genome.fa.s3.2.7.7.80.10.50.1000.83.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  83  of  150  ( 17918 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)
25626019--25626073	26	2.1	26	86	6	76	34	20	20	25	1.96
25626035--25626093	27	2.2	26	81	3	64	35	22	20	22	1.96
25626228--25626284	25	2.2	26	84	9	73	43	19	12	24	1.85
25626306--25626552	27	9.2	27	83	4	243	19	15	21	43	1.87
25631431--25631461	12	2.6	12	94	0	53	3	25	41	29	1.71
25632171--25632493	40	8.0	40	81	1	340	34	14	29	20	1.93
25638259--25638307	20	2.3	21	80	16	57	40	20	2	36	1.64
25647096--25647164	27	2.6	26	79	6	75	20	24	15	39	1.92
25647118--25647244	27	4.7	27	78	8	125	24	17	17	40	1.90
25651920--25652075	27	5.8	27	82	0	179	23	19	19	37	1.94
25663286--25663326	20	2.0	20	100	0	82	21	39	14	24	1.91
25670696--25670724	15	1.9	15	100	0	58	34	27	6	31	1.83
25671874--25671923	24	2.0	25	88	3	75	36	2	40	22	1.65
25672994--25673062	27	2.5	28	86	6	106	47	15	17	18	1.82
25687524--25687578	28	2.0	28	82	10	69	58	0	7	34	1.26
25687577--25687618	12	3.1	14	83	13	52	71	9	7	11	1.31
25689089--25697234	132	61.6	131	88	1	11253	28	23	18	30	1.98
25690888--25690987	43	2.3	44	78	1	103	25	22	20	33	1.97
25691555--25691646	43	2.1	44	83	2	114	26	20	20	32	1.97
25689150--25697182	44	182.1	44	62	15	681	28	23	18	30	1.98
25698449--25698491	6	6.5	6	82	17	50	13	20	0	65	1.27
25698447--25698488	13	3.1	13	86	6	57	16	23	0	59	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25704190--25704243	22	2.5	21	74	14	56	70	0	20	9	1.14
25704196--25704244	23	2.2	21	82	7	53	73	0	18	8	1.07
25707267--25707306	19	2.0	20	85	4	55	17	32	10	40	1.83
25709761--25710030	135	2.0	135	95	0	486	35	22	14	26	1.93
25714392--25714423	5	6.4	5	92	0	55	43	0	0	56	0.99
25714764--25714789	12	2.2	12	100	0	52	30	15	19	34	1.93
25719057--25719172	50	2.3	50	83	2	135	29	25	25	19	1.99
25726635--25726775	50	2.8	51	81	3	160	27	21	27	23	1.99
25735981--25736013	15	2.2	15	100	0	66	60	21	0	18	1.36
25740701--25740741	22	1.9	21	90	5	64	48	17	2	31	1.60
25746183--25746258	38	2.0	38	97	0	143	26	22	10	40	1.86
25749853--25750053	43	4.7	43	93	0	330	34	23	14	26	1.94
25754745--25754851	50	2.1	50	81	6	128	28	20	29	20	1.98
25755141--25755179	20	2.0	20	90	10	62	56	5	23	15	1.59
25755339--25755377	20	2.0	20	94	0	69	58	2	23	15	1.49
25755073--25755465	198	2.0	197	95	1	707	41	6	18	33	1.76
25765210--25765247	17	2.3	17	86	4	51	34	21	0	44	1.52
25765281--25765320	5	8.0	5	94	0	62	55	0	5	40	1.22
25766128--25766179	26	2.0	25	81	7	59	63	9	7	19	1.48
25769355--25769395	17	2.4	17	100	0	82	26	41	17	14	1.88
25769840--25769998	25	6.4	25	80	4	160	28	22	19	29	1.98
25784404--25784543	50	2.8	51	83	3	176	28	15	23	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25784849--25784911	31	2.1	28	88	8	90	22	4	15	57	1.57
25787468--25787515	21	2.3	21	92	0	78	35	6	8	50	1.58
25794285--25794507	50	4.5	50	84	4	288	21	29	21	26	1.99
25796339--25796418	41	2.0	41	97	0	151	36	18	12	32	1.89
25799562--25799850	50	5.7	50	80	4	134	25	26	20	27	1.99
25799611--25799848	50	4.6	50	79	7	185	24	28	21	26	1.99
25799624--25799850	100	2.2	100	78	6	222	24	27	21	26	1.99
25812495--25812601	53	2.0	53	96	0	196	35	17	20	26	1.95
25820314--25820364	25	2.0	25	88	7	77	33	23	11	31	1.91
25820330--25820377	25	1.9	25	86	0	69	41	20	8	29	1.81
25830351--25830391	21	2.0	21	85	0	55	65	2	24	7	1.30
25845054--25845078	13	1.9	13	100	0	50	32	8	12	48	1.69
25846688--25846836	50	2.9	51	78	7	178	30	23	16	30	1.96
25854262--25854307	22	2.1	22	84	15	60	41	4	0	54	1.20
25854273--25854305	16	2.1	16	88	11	50	42	3	0	54	1.15
25869486--25869735	30	8.4	30	71	10	129	39	13	24	22	1.90
25869515--25869588	29	2.5	31	82	6	91	45	12	24	17	1.82
25869627--25869703	29	2.6	30	85	4	111	44	12	25	16	1.84
25869486--25869735	119	2.1	119	84	0	329	39	13	24	22	1.90
25896189--25896248	22	2.7	22	89	0	93	20	31	20	28	1.97
25901831--25901872	18	2.3	18	80	8	50	4	28	0	66	1.12
25906606--25906644	10	4.0	10	90	3	62	69	10	7	12	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25921373--25921433	18	3.3	18	68	4	59	26	4	8	60	1.45
25921373--25921443	22	3.5	22	71	25	84	26	5	7	60	1.45
25921370--25921443	37	2.0	37	97	0	139	25	5	6	62	1.42
25924084--25924121	20	1.9	19	85	15	51	13	18	28	39	1.88
25930802--25931656	430	2.0	431	92	0	1444	21	20	22	36	1.95
25947002--25947134	28	4.8	28	86	0	167	26	24	13	35	1.93
25952032--25952058	14	1.9	14	100	0	54	33	22	14	29	1.94
25952631--25952722	45	2.0	46	95	2	168	41	19	18	20	1.91
25957676--25957722	22	2.2	22	84	3	60	21	2	2	74	1.03
25961438--25961476	20	2.0	20	90	10	62	15	23	5	56	1.59
25961427--25961477	12	4.2	12	78	9	50	17	21	3	56	1.57
25961679--25961920	50	4.7	51	80	9	219	24	28	20	26	1.99
25991347--25991386	21	1.9	21	84	0	53	27	7	35	30	1.84
26002308--26002345	19	2.0	20	94	5	69	18	34	10	36	1.85
26002310--26002355	20	2.3	19	85	7	56	23	34	10	30	1.89
26006114--26006231	41	2.9	41	87	0	164	16	22	27	33	1.95
26009977--26010120	40	3.6	41	78	6	161	11	32	20	36	1.88
26009978--26010118	20	7.1	19	71	12	95	10	33	20	35	1.87
26011537--26011800	69	3.8	69	81	4	291	36	23	23	17	1.95
26016162--26016188	14	1.9	14	100	0	54	29	14	22	33	1.94
26020783--26020830	21	2.3	20	82	13	53	37	0	4	58	1.18
26021220--26021326	25	4.4	25	81	11	134	37	2	8	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26021220--26021341	25	5.0	24	79	13	119	37	2	9	50	1.47
26021824--26022011	90	2.1	88	82	8	229	36	21	9	32	1.86
26022020--26022078	9	6.4	9	75	14	50	69	1	3	25	1.13
26022022--26022080	27	2.2	26	82	11	75	66	1	3	28	1.18
26022041--26022079	17	2.3	16	83	12	51	69	0	2	28	1.02
26022288--26022313	13	2.0	13	100	0	52	23	7	0	69	1.14
26022364--26022414	19	2.7	19	75	0	57	37	3	0	58	1.16
26022341--26022414	38	1.9	39	83	8	98	33	4	0	62	1.14
26036739--26036805	36	2.0	33	82	11	82	14	23	4	56	1.57
26065811--26065869	25	2.4	25	100	0	118	40	8	22	28	1.83
26065811--26065883	25	3.0	24	90	5	87	39	6	20	32	1.79
26067553--26067598	22	2.1	22	100	0	92	41	17	4	36	1.69
26069052--26069094	22	2.0	21	86	4	59	58	6	13	20	1.59
26074446--26074493	20	2.3	21	75	3	53	50	10	14	25	1.74
26075372--26075402	11	2.9	11	95	4	55	77	0	16	6	0.97
26075372--26075414	11	3.9	10	80	19	50	76	0	18	4	0.95
26076393--26076623	38	6.1	38	84	4	286	17	19	25	37	1.93
26080264--26080312	20	2.5	20	83	9	64	24	10	16	48	1.76
26081592--26081631	21	1.9	21	84	0	53	65	0	7	27	1.20
26081598--26081637	21	1.9	21	84	0	53	62	2	7	27	1.35
26082167--26082217	23	2.2	23	92	0	84	41	17	9	31	1.82
26085189--26085232	20	2.2	20	100	0	88	63	0	4	31	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26085209--26085336	41	3.1	41	92	3	213	64	0	3	32	1.09
26085172--26085273	31	3.3	30	82	9	134	60	0	2	36	1.12
26096739--26096773	9	4.1	9	85	14	56	31	0	11	57	1.34
26096736--26096774	16	2.4	16	95	0	69	33	0	10	56	1.33
26098715--26098764	24	2.0	25	85	11	68	64	2	0	34	1.05
26098715--26098762	25	1.9	24	87	8	69	62	2	0	35	1.07
26105090--26105155	12	4.8	13	72	20	55	75	1	19	3	1.01
26105082--26105135	24	2.3	23	87	9	74	77	1	20	0	0.86
26105083--26105133	6	8.5	6	77	14	52	78	1	19	0	0.85
26105089--26105138	15	3.3	15	76	18	59	78	2	20	0	0.86

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