genome.fa.s5.2.7.7.80.10.50.1000.167.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  167  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)
50901602--50901631	11	2.6	11	94	5	51	60	0	0	40	0.97
50901578--50901661	38	2.2	36	81	12	98	61	0	0	38	0.96
50901963--50902010	9	5.2	9	77	5	51	25	41	2	31	1.67
50910241--50910337	49	2.0	49	85	0	131	22	16	29	30	1.96
50913901--50913944	17	2.5	18	81	3	54	70	11	11	6	1.33
50933386--50933433	25	1.9	25	86	0	69	35	27	12	25	1.92
50934373--50934433	30	2.1	29	85	11	81	57	14	11	16	1.65
50935440--50935652	39	5.5	39	82	3	225	27	13	24	34	1.93
50943787--50944155	184	2.0	184	90	1	578	31	13	17	37	1.88
50945050--50945098	23	2.1	25	85	11	68	30	2	20	46	1.62
50949303--50949351	18	2.6	18	84	15	55	14	2	6	77	1.05
50959643--50959697	25	2.2	25	93	0	92	21	29	29	20	1.98
50961564--50961600	9	4.1	9	86	13	58	45	10	10	32	1.74
50961813--50961872	30	2.0	31	86	3	86	20	40	0	40	1.52
50961961--50961991	16	1.9	16	93	0	53	25	29	0	45	1.54
50978008--50978063	13	4.5	13	75	20	66	46	12	0	41	1.42
50979847--50979872	13	2.0	13	100	0	52	38	0	7	53	1.30
50981662--50981775	23	5.0	23	81	0	129	43	21	20	14	1.87
50981662--50981775	46	2.5	46	85	0	165	43	21	20	14	1.87
50983340--50983530	50	3.8	50	88	0	249	20	30	23	25	1.98
50990122--50990247	50	2.5	50	85	0	162	19	33	23	23	1.97
50990446--50990837	50	7.8	50	89	0	543	21	30	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50989884--50990610	363	2.0	363	95	0	1294	25	25	18	31	1.97
50994089--50994127	18	2.2	18	100	0	78	28	5	38	28	1.78
50994480--50994511	3	10.7	3	93	0	55	68	0	31	0	0.90
51003916--51004026	41	2.7	41	87	0	159	18	30	16	34	1.93
51015262--51015311	25	2.0	25	100	0	100	20	20	44	16	1.87
51028095--51028497	201	2.0	202	96	0	736	38	14	6	40	1.72
51031433--51032273	418	2.0	421	93	2	1456	36	14	12	36	1.85
51041087--51041148	22	2.8	23	85	11	76	30	3	6	59	1.38
51044365--51044488	41	3.0	41	78	11	128	21	21	29	27	1.99
51057933--51058032	41	2.5	41	86	1	130	40	13	24	23	1.89
51059243--51059275	2	16.5	2	93	0	57	48	0	3	48	1.17
51066161--51066260	41	2.5	41	86	1	130	39	13	24	24	1.90
51076462--51076531	34	1.9	38	86	11	103	7	17	2	72	1.19
51077427--51077487	30	2.1	29	81	9	70	63	1	4	29	1.24
51082332--51082377	18	2.5	19	82	10	60	67	8	0	23	1.18
51082453--51082514	30	2.1	30	93	0	106	58	12	3	25	1.50
51083048--51083082	18	1.9	18	88	0	52	60	0	11	28	1.32
51089219--51089323	28	3.8	28	83	5	133	40	15	22	21	1.91
51093821--51093866	23	2.0	23	83	8	58	41	6	13	39	1.70
51106799--51106861	24	2.6	22	77	20	56	11	11	7	69	1.36
51128359--51128986	209	3.0	209	100	0	1256	34	9	7	49	1.63
51133202--51133247	23	2.1	22	88	8	67	67	6	4	21	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51133248--51133285	19	2.0	20	89	5	60	55	2	2	39	1.28
51134979--51135103	45	2.8	44	87	4	178	23	25	22	28	1.99
51135071--51135275	44	4.8	44	82	7	233	28	20	20	30	1.97
51135312--51135475	50	3.3	50	71	1	150	25	24	21	28	1.99
51135566--51135671	50	2.1	49	79	5	113	26	23	21	28	1.99
51148387--51148430	22	2.1	21	87	8	63	65	6	4	22	1.35
51148433--51148464	17	1.9	16	93	6	55	56	6	3	34	1.40
51149801--51149840	10	3.8	11	78	21	50	65	12	2	20	1.38
51149925--51149959	17	2.2	16	90	10	54	60	8	0	31	1.27
51150117--51150160	10	4.4	10	85	5	54	65	2	0	31	1.05
51150101--51150150	23	2.3	21	80	16	57	66	2	0	32	1.03
51150129--51150197	36	1.9	35	88	11	104	66	4	1	27	1.19
51151924--51151964	20	2.0	20	85	0	55	31	0	21	46	1.52
51158498--51158606	34	3.2	34	88	3	112	32	22	19	26	1.97
51158531--51158606	34	2.2	34	97	0	143	30	22	19	27	1.98
51161576--51161697	26	4.7	26	82	4	129	29	13	24	31	1.94
51161576--51161708	52	2.6	52	81	2	142	30	12	24	32	1.92
51161622--51161708	26	3.3	26	90	0	129	27	12	26	33	1.93
51165355--51165413	7	8.4	7	100	0	118	72	0	27	0	0.84
51167008--51167148	50	2.8	50	83	5	194	24	14	29	31	1.95
51167154--51167252	46	2.2	43	81	12	110	24	19	25	31	1.98
51173874--51173930	21	2.7	22	86	8	82	28	5	35	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51174138--51174205	33	2.0	34	85	2	93	52	1	0	45	1.09
51181389--51181416	2	14.0	2	100	0	56	50	0	0	50	1.00
51182629--51182666	17	2.2	18	90	4	60	10	5	7	76	1.15
51182641--51182674	17	2.0	17	88	0	50	11	5	5	76	1.14
51183061--51183097	19	1.9	19	94	0	65	18	2	0	78	0.87
51185512--51185548	15	2.5	15	91	4	58	32	0	0	67	0.91
51185812--51185965	50	3.1	50	73	7	159	23	18	22	35	1.95
51201849--51201877	14	2.1	14	100	0	58	58	13	13	13	1.63
51202380--51202418	15	2.8	14	85	11	53	30	0	0	69	0.89
51206847--51206872	2	13.0	2	100	0	52	50	0	0	50	1.00
51207344--51207377	16	2.1	16	88	0	50	35	20	2	41	1.68
51207432--51207472	20	2.1	19	86	4	55	39	24	0	36	1.56
51208158--51208203	16	3.0	15	84	9	58	23	8	2	65	1.32
51208159--51208206	15	3.2	14	82	11	60	25	6	2	66	1.26
51214320--51214360	18	2.3	18	87	8	57	9	7	9	73	1.26
51214723--51214814	43	2.2	42	92	5	152	43	5	21	29	1.75
51223122--51223150	15	1.9	15	100	0	58	48	17	13	20	1.81
51225808--51225939	35	3.7	35	87	1	183	38	30	12	18	1.88
51225798--51225951	70	2.2	71	80	1	193	39	29	11	18	1.87
51225953--51225978	13	2.0	13	100	0	52	53	7	23	15	1.67
51231131--51231196	18	3.6	18	73	15	55	71	1	3	24	1.09
51233202--51233261	30	2.0	30	96	0	111	68	1	3	26	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51233205--51233260	15	3.4	18	68	27	61	69	1	3	25	1.14
51233656--51233680	13	1.9	13	100	0	50	44	32	0	24	1.54
51234087--51234147	29	2.1	29	81	0	68	29	3	3	63	1.26
51234709--51234744	2	18.0	2	94	0	63	50	47	0	2	1.15
51236348--51236444	42	2.3	42	80	3	115	40	15	25	18	1.90
51237562--51237588	9	3.0	9	100	0	54	33	22	0	44	1.53
51242030--51242124	42	2.3	42	94	0	163	27	25	18	28	1.98
51242274--51242351	32	2.4	32	91	4	120	37	11	2	48	1.53
51244369--51244433	32	2.1	32	97	2	123	47	12	9	30	1.72
51260141--51260199	21	2.8	21	76	0	73	40	15	25	18	1.90
51260127--51260245	42	2.8	42	84	2	141	43	18	20	17	1.88
51267323--51267367	18	2.5	18	82	7	56	42	15	0	42	1.47
51270271--51270305	15	2.4	15	90	4	54	48	0	8	42	1.33
51276779--51276825	12	3.9	12	76	17	53	23	6	0	70	1.10
51276960--51277019	22	2.8	21	79	5	57	25	46	10	18	1.79
51278122--51278179	23	2.5	22	84	13	73	77	1	1	18	0.94
51278122--51278186	6	11.2	6	74	12	55	78	1	3	16	0.96
51278139--51278178	17	2.4	16	87	4	53	80	2	2	15	0.93
51278139--51278178	16	2.4	17	87	4	55	80	2	2	15	0.93
51278124--51278189	23	2.9	23	77	8	71	78	1	3	16	0.95
51278741--51278775	15	2.4	15	90	4	54	48	0	8	42	1.33
51283702--51283746	5	9.0	5	95	0	81	40	0	22	37	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51283780--51283847	35	1.9	36	90	3	111	29	11	20	38	1.88
51293252--51293302	18	2.9	18	78	16	63	39	1	11	47	1.52
51298191--51298217	9	3.0	9	100	0	54	44	22	0	33	1.53
51298493--51298522	12	2.5	12	94	0	51	6	30	40	23	1.80
51302322--51302614	138	2.1	138	92	1	489	46	6	8	38	1.60
51302555--51302675	38	3.2	38	68	13	104	48	5	11	33	1.63
51302537--51302690	76	2.0	76	93	0	263	46	5	10	37	1.62
51302399--51302789	214	1.8	216	89	2	617	46	5	9	38	1.60
51302785--51303000	75	2.9	75	89	2	319	31	14	10	43	1.78
51307614--51307644	2	15.5	2	100	0	62	51	0	0	48	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   207   208