genome.fa.s5.2.7.7.80.10.50.1000.181.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  181  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)
55325995--55326158	5	34.6	5	75	12	59	65	0	32	1	1.00
55326035--55326172	46	3.0	44	80	12	172	68	0	30	1	0.99
55325987--55326182	41	4.7	41	80	14	199	65	0	33	1	0.99
55326855--55326879	8	3.1	8	100	0	50	88	0	0	12	0.53
55331929--55331966	18	2.1	18	90	0	58	10	44	7	36	1.68
55332830--55332855	3	8.7	3	100	0	52	69	30	0	0	0.89
55333082--55333154	27	2.7	27	80	4	85	16	32	26	24	1.96
55333819--55333869	10	5.3	9	80	13	57	56	0	1	41	1.10
55333885--55333935	23	2.3	23	82	3	68	49	3	0	47	1.20
55333886--55333935	11	4.5	11	75	5	55	50	4	0	46	1.20
55334703--55334749	13	3.4	14	85	8	69	76	0	0	23	0.78
55334718--55334767	21	2.3	22	83	13	59	68	6	0	26	1.13
55334924--55334962	2	19.5	2	100	0	78	51	0	0	48	1.00
55335793--55335830	3	12.7	3	100	0	76	68	0	0	31	0.90
55340035--55340097	23	2.8	23	82	2	83	44	4	6	44	1.50
55340035--55340105	23	3.1	23	81	4	72	45	4	5	45	1.46
55340124--55340162	19	2.2	18	86	9	53	74	2	12	10	1.17
55344382--55344419	20	1.9	20	88	0	58	28	26	7	36	1.84
55351688--55351841	37	4.1	37	80	2	157	36	19	16	27	1.93
55355666--55355807	62	2.3	63	78	1	151	23	29	23	23	1.99
55370387--55370486	49	2.0	49	100	0	200	22	18	25	35	1.96
55373542--55374520	494	2.0	492	86	2	1376	33	15	15	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55376738--55376795	18	3.2	19	78	7	66	65	1	3	29	1.19
55376868--55376903	16	2.2	16	90	5	54	25	2	0	72	0.98
55376902--55376938	18	2.1	18	94	0	65	35	0	5	59	1.20
55384222--55384262	20	2.1	19	86	4	55	39	19	0	41	1.52
55386257--55386349	34	2.7	34	88	6	100	19	6	1	73	1.11
55386290--55386377	6	13.5	6	78	15	70	14	5	1	78	0.99
55386280--55386378	34	2.9	34	91	4	148	16	6	1	76	1.03
55394415--55394594	50	3.7	50	83	5	233	41	21	25	12	1.87
55394415--55394558	46	3.0	46	88	4	198	43	21	22	12	1.86
55395815--55395935	43	2.8	43	84	5	145	26	19	23	29	1.98
55395951--55396296	179	1.9	179	85	1	469	32	17	20	28	1.96
55400654--55400691	5	7.4	5	88	5	58	60	0	0	39	0.97
55411639--55411681	2	21.5	2	100	0	86	48	0	0	51	1.00
55412074--55412101	9	3.1	9	100	0	56	35	10	21	32	1.88
55412522--55412597	20	4.1	18	73	19	59	23	27	0	48	1.51
55412683--55412763	17	4.6	17	69	20	60	37	3	2	56	1.30
55413189--55413245	5	11.2	5	80	10	53	21	24	15	38	1.92
55413828--55413874	3	15.7	3	95	0	85	63	0	2	34	1.06
55418519--55418572	16	3.4	16	73	14	58	31	14	3	50	1.61
55428972--55429903	44	20.5	44	75	8	713	29	20	17	32	1.95
55428972--55429903	133	6.8	133	75	10	730	29	20	17	32	1.95
55428972--55429903	89	10.2	89	74	9	554	29	20	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55438691--55438723	17	1.9	17	93	0	57	57	9	0	33	1.30
55447813--55447892	17	4.9	16	69	11	56	52	0	0	47	1.00
55449746--55449777	2	16.0	2	100	0	64	50	0	0	50	1.00
55454734--55454772	13	2.8	14	80	11	53	61	12	12	12	1.57
55459032--55459084	20	2.7	20	88	5	81	37	13	20	28	1.90
55462471--55462535	27	2.4	28	94	2	114	40	10	1	47	1.48
55462947--55463012	19	3.5	19	79	4	89	37	10	1	50	1.47
55463391--55463455	26	2.4	27	82	10	71	46	0	10	43	1.38
55465457--55465493	19	2.0	18	89	5	56	62	10	5	21	1.48
55470007--55470044	21	2.0	20	85	15	53	47	18	2	31	1.62
55470782--55470862	28	2.9	28	87	1	101	48	19	11	20	1.79
55470791--55470870	27	2.9	27	83	5	81	46	20	11	22	1.82
55472428--55472473	23	2.1	22	92	8	76	30	6	4	58	1.43
55472907--55472948	19	2.2	20	82	4	50	30	7	11	50	1.66
55477591--55477653	11	5.8	11	72	23	53	66	0	0	33	0.92
55478103--55478147	23	2.0	23	91	8	74	33	8	17	40	1.81
55492132--55492222	30	3.0	30	85	4	121	35	19	14	30	1.92
55492748--55492789	21	2.1	19	86	8	57	50	9	9	30	1.67
55494694--55494924	82	2.8	80	83	5	275	38	16	22	22	1.92
55498379--55498427	24	2.0	24	100	0	98	24	8	32	34	1.85
55503696--55503766	5	14.0	5	75	19	67	38	0	0	61	0.96
55503723--55503762	19	2.1	19	100	0	80	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55511435--55511495	31	2.0	31	83	0	77	39	11	4	44	1.62
55511619--55511675	29	1.9	30	85	3	80	52	8	3	35	1.50
55512536--55512576	15	2.7	15	79	20	50	41	2	7	48	1.44
55513218--55513244	3	9.0	3	100	0	54	66	0	0	33	0.92
55521478--55521600	25	4.9	25	74	11	74	34	20	24	21	1.97
55527579--55527742	82	2.0	82	100	0	328	23	8	28	40	1.83
55529414--55529441	2	14.0	2	100	0	56	50	0	0	50	1.00
55531885--55531923	4	9.8	4	82	0	51	66	2	25	5	1.25
55532668--55532701	11	3.0	11	83	8	50	29	0	0	70	0.87
55533653--55533681	13	2.1	14	93	6	51	72	13	0	13	1.13
55535198--55535232	16	2.1	17	94	5	63	37	2	5	54	1.39
55543250--55543298	18	2.7	17	78	12	53	34	20	4	40	1.71
55544237--55544273	17	2.1	18	90	5	58	10	37	32	18	1.86
55559348--55559536	51	3.7	51	83	6	231	24	14	27	32	1.95
55559350--55559536	102	1.8	102	87	2	277	24	14	27	33	1.94
55559404--55559570	51	3.3	50	79	5	160	24	15	28	31	1.96
55561877--55562019	39	3.7	39	91	0	223	47	19	2	30	1.64
55578674--55578733	28	2.1	30	87	6	88	36	13	25	25	1.92
55580318--55580382	3	21.7	3	100	0	130	33	0	0	66	0.92
55584073--55584115	22	2.0	22	95	0	77	44	11	4	39	1.62
55585394--55585433	19	2.1	19	95	0	71	27	10	25	37	1.88
55587813--55588369	274	2.0	274	88	0	828	27	15	27	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55596100--55596164	30	2.2	30	86	13	91	41	6	24	27	1.78
55601778--55601820	22	2.0	22	95	0	77	44	11	4	39	1.62
55604978--55605009	3	10.7	3	100	0	64	34	0	0	65	0.93
55606913--55606948	18	2.0	18	94	0	63	58	22	0	19	1.40
55608589--55608773	101	1.8	102	91	3	311	23	18	27	30	1.97
55608588--55608771	51	3.7	49	81	5	208	23	18	27	30	1.98
55608695--55608775	26	3.2	26	64	22	62	22	16	28	33	1.95
55608591--55608781	102	1.9	100	90	3	276	23	18	28	29	1.98
55608777--55608861	46	1.9	43	85	7	116	23	16	27	32	1.96
55608999--55609030	16	2.0	16	93	0	55	59	0	15	25	1.36
55612952--55613209	91	2.8	91	95	0	464	46	3	2	46	1.33
55613129--55613164	18	2.1	17	89	5	54	41	0	2	55	1.14
55613246--55613305	16	3.4	16	75	20	66	45	0	8	46	1.33
55613246--55613325	37	2.2	37	95	2	144	46	0	6	47	1.27
55613321--55613362	15	2.7	16	82	14	52	45	0	2	52	1.13
55613312--55613353	15	2.9	15	82	10	52	47	0	0	52	1.00
55613576--55613640	16	4.1	16	93	0	112	21	33	6	38	1.78
55624918--55624971	28	2.0	28	85	7	76	59	0	5	35	1.21
55626133--55626201	28	2.5	27	83	4	75	30	1	18	49	1.57
55626230--55626297	29	2.4	28	82	2	82	32	5	17	44	1.73
55629847--55629893	22	2.1	22	88	11	69	46	2	21	29	1.63
55631660--55631854	51	3.8	51	81	7	225	26	14	26	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55631664--55631855	102	1.9	102	86	2	278	26	14	26	32	1.95
55631663--55631884	51	4.4	50	77	5	187	26	13	27	31	1.94
55634150--55634292	39	3.7	39	91	0	223	47	19	2	30	1.64
55650531--55650590	28	2.1	30	87	6	88	36	13	25	25	1.92
55652176--55652219	3	14.7	3	100	0	88	34	0	0	65	0.93
55655846--55655888	22	2.0	22	95	0	77	44	11	4	39	1.62
55657149--55657197	19	2.9	17	75	24	50	24	12	20	42	1.86
55657167--55657206	19	2.1	19	100	0	80	25	10	25	40	1.86
55659610--55660138	274	1.9	274	90	0	833	28	15	28	27	1.96
55667872--55667936	30	2.2	30	89	8	98	40	6	26	27	1.80

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