genome.fa.s2.2.7.7.80.10.50.1000.163.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  163  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)
49403950--49404003	23	2.4	22	84	3	63	18	1	31	48	1.59
49404714--49404781	20	3.4	20	80	8	84	44	1	1	52	1.19
49404709--49404777	9	7.3	9	81	13	77	43	1	1	53	1.18
49404921--49404983	31	2.1	30	87	3	90	55	15	19	9	1.67
49410483--49410521	5	7.6	5	88	5	60	0	33	61	5	1.18
49410483--49410533	16	3.2	16	91	2	77	1	31	58	7	1.37
49415541--49415618	39	2.0	39	97	0	147	21	10	20	47	1.80
49421022--49421065	19	2.2	19	84	12	52	45	0	2	52	1.13
49421022--49421060	16	2.5	15	83	8	51	43	0	2	53	1.14
49423196--49423256	31	2.0	31	100	0	122	19	4	16	59	1.55
49424098--49424383	145	2.0	142	88	4	423	38	9	24	27	1.86
49426530--49426554	13	1.9	13	100	0	50	32	4	24	40	1.73
49428336--49428392	27	2.1	27	87	6	80	31	22	22	22	1.98
49428422--49428468	24	2.0	24	83	8	60	17	6	27	48	1.71
49428537--49428602	27	2.5	26	85	9	80	21	22	21	34	1.96
49428640--49428869	32	7.4	32	70	10	145	20	20	21	38	1.94
49429835--49429947	43	2.7	42	75	9	113	27	16	24	30	1.97
49434168--49434617	226	2.0	226	92	0	740	32	12	22	33	1.91
49436353--49436411	17	3.4	17	72	4	55	40	16	3	38	1.66
49438561--49438604	19	2.2	20	96	4	81	34	0	2	63	1.07
49438568--49438610	19	2.4	17	85	14	52	41	0	2	55	1.12
49438569--49438615	20	2.4	19	85	7	58	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49438639--49438697	30	2.0	29	83	12	75	37	3	1	57	1.25
49438699--49439064	183	2.0	187	84	5	481	38	5	12	43	1.65
49439519--49439552	11	3.0	12	87	12	54	32	0	0	67	0.91
49439553--49439592	18	2.2	18	86	8	55	67	7	0	25	1.16
49439675--49439737	30	2.1	30	91	5	101	57	11	3	28	1.49
49440468--49440530	14	4.6	14	68	18	51	47	0	1	50	1.10
49440672--49440706	10	3.7	9	88	11	52	65	0	2	31	1.07
49452873--49452964	37	2.5	37	81	8	116	31	21	1	45	1.59
49468849--49468905	22	2.6	22	82	0	69	17	19	26	36	1.94
49468824--49468943	60	2.0	60	88	0	177	20	19	25	35	1.96
49468872--49469068	76	2.6	76	84	4	238	19	20	26	33	1.97
49468872--49469070	38	5.2	38	77	0	191	19	20	26	33	1.96
49475390--49475431	22	1.9	22	90	0	66	14	11	35	38	1.83
49475400--49475672	38	7.2	38	79	8	279	16	20	30	32	1.95
49475400--49475671	76	3.6	76	83	5	327	16	20	30	31	1.95
49475400--49475671	114	2.4	114	86	2	368	16	20	30	31	1.95
49479779--49480027	50	4.8	50	84	4	291	20	28	23	26	1.99
49479778--49480027	100	2.4	104	87	5	346	21	28	23	26	1.99
49480122--49480152	13	2.4	13	94	0	53	54	12	0	32	1.38
49480365--49480422	30	1.9	30	89	0	89	31	24	3	41	1.71
49484417--49484506	41	2.2	41	88	7	130	22	24	2	51	1.60
49484825--49484902	39	2.0	39	100	0	156	38	17	5	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49488643--49488683	20	2.0	20	100	0	82	34	4	19	41	1.73
49488950--49488992	21	2.0	21	86	0	59	37	2	20	39	1.66
49489506--49489568	25	2.5	25	82	5	74	25	26	22	25	2.00
49491107--49491249	46	3.1	46	98	0	277	37	9	22	30	1.87
49495677--49495736	27	2.3	26	82	5	75	35	11	10	43	1.75
49504175--49504207	2	16.5	2	93	0	57	48	0	0	51	1.00
49506017--49506115	42	2.3	43	84	1	119	33	23	17	26	1.96
49507658--49507699	20	2.1	20	90	0	66	40	0	2	57	1.12
49510054--49510091	4	9.5	4	94	0	67	52	23	0	23	1.47
49510269--49510327	30	2.0	30	100	0	118	23	23	6	45	1.76
49515494--49515523	6	5.0	6	100	0	60	16	16	0	66	1.25
49534770--49534959	44	4.3	44	67	6	134	34	21	21	22	1.97
49534987--49535015	13	2.2	13	100	0	58	13	37	24	24	1.91
49539759--49539835	25	3.1	25	81	3	93	42	16	19	20	1.89
49540140--49540198	27	2.2	26	79	8	64	44	22	5	28	1.74
49540735--49540766	14	2.3	14	100	0	64	56	12	0	31	1.37
49549111--49549153	17	2.5	17	76	3	50	69	4	2	23	1.18
49550436--49550505	35	2.0	35	94	0	122	30	24	7	38	1.82
49555069--49555170	50	2.0	50	100	0	204	40	11	10	37	1.77
49558656--49558728	20	3.6	21	70	18	57	36	17	28	16	1.92
49558661--49558743	40	2.1	40	86	0	112	38	18	28	14	1.90
49558674--49558772	40	2.5	39	81	6	108	33	19	27	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49562405--49562440	4	8.8	4	87	6	54	50	0	5	44	1.25
49565748--49565853	41	2.6	41	83	3	133	36	16	26	20	1.93
49572641--49572702	28	2.2	28	85	0	79	45	1	0	53	1.10
49572641--49572714	28	2.6	28	80	2	67	47	1	0	51	1.09
49576953--49577010	28	2.0	29	83	9	75	27	0	10	62	1.28
49577846--49577894	9	5.4	9	90	0	80	44	22	8	24	1.79
49577997--49578040	18	2.4	18	92	0	70	15	2	40	40	1.60
49578460--49578521	20	3.3	19	76	12	65	24	3	8	64	1.36
49581646--49581679	11	3.1	11	95	0	59	26	8	29	35	1.87
49588705--49588821	41	2.8	42	76	10	125	33	27	18	20	1.96
49588866--49589017	64	2.3	64	83	6	153	41	15	7	34	1.77
49589041--49589077	2	18.5	2	100	0	74	48	0	0	51	1.00
49592095--49592144	25	2.0	24	88	3	73	56	2	2	40	1.22
49592108--49592154	21	2.4	21	82	10	55	57	4	0	38	1.18
49603230--49603287	19	3.0	19	84	2	71	58	5	0	36	1.20
49607567--49607619	19	2.7	21	80	16	60	39	1	3	54	1.29
49613554--49613601	17	2.8	17	100	0	96	54	12	12	20	1.70
49617616--49617673	28	2.1	28	100	0	116	32	27	15	24	1.95
49623808--49624683	432	2.0	433	96	1	1634	25	14	11	48	1.77
49628382--49628589	46	4.6	46	93	1	350	29	21	14	34	1.94
49639972--49640311	44	7.7	44	89	1	441	29	21	25	23	1.99
49639972--49640349	132	2.9	130	81	7	415	30	21	24	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49641574--49642450	432	2.0	433	97	0	1652	25	14	11	48	1.77
49643348--49643391	21	2.1	21	95	0	79	45	20	6	27	1.76
49644007--49644052	20	2.3	20	88	0	65	21	32	0	45	1.52
49644015--49644060	20	2.3	20	84	0	56	23	23	0	52	1.48
49644742--49644855	40	2.8	40	89	0	165	43	28	15	11	1.82
49645486--49645523	19	2.1	18	85	14	51	52	7	0	39	1.31
49651306--49651377	24	3.0	24	81	0	81	44	8	23	23	1.80
49651523--49651605	21	4.0	21	75	6	69	14	26	20	38	1.91
49651463--49651603	42	3.4	41	79	3	147	17	22	19	41	1.90
49659652--49659678	13	2.1	13	100	0	54	22	48	7	22	1.75
49671196--49671261	32	2.1	32	100	0	132	25	9	9	56	1.60
49671840--49671892	21	2.5	21	90	0	88	28	20	24	26	1.99
49672202--49672440	41	5.8	41	88	0	343	21	20	28	29	1.98
49672786--49672820	15	2.4	14	86	9	52	22	0	37	40	1.55
49673007--49673179	21	8.2	21	81	1	175	20	0	31	47	1.55
49673007--49673161	7	22.0	7	83	1	175	20	0	31	48	1.50
49673007--49673210	14	14.4	14	77	5	151	19	0	34	45	1.54
49673139--49673230	29	3.2	28	81	7	87	19	1	40	39	1.59
49673177--49673228	7	7.3	7	76	4	50	19	0	44	36	1.51
49673174--49673226	22	2.4	23	81	9	65	18	0	47	33	1.49
49673262--49673303	6	6.7	6	86	8	57	80	4	0	14	0.86
49673953--49674092	35	3.8	36	89	4	192	6	23	9	60	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49674809--49674842	7	4.9	7	96	0	59	0	11	29	58	1.33
49676102--49676168	26	2.6	26	97	2	127	47	10	19	22	1.79
49676355--49676427	23	3.3	23	66	11	71	45	2	4	47	1.36
49676349--49676454	43	2.5	41	86	9	142	48	4	2	44	1.38
49680209--49680416	91	2.3	91	89	0	308	45	2	4	46	1.39
49680432--49681088	120	5.5	120	96	0	1156	43	2	5	48	1.40
49680673--49680707	18	2.0	17	88	5	52	45	0	0	54	0.99
49680926--49680972	16	3.0	16	78	12	53	46	0	2	51	1.13
49681045--49681086	15	2.7	16	82	14	52	45	0	2	52	1.13
49681036--49681077	15	2.9	15	82	10	52	47	0	0	52	1.00

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