genome.fa.s4.2.7.7.80.10.50.1000.51.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  51  of  198  ( 23681 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)
15272695--15272828	50	2.7	50	95	1	234	28	15	25	30	1.96
15281146--15281192	23	2.0	23	95	0	85	34	12	23	29	1.92
15290193--15290756	138	4.1	138	88	2	821	40	8	6	45	1.59
15290196--15290756	274	2.0	276	89	3	853	40	8	6	45	1.60
15307471--15307523	27	2.0	26	92	3	88	13	22	33	30	1.92
15307431--15307748	101	3.1	102	96	1	575	21	19	28	30	1.97
15313535--15313586	26	2.0	26	92	0	86	40	21	21	17	1.91
15342591--15342639	24	2.0	24	84	7	64	51	8	18	22	1.72
15343527--15343701	86	2.0	86	98	0	341	52	6	9	32	1.58
15343842--15343880	16	2.3	18	86	8	55	53	2	2	41	1.28
15344130--15344176	24	2.0	24	86	0	67	27	21	12	38	1.90
15345408--15345522	56	2.1	56	100	0	230	28	20	18	32	1.96
15349697--15349745	25	2.0	25	88	8	73	44	0	2	53	1.12
15350142--15350240	41	2.4	41	86	1	128	42	10	23	24	1.84
15353224--15353325	44	2.3	43	79	1	123	39	13	12	34	1.83
15363340--15363397	22	2.7	21	84	7	71	36	3	18	41	1.68
15373458--15373542	2	42.5	2	97	0	161	50	1	0	48	1.08
15374294--15374350	21	2.8	20	76	5	62	57	1	3	36	1.26
15374243--15374441	2	102.0	2	74	10	135	50	1	6	42	1.33
15374682--15374762	3	27.3	3	75	12	60	58	1	7	33	1.34
15374688--15374741	18	3.2	17	80	17	67	61	1	5	31	1.30
15375242--15375277	8	4.4	8	96	3	63	86	0	2	11	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15375560--15375592	2	16.5	2	100	0	66	51	48	0	0	1.00
15376388--15376488	41	2.5	41	88	3	141	34	14	20	29	1.93
15377003--15377299	89	3.4	89	73	6	264	25	22	21	29	1.99
15377507--15377547	16	2.7	15	85	7	64	31	2	21	43	1.66
15378610--15378812	59	3.4	60	85	4	243	8	23	15	52	1.71
15383342--15383389	22	2.1	23	85	11	64	66	0	8	25	1.19
15383381--15383412	2	16.0	2	100	0	64	50	0	0	50	1.00
15383810--15383887	3	26.3	3	75	12	54	57	1	7	33	1.35
15384307--15384345	8	4.9	8	100	0	78	89	0	0	10	0.48
15384306--15384366	24	2.6	22	82	5	59	85	0	6	8	0.75
15388419--15388465	21	2.2	21	85	7	60	21	10	36	31	1.88
15388456--15388518	27	2.3	27	84	10	76	28	14	28	28	1.95
15390234--15390302	31	2.2	31	87	7	95	65	0	1	33	1.02
15392305--15392460	79	2.0	79	100	0	312	37	15	22	25	1.93
15394730--15394831	3	33.7	3	85	2	123	59	0	2	36	1.19
15394869--15394938	10	6.9	9	75	18	50	75	1	1	21	0.96
15394859--15394938	20	3.9	19	75	15	63	73	1	2	22	1.02
15394907--15394933	5	5.4	5	100	0	54	81	0	0	18	0.69
15394871--15394933	21	3.0	20	72	19	58	76	0	1	22	0.88
15396137--15396173	9	4.1	9	92	0	65	45	13	10	29	1.77
15396387--15396446	30	2.0	31	83	9	79	20	33	0	46	1.51
15396563--15396600	20	1.9	20	84	10	51	21	28	5	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15397667--15398365	89	7.9	89	88	2	998	20	24	28	26	1.99
15397667--15398365	45	15.8	44	71	12	450	20	24	28	26	1.99
15398419--15398510	45	2.0	45	85	0	85	30	22	17	29	1.97
15403223--15403251	15	1.9	15	100	0	58	62	0	0	37	0.96
15403224--15403257	15	2.3	15	89	0	50	67	2	0	29	1.05
15404543--15404618	3	25.7	3	77	5	66	59	1	3	35	1.24
15404648--15404715	16	4.2	17	73	17	56	70	0	4	25	1.05
15407047--15407143	39	2.5	40	86	8	153	44	23	4	27	1.72
15415512--15415564	18	3.0	17	91	5	79	39	1	1	56	1.21
15415711--15415816	46	2.5	43	83	13	139	33	31	4	30	1.78
15415728--15415816	46	2.0	46	91	4	146	35	30	5	28	1.80
15415798--15415850	16	3.3	16	91	0	88	24	33	3	37	1.74
15418848--15419061	39	5.5	39	86	2	270	45	21	3	28	1.69
15418890--15418956	17	3.7	17	70	25	57	46	23	1	28	1.61
15418875--15419061	76	2.4	76	85	1	248	45	22	3	27	1.69
15418848--15419061	115	1.8	116	83	5	281	45	21	3	28	1.69
15421190--15421351	30	5.4	30	78	6	159	37	12	24	25	1.91
15421098--15421346	89	2.8	89	86	3	324	37	13	24	24	1.92
15421103--15421336	59	4.0	59	71	10	165	36	13	25	24	1.92
15425264--15425299	18	2.1	18	94	5	65	13	38	30	16	1.88
15431061--15431087	7	3.9	7	100	0	54	74	0	25	0	0.83
15431217--15431266	15	3.2	16	78	18	61	74	0	24	2	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15437459--15437540	32	2.6	32	82	0	101	28	3	17	51	1.62
15439990--15440039	25	2.0	25	84	0	64	40	18	14	28	1.89
15441177--15441324	46	3.2	46	80	1	163	35	21	16	27	1.94
15447776--15447835	30	2.0	30	100	0	120	23	16	30	30	1.96
15454756--15454890	45	3.0	45	89	2	184	37	23	12	25	1.90
15460521--15460578	30	1.9	30	89	3	89	46	1	20	31	1.61
15464217--15464287	28	2.5	28	79	4	81	26	16	22	33	1.96
15464322--15464422	28	3.6	28	71	14	73	23	13	22	39	1.90
15466882--15467072	50	3.7	50	78	6	168	26	20	27	25	1.99
15468244--15468303	29	2.1	29	100	0	120	26	13	13	46	1.80
15478517--15478556	15	2.8	14	88	7	62	22	2	0	75	0.93
15478971--15478997	2	13.5	2	100	0	54	51	0	0	48	1.00
15479474--15479520	16	2.8	17	87	12	62	51	2	0	46	1.13
15479484--15479520	8	4.6	8	90	9	58	54	0	0	45	1.00
15483501--15483541	2	20.5	2	94	0	73	46	0	2	51	1.14
15486304--15486682	32	11.8	32	86	1	501	31	8	17	42	1.80
15486826--15486944	43	2.8	43	82	6	145	26	16	29	27	1.97
15496549--15496710	86	1.9	86	89	0	252	30	20	20	28	1.97
15497823--15497857	15	2.4	15	90	4	54	48	0	8	42	1.33
15504233--15504315	5	16.4	5	77	13	55	15	3	2	78	1.00
15504238--15504286	21	2.3	21	82	10	55	12	2	4	81	0.91
15504284--15504330	12	3.9	12	76	17	53	23	6	0	70	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15504477--15504540	22	2.8	23	81	11	69	25	50	9	15	1.74
15512199--15512233	12	2.9	12	91	0	52	14	8	22	54	1.67
15513804--15513840	19	1.9	19	88	0	56	62	2	0	35	1.10
15513946--15513990	7	6.6	7	84	5	65	71	0	0	28	0.87
15514410--15514443	7	4.9	7	100	0	68	41	0	0	58	0.98
15514932--15514960	6	4.8	6	100	0	58	34	0	65	0	0.93
15525606--15525894	98	3.0	97	88	2	431	39	2	17	40	1.62
15526042--15526083	21	2.0	21	86	9	59	50	0	16	33	1.46
15526450--15526500	11	5.1	11	77	22	67	45	0	0	54	0.99
15533508--15533540	17	1.9	17	93	0	57	66	15	0	18	1.25
15541299--15541349	19	2.6	19	81	3	57	56	5	3	33	1.42
15542240--15542320	10	8.6	9	72	11	56	27	1	4	66	1.19
15542240--15542325	19	4.5	18	70	20	59	29	1	5	63	1.24
15542240--15542317	29	2.7	29	81	16	92	28	1	5	65	1.22
15542249--15542325	29	2.7	28	82	13	95	29	1	6	62	1.28
15542240--15542340	29	3.5	28	75	15	91	30	0	4	63	1.22
15542370--15542441	31	2.3	31	87	2	108	33	1	4	61	1.24
15542377--15542450	31	2.5	30	86	4	96	33	1	4	60	1.24
15546326--15546369	21	2.1	21	87	8	63	36	0	2	61	1.09
15546328--15546442	20	5.8	20	68	19	80	40	0	2	56	1.19
15546358--15546520	56	2.9	56	77	10	136	42	1	3	52	1.27
15546478--15546505	14	2.0	14	100	0	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15546608--15546700	45	2.1	44	92	6	152	36	25	4	33	1.76
15546682--15546753	16	4.5	16	89	0	108	27	25	6	40	1.81
15546993--15547125	28	4.7	27	72	16	83	36	0	3	58	1.21
15547671--15547706	19	1.9	18	88	5	54	41	2	0	55	1.14
15548006--15548072	32	2.1	33	83	8	84	59	13	2	23	1.48
15548393--15548447	16	3.4	17	75	12	53	63	0	0	36	0.95
15549918--15549957	21	1.9	21	85	10	55	72	10	7	10	1.28
15550969--15551459	98	5.0	98	90	1	739	35	16	16	31	1.91
15551472--15551533	29	2.1	29	90	0	97	40	16	17	25	1.90
15553635--15553711	27	2.9	27	90	3	120	16	24	38	19	1.92

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