genome.fa.s5.2.7.7.80.10.50.1000.137.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  137  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)
41833332--41833380	25	2.0	24	84	4	62	16	18	24	40	1.90
41834725--41834774	24	2.1	24	88	0	73	40	18	16	26	1.90
41834732--41835044	36	8.7	36	85	0	383	39	15	12	32	1.84
41834732--41835045	108	2.9	108	87	0	448	39	15	12	32	1.84
41835150--41835206	24	2.4	24	96	0	105	28	14	29	28	1.95
41836459--41836608	28	5.3	26	75	15	90	30	2	2	65	1.17
41836484--41836531	9	5.1	10	76	20	50	35	0	2	62	1.07
41836474--41836646	30	6.2	28	72	17	87	31	1	2	65	1.13
41837556--41837599	2	22.5	2	95	4	81	50	0	0	50	1.00
41845461--41845544	31	2.7	31	79	3	89	46	7	9	36	1.64
41861568--41861596	15	2.0	15	93	6	51	68	0	0	31	0.89
41868923--41869125	29	6.9	29	78	7	148	37	14	25	22	1.92
41868931--41869179	30	8.4	30	76	7	195	36	13	25	23	1.92
41879554--41879650	25	3.9	25	77	8	90	35	25	17	21	1.95
41882227--41882370	25	5.8	25	77	0	126	18	29	18	33	1.95
41882400--41882448	25	2.0	25	91	0	80	26	28	14	30	1.95
41882299--41882467	25	6.8	25	74	8	76	20	28	18	32	1.96
41882407--41882487	25	3.2	25	73	13	69	23	25	19	30	1.98
41886941--41886978	18	2.0	20	90	10	62	57	0	2	39	1.12
41886968--41887008	22	1.9	21	85	5	55	51	4	4	39	1.45
41887321--41887387	34	2.0	34	88	2	100	40	7	1	50	1.39
41891183--41891215	6	5.5	6	100	0	66	15	33	33	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41892296--41892392	47	2.1	47	98	0	185	44	7	12	36	1.70
41893259--41893331	29	2.6	28	77	12	76	75	0	16	8	1.03
41894181--41894234	26	2.1	26	100	0	108	31	18	18	31	1.95
41901071--41901187	34	3.4	34	84	0	144	30	5	16	47	1.70
41903025--41903064	18	2.2	19	91	8	66	32	0	2	65	1.06
41906153--41906203	17	3.0	17	80	5	50	54	3	5	35	1.43
41911384--41911425	14	3.2	13	77	12	50	19	2	0	78	0.86
41911466--41911534	31	2.3	30	87	2	93	42	8	0	49	1.34
41911467--41911537	29	2.5	30	82	17	89	42	9	0	47	1.36
41913843--41913895	24	2.2	25	82	3	63	26	20	7	45	1.78
41916620--41916686	31	2.2	30	81	7	80	83	2	7	5	0.89
41917120--41917172	19	2.8	18	86	11	70	83	3	13	0	0.79
41918183--41918269	44	2.0	44	81	0	102	26	18	28	26	1.98
41918340--41918659	45	7.1	45	87	3	439	28	17	25	29	1.97
41918777--41919116	50	6.8	49	71	6	164	33	21	19	25	1.97
41918785--41919115	100	3.3	100	86	0	430	33	21	19	25	1.97
41919250--41919357	44	2.4	45	90	1	164	25	22	27	24	2.00
41921155--41921224	30	2.4	29	79	6	81	44	8	0	47	1.34
41926524--41926814	21	14.0	21	69	6	153	16	20	15	47	1.83
41926526--41926795	84	3.2	84	82	2	335	16	20	15	48	1.81
41926533--41926795	42	6.3	42	81	4	280	16	19	15	48	1.81
41926515--41926795	126	2.2	126	82	3	352	16	20	14	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41927861--41927939	22	3.6	22	85	0	113	31	26	15	26	1.95
41929051--41929120	35	2.0	35	91	0	113	32	25	7	34	1.83
41933615--41933685	35	2.0	35	86	0	97	30	22	9	36	1.87
41942837--41942873	16	2.2	17	86	13	51	78	18	0	2	0.87
41946589--41946712	38	3.3	38	88	0	176	34	31	20	13	1.91
41948450--41948484	18	1.9	18	94	0	61	34	8	40	17	1.80
41954272--41954321	24	2.1	23	82	10	57	56	2	2	40	1.22
41955188--41955235	19	2.7	17	78	15	53	62	0	2	35	1.07
41955186--41955230	19	2.3	20	81	11	58	60	0	2	37	1.09
41955216--41955305	37	2.4	38	84	3	110	58	1	3	36	1.22
41955242--41955324	37	2.2	37	80	0	94	50	4	4	39	1.45
41955507--41955559	8	6.1	8	79	12	52	33	5	0	60	1.20
41955441--41955612	10	17.5	10	65	19	60	30	4	2	62	1.28
41955593--41955649	18	3.1	18	73	12	53	42	0	0	57	0.98
41955594--41955646	26	2.0	28	85	7	74	43	0	0	56	0.99
41965610--41965669	29	2.1	29	87	9	88	66	1	0	31	1.01
41965607--41965677	29	2.6	27	77	16	74	63	1	1	33	1.12
41972035--41972115	31	2.6	31	86	1	101	38	8	7	45	1.63
41974735--41974804	3	23.0	3	85	2	95	28	1	4	65	1.20
41976608--41976658	24	2.2	24	82	3	59	25	13	5	54	1.61
41976622--41976662	12	3.4	12	79	0	55	31	7	4	56	1.48
41981648--41981710	31	2.0	31	100	0	126	34	15	15	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41989406--41989440	11	3.2	11	100	0	70	51	8	8	31	1.63
41989406--41989449	22	1.9	24	90	9	74	56	6	9	27	1.55
41995959--41995992	17	2.0	17	94	0	59	61	0	2	35	1.11
41996266--41996290	6	4.2	6	100	0	50	84	0	0	16	0.63
41996644--41996726	41	2.0	41	100	0	166	20	31	26	21	1.98
42009043--42009202	27	6.0	27	81	4	171	44	22	15	18	1.86
42009043--42009175	53	2.5	53	91	2	203	44	23	15	16	1.86
42009589--42009713	28	4.5	27	83	6	151	22	22	24	31	1.99
42011360--42011399	20	2.0	21	90	5	64	67	2	22	7	1.28
42011385--42011418	9	3.4	10	88	12	52	79	0	20	0	0.73
42011365--42011418	20	2.8	20	86	8	67	75	1	20	1	0.98
42012419--42012447	13	2.2	13	100	0	58	34	17	27	20	1.95
42014572--42014610	20	1.9	20	84	5	51	51	2	15	30	1.57
42015107--42015275	86	2.0	86	98	0	329	42	26	2	28	1.68
42018334--42018422	30	3.0	29	78	4	106	32	15	17	33	1.92
42020183--42020696	256	2.0	256	95	0	929	25	24	18	31	1.98
42023480--42023508	14	2.1	14	100	0	58	65	6	0	27	1.18
42023542--42023590	22	2.2	22	92	0	80	2	14	46	36	1.56
42023542--42023591	12	4.3	12	77	10	59	2	14	48	36	1.55
42028319--42028759	27	16.4	26	83	4	452	43	21	16	18	1.88
42028319--42028759	81	5.5	80	85	2	517	43	21	16	18	1.88
42028319--42028759	134	3.3	134	82	5	516	43	21	16	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42030885--42030921	3	12.3	3	88	0	56	32	5	29	32	1.80
42034149--42034220	26	2.8	28	82	14	75	69	0	6	23	1.12
42034174--42034220	13	3.5	13	91	8	69	74	0	8	17	1.05
42034152--42034203	22	2.4	21	81	9	59	67	0	3	28	1.08
42038225--42038277	20	2.7	20	78	0	70	22	39	28	9	1.85
42039034--42039090	29	2.0	29	86	6	80	45	3	0	50	1.18
42039048--42039093	15	3.2	15	76	17	53	43	2	0	54	1.12
42042762--42042798	13	2.9	13	88	4	58	24	27	5	43	1.76
42043243--42043320	39	2.0	39	92	0	129	51	8	7	32	1.62
42051548--42051590	17	2.3	18	80	15	52	32	9	9	48	1.67
42062648--42062683	18	2.0	18	88	0	54	30	8	25	36	1.85
42071049--42071075	9	3.0	9	100	0	54	33	22	0	44	1.53
42075547--42075571	11	2.3	11	100	0	50	36	0	16	48	1.46
42087579--42087735	43	3.6	42	79	3	152	29	15	22	31	1.95
42100740--42100790	22	2.3	22	89	0	75	31	15	27	25	1.96
42100751--42100814	22	2.9	22	92	0	101	25	15	28	31	1.96
42101703--42101866	82	2.0	82	93	0	283	36	18	10	33	1.86
42102121--42102175	16	3.4	16	92	0	92	38	7	25	29	1.83
42102353--42102508	58	2.7	59	80	7	167	50	3	1	44	1.28
42102421--42102459	10	3.9	10	82	0	51	53	0	0	46	1.00
42102421--42102471	20	2.4	22	90	9	88	50	1	0	47	1.12
42102719--42102757	14	2.8	14	80	0	51	41	12	10	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42105562--42105586	12	2.1	12	100	0	50	24	36	24	16	1.94
42105747--42105850	9	11.4	9	88	6	147	39	27	10	22	1.87
42107102--42107548	110	4.2	99	77	15	283	47	8	7	35	1.63
42107061--42107540	222	2.2	218	82	8	579	48	7	6	36	1.59
42107205--42107540	110	3.1	110	83	6	398	47	8	7	36	1.62
42112419--42112460	20	2.0	22	86	9	61	26	19	30	23	1.98
42113165--42113204	19	2.0	19	85	9	53	47	5	0	47	1.24
42113817--42113851	16	2.2	16	89	0	52	48	0	0	51	1.00
42113962--42114012	24	2.0	24	81	11	57	60	0	7	31	1.25
42114821--42114854	15	2.3	15	89	0	50	50	11	2	35	1.54

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