genome.fa.s5.2.7.7.80.10.50.1000.119.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  119  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)
36213093--36213141	18	2.6	19	78	12	57	42	2	14	40	1.57
36213458--36213523	25	2.6	25	83	4	80	37	13	16	31	1.88
36218711--36218745	18	2.0	18	88	5	54	17	28	40	14	1.88
36219684--36219728	18	2.5	18	78	7	56	37	2	17	42	1.62
36223191--36223231	19	2.2	19	100	0	82	43	19	4	31	1.72
36233831--36233889	3	19.7	3	100	0	118	0	0	32	67	0.91
36234016--36234094	39	2.0	39	100	0	158	43	7	20	29	1.79
36243384--36243421	19	2.0	19	90	10	60	39	0	39	21	1.53
36243870--36243897	14	2.0	14	100	0	56	57	0	7	35	1.26
36248402--36248446	22	2.0	22	100	0	90	51	13	13	22	1.75
36251512--36251571	31	1.9	31	93	0	102	33	1	8	56	1.39
36252296--36252564	134	2.0	133	91	2	441	41	20	5	32	1.75
36268378--36268463	38	2.3	39	88	10	133	26	18	18	36	1.94
36270633--36270666	17	2.0	18	88	11	54	23	0	14	61	1.33
36270618--36270675	23	2.6	23	77	20	68	25	0	17	56	1.40
36270730--36270788	29	2.0	29	87	6	84	35	5	22	37	1.76
36280505--36280622	61	1.9	61	84	6	159	38	4	15	41	1.66
36289195--36289220	1	26.0	1	100	0	52	0	0	0	100	0.00
36291124--36291245	28	4.1	28	71	14	82	28	8	13	49	1.71
36291134--36291260	64	2.0	63	93	1	218	28	9	14	47	1.76
36294481--36294509	8	3.6	8	100	0	58	68	10	0	20	1.18
36297728--36297792	6	10.8	6	93	0	112	52	0	29	18	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36297937--36298013	26	2.9	26	76	17	70	38	10	15	35	1.82
36303211--36303283	37	1.9	38	86	2	103	31	20	2	45	1.65
36303271--36303314	23	1.9	22	82	17	54	38	22	0	38	1.55
36303484--36303674	51	3.8	51	79	4	179	31	28	15	24	1.95
36303478--36303708	101	2.3	101	80	5	252	30	28	15	25	1.96
36314317--36314356	21	1.9	21	85	10	55	27	17	2	52	1.57
36319251--36319315	33	1.9	34	84	9	89	24	4	3	67	1.24
36320203--36320279	37	2.1	37	100	0	154	15	22	7	54	1.66
36320532--36320598	22	3.0	22	91	0	107	32	14	26	25	1.95
36323548--36323872	107	3.1	106	86	3	440	28	19	18	33	1.96
36335127--36335182	24	2.3	24	87	6	78	37	12	17	32	1.88
36335503--36335996	44	11.5	44	69	12	260	30	20	23	24	1.99
36335498--36336102	128	4.7	128	84	4	677	30	20	23	24	1.98
36335547--36335996	84	5.3	84	73	9	322	30	20	23	25	1.98
36338000--36338324	107	3.1	106	87	2	447	28	18	19	33	1.96
36345354--36345447	40	2.4	40	82	5	102	19	26	17	37	1.93
36357235--36357278	17	2.5	17	79	20	54	45	11	0	43	1.40
36366527--36366572	13	3.4	14	82	8	60	73	0	4	21	1.00
36367623--36367793	29	5.9	29	78	6	159	21	25	16	36	1.94
36375460--36375527	29	2.3	29	89	0	109	14	26	16	42	1.86
36379708--36379780	22	3.3	21	81	7	76	39	17	19	23	1.92
36382165--36382343	92	2.0	91	85	4	245	29	20	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36387378--36387405	2	14.0	2	100	0	56	50	0	0	50	1.00
36388544--36388572	8	3.6	8	100	0	58	75	0	0	24	0.80
36390547--36390589	19	2.2	20	84	12	63	32	18	0	48	1.48
36390663--36390760	44	2.2	45	88	1	144	32	25	18	23	1.97
36390766--36390950	51	3.7	50	80	5	203	30	28	17	23	1.97
36390764--36390948	101	1.8	101	86	5	266	31	28	17	23	1.97
36400613--36400729	42	2.7	41	78	15	103	58	0	5	35	1.26
36430517--36430565	25	2.0	25	88	8	73	34	18	8	38	1.80
36444054--36444095	20	2.1	20	95	0	75	21	35	16	26	1.94
36462126--36462507	27	14.2	27	88	0	532	34	19	20	25	1.96
36462532--36462614	24	3.5	23	78	4	85	22	4	21	50	1.67
36462741--36462794	26	2.1	26	89	0	81	12	25	31	29	1.93
36462785--36463019	32	7.3	32	90	0	353	20	20	21	37	1.95
36463234--36463298	27	2.4	26	75	10	67	23	21	23	32	1.98
36464824--36464848	13	1.9	13	100	0	50	28	8	16	48	1.74
36469187--36469257	20	3.4	20	76	17	81	43	2	2	50	1.31
36469187--36469265	20	3.8	20	76	17	79	44	2	2	50	1.29
36471178--36471225	14	3.4	14	88	5	78	50	0	6	43	1.27
36472025--36472087	30	2.1	30	90	0	99	36	9	6	47	1.62
36480336--36480394	21	2.8	21	78	0	64	40	37	13	8	1.75
36481115--36481173	30	2.0	30	100	0	118	42	23	13	20	1.88
36497306--36497354	21	2.3	20	77	16	55	46	0	4	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36497986--36498037	22	2.2	23	80	19	63	48	1	1	48	1.24
36502258--36502312	22	2.5	23	82	11	62	32	7	0	60	1.24
36502335--36502374	13	3.2	13	89	3	55	35	0	0	65	0.93
36502330--36502379	19	2.4	22	90	9	79	32	0	0	68	0.90
36506741--36506784	22	2.0	22	86	0	61	59	4	18	18	1.55
36507001--36507055	21	2.6	21	82	0	65	30	36	7	25	1.83
36509863--36509909	17	2.5	19	83	10	62	36	6	0	57	1.24
36509860--36509922	18	3.3	20	78	10	71	34	4	0	60	1.18
36509870--36509930	18	3.2	20	84	6	74	37	3	0	59	1.14
36512553--36512702	42	3.6	41	80	6	140	25	20	22	32	1.98
36513138--36513188	21	2.4	21	93	0	84	1	45	17	35	1.60
36513073--36513232	87	1.8	87	91	0	257	13	30	16	40	1.87
36514720--36514756	20	1.9	19	89	10	58	40	37	13	8	1.74
36524090--36524663	88	6.5	88	94	0	1004	28	22	24	24	2.00
36526814--36526843	14	2.1	14	93	0	51	83	0	16	0	0.65
36528228--36528271	19	2.4	18	80	3	52	52	2	11	34	1.50
36528282--36528632	108	3.2	108	93	2	598	29	17	18	34	1.94
36532163--36532220	26	2.2	26	93	0	107	41	6	13	37	1.72
36532206--36532657	9	51.7	9	72	11	291	33	1	16	48	1.57
36532411--36532551	62	2.4	58	81	12	164	33	3	14	48	1.62
36532452--36532558	31	3.5	29	71	15	99	34	2	13	49	1.56
36532519--36532610	16	5.4	16	77	11	69	32	1	18	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36532580--36532627	25	1.9	25	86	0	69	33	0	18	47	1.49
36533936--36534314	191	2.0	191	93	1	652	43	12	25	17	1.85
36535228--36535292	21	3.1	20	70	22	53	38	38	1	21	1.63
36535225--36535295	14	4.9	15	67	14	51	39	38	1	21	1.62
36535344--36535381	14	2.7	14	76	15	51	55	18	2	23	1.55
36535774--36536646	114	7.7	114	81	4	894	24	20	19	35	1.95
36535774--36536595	227	3.6	225	82	6	930	25	19	18	35	1.95
36535773--36536607	341	2.4	340	84	4	1076	25	20	18	35	1.95
36537141--36537170	8	3.8	8	100	0	60	53	0	0	46	1.00
36537139--36537178	16	2.5	15	80	11	53	57	2	0	40	1.12
36537177--36537225	20	2.4	21	82	3	64	71	2	0	26	0.97
36543593--36543634	22	1.9	22	85	9	59	40	0	30	28	1.57
36559082--36559128	22	2.0	24	88	8	71	17	29	4	48	1.65
36565904--36566037	26	5.0	26	75	10	117	23	17	24	34	1.96
36570610--36570710	27	3.7	28	89	4	143	36	15	20	26	1.93
36570609--36570736	27	4.7	27	85	3	141	33	16	21	28	1.95
36570609--36570748	54	2.6	55	82	4	167	35	15	20	29	1.93
36574835--36574938	25	4.2	25	70	4	75	37	18	15	28	1.91
36581758--36582080	163	2.0	164	98	0	630	30	16	20	33	1.94
36582832--36582871	21	1.9	21	94	0	71	30	17	22	30	1.97
36589550--36589574	12	2.1	12	100	0	50	32	32	8	28	1.86
36595955--36596033	28	2.8	28	81	11	99	35	0	5	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36596046--36596166	9	12.7	9	69	17	50	33	0	0	65	0.99
36596050--36596153	20	5.4	18	83	14	111	33	0	0	65	0.99
36596030--36596143	40	2.9	38	80	7	120	33	0	2	64	1.08
36595954--36596153	19	10.9	18	73	18	112	34	0	3	62	1.12
36596031--36596152	39	3.1	38	80	11	131	32	0	2	64	1.06
36596090--36596161	29	2.4	28	82	15	83	33	0	0	66	0.92
36596073--36596177	10	10.2	11	70	20	52	34	0	0	64	1.00
36615643--36615820	90	2.0	90	96	0	329	34	12	14	38	1.84
36618188--36618312	54	2.3	54	81	2	144	24	22	33	19	1.97
36625145--36625216	31	2.3	31	87	0	99	18	22	19	40	1.92

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   207   208