genome.fa.s2.2.7.7.80.10.50.1000.112.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  112  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)
33492957--33493015	22	2.6	22	79	15	66	28	1	3	66	1.18
33497253--33497292	6	6.8	6	94	5	73	85	0	15	0	0.61
33498501--33498804	44	6.9	45	79	4	318	27	15	26	30	1.96
33498535--33498785	87	2.9	88	90	2	389	28	14	26	30	1.95
33498501--33498786	132	2.2	132	86	3	389	27	15	26	30	1.96
33498912--33499049	44	3.1	44	79	8	147	26	17	28	27	1.97
33499364--33499606	128	1.9	129	82	2	310	30	18	20	30	1.96
33499897--33499971	19	3.8	19	91	6	123	37	9	16	37	1.80
33499898--33499960	21	3.1	21	95	4	112	38	9	14	38	1.78
33500497--33500547	25	2.0	25	81	7	59	17	3	3	74	1.12
33500503--33500552	26	1.9	26	84	8	66	20	2	4	74	1.08
33500620--33500673	22	2.5	21	84	6	72	27	1	3	66	1.19
33518267--33518297	15	2.1	15	93	0	53	29	29	19	22	1.98
33526899--33526973	25	3.2	25	61	24	63	46	21	6	25	1.75
33526889--33526974	45	1.9	45	100	0	172	45	24	5	24	1.75
33531789--33531918	43	3.0	43	82	4	165	21	32	22	23	1.98
33531797--33531930	42	3.2	42	85	1	178	20	32	23	23	1.98
33541137--33541189	26	2.0	26	85	0	70	33	20	26	18	1.96
33541183--33541247	22	3.0	22	79	0	67	44	15	20	20	1.86
33541239--33541409	32	5.4	32	87	0	227	38	21	19	20	1.94
33541617--33542065	27	16.6	27	88	0	592	24	22	20	33	1.97
33544056--33544216	43	3.8	43	76	7	159	26	16	27	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33545351--33545387	18	2.1	18	100	0	74	37	0	24	37	1.56
33547232--33547278	24	2.0	24	83	8	60	21	23	25	29	1.99
33558219--33558294	23	3.3	23	88	3	118	22	21	26	30	1.99
33564506--33564693	51	3.7	51	80	10	206	28	15	26	29	1.96
33564506--33564698	101	1.9	102	84	5	257	28	15	26	29	1.96
33569929--33570116	51	3.7	50	79	6	218	27	15	27	29	1.96
33579473--33579520	25	1.9	25	95	0	87	31	10	16	41	1.82
33588478--33588511	16	2.2	15	89	5	50	44	0	0	55	0.99
33590751--33590844	48	2.0	48	97	0	179	20	13	21	44	1.86
33590962--33591014	18	2.9	18	80	2	61	41	45	1	11	1.51
33591112--33591178	9	7.4	9	91	0	107	25	11	20	41	1.87
33596487--33596648	26	6.2	26	81	5	175	41	15	14	29	1.86
33596487--33596659	78	2.2	78	87	2	240	41	16	13	28	1.87
33596487--33596659	52	3.3	53	80	7	203	41	16	13	28	1.87
33600928--33600980	11	4.8	11	80	0	52	26	45	7	20	1.78
33619956--33620016	31	2.0	30	84	9	79	36	14	6	42	1.72
33620160--33620209	25	2.0	25	84	7	66	26	20	22	32	1.98
33634791--33634838	21	2.2	23	85	7	64	58	6	0	35	1.23
33634876--33634925	20	2.5	21	83	9	68	46	4	0	50	1.20
33642837--33642877	22	1.9	21	85	5	55	36	31	0	31	1.58
33645029--33645085	13	4.4	13	72	0	51	21	26	22	29	1.99
33649086--33649233	72	2.0	73	90	1	235	40	12	14	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33651189--33651233	22	2.0	22	95	0	81	40	11	17	31	1.85
33651900--33651970	30	2.5	27	80	15	72	46	7	0	46	1.30
33672228--33672331	29	3.6	29	72	6	93	35	20	18	25	1.95
33672270--33672331	30	2.1	29	84	3	79	37	20	16	25	1.93
33672355--33672461	52	2.1	52	98	0	205	20	30	13	35	1.91
33675625--33675867	50	4.8	50	86	0	315	21	29	21	27	1.99
33680257--33680292	5	6.8	5	87	12	54	77	0	0	22	0.76
33684889--33684934	22	2.1	22	100	0	92	45	4	4	45	1.43
33684925--33684962	15	2.5	15	95	0	67	44	15	0	39	1.47
33687234--33687362	43	3.0	42	78	4	132	34	27	15	22	1.94
33698627--33698692	3	22.0	3	100	0	132	33	0	0	66	0.92
33700204--33700236	17	1.9	17	93	0	57	48	21	18	12	1.80
33704233--33704268	2	18.0	2	100	0	72	50	0	0	50	1.00
33704441--33704512	35	2.1	35	84	5	92	37	8	2	51	1.47
33704669--33704711	22	1.9	21	86	13	59	25	2	0	72	0.97
33704851--33704956	54	2.0	54	96	0	194	40	9	8	41	1.68
33709373--33709578	111	1.9	111	90	0	331	29	15	23	31	1.95
33710281--33710310	15	2.0	15	93	0	51	50	6	6	36	1.55
33710513--33710559	11	4.5	11	89	10	73	78	0	0	21	0.75
33710507--33710562	9	6.0	9	78	13	60	80	0	0	19	0.71
33711922--33711975	28	2.0	26	89	7	81	50	0	1	48	1.11
33712579--33712619	22	1.9	22	85	5	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33718760--33718820	21	2.9	21	85	4	70	21	22	40	14	1.90
33724202--33724256	27	2.0	27	89	0	83	41	1	12	43	1.53
33725903--33726295	54	7.3	54	81	2	380	26	20	16	36	1.94
33725903--33726293	215	1.8	216	82	2	500	26	20	16	36	1.93
33725903--33726293	108	3.6	107	81	6	432	26	20	16	36	1.93
33726331--33726506	23	7.6	23	74	10	153	38	18	10	32	1.85
33726357--33726479	47	2.6	47	86	0	174	40	17	8	33	1.79
33726334--33726532	70	2.9	70	79	9	178	38	18	10	33	1.84
33726496--33726605	24	4.6	24	78	4	114	36	16	11	35	1.85
33726442--33726615	72	2.5	69	80	4	197	36	17	10	35	1.84
33730469--33730651	41	4.5	41	88	2	165	21	27	20	30	1.98
33730504--33730665	41	4.0	41	93	1	254	22	28	20	28	1.99
33734465--33734528	3	21.7	3	75	9	60	62	3	0	34	1.11
33734442--33734508	27	2.5	28	92	4	111	55	4	0	40	1.20
33734494--33734523	11	2.7	11	94	0	51	70	3	0	26	1.03
33734466--33734528	25	2.5	25	76	5	65	63	3	0	33	1.10
33734724--33734785	3	20.7	3	96	0	115	30	1	0	67	1.00
33735113--33735286	93	1.9	94	85	3	244	44	8	16	31	1.77
33736147--33736181	14	2.5	14	90	0	52	51	5	8	34	1.56
33744406--33744478	3	24.3	3	100	0	146	67	0	0	32	0.91
33744943--33745156	17	12.5	16	71	18	123	43	11	12	32	1.79
33744975--33745216	17	13.9	18	71	14	161	44	10	13	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33745147--33745210	18	3.6	17	73	14	58	43	4	14	37	1.66
33745499--33745541	16	2.8	16	82	3	52	67	0	0	32	0.91
33745724--33745779	20	2.7	21	84	10	71	0	21	0	78	0.75
33745733--33745773	17	2.5	16	84	7	55	0	24	0	75	0.80
33745778--33745828	17	2.9	17	77	13	50	9	27	39	23	1.86
33745833--33745869	19	1.9	19	88	0	56	2	27	40	29	1.70
33746042--33746069	11	2.5	11	100	0	56	0	42	0	57	0.99
33746063--33746108	7	7.0	7	80	14	62	0	26	0	73	0.83
33746063--33746121	4	16.0	4	76	16	56	1	28	0	69	0.98
33746603--33746699	30	3.2	29	76	11	97	41	3	19	36	1.67
33746916--33747794	79	11.3	78	83	6	914	36	18	16	28	1.93
33746916--33747781	155	5.6	157	82	6	903	36	18	16	28	1.93
33746957--33747794	234	3.6	234	82	5	923	36	19	16	28	1.93
33748644--33748706	29	2.1	31	82	5	76	4	4	6	84	0.88
33750502--33750537	18	1.9	19	88	5	56	61	16	11	11	1.57
33750686--33751014	107	3.1	107	98	0	640	51	12	18	17	1.76
33753209--33753237	8	3.6	8	100	0	58	10	27	10	51	1.68
33758794--33758826	16	2.1	16	100	0	66	36	18	39	6	1.75
33759658--33759682	11	2.3	11	100	0	50	28	12	32	28	1.92
33761196--33761421	17	12.8	18	73	13	177	45	11	13	29	1.79
33761196--33761447	35	7.2	34	73	12	163	44	11	13	31	1.79
33761197--33761446	55	4.8	50	72	15	159	44	11	13	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33761164--33761445	17	16.2	18	71	18	147	43	11	13	31	1.79
33761948--33762013	7	9.6	7	71	15	57	1	19	0	78	0.82
33761952--33762010	6	9.8	6	77	15	52	1	18	0	79	0.81
33762241--33762302	7	9.0	7	75	3	54	0	25	0	74	0.82
33762241--33762303	14	4.6	14	80	4	65	0	26	0	73	0.84
33762409--33762456	25	2.0	24	91	4	78	0	25	2	72	0.95
33762410--33762458	8	5.8	9	79	11	59	0	22	2	75	0.90
33763777--33763810	17	1.9	18	88	5	52	55	0	5	38	1.24
33768692--33768848	42	3.7	42	83	3	154	14	19	19	46	1.84
33768770--33768830	21	2.9	21	72	0	59	13	16	21	49	1.79

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