genome.fa.s2.2.7.7.80.10.50.1000.162.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  162  of  206  ( 24623 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)
49119753--49119844	46	2.0	46	91	4	152	40	30	4	25	1.75
49119757--49119855	46	2.2	44	87	7	137	41	31	6	21	1.77
49122192--49122379	23	8.2	22	72	11	110	31	4	22	40	1.73
49122170--49122363	46	4.2	46	80	4	176	31	4	23	40	1.73
49122925--49123023	16	6.4	16	73	11	62	34	24	4	37	1.74
49122896--49122991	45	2.2	44	86	5	131	38	25	4	32	1.75
49122970--49123025	16	3.5	16	92	0	94	28	26	7	37	1.83
49126194--49126231	19	2.0	20	84	5	51	31	0	15	52	1.43
49126959--49126983	13	1.9	13	100	0	50	16	16	40	28	1.89
49126972--49127034	25	2.5	25	92	0	99	20	20	25	33	1.97
49127626--49127668	20	2.2	19	88	12	61	58	4	18	18	1.56
49128539--49128596	29	2.0	30	96	3	109	44	3	12	39	1.58
49128966--49129060	42	2.3	42	92	0	154	22	25	34	17	1.96
49136777--49136813	9	4.1	9	92	0	65	29	10	13	45	1.77
49136868--49136898	9	3.4	9	90	0	53	38	22	12	25	1.90
49142108--49142156	23	2.1	23	84	0	62	59	0	2	38	1.09
49147768--49147793	2	13.0	2	100	0	52	50	0	0	50	1.00
49151139--49151185	13	3.5	13	77	5	58	57	10	23	8	1.60
49151150--49151191	14	3.1	14	72	6	50	57	11	23	7	1.59
49151136--49151191	27	2.1	27	100	0	112	55	10	26	7	1.60
49154236--49154365	50	2.6	50	75	9	129	24	24	19	31	1.98
49154774--49154803	8	3.8	8	100	0	60	50	13	10	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49155358--49155422	31	2.1	31	85	5	87	35	16	9	38	1.81
49165326--49165384	17	3.6	17	74	19	63	55	1	1	40	1.20
49167509--49167552	18	2.4	18	88	7	63	40	43	2	13	1.57
49167593--49167639	6	7.8	6	100	0	94	65	17	0	17	1.27
49167722--49167797	9	8.4	9	81	5	82	28	7	19	43	1.79
49167722--49167797	27	2.8	27	83	0	98	28	7	19	43	1.79
49168269--49168301	16	2.1	16	100	0	66	36	6	36	21	1.78
49168629--49168675	16	3.0	16	78	12	53	51	2	0	46	1.13
49168513--49168929	120	3.5	121	92	1	671	49	5	2	41	1.40
49168774--49168808	18	2.0	17	88	5	52	54	0	0	45	0.99
49168800--49168829	16	1.9	15	93	6	51	50	10	0	40	1.36
49168911--49169169	47	5.7	46	69	19	184	47	3	3	45	1.36
49168868--49169193	91	3.5	94	87	5	382	49	2	3	44	1.33
49168945--49169193	91	2.7	91	96	0	453	47	3	3	45	1.34
49169158--49169196	17	2.5	15	84	12	51	58	0	0	41	0.98
49182948--49182990	22	2.0	22	100	0	86	37	13	25	23	1.92
49183179--49183227	15	3.3	15	76	0	53	48	2	16	32	1.57
49185831--49185868	20	1.9	20	88	0	58	81	2	0	15	0.80
49188207--49188269	30	2.1	30	100	0	126	31	14	22	31	1.93
49190750--49190913	43	3.9	42	79	4	150	27	15	27	29	1.96
49190752--49190913	85	1.9	85	81	5	193	27	15	27	30	1.96
49201518--49201690	28	6.2	28	82	2	179	38	11	21	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49201532--49201803	27	10.0	27	81	6	203	33	13	23	29	1.93
49203905--49204317	31	13.3	31	83	1	477	49	10	14	25	1.75
49205857--49205923	27	2.5	26	78	7	71	34	16	31	17	1.93
49205831--49206085	121	2.1	120	86	3	352	32	17	28	21	1.96
49210409--49210465	19	3.2	19	88	11	77	43	0	0	56	0.99
49210408--49210465	10	5.6	10	84	15	66	43	0	0	56	0.99
49210409--49210465	2	32.5	2	74	25	58	43	0	0	56	0.99
49211494--49211633	45	3.1	45	82	7	178	20	17	20	42	1.90
49211611--49211652	6	6.8	6	86	2	57	16	21	16	45	1.86
49221994--49222079	42	2.0	44	82	8	106	24	25	23	26	2.00
49228883--49228912	15	2.0	15	100	0	60	53	13	6	26	1.64
49241367--49241418	16	3.2	16	86	0	68	44	3	19	32	1.69
49241982--49242109	62	2.1	62	96	0	238	26	14	11	46	1.79
49241996--49242124	62	2.1	62	86	0	177	29	13	13	43	1.82
49243793--49243874	41	2.0	41	100	0	164	34	21	7	36	1.82
49245757--49245782	11	2.4	11	100	0	52	23	0	7	69	1.14
49248175--49248241	21	3.2	21	72	16	75	47	5	10	35	1.62
49248176--49248271	42	2.3	43	96	1	176	48	6	10	34	1.62
49249943--49249967	2	12.5	2	100	0	50	48	0	0	52	1.00
49254876--49254904	2	14.5	2	100	0	58	51	0	0	48	1.00
49258638--49258752	17	6.9	17	73	11	78	17	18	29	34	1.94
49266226--49266350	45	2.8	45	77	8	130	37	20	14	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49270065--49270428	179	2.0	179	93	2	615	37	20	11	29	1.89
49271047--49271080	17	2.0	17	88	11	52	17	26	8	47	1.77
49282081--49282199	52	2.3	52	92	1	195	30	31	11	26	1.92
49289389--49289473	39	2.2	39	91	0	134	43	22	3	30	1.70
49290259--49290307	26	2.0	26	88	8	75	57	8	8	26	1.56
49297100--49297229	52	2.5	51	87	3	190	28	31	13	26	1.94
49304828--49304976	66	2.3	66	94	1	255	39	20	8	31	1.82
49306254--49306282	10	2.9	10	100	0	58	41	20	6	31	1.79
49312043--49312138	31	3.1	31	95	3	174	31	9	13	45	1.75
49313233--49313366	62	2.2	59	85	5	180	43	4	2	50	1.35
49317396--49317426	15	2.1	15	93	0	53	41	22	29	6	1.78
49319988--49320151	51	3.3	49	71	21	171	39	23	1	35	1.66
49319974--49320167	97	2.0	97	100	0	388	39	23	2	35	1.67
49320021--49320167	46	3.0	48	69	23	126	38	23	2	35	1.69
49322503--49322574	35	2.1	33	82	10	83	20	6	6	65	1.41
49334341--49335111	44	17.8	43	70	12	339	29	19	23	27	1.98
49334341--49335229	216	4.1	216	91	1	1388	29	19	23	28	1.98
49336938--49336968	9	3.4	9	90	0	53	25	12	22	38	1.90
49337022--49337058	9	4.1	9	92	0	65	45	13	10	29	1.77
49340767--49340798	2	16.0	2	100	0	64	50	0	50	0	1.00
49342018--49342088	31	2.3	31	85	7	90	54	4	2	38	1.34
49342086--49342152	27	2.4	28	82	5	82	53	4	7	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49342352--49342387	7	5.1	7	100	0	72	41	0	0	58	0.98
49342516--49342568	17	3.3	16	81	5	63	39	0	0	60	0.97
49343396--49343441	20	2.2	22	85	14	71	65	0	0	34	0.93
49346492--49346556	27	2.3	29	81	5	80	40	1	3	55	1.25
49346484--49346607	23	5.3	22	71	21	85	37	2	3	56	1.29
49346573--49346610	20	1.9	20	84	10	51	36	0	2	60	1.11
49355521--49355572	25	2.1	25	85	0	68	32	23	23	21	1.98
49355529--49355624	24	3.9	25	75	4	79	33	22	27	16	1.96
49355580--49355731	25	6.2	24	78	12	98	36	21	26	15	1.93
49355529--49355663	49	2.7	50	79	8	143	34	21	25	17	1.95
49355588--49355658	25	2.9	24	83	10	99	30	21	29	18	1.97
49355643--49355712	25	2.8	25	91	4	115	42	18	24	14	1.87
49359232--49359280	22	2.2	22	85	0	62	18	32	14	34	1.91
49360489--49360520	7	4.7	7	92	7	57	25	0	0	75	0.81
49360489--49360520	13	2.4	14	94	5	57	25	0	0	75	0.81
49361397--49361455	16	3.6	16	77	11	57	45	3	1	49	1.28
49361396--49361467	32	2.3	30	80	17	76	43	2	1	52	1.24
49361629--49361705	31	2.6	28	75	13	82	54	1	1	42	1.16
49361994--49362044	27	1.9	26	88	4	75	15	1	19	62	1.41
49362051--49362103	20	2.4	23	84	12	76	47	0	0	52	1.00
49362508--49362686	85	2.1	85	91	1	288	36	11	9	41	1.74
49370501--49370551	18	3.1	17	76	21	54	68	0	19	11	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49371043--49371077	3	12.0	3	87	6	54	65	0	31	2	1.07
49372674--49372709	16	2.2	17	90	5	56	11	52	0	36	1.37
49379207--49379244	14	2.6	15	83	8	51	65	5	5	23	1.34
49379561--49379623	27	2.4	26	80	12	67	61	3	3	31	1.27
49379688--49379730	21	2.0	21	82	8	52	48	4	11	34	1.60
49382289--49382326	20	1.9	20	84	10	51	39	0	2	57	1.12
49394267--49394704	243	1.8	243	95	0	804	30	19	23	25	1.98
49397340--49397387	24	2.0	24	84	8	62	45	0	14	39	1.45
49397747--49397893	76	2.0	74	80	2	168	36	4	15	43	1.68
49403550--49403632	37	2.2	39	89	4	125	48	0	3	48	1.19

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