genome.fa.s2.2.7.7.80.10.50.1000.194.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  194  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)
58646708--58646799	43	2.2	42	88	2	130	26	28	19	26	1.99
58647218--58647276	21	2.8	21	97	0	109	3	45	16	33	1.64
58652796--58653016	9	25.4	9	71	13	160	33	1	18	47	1.57
58656658--58656939	114	2.5	115	80	4	331	28	23	17	31	1.97
58656867--58657012	74	2.0	73	85	6	197	28	23	18	30	1.98
58656753--58657160	188	2.2	188	90	1	622	26	23	17	32	1.97
58656941--58657428	114	4.3	112	82	3	546	25	23	18	32	1.97
58658998--58659023	5	5.2	5	100	0	52	0	38	19	42	1.51
58659082--58659132	21	2.4	21	90	0	75	3	45	17	33	1.67
58659017--58659176	87	1.8	87	90	0	248	13	30	16	39	1.88
58659576--58659632	28	2.0	28	90	6	89	54	0	5	40	1.23
58660706--58660853	64	2.3	64	90	2	226	31	8	18	40	1.82
58661872--58661906	15	2.3	15	90	9	54	25	0	22	51	1.48
58668406--58668445	7	5.4	7	82	11	53	50	35	0	15	1.44
58668397--58668445	14	3.2	16	80	13	59	48	32	2	16	1.57
58669366--58669406	20	2.0	20	85	4	55	36	39	4	19	1.73
58669759--58670129	133	2.8	132	84	8	459	32	21	13	32	1.92
58673882--58673911	2	15.0	2	100	0	60	50	0	0	50	1.00
58677001--58677027	3	9.0	3	100	0	54	66	0	0	33	0.92
58681631--58682216	143	4.1	143	87	0	843	29	20	23	26	1.99
58684082--58684112	15	2.1	15	93	0	53	29	6	0	64	1.18
58689793--58689846	25	2.3	25	75	18	62	53	7	3	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58703121--58703153	11	3.1	11	82	8	50	72	3	0	24	0.98
58703786--58703823	19	2.1	19	90	5	60	57	7	0	34	1.28
58730846--58730900	22	2.5	22	82	5	67	67	16	5	10	1.39
58735404--58735472	24	3.0	22	73	16	59	49	7	4	39	1.50
58735687--58735733	22	2.1	23	88	7	71	38	4	4	53	1.40
58738940--58738970	16	1.9	16	93	0	53	41	0	9	48	1.36
58743476--58743513	12	3.0	13	85	14	53	55	0	2	42	1.14
58747113--58747475	186	2.0	179	88	5	543	25	10	21	42	1.85
58755951--58755994	20	2.3	18	84	7	52	29	4	20	45	1.71
58760454--58760488	18	1.9	18	94	0	61	25	5	28	40	1.78
58764988--58765172	101	1.8	102	88	3	284	24	16	27	31	1.96
58764988--58765120	50	2.7	49	81	10	162	24	19	26	30	1.98
58764984--58765179	51	3.9	50	77	4	205	24	16	27	31	1.97
58779548--58779592	2	22.5	2	100	0	90	51	0	0	48	1.00
58779892--58779934	2	21.5	2	100	0	86	51	0	0	48	1.00
58781916--58781966	18	2.7	19	73	11	52	25	0	3	70	1.04
58783277--58783319	18	2.2	20	88	8	63	0	18	9	72	1.11
58787215--58787283	32	2.2	31	82	10	86	43	11	11	33	1.77
58790294--58790330	16	2.3	16	100	0	74	54	5	0	40	1.24
58800536--58800586	24	2.1	24	88	0	75	13	33	21	31	1.92
58800818--58800871	26	2.1	26	100	0	108	44	11	12	31	1.78
58811610--58811679	19	3.7	18	75	11	68	57	5	0	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58812613--58812717	31	3.4	31	72	7	115	50	3	3	41	1.38
58812610--58812724	61	1.9	61	94	0	203	49	3	3	43	1.36
58813372--58813417	23	2.0	23	87	8	67	39	6	17	36	1.76
58819105--58819129	2	12.5	2	100	0	50	0	0	52	48	1.00
58822759--58822807	11	4.1	12	80	19	50	63	0	4	32	1.13
58822756--58822802	20	2.3	21	82	10	62	61	0	2	36	1.08
58823440--58823497	15	3.6	15	78	19	55	56	5	0	37	1.21
58823627--58823665	16	2.5	15	88	12	53	23	2	2	71	1.10
58829144--58829216	12	6.0	12	75	12	51	65	0	1	32	1.01
58829179--58829252	34	2.2	33	85	9	96	67	0	0	32	0.91
58829201--58829253	25	2.1	25	89	0	79	71	0	0	28	0.86
58829206--58829253	9	5.6	9	78	9	55	72	0	0	27	0.84
58829196--58829290	38	2.6	37	78	16	94	64	0	3	32	1.10
58829250--58829274	11	2.3	11	100	0	50	52	0	8	40	1.31
58833268--58833464	76	2.6	76	85	1	252	28	15	20	35	1.93
58834347--58834675	160	2.1	160	94	1	570	22	23	25	27	2.00
58834392--58834739	160	2.2	160	83	5	409	23	26	24	25	2.00
58851361--58851394	17	1.9	18	88	5	52	50	0	2	47	1.16
58855219--58855268	26	1.9	26	87	0	73	60	0	2	38	1.09
58860185--58860240	22	2.7	20	82	15	69	48	0	1	50	1.11
58860183--58860241	20	2.9	20	83	16	77	47	0	1	50	1.11
58861381--58861438	24	2.5	23	81	10	73	32	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58861557--58861582	7	3.7	7	100	0	52	42	11	0	46	1.40
58862124--58862161	18	2.2	18	90	4	60	39	2	2	55	1.28
58870727--58870782	12	4.7	12	84	0	67	23	19	41	16	1.90
58870727--58870782	6	9.3	6	88	0	58	23	19	41	16	1.90
58875204--58875263	6	10.2	6	87	1	59	23	20	41	15	1.89
58875204--58875259	12	4.7	12	86	0	67	23	21	39	16	1.92
58876714--58876759	22	2.1	22	83	0	56	50	0	0	50	1.00
58876998--58877055	22	2.6	22	97	0	107	17	22	17	43	1.88
58880386--58880513	67	1.9	67	95	0	229	20	17	34	27	1.95
58883885--58883956	36	2.0	36	100	0	144	30	11	5	52	1.59
58886402--58886445	6	7.3	6	86	0	61	27	22	34	15	1.95
58886402--58886456	18	3.1	18	83	0	65	25	21	38	14	1.92
58889412--58889469	20	2.8	20	80	17	57	53	3	1	41	1.28
58889451--58889517	11	6.4	11	75	18	54	61	0	2	35	1.12
58889438--58889535	40	2.5	40	88	8	155	61	0	2	36	1.08
58889460--58889547	18	4.8	18	71	14	63	60	0	1	38	1.04
58890514--58890552	2	19.5	2	100	0	78	51	0	0	48	1.00
58892904--58893020	21	5.1	21	73	18	108	30	25	11	32	1.91
58892889--58893020	47	2.8	47	100	0	264	31	25	11	31	1.91
58896795--58896822	5	5.6	5	100	0	56	82	0	17	0	0.68
58899625--58899768	73	2.0	73	90	2	227	34	16	19	29	1.94
58905439--58905496	30	1.9	31	85	3	82	27	17	15	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58914398--58914447	15	3.5	13	78	19	55	68	2	2	28	1.12
58916093--58916152	30	2.0	30	100	0	120	56	13	13	16	1.67
58917664--58917710	23	2.0	23	88	8	69	42	0	2	55	1.12
58917788--58917826	20	1.9	21	84	5	53	51	5	5	38	1.46
58921712--58921875	88	1.8	91	82	8	212	22	12	13	51	1.75
58923075--58923138	33	1.9	33	93	0	110	31	35	20	12	1.90
58923180--58923270	9	9.4	10	68	25	54	37	2	0	60	1.09
58923145--58923288	39	3.5	39	85	10	182	36	2	0	59	1.17
58923152--58923265	11	10.9	11	68	27	63	39	3	0	57	1.16
58929037--58929077	17	2.6	15	82	14	55	68	0	0	31	0.90
58930032--58930094	4	15.8	4	96	0	117	74	0	23	1	0.90
58936691--58936750	32	1.9	31	82	3	75	46	0	0	53	1.00
58937325--58937540	108	2.0	108	97	0	405	36	20	15	27	1.93
58943818--58943842	11	2.3	11	100	0	50	56	0	0	44	0.99
58943953--58944014	22	2.7	22	82	9	63	33	11	4	50	1.60
58947278--58947339	31	2.0	31	100	0	124	16	16	9	58	1.63
58949093--58949153	2	30.5	2	100	0	122	49	0	0	50	1.00
58964635--58964674	18	2.2	18	86	4	53	70	2	2	25	1.13
58971190--58971226	16	2.2	18	85	9	51	62	0	2	35	1.10
58974521--58974545	11	2.3	11	100	0	50	40	16	0	44	1.47
58978261--58978323	31	2.0	31	93	0	108	33	14	11	41	1.81
58983421--58983462	2	21.5	2	82	4	50	45	4	2	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58983698--58983737	3	13.3	3	100	0	80	67	0	0	32	0.91
58983959--58984003	15	3.0	15	83	0	54	57	0	0	42	0.98
58984378--58984415	5	7.6	5	93	0	67	60	2	0	36	1.11
58990157--58990188	3	10.7	3	100	0	64	34	0	0	65	0.93
58990639--58990672	18	1.9	18	88	5	52	29	0	5	64	1.17
58990789--58990838	16	3.3	15	76	18	59	64	0	0	36	0.94
58990788--58990847	29	2.0	30	93	3	104	65	0	0	35	0.93
58991560--58991598	14	2.9	13	77	7	51	23	17	0	58	1.38
58996072--58996114	11	3.7	11	81	9	50	58	0	2	39	1.11
58996386--58996441	3	19.0	3	96	3	105	66	0	33	0	0.92

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