genome.fa.s8.2.7.7.80.10.50.1000.70.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  70  of  190  ( 22705 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)
20324832--20325062	41	5.7	41	74	10	204	41	16	3	38	1.66
20324882--20325193	151	2.1	151	97	0	597	41	17	3	37	1.68
20325051--20325457	126	3.3	126	83	6	427	42	17	4	36	1.69
20324936--20325731	151	5.1	151	83	9	643	42	16	3	37	1.67
20325287--20325329	16	2.7	16	100	0	86	46	13	4	34	1.65
20325303--20325352	23	2.1	24	88	7	75	48	14	4	34	1.62
20325427--20325512	25	3.5	24	88	6	102	43	15	3	38	1.63
20325156--20325730	316	1.8	309	89	3	900	42	16	3	37	1.66
20325452--20325504	16	3.8	16	68	31	57	45	15	3	35	1.64
20325601--20325683	25	3.3	24	76	6	67	44	12	1	42	1.49
20325619--20325757	25	5.5	25	76	9	113	42	15	3	38	1.65
20325687--20325760	26	2.9	25	76	6	78	39	18	6	35	1.78
20331185--20331244	21	2.9	21	82	0	75	30	18	46	5	1.70
20331552--20331899	42	8.3	42	87	2	486	34	22	20	22	1.97
20331832--20331983	42	3.6	42	81	7	166	29	23	18	28	1.98
20336026--20336211	51	3.7	50	81	5	207	30	26	17	25	1.97
20336125--20336207	26	3.2	26	64	21	66	33	26	13	26	1.93
20339183--20339213	12	2.6	12	94	0	53	29	0	16	54	1.42
20340599--20340630	11	2.6	13	90	9	50	46	9	6	37	1.61
20341698--20342101	102	4.0	101	92	1	646	21	18	27	32	1.97
20348420--20348461	5	8.4	5	82	17	52	19	0	0	80	0.70
20351946--20352184	40	6.0	40	73	6	180	36	16	29	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20351946--20352011	20	3.3	20	72	8	71	34	16	36	12	1.86
20352091--20352129	20	2.0	20	94	0	69	35	17	28	17	1.94
20352172--20352213	20	2.4	17	81	18	50	38	4	23	33	1.76
20352026--20352199	60	2.9	58	72	5	141	37	15	26	20	1.93
20352178--20352224	20	2.3	20	96	0	85	42	6	23	27	1.78
20355986--20356018	18	1.9	17	88	11	50	30	15	12	42	1.83
20357065--20357343	54	5.2	53	77	8	233	21	17	18	42	1.89
20357081--20357326	81	3.0	79	78	9	255	19	17	21	41	1.90
20357066--20357343	27	10.3	26	79	5	198	20	17	19	42	1.89
20357066--20357343	81	3.4	80	76	7	240	20	17	19	42	1.89
20358842--20358894	22	2.4	22	93	0	88	16	47	13	22	1.82
20362385--20362416	13	2.5	13	95	5	57	18	0	0	81	0.70
20362753--20363282	87	6.1	87	92	0	801	24	24	22	28	1.99
20362782--20362918	44	3.1	44	64	21	106	27	25	21	24	1.99
20363086--20363222	43	3.2	43	64	20	113	24	22	24	28	1.99
20367903--20367946	20	2.1	21	83	4	54	11	22	11	54	1.68
20371183--20371234	13	4.1	13	76	11	54	73	5	19	1	1.14
20371189--20371238	25	2.0	25	84	11	66	72	4	20	4	1.18
20372226--20372279	25	2.2	25	86	0	72	11	35	31	22	1.89
20373066--20373343	40	6.9	40	80	6	312	34	16	29	19	1.93
20373066--20373343	80	3.5	78	83	6	344	34	16	29	19	1.93
20373138--20373280	20	7.2	20	63	15	62	36	16	29	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20373066--20373343	120	2.3	120	84	4	364	34	16	29	19	1.93
20377060--20377096	18	2.0	19	89	5	58	45	29	0	24	1.53
20380305--20380339	18	1.9	18	88	0	52	42	11	17	28	1.83
20388398--20388463	25	2.6	26	83	13	93	28	0	1	69	0.97
20388392--20388469	24	3.3	23	84	10	97	28	0	1	70	0.95
20388402--20388489	25	3.6	24	79	11	90	29	3	2	64	1.22
20388701--20388746	22	2.1	22	84	8	58	15	4	8	71	1.26
20388712--20388762	22	2.3	22	82	3	57	17	5	9	66	1.40
20392178--20392239	31	2.0	31	96	0	115	35	12	1	50	1.51
20392842--20392944	1	103.0	1	66	0	53	83	10	4	0	0.84
20392845--20392945	6	17.0	6	76	15	68	82	11	4	0	0.88
20392844--20392935	7	12.9	7	70	22	59	82	10	5	1	0.87
20392843--20392936	14	6.5	14	73	17	77	82	10	5	1	0.86
20392843--20392944	32	3.2	32	86	8	145	83	10	4	0	0.84
20392842--20392944	25	4.2	24	75	16	79	83	10	4	0	0.84
20393385--20393488	53	1.9	54	90	1	165	46	16	26	10	1.79
20394298--20394658	142	2.5	143	88	0	535	28	19	22	29	1.98
20394298--20394717	142	2.9	142	83	2	441	29	19	21	29	1.98
20394692--20394826	44	3.1	44	67	0	135	37	22	14	25	1.92
20396133--20396292	25	6.5	23	77	14	117	33	4	2	60	1.30
20396133--20396217	24	3.5	24	87	11	111	30	0	2	67	1.04
20396489--20396541	21	2.6	20	79	8	54	22	7	7	62	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20396509--20396567	24	2.4	25	82	5	66	28	10	5	55	1.54
20418721--20418973	3	85.0	3	74	9	205	59	2	4	33	1.33
20420562--20421115	44	12.5	44	70	12	224	28	21	19	31	1.97
20420454--20421135	227	3.1	227	88	2	920	27	20	19	32	1.97
20421585--20421642	24	2.4	24	97	0	107	29	27	12	31	1.92
20422532--20422576	13	3.5	12	88	11	63	0	13	0	86	0.57
20427816--20427848	17	1.9	17	88	11	50	66	3	3	27	1.21
20427881--20428113	3	78.0	3	71	7	161	58	3	5	32	1.39
20428785--20428821	17	2.1	18	90	5	58	81	0	0	18	0.70
20429366--20429455	33	2.7	33	79	6	92	38	36	11	13	1.80
20437149--20437484	122	2.8	121	80	2	334	34	13	22	28	1.93
20437199--20437484	61	4.7	61	79	3	254	33	14	23	29	1.94
20437830--20437921	19	4.8	19	87	0	130	36	8	17	36	1.81
20437830--20437921	38	2.4	38	92	0	148	36	8	17	36	1.81
20438129--20438173	23	2.0	23	81	0	54	22	0	15	62	1.33
20441735--20442123	51	7.7	51	82	6	402	28	15	25	29	1.96
20441735--20442125	102	3.9	100	86	5	459	28	15	25	29	1.96
20441730--20442123	153	2.6	151	82	4	452	29	15	25	29	1.96
20441946--20442162	101	2.2	99	85	8	278	31	15	24	28	1.95
20444483--20444608	49	2.6	49	85	5	168	26	15	26	30	1.96
20445051--20445152	50	2.0	50	98	0	195	34	5	24	35	1.80
20450288--20450943	88	7.4	88	89	0	997	28	27	24	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20450355--20450938	44	13.2	44	60	10	170	28	26	24	20	1.99
20450288--20450966	353	1.9	353	90	0	1070	27	27	23	20	1.99
20450954--20451075	44	2.8	44	83	5	158	27	17	26	29	1.97
20451437--20451943	44	11.7	43	69	13	184	29	20	22	27	1.98
20451565--20451943	45	8.7	44	72	13	201	29	19	22	27	1.98
20451422--20451845	217	2.0	217	88	1	645	27	20	24	27	1.99
20451435--20451950	217	2.4	216	83	4	603	29	20	22	27	1.98
20452457--20452546	19	4.7	19	91	0	153	36	8	16	37	1.80
20452457--20452569	38	2.9	38	90	5	172	36	8	16	38	1.80
20452457--20452569	19	5.6	22	81	12	97	36	8	16	38	1.80
20452751--20452795	23	2.0	23	81	0	54	22	0	15	62	1.33
20463691--20463751	2	30.5	2	100	0	122	49	0	0	50	1.00
20466662--20466687	13	2.0	13	100	0	52	0	30	7	61	1.24
20466714--20466739	13	2.0	13	100	0	52	0	30	7	61	1.24
20470209--20470417	92	2.3	90	85	9	271	46	3	3	46	1.37
20470345--20470392	26	1.9	25	84	16	64	45	0	2	52	1.12
20470541--20470855	155	2.0	157	94	1	553	47	5	4	43	1.45
20470978--20471013	16	2.2	16	100	0	72	38	36	0	25	1.56
20474489--20474536	4	12.0	4	100	0	96	50	25	0	25	1.50
20478925--20478968	3	15.0	3	95	4	81	34	0	0	65	0.93
20478999--20479048	21	2.3	23	80	13	61	54	4	8	34	1.49
20480526--20480600	20	3.8	18	73	24	55	53	0	1	45	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20480568--20480600	17	2.0	17	94	5	59	51	0	0	48	1.00
20480907--20480939	10	3.3	10	100	0	66	60	0	0	39	0.97
20490655--20490768	56	2.0	57	89	1	176	50	14	11	23	1.76
20491135--20491198	27	2.4	27	100	0	128	40	15	14	29	1.86
20492355--20492412	29	2.0	29	93	0	98	27	29	22	20	1.99
20499285--20499715	216	2.0	216	87	0	621	39	19	15	26	1.91
20505964--20506042	17	4.9	16	74	21	76	18	5	1	74	1.07
20506004--20506050	12	3.9	12	76	17	53	23	6	0	70	1.10
20507051--20507080	10	3.0	10	95	0	51	30	0	43	26	1.55
20507641--20507705	3	22.0	3	79	14	64	30	0	4	64	1.14

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