genome.fa.s2.2.7.7.80.10.50.1000.189.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  189  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)
57422271--57422307	9	4.1	9	89	0	56	32	8	13	45	1.73
57422483--57422517	18	1.9	18	88	0	52	42	8	28	20	1.81
57424332--57424431	51	2.0	51	86	7	141	45	3	26	26	1.68
57424391--57424452	11	5.5	11	80	16	58	41	1	30	25	1.65
57424391--57424451	22	2.7	23	78	19	74	40	1	31	26	1.66
57424409--57424449	11	3.7	11	90	0	64	43	2	31	21	1.66
57424891--57425085	94	2.1	94	85	3	259	46	3	5	44	1.44
57437182--57437234	19	2.5	20	85	11	63	58	3	0	37	1.16
57437217--57437282	11	6.4	11	76	16	61	62	0	1	36	1.05
57437203--57437274	29	2.4	30	81	9	94	62	0	1	36	1.04
57437212--57437303	40	2.3	40	90	3	150	65	0	1	33	1.00
57439051--57439241	23	8.3	23	95	0	346	30	26	21	20	1.98
57441180--57441242	33	1.9	33	87	6	92	34	1	20	42	1.62
57446114--57446140	11	2.5	11	100	0	54	0	44	55	0	0.99
57456743--57456812	29	2.7	25	71	10	61	31	22	11	34	1.90
57457344--57457479	9	14.7	9	70	18	75	27	4	14	53	1.60
57457344--57457479	37	3.7	36	83	10	159	27	4	14	53	1.60
57457418--57457494	18	4.2	17	72	21	59	24	1	15	58	1.45
57457417--57457511	46	2.1	46	80	11	106	25	3	13	57	1.51
57457629--57457742	19	5.9	18	73	17	61	27	5	14	53	1.61
57457615--57457942	36	8.9	36	78	14	161	23	2	18	55	1.56
57457629--57457718	18	4.7	18	73	17	56	27	6	13	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57457723--57457795	29	2.7	26	82	14	78	20	1	17	60	1.44
57457689--57457939	28	8.9	30	80	13	143	22	1	19	55	1.53
57457757--57457903	4	37.2	4	86	13	191	22	1	22	53	1.53
57457678--57457907	20	12.4	18	76	18	167	22	1	20	56	1.52
57457815--57457963	36	4.4	33	82	14	112	25	1	20	53	1.54
57462871--57462912	20	2.1	20	100	0	84	45	0	33	21	1.52
57463086--57463115	15	2.0	15	93	0	51	16	46	13	23	1.82
57468585--57468628	3	14.7	3	100	0	88	34	0	0	65	0.93
57469021--57469078	25	2.3	25	85	5	73	36	0	0	63	0.94
57469571--57469613	19	2.3	18	92	4	68	37	2	0	60	1.10
57471641--57471690	18	2.6	19	77	22	52	46	0	2	52	1.12
57480480--57480528	25	2.0	24	84	11	64	42	4	2	51	1.32
57487307--57487358	25	2.1	25	82	7	61	21	26	19	32	1.97
57487230--57487385	74	2.1	74	78	2	161	18	27	21	32	1.97
57487354--57487472	25	4.8	25	72	11	93	18	25	21	35	1.95
57489908--57489953	20	2.2	20	84	7	56	43	23	21	10	1.84
57494006--57494041	17	2.1	18	89	5	56	61	2	0	36	1.11
57494005--57494054	13	4.0	13	85	14	61	64	2	0	34	1.05
57494088--57494112	12	2.1	12	100	0	50	56	0	16	28	1.41
57494890--57494923	5	6.6	5	86	6	50	82	0	2	14	0.79
57494890--57494931	21	2.0	21	85	0	57	80	0	4	14	0.86
57504259--57504293	18	1.9	18	88	0	52	45	22	5	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57513715--57513769	18	3.1	17	80	14	58	43	0	1	54	1.10
57520270--57520323	25	2.0	28	86	10	78	53	7	1	37	1.40
57522465--57522510	3	15.3	3	95	0	83	0	2	30	67	1.03
57526881--57527347	45	10.4	45	70	8	227	31	20	18	29	1.96
57526933--57527408	179	2.7	179	86	1	659	32	20	18	28	1.96
57529039--57529095	6	9.5	6	92	0	69	12	0	21	66	1.23
57529040--57529092	3	17.7	3	84	0	61	9	0	22	67	1.19
57530142--57530200	27	2.2	26	79	11	66	44	3	1	50	1.28
57534502--57534532	9	3.4	9	90	0	53	22	16	45	16	1.85
57534491--57534532	18	2.3	18	92	8	68	23	14	45	16	1.84
57535338--57535389	27	1.9	27	100	0	104	26	23	26	23	2.00
57536843--57536887	22	2.0	24	86	8	67	51	0	2	46	1.13
57537278--57537334	18	3.0	19	82	7	62	66	3	7	22	1.31
57537282--57537363	28	2.9	28	78	10	76	64	3	7	24	1.35
57546588--57546642	28	2.0	28	100	0	110	47	5	29	18	1.71
57551585--57551781	54	3.7	53	81	4	227	32	22	13	30	1.93
57551543--57551781	106	2.3	105	86	5	313	30	23	14	31	1.94
57555388--57555432	22	2.0	22	86	0	63	60	4	8	26	1.46
57556514--57556569	22	2.5	23	82	2	69	51	1	1	44	1.22
57556545--57556584	16	2.5	16	91	0	62	47	2	7	42	1.45
57556657--57556684	9	3.1	9	100	0	56	32	0	10	57	1.33
57556573--57556782	68	3.1	68	97	1	388	40	4	9	45	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57556725--57556752	9	3.1	9	100	0	56	32	0	10	57	1.33
57556849--57556893	24	1.9	23	90	4	72	62	2	0	35	1.08
57557077--57557302	38	5.9	36	72	12	123	57	3	6	32	1.43
57561809--57561872	29	2.2	30	94	2	112	57	15	3	23	1.52
57561954--57561995	21	2.0	21	90	0	66	73	9	4	11	1.22
57564499--57564548	24	2.2	23	89	7	75	34	4	6	56	1.43
57569967--57570016	21	2.4	21	86	6	66	36	4	2	58	1.29
57575326--57575449	61	2.0	61	85	3	169	36	17	16	29	1.92
57576199--57576249	21	2.3	23	81	15	63	66	3	0	29	1.09
57579052--57579101	19	2.6	19	73	20	50	62	2	2	34	1.18
57579625--57579649	7	3.6	7	100	0	50	60	12	0	28	1.32
57596376--57596400	5	5.0	5	100	0	50	20	0	0	80	0.72
57596377--57596414	10	3.5	11	89	7	51	21	0	2	76	0.91
57596787--57596989	102	2.0	102	95	0	361	33	17	16	33	1.92
57599938--57599973	19	1.9	18	88	5	54	25	58	5	11	1.54
57600029--57600085	7	7.7	7	82	9	60	24	0	0	75	0.80
57600025--57600116	4	23.8	4	72	19	63	22	1	3	72	1.05
57600029--57600125	22	4.5	22	72	14	85	21	1	4	73	1.07
57600151--57600193	19	2.2	20	80	12	54	20	6	2	69	1.23
57600259--57600324	6	10.5	6	82	9	51	7	6	7	78	1.08
57603688--57603739	26	2.0	25	82	10	61	44	11	1	42	1.51
57603848--57603963	61	1.9	58	87	5	169	51	4	3	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57603939--57603990	20	2.8	18	73	21	54	53	3	1	40	1.30
57606200--57606248	25	2.0	24	84	15	64	44	0	4	51	1.20
57606303--57606327	5	5.0	5	100	0	50	80	0	20	0	0.72
57607119--57607213	41	2.3	41	87	1	138	41	11	22	25	1.87
57610050--57610146	49	2.0	48	91	2	158	41	22	15	20	1.90
57610339--57610402	17	3.6	17	76	15	67	46	10	12	29	1.76
57610355--57610411	19	3.1	19	76	19	75	45	14	12	28	1.80
57610339--57610411	36	2.0	36	94	0	128	45	12	12	30	1.78
57610665--57610692	2	14.0	2	100	0	56	50	0	0	50	1.00
57612524--57612655	49	2.8	49	87	5	184	34	19	10	35	1.86
57617826--57617862	17	2.2	17	100	0	74	24	0	21	54	1.45
57618141--57618165	12	2.1	12	100	0	50	56	16	20	8	1.65
57618610--57618699	46	2.0	46	93	0	153	33	11	30	25	1.90
57623211--57623286	23	3.3	23	94	0	134	31	25	21	22	1.98
57623373--57623401	8	3.6	8	100	0	58	34	27	13	24	1.93
57623506--57623544	18	2.2	17	86	13	53	48	20	0	30	1.50
57637197--57637297	52	1.9	52	97	0	193	34	11	20	32	1.89
57646340--57646401	28	2.2	28	97	2	115	22	25	8	43	1.80
57648525--57648649	61	2.0	62	80	10	141	36	5	16	41	1.71
57653163--57653192	12	2.4	13	94	5	53	26	23	3	46	1.68
57654213--57654247	17	2.1	17	89	5	54	57	0	5	37	1.23
57654900--57654948	21	2.3	20	76	10	53	38	8	22	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57655765--57655818	26	2.1	26	85	0	72	38	12	22	25	1.90
57655771--57655812	21	2.0	21	81	9	50	38	14	23	23	1.92
57655994--57656053	29	2.1	29	81	6	68	30	1	5	63	1.25
57658004--57658083	28	2.7	29	78	7	90	41	10	3	45	1.56
57666178--57666220	15	2.8	16	85	3	52	39	11	11	37	1.78
57670077--57670114	16	2.4	16	95	0	67	31	0	21	47	1.51
57672653--57672712	31	1.9	32	89	3	95	40	13	30	16	1.87
57675545--57675583	20	2.0	20	89	0	60	35	2	10	51	1.50
57679255--57679284	14	2.1	14	93	0	51	23	0	10	66	1.21
57680986--57681094	53	2.1	53	100	0	218	40	8	11	40	1.70

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