
29385123--29385149	14	1.9	14	100	0	54	7	11	0	81	0.87
29385102--29385144	19	2.2	19	87	4	59	13	9	0	76	1.01
29386365--29386525	83	1.9	83	82	2	198	26	16	19	38	1.92
29387608--29387751	72	2.0	72	95	0	261	39	14	5	40	1.69
29389883--29390116	50	4.6	50	81	4	211	28	21	27	23	1.99
29396613--29396663	18	2.8	18	75	0	66	13	43	3	39	1.63
29399635--29399722	33	2.7	33	77	11	92	45	19	9	26	1.80
29399697--29399773	14	5.0	15	72	20	61	41	18	7	32	1.79
29399713--29399752	20	2.0	20	95	0	71	47	15	10	27	1.77
29403130--29403155	11	2.4	11	100	0	52	7	38	38	15	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29414503--29414557	28	2.0	28	88	0	83	29	16	14	40	1.88
29415419--29415458	21	1.9	21	84	0	53	52	22	5	20	1.65
29415447--29415594	68	2.2	68	92	3	248	39	14	14	31	1.87
29415757--29415824	35	1.9	35	100	0	136	38	7	13	41	1.72
29437223--29437338	25	4.6	25	74	15	105	26	27	20	25	1.99
29437223--29437338	50	2.3	50	82	2	135	26	27	20	25	1.99
29442956--29442990	16	2.2	16	94	0	61	25	0	34	40	1.56
29443215--29443256	15	2.9	15	82	10	52	52	0	0	47	1.00
29443515--29443567	27	2.1	27	82	10	67	43	0	0	56	0.99
29445874--29445955	25	3.3	25	78	11	96	25	26	20	26	1.99
29445876--29445994	50	2.4	50	84	5	143	26	23	21	28	1.99
29447750--29447811	20	3.2	20	69	17	67	37	16	3	43	1.64
29447740--29447816	38	2.0	38	97	0	145	36	15	3	44	1.65
29451578--29451757	43	4.2	43	73	4	150	35	19	18	26	1.95
29451578--29451890	86	3.7	86	81	5	319	36	18	17	26	1.94
29451616--29451821	43	4.8	42	75	11	159	36	19	18	25	1.94
29451702--29451842	43	3.3	42	74	15	137	36	19	16	27	1.93
29456953--29457022	34	2.1	34	97	0	131	21	0	28	50	1.49
29458690--29458725	18	2.0	18	94	0	63	36	0	0	63	0.94
29460176--29460259	42	2.0	42	100	0	168	26	23	23	26	2.00
29460858--29460907	25	2.0	25	100	0	100	40	16	12	32	1.84
29460935--29461164	126	1.8	126	91	0	379	29	19	15	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29464529--29464627	35	2.8	35	78	0	117	41	19	25	14	1.88
29464621--29464709	35	2.5	35	81	3	90	31	15	33	19	1.93
29465063--29465119	18	3.2	17	78	7	53	42	19	15	22	1.89
29469051--29469101	23	2.2	23	89	6	77	43	19	9	27	1.82
29475733--29475814	35	2.3	35	79	4	94	32	23	26	17	1.96
29480874--29480951	9	8.6	9	78	14	56	61	1	0	37	1.04
29480882--29480921	18	2.2	18	90	4	62	65	0	0	35	0.93
29480899--29481134	19	12.8	18	68	20	109	61	3	1	33	1.23
29480926--29481029	9	11.9	8	71	19	66	64	3	0	30	1.18
29481003--29481063	21	3.0	20	79	13	63	57	1	1	39	1.18
29480893--29481135	10	26.6	9	69	18	112	61	3	1	33	1.22
29481846--29481910	29	2.2	29	83	5	78	30	1	4	63	1.24
29481869--29481910	10	4.3	10	81	6	50	23	2	4	69	1.20
29481925--29481998	9	8.3	9	79	11	64	40	1	1	56	1.16
29481969--29482013	10	4.5	10	83	8	56	40	0	0	60	0.97
29489002--29489070	30	2.3	30	100	0	138	33	23	17	26	1.96
29489175--29489210	18	2.0	18	100	0	72	44	0	0	55	0.99
29492257--29492298	4	10.5	4	100	0	84	23	0	26	50	1.50
29496967--29497020	27	2.0	27	96	0	99	37	9	18	35	1.83
29513714--29513850	50	2.7	51	82	6	163	27	23	26	22	1.99
29515159--29515211	26	2.0	26	96	0	97	26	32	18	22	1.97
29517122--29517160	19	2.1	19	95	0	69	35	10	20	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29522267--29522328	28	2.2	27	78	18	65	17	1	37	43	1.59
29528326--29528350	6	4.2	6	100	0	50	80	0	0	20	0.72
29528405--29528453	20	2.5	19	77	9	53	71	4	4	20	1.19
29535092--29535122	3	10.3	3	100	0	62	67	0	32	0	0.91
29539743--29539880	71	1.9	72	85	1	188	31	14	10	43	1.80
29539815--29540395	89	6.7	89	80	8	472	35	12	10	42	1.77
29539815--29540289	178	2.7	175	82	7	556	35	12	10	41	1.78
29540175--29540572	84	4.8	83	79	11	385	34	11	10	43	1.75
29540313--29540551	74	3.1	73	77	16	277	35	10	9	44	1.71
29540391--29540651	82	3.1	81	81	8	233	32	11	10	45	1.74
29543870--29543929	30	2.0	30	86	3	84	40	0	40	20	1.52
29544142--29544178	18	2.1	18	89	0	56	32	5	10	51	1.60
29545241--29545280	20	2.0	20	90	0	62	32	7	10	50	1.64
29545278--29545321	23	2.0	23	82	8	56	20	20	6	52	1.69
29547973--29548116	22	6.5	22	90	0	207	25	26	14	33	1.94
29550226--29550399	40	4.3	40	85	1	197	20	29	16	33	1.95
29550241--29550403	80	2.0	80	86	0	227	19	28	17	34	1.94
29550326--29550389	20	3.2	19	73	8	65	23	31	15	29	1.95
29550333--29550400	20	3.4	20	77	0	73	23	35	14	26	1.94
29553813--29553885	25	2.9	25	81	0	83	30	20	19	30	1.97
29554775--29554826	20	2.7	20	72	16	56	28	9	1	59	1.40
29556810--29556842	16	2.1	16	94	0	57	36	6	12	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29560826--29561012	40	4.7	40	80	2	198	20	31	15	32	1.94
29560866--29560931	20	3.3	20	66	8	53	16	33	16	33	1.92
29560866--29561018	78	1.9	78	82	3	191	22	30	14	33	1.93
29577547--29577611	21	3.0	21	75	16	62	49	0	1	49	1.10
29577559--29577604	22	2.0	24	91	8	78	52	0	2	45	1.13
29579751--29579782	16	2.0	16	100	0	64	18	6	12	62	1.50
29579752--29579792	16	2.7	15	88	11	57	19	7	12	60	1.54
29587201--29587257	27	2.1	27	100	0	114	36	15	17	29	1.91
29601129--29601158	14	2.1	14	93	0	51	26	6	20	46	1.75
29604887--29604951	21	3.2	21	63	20	57	18	16	15	49	1.80
29604879--29604954	39	1.9	39	100	0	152	18	18	14	48	1.81
29604879--29604969	39	2.4	38	92	5	148	18	17	14	49	1.80
29608789--29608842	20	2.7	20	82	2	63	29	25	16	27	1.97
29608787--29608842	21	2.7	21	80	2	69	28	25	17	28	1.98
29612719--29612790	37	1.9	37	94	0	126	12	15	31	40	1.84
29612731--29612809	37	2.1	37	83	0	95	13	15	29	41	1.85
29613930--29613983	19	2.8	19	83	8	65	25	5	5	62	1.39
29614334--29614430	27	3.6	27	80	12	92	29	24	16	28	1.97
29614386--29614584	26	7.4	27	78	12	126	28	25	17	28	1.97
29614363--29614593	56	4.3	53	79	10	213	27	25	16	30	1.97
29614491--29614593	28	3.7	28	85	7	138	25	28	18	28	1.98
29617079--29617112	17	2.0	17	94	0	59	32	11	2	52	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29617080--29617121	17	2.4	17	88	4	57	33	16	2	47	1.60
29618414--29618627	35	5.9	34	68	16	115	33	15	25	25	1.95
29618367--29618582	114	1.9	113	92	2	362	32	16	25	25	1.96
29619428--29619505	39	2.0	39	94	0	138	51	20	3	24	1.64
29621798--29621833	14	2.6	14	95	0	63	47	5	5	41	1.50
29625154--29625178	12	2.1	12	100	0	50	44	8	0	48	1.32
29627524--29627564	20	2.0	20	95	0	73	73	9	7	9	1.26
29629863--29629903	18	2.3	18	80	12	50	24	0	2	73	0.96
29632981--29633037	28	2.0	28	90	6	89	56	0	5	38	1.22
29633996--29634038	21	2.0	22	86	13	63	44	0	13	41	1.44

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