genome.fa.s7.2.7.7.80.10.50.1000.199.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  199  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)
58885543--58885571	2	14.5	2	100	0	58	0	51	0	48	1.00
58886761--58886830	27	2.6	27	79	0	86	21	34	31	12	1.91
58886833--58887333	139	3.4	145	85	6	649	31	7	7	53	1.57
58886838--58887333	146	3.4	142	84	8	599	31	7	7	53	1.56
58888073--58888153	28	3.0	26	76	7	74	20	0	11	67	1.20
58888409--58888520	54	2.1	54	98	0	215	46	14	17	21	1.84
58890435--58891274	120	7.0	120	89	5	1259	42	1	4	51	1.32
58890639--58890834	64	3.2	61	71	20	176	41	1	4	52	1.31
58890741--58890776	18	2.0	18	100	0	72	33	0	0	66	0.92
58890970--58891161	22	9.2	22	65	25	80	42	1	2	53	1.22
58891115--58891179	26	2.5	26	84	2	85	40	0	3	56	1.15
58894949--58895127	52	3.3	52	85	10	259	34	15	23	26	1.94
58894970--58895095	59	2.1	59	97	0	234	35	13	23	26	1.92
58895022--58895143	52	2.5	46	79	16	147	35	12	24	27	1.91
58895255--58895373	52	2.2	52	89	5	177	36	13	22	26	1.92
58895337--58895445	37	3.0	37	93	2	186	36	16	22	24	1.94
58896690--58896752	29	2.2	28	78	13	65	49	3	11	36	1.54
58896907--58896942	16	2.2	16	95	0	63	77	0	2	19	0.88
58896906--58896954	21	2.4	21	79	3	64	71	0	2	26	0.97
58898655--58898694	21	1.9	21	84	0	53	20	2	12	65	1.38
58899298--58899600	106	2.8	106	89	1	435	27	16	21	35	1.94
58903679--58903712	17	2.1	17	88	5	52	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58934882--58934908	12	2.2	12	100	0	54	51	11	7	29	1.64
58945998--58946053	29	1.9	29	96	0	103	35	0	7	57	1.26
58946892--58946939	24	2.0	24	100	0	96	16	45	20	16	1.85
58957190--58957244	21	2.6	21	85	0	74	29	9	32	29	1.88
58958393--58958500	44	2.5	44	87	3	146	15	30	21	32	1.94
58977643--58977668	4	6.5	4	100	0	52	50	26	0	23	1.50
58979301--58979367	30	2.2	30	83	2	80	38	7	10	43	1.67
58979322--58979378	30	1.9	30	85	7	80	36	8	7	47	1.62
58986967--58986996	6	5.0	6	91	0	51	36	0	30	33	1.58
58987835--58987885	27	1.9	27	84	4	68	56	11	9	21	1.63
58992147--58992209	20	3.2	19	80	12	74	65	7	11	15	1.47
58992185--58992242	24	2.5	24	81	15	77	72	3	10	13	1.24
58992185--58992258	23	3.3	21	77	17	60	70	5	10	13	1.32
58992195--58992258	23	2.8	24	83	4	69	68	6	10	14	1.37
58994943--58994989	16	2.8	16	75	18	51	59	2	0	38	1.09
59000657--59000765	42	2.6	42	80	7	123	36	23	18	21	1.95
59000657--59000774	41	2.8	42	76	11	125	36	24	17	21	1.95
59003519--59003555	19	1.9	19	94	0	65	43	2	8	45	1.47
59005825--59006108	145	2.0	145	84	0	370	24	18	12	44	1.84
59008714--59008743	7	4.3	7	95	0	51	76	0	0	23	0.78
59023059--59023083	12	2.1	12	100	0	50	84	0	0	16	0.63
59023617--59023645	5	5.8	5	100	0	58	20	0	0	79	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59024586--59024744	57	2.7	59	72	5	135	36	3	16	43	1.66
59028671--59028730	29	2.1	29	100	0	120	31	13	23	31	1.93
59036113--59036160	16	2.9	16	81	3	60	27	0	4	68	1.07
59040832--59040869	19	2.0	20	84	5	51	34	0	2	63	1.09
59040920--59041078	81	2.0	80	81	5	185	42	3	16	37	1.66
59045291--59045318	3	9.3	3	100	0	56	67	0	0	32	0.91
59047127--59047186	31	1.9	31	86	0	84	31	11	20	36	1.88
59048892--59048992	31	3.3	31	85	8	111	61	9	3	24	1.45
59048905--59048948	22	2.0	23	86	4	63	63	9	4	22	1.42
59048914--59048991	31	2.6	29	90	8	113	65	10	2	21	1.35
59051414--59051466	13	4.1	13	80	9	72	30	7	26	35	1.84
59053017--59053132	9	12.7	9	75	15	60	41	3	0	54	1.23
59053084--59053132	3	16.3	3	100	0	98	34	0	0	65	0.93
59055732--59055756	11	2.3	11	100	0	50	52	0	8	40	1.31
59056660--59056806	35	4.3	34	70	11	104	31	15	24	28	1.96
59056625--59056855	101	2.3	101	89	0	345	33	14	23	28	1.94
59056858--59056908	24	2.1	24	96	0	93	45	5	27	21	1.75
59058374--59058415	9	4.6	9	83	16	50	30	0	0	69	0.89
59059310--59059344	15	2.2	16	90	5	54	42	0	0	57	0.99
59059313--59059366	21	2.4	22	81	12	56	42	0	0	57	0.98
59061024--59061065	21	2.0	21	86	4	59	57	4	0	38	1.20
59061554--59061589	18	2.1	18	90	10	58	22	16	5	55	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59076829--59076880	10	5.7	9	75	11	52	26	0	3	69	1.06
59077000--59077035	16	2.2	16	90	0	54	33	11	27	27	1.91
59079526--59079566	22	1.9	21	85	14	57	24	4	14	56	1.58
59082322--59082360	6	6.3	6	88	5	60	30	0	17	51	1.46
59082324--59082359	19	1.9	18	94	5	63	27	0	19	52	1.46
59082514--59082554	2	20.5	2	100	0	82	51	0	48	0	1.00
59084987--59085013	8	3.4	8	100	0	54	55	0	0	44	0.99
59084979--59085013	16	2.2	16	89	0	52	57	0	2	40	1.14
59086001--59086027	11	2.5	11	100	0	54	51	0	7	40	1.30
59087825--59087876	23	2.3	23	86	0	68	30	9	17	42	1.81
59088729--59088794	30	2.2	30	86	0	87	54	15	7	22	1.66
59090708--59090761	6	8.8	6	83	4	72	46	14	18	20	1.84
59090708--59090769	12	5.1	12	80	2	70	48	12	17	20	1.80
59090707--59090769	18	3.4	18	80	2	63	49	12	17	20	1.79
59092129--59092161	8	4.1	8	92	0	57	60	0	0	39	0.97
59092125--59092160	16	2.2	17	95	5	65	58	0	0	41	0.98
59093081--59093136	3	18.7	3	100	0	112	66	0	0	33	0.92
59095440--59095477	13	2.8	14	84	15	53	63	0	0	36	0.95
59096155--59096185	15	2.1	14	94	5	53	19	0	0	80	0.71
59101189--59101239	22	2.3	23	83	10	70	43	7	25	23	1.81
59102640--59102766	63	2.0	63	92	3	211	22	14	19	43	1.87
59106579--59106607	14	2.0	15	93	6	51	27	3	0	68	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59109374--59109406	16	2.1	16	94	0	57	45	3	0	51	1.16
59111032--59111061	6	5.0	6	95	0	51	20	0	66	13	1.24
59117354--59117378	2	12.5	2	100	0	50	48	0	0	52	1.00
59118854--59118888	2	18.0	2	94	5	63	48	0	0	51	1.00
59120594--59120634	6	6.8	6	100	0	82	14	68	0	17	1.22
59125015--59125047	2	16.5	2	100	0	66	48	0	0	51	1.00
59141216--59141271	26	2.2	26	86	0	76	30	1	3	64	1.21
59142288--59142313	3	8.7	3	100	0	52	69	0	30	0	0.89
59142581--59142651	29	2.4	30	80	4	81	50	5	1	42	1.34
59144348--59144398	25	2.0	25	100	0	102	60	7	19	11	1.55
59145040--59145090	22	2.4	22	80	9	61	49	0	0	50	1.00
59145570--59145596	5	5.4	5	100	0	54	44	0	0	55	0.99
59146244--59146283	3	13.3	3	100	0	80	67	0	0	32	0.91
59151706--59151731	6	4.3	6	100	0	52	0	15	0	84	0.62
59160858--59161218	186	1.9	187	83	5	462	29	25	18	27	1.98
59161441--59161465	9	2.8	9	100	0	50	20	24	24	32	1.98
59161752--59161883	66	2.0	65	88	1	192	33	17	26	22	1.96
59165827--59166221	209	1.9	210	85	1	551	20	13	15	50	1.78
59166580--59166639	21	2.9	21	92	0	93	40	25	21	13	1.89
59172574--59172607	15	2.3	15	90	10	52	79	2	14	2	0.97
59172592--59172639	22	2.2	22	82	14	55	72	10	16	0	1.10
59172997--59173040	23	1.9	24	90	9	74	54	2	20	22	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59177923--59177966	23	1.9	24	90	9	74	22	20	2	54	1.56
59178356--59178389	15	2.3	15	90	10	52	2	14	2	79	0.97
59178321--59178377	29	2.0	29	86	10	82	0	17	10	71	1.12
59180048--59180093	15	3.2	15	76	17	53	43	0	0	56	0.99
59180052--59180095	21	2.1	21	84	16	56	43	0	0	56	0.99
59182116--59182149	17	2.0	17	94	0	59	44	23	11	20	1.84
59186312--59186354	22	2.0	22	90	9	70	27	0	2	69	1.00
59189036--59189066	14	2.2	14	94	0	53	19	3	12	64	1.41
59202751--59202795	19	2.4	19	80	0	54	77	11	2	8	1.07
59204481--59204543	33	1.9	33	83	6	83	38	0	1	60	1.07

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