genome.fa.s7.2.7.7.80.10.50.1000.123.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  123  of  204  ( 24458 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)
37586564--37586598	18	1.9	18	100	0	70	31	17	17	34	1.93
37586940--37586972	13	2.5	13	100	0	66	30	24	6	39	1.79
37599687--37599757	30	2.4	30	79	13	83	70	4	21	4	1.22
37622390--37622445	28	1.9	29	82	7	69	30	1	25	42	1.65
37626015--37626152	45	3.1	45	98	0	267	26	18	2	52	1.59
37626069--37626141	24	3.2	24	62	18	64	28	17	4	49	1.65
37636234--37636380	51	2.9	51	86	5	210	43	12	14	29	1.82
37638157--37638211	28	1.9	29	82	10	69	7	21	1	69	1.23
37638185--37638243	21	2.9	19	71	14	55	11	22	0	66	1.24
37650507--37650613	50	2.1	51	86	5	146	46	13	13	27	1.79
37650576--37650706	50	2.6	51	82	3	174	39	12	12	34	1.82
37650704--37650771	35	2.0	35	82	8	86	51	14	10	23	1.73
37657978--37658051	37	2.0	37	97	0	139	31	10	17	40	1.84
37663995--37664228	51	4.6	51	80	9	289	30	27	16	24	1.97
37663992--37664223	101	2.3	101	85	6	301	31	28	15	24	1.96
37665780--37665808	13	2.2	13	100	0	58	41	13	6	37	1.72
37672287--37672331	16	3.0	15	84	9	56	55	0	0	44	0.99
37674993--37675343	43	8.2	43	85	2	366	26	28	18	26	1.98
37674993--37675348	86	4.2	86	85	1	419	26	28	18	26	1.98
37674970--37675348	129	2.9	128	83	3	440	26	27	18	27	1.99
37675614--37675700	43	2.0	43	86	4	122	44	11	10	33	1.74
37679121--37679157	7	5.3	7	86	0	56	27	54	0	18	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37679551--37679604	14	3.8	14	80	4	63	50	31	0	18	1.48
37679658--37679684	13	2.1	13	100	0	54	37	22	7	33	1.82
37679836--37680067	41	5.6	40	85	5	157	28	29	18	24	1.98
37679874--37680068	41	4.7	41	88	1	282	27	30	17	24	1.97
37679874--37680061	83	2.3	82	88	0	277	25	31	18	23	1.97
37680148--37680261	40	2.9	40	88	2	160	22	24	20	32	1.98
37682368--37682392	13	1.9	13	100	0	50	40	4	16	40	1.67
37682756--37682783	8	3.5	8	100	0	56	35	0	0	64	0.94
37682817--37682874	31	1.9	29	82	6	71	39	3	5	51	1.41
37689505--37689534	15	2.0	15	100	0	60	20	33	6	40	1.78
37689507--37689541	15	2.3	15	90	0	52	22	37	2	37	1.69
37717944--37717975	12	2.6	13	85	14	50	50	0	0	50	1.00
37719866--37719901	18	2.0	18	88	0	54	25	11	16	47	1.79
37722167--37722201	16	2.2	16	90	10	54	28	17	2	51	1.59
37727941--37727974	18	1.9	18	88	5	52	23	20	0	55	1.43
37727962--37728057	6	15.5	6	67	10	50	7	19	4	68	1.30
37727933--37727998	29	2.4	28	85	10	82	13	21	0	65	1.27
37727975--37728007	16	2.2	16	89	10	52	6	27	0	66	1.15
37728004--37728057	18	3.0	18	88	0	81	5	16	7	70	1.30
37731122--37731188	28	2.4	27	85	5	80	28	8	11	50	1.69
37732980--37733176	28	7.0	28	89	0	304	34	24	19	22	1.97
37733539--37733704	27	6.1	27	87	0	215	18	15	24	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37736869--37736896	14	2.0	14	100	0	56	28	0	28	42	1.56
37743687--37744534	422	2.0	422	94	0	1491	33	12	19	34	1.89
37747294--37747345	6	9.0	6	83	12	65	80	1	0	17	0.80
37747294--37747346	17	3.1	16	91	8	79	79	1	0	18	0.83
37747297--37747346	5	9.0	5	83	16	55	80	2	0	18	0.82
37749048--37749090	21	2.0	21	82	8	52	69	0	11	18	1.17
37752777--37752815	19	2.1	19	90	9	62	35	0	43	20	1.52
37756320--37756433	27	4.3	27	81	2	122	42	21	16	20	1.90
37756320--37756430	53	2.1	54	84	5	145	42	20	16	20	1.89
37756593--37756670	40	2.0	40	94	0	138	16	24	21	37	1.94
37757494--37757637	27	5.3	26	78	8	137	42	21	18	18	1.89
37757494--37757646	54	2.8	53	82	3	171	41	22	16	18	1.90
37764606--37764644	21	1.9	19	90	10	60	56	7	5	30	1.49
37765878--37765905	14	2.0	14	100	0	56	57	0	7	35	1.26
37770020--37770084	20	3.3	19	73	16	51	38	16	21	23	1.93
37778922--37779048	20	6.3	20	76	0	110	11	26	22	39	1.88
37781455--37781531	30	2.5	30	87	4	100	15	29	31	23	1.95
37783364--37783407	17	2.6	16	83	16	54	77	2	4	15	1.04
37803936--37804008	35	2.1	35	100	0	146	16	0	30	53	1.43
37811672--37812196	128	4.1	128	93	2	874	32	12	20	35	1.89
37820490--37820523	17	2.0	17	88	0	50	32	2	2	61	1.26
37845415--37845475	25	2.4	25	88	0	86	32	21	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37864236--37864291	29	1.9	30	85	7	80	53	1	0	44	1.11
37866807--37866831	13	1.9	13	100	0	50	48	0	0	52	1.00
37869009--37869070	31	2.0	31	96	0	115	30	9	19	40	1.84
37870829--37870869	22	1.9	22	85	14	59	46	2	7	43	1.44
37877737--37877796	29	2.1	29	100	0	120	51	20	0	28	1.47
37879639--37879709	25	2.8	25	84	0	97	40	19	16	22	1.91
37880744--37880804	27	2.2	28	74	8	72	29	24	11	34	1.91
37883746--37883776	16	1.9	16	100	0	62	32	16	19	32	1.94
37888851--37888917	35	1.9	35	84	6	91	29	13	28	28	1.94
37893528--37893595	23	3.0	22	81	10	82	20	16	23	39	1.91
37895220--37895253	7	4.9	7	92	0	50	50	0	5	44	1.26
37895859--37895896	14	2.7	14	87	0	58	42	10	15	31	1.81
37898037--37898087	21	2.5	21	90	3	77	35	23	11	29	1.90
37898814--37898886	38	1.9	38	97	0	137	45	9	5	39	1.60
37904207--37904234	6	4.7	6	100	0	56	14	0	0	85	0.59
37904876--37904910	17	2.0	18	88	5	54	14	31	42	11	1.81
37916755--37916899	39	3.7	39	83	0	182	31	4	21	42	1.73
37919537--37919589	17	3.1	17	86	7	72	18	5	0	75	0.99
37920758--37921266	43	11.8	43	88	1	680	24	27	20	26	1.99
37921675--37921741	21	3.2	21	95	0	116	5	38	19	35	1.76
37921585--37921802	108	2.0	108	89	3	332	11	30	19	39	1.86
37925171--37925208	14	2.7	14	100	0	76	44	0	5	50	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37926750--37926780	16	1.9	16	93	0	53	32	6	25	35	1.82
37928311--37928355	23	2.0	23	82	8	56	40	31	6	22	1.80
37927196--37928999	792	2.2	791	92	4	2954	38	17	9	34	1.82
37929253--37929410	41	3.9	41	76	5	131	30	24	23	22	1.99
37929615--37929747	40	3.3	38	80	9	149	15	18	24	41	1.90
37931115--37931165	18	2.8	19	72	21	56	62	0	0	37	0.95
37931169--37931212	20	2.2	20	88	8	63	34	0	2	63	1.07
37931156--37931226	29	2.5	28	82	11	81	40	0	2	56	1.14
37931156--37931211	29	1.9	29	88	0	85	39	0	1	58	1.08
37938879--37939209	172	1.9	171	85	6	454	43	8	9	38	1.69
37948649--37948695	24	2.0	24	91	0	76	23	31	27	17	1.96
37948665--37948777	54	2.1	54	84	0	145	28	26	25	19	1.99
37958644--37958856	30	7.2	29	89	7	324	39	10	0	49	1.41
37958644--37958856	85	2.4	88	90	6	326	39	10	0	49	1.41
37958902--37958988	43	2.0	43	95	0	156	10	51	3	34	1.53
37958969--37959007	6	6.2	6	91	8	60	15	46	0	38	1.46
37958969--37959008	13	3.1	13	92	7	64	15	45	0	40	1.46
37958969--37959007	19	2.1	19	100	0	78	15	46	0	38	1.46
37960124--37960547	217	1.9	218	89	2	665	22	25	18	33	1.96
37960503--37960588	35	2.5	35	78	0	109	26	24	17	31	1.97
37964004--37964054	24	2.1	24	100	0	102	29	17	15	37	1.91
37972253--37972431	50	3.6	50	75	3	139	27	21	26	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37973154--37973190	18	2.1	18	94	0	65	59	0	8	32	1.27
37979790--37979913	50	2.5	50	85	0	167	27	23	29	20	1.99
37982381--37982475	48	2.0	48	95	0	172	32	16	12	37	1.87
37984923--37984961	20	2.0	20	90	10	62	56	5	23	15	1.59
37991427--37991510	41	2.0	42	81	2	98	46	19	11	22	1.82
37994644--37994956	156	2.0	156	98	0	599	31	18	20	30	1.96
38003206--38003241	13	2.8	13	88	12	56	0	22	0	77	0.76
38003930--38003966	19	1.9	19	94	0	65	45	0	2	51	1.15
38005931--38006125	51	3.8	53	76	11	156	31	7	2	58	1.38
38006012--38006125	25	4.5	25	71	15	74	33	5	4	57	1.41

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