genome.fa.s7.2.7.7.80.10.50.1000.197.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  197  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)
58297401--58297517	19	6.6	19	76	15	124	34	0	12	52	1.39
58297646--58297697	27	1.9	27	92	0	86	23	38	21	17	1.93
58300078--58300105	14	2.0	14	100	0	56	42	0	0	57	0.99
58303534--58303572	18	2.1	19	85	4	53	79	2	0	17	0.84
58303543--58303591	20	2.6	18	84	12	62	73	2	0	24	0.94
58303969--58304002	17	2.1	16	88	5	50	35	5	0	58	1.22
58304384--58304438	28	1.9	29	85	3	76	16	1	5	76	1.06
58307473--58307507	18	1.9	18	94	0	61	42	2	0	54	1.15
58310153--58310199	17	2.6	18	83	16	62	59	6	0	34	1.23
58310352--58310382	16	1.9	16	93	0	53	35	6	9	48	1.62
58312713--58312752	21	1.9	21	89	0	62	50	0	0	50	1.00
58314373--58314411	19	2.0	19	85	5	51	30	0	5	64	1.15
58315776--58315803	14	2.0	14	100	0	56	71	14	0	14	1.15
58319107--58319155	13	3.7	13	75	5	53	38	0	0	61	0.96
58319108--58319165	27	2.1	27	90	0	89	32	0	3	63	1.11
58319624--58319679	29	1.9	29	85	0	76	28	14	19	37	1.91
58319896--58319965	22	3.2	22	91	0	113	32	30	0	37	1.58
58319937--58319995	30	2.0	30	96	0	109	32	35	0	32	1.58
58319915--58320017	52	2.0	51	84	5	136	33	33	0	33	1.58
58319967--58320008	22	1.9	22	90	0	66	33	33	0	33	1.58
58320050--58320104	28	1.9	29	88	3	85	32	0	3	63	1.12
58320049--58320112	28	2.2	29	80	2	76	34	0	3	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58320212--58320256	22	2.0	23	86	4	65	28	0	6	64	1.19
58333022--58333050	15	1.9	15	100	0	58	55	13	0	31	1.39
58333449--58333581	40	3.4	37	75	9	106	29	24	19	26	1.99
58334377--58334407	2	16.0	2	93	6	55	51	0	0	48	1.00
58335963--58336075	9	12.2	10	64	20	50	62	3	2	30	1.25
58335963--58336046	19	4.6	18	71	12	64	61	4	1	32	1.24
58340354--58340387	13	2.8	12	86	8	50	82	2	14	0	0.79
58340589--58340655	33	2.0	33	94	0	116	13	44	2	38	1.59
58340666--58340695	14	2.1	14	93	0	51	10	43	10	36	1.72
58340863--58340899	16	2.5	15	87	12	51	2	16	0	81	0.81
58342313--58342357	24	2.0	22	86	8	63	75	2	22	0	0.91
58342694--58342731	20	1.9	20	84	10	51	57	0	10	31	1.32
58343037--58343085	25	2.0	25	83	0	62	38	0	16	44	1.48
58348778--58348856	31	2.5	31	89	4	115	43	1	5	50	1.32
58357783--58357829	24	2.0	25	87	8	71	59	2	10	27	1.42
58361648--58361683	2	18.0	2	100	0	72	50	0	0	50	1.00
58362380--58362419	16	2.6	16	84	4	55	62	0	0	37	0.95
58368044--58368077	2	17.0	2	100	0	68	50	0	0	50	1.00
58372196--58372262	34	2.0	34	82	8	84	28	8	2	59	1.42
58392602--58392659	29	2.0	29	83	6	73	51	0	3	44	1.18
58393403--58393448	5	8.8	5	90	9	74	0	17	2	80	0.81
58396079--58396128	26	2.0	25	92	4	82	44	10	14	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58396688--58396729	22	1.9	22	85	0	57	45	19	4	30	1.71
58398031--58398129	50	1.9	52	85	4	139	41	26	12	20	1.87
58402398--58402448	25	2.0	26	85	11	70	52	1	3	41	1.31
58403287--58403397	56	2.0	56	98	0	213	34	14	27	23	1.94
58403952--58403988	16	2.2	18	85	9	51	24	16	5	54	1.63
58404722--58404768	21	2.1	23	84	7	62	27	4	2	65	1.22
58407498--58407530	17	1.9	18	88	11	52	36	0	6	57	1.23
58409877--58409905	9	3.3	9	95	4	51	93	0	6	0	0.36
58420599--58420626	6	4.7	6	100	0	56	17	32	50	0	1.47
58421230--58421264	2	18.0	2	88	5	54	48	0	0	51	1.00
58421900--58421933	13	2.8	12	87	12	52	47	0	0	52	1.00
58421900--58421951	24	2.2	24	80	19	56	48	0	0	51	1.00
58424109--58424142	11	3.1	11	87	12	52	2	17	0	79	0.86
58424109--58424151	22	2.0	22	81	9	52	2	18	2	76	1.00
58424478--58425028	234	2.4	226	86	3	755	29	10	17	42	1.83
58424826--58425241	209	2.0	211	81	4	484	31	8	15	43	1.78
58425035--58425507	230	2.0	232	84	6	604	29	8	16	45	1.77
58435869--58435936	35	1.9	35	84	0	91	48	13	22	16	1.80
58439402--58439478	18	4.1	19	75	17	79	63	0	2	33	1.08
58439394--58439500	39	2.7	41	81	12	125	60	0	3	35	1.14
58439443--58439500	11	5.4	11	74	12	57	56	0	5	37	1.21
58439442--58439510	32	2.2	32	91	0	111	60	0	4	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58439402--58439489	21	4.5	19	75	13	81	61	0	3	35	1.13
58444184--58444218	15	2.2	16	90	5	54	60	0	2	37	1.12
58444958--58445026	30	2.3	30	85	7	86	53	5	1	39	1.34
58444958--58445037	30	2.7	29	80	7	81	52	6	1	40	1.35
58445606--58445643	14	2.5	15	91	8	60	63	0	0	36	0.95
58448180--58449197	218	4.7	215	76	11	880	29	15	18	35	1.92
58474756--58474815	29	2.0	30	83	3	77	41	3	13	41	1.60
58475906--58475956	2	25.5	2	100	0	102	50	0	0	49	1.00
58476197--58476239	19	2.3	19	84	8	52	37	2	9	51	1.47
58485105--58485202	54	1.9	50	84	12	128	20	15	14	50	1.78
58486150--58486183	15	2.3	15	89	0	50	50	0	8	41	1.34
58491050--58491092	21	2.0	21	86	8	61	23	11	0	65	1.25
58491951--58491995	2	22.5	2	100	0	90	48	0	0	51	1.00
58492682--58492724	6	6.7	6	80	15	50	11	0	6	81	0.87
58499575--58499606	15	2.3	15	89	10	50	40	18	0	40	1.51
58500107--58500236	57	2.3	57	91	4	208	42	18	18	20	1.90
58500165--58500197	6	5.5	6	100	0	66	48	15	18	18	1.81
58500183--58500314	39	3.4	39	97	0	246	40	21	19	18	1.92
58507182--58507206	3	8.3	3	100	0	50	32	36	0	32	1.58
58520927--58521082	66	2.4	65	86	4	206	39	19	26	15	1.91
58521091--58521179	21	4.2	21	79	0	106	32	16	43	6	1.74
58521487--58521695	43	4.8	43	80	2	231	23	16	32	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58521487--58521695	87	2.4	87	83	3	251	23	16	32	27	1.96
58521659--58521798	43	3.3	44	85	4	146	26	27	22	23	2.00
58521487--58521756	86	3.1	85	76	8	233	23	19	30	27	1.98
58528899--58528939	21	2.0	21	95	0	73	36	9	9	43	1.71
58530301--58530366	32	2.1	31	83	8	80	53	4	1	40	1.31
58535321--58535347	14	1.9	14	100	0	54	44	29	22	3	1.70
58537163--58537215	26	2.2	25	86	10	74	37	11	0	50	1.38
58539437--58539483	19	2.6	18	79	3	58	38	0	0	61	0.96
58542016--58542122	49	2.2	49	86	3	144	32	11	14	42	1.80
58542869--58542915	19	2.4	19	76	20	51	36	19	4	40	1.71
58545585--58545640	21	2.7	20	71	13	51	28	5	1	64	1.26
58545997--58546075	39	2.0	39	95	0	140	45	11	21	21	1.83
58551462--58551499	2	19.5	2	94	5	69	47	0	0	52	1.00
58556019--58556071	21	2.5	21	88	11	90	32	22	26	18	1.97
58556156--58556189	18	1.9	18	88	5	52	26	26	0	47	1.53
58556165--58556211	24	2.0	22	84	8	58	31	23	0	44	1.54
58556251--58556284	16	2.1	17	88	5	52	32	23	0	44	1.54
58556945--58556978	17	1.9	18	94	5	61	35	20	0	44	1.52
58557400--58557428	14	2.0	15	93	6	51	3	20	6	68	1.27
58557468--58557492	9	2.8	9	100	0	50	56	0	8	36	1.29
58562696--58562748	27	1.9	28	88	3	81	64	0	1	33	1.05
58562708--58562748	17	2.3	18	84	15	59	68	0	2	29	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58562690--58562775	27	2.8	30	71	18	79	55	1	5	37	1.31
58562885--58562930	3	15.3	3	82	8	58	60	2	0	36	1.09
58564426--58564680	45	5.7	45	70	10	157	26	25	16	31	1.96
58564401--58564714	89	3.5	89	84	0	439	27	25	15	31	1.96
58571320--58571374	3	18.3	3	78	14	60	61	1	1	34	1.17
58574710--58574746	15	2.3	17	81	13	51	64	0	0	35	0.94
58574712--58574749	16	2.4	16	91	4	60	63	0	0	36	0.95
58574712--58574749	8	4.9	8	80	6	51	63	0	0	36	0.95
58582201--58582236	18	2.0	18	100	0	72	50	22	16	11	1.77
58587716--58588326	124	4.9	123	88	2	839	31	15	20	33	1.93

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