genome.fa.s3.2.7.7.80.10.50.1000.68.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  68  of  150  ( 17918 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)
20422311--20422430	54	2.2	54	92	0	195	32	10	13	44	1.77
20424532--20424587	26	2.1	26	83	9	69	71	1	19	7	1.18
20424555--20424599	18	2.5	17	82	13	54	71	2	17	8	1.23
20426764--20426823	28	2.1	28	87	0	84	36	16	23	23	1.94
20438089--20438116	14	2.0	14	100	0	56	35	14	14	35	1.86
20446726--20446785	30	2.0	30	100	0	120	33	13	26	26	1.93
20448761--20449089	27	12.2	27	85	0	399	19	17	20	42	1.90
20457760--20457821	25	2.5	25	85	10	83	45	0	1	53	1.10
20461217--20461272	21	2.7	21	97	0	103	62	19	0	17	1.33
20465553--20465598	23	2.0	23	86	0	65	41	4	19	34	1.71
20469129--20469234	27	3.9	27	94	0	185	16	20	39	23	1.92
20469334--20469647	27	13.1	27	74	21	249	54	12	0	32	1.43
20469281--20469647	49	7.7	49	80	10	367	53	13	0	32	1.44
20469410--20469781	22	16.9	22	71	20	239	55	12	0	31	1.40
20469706--20469783	20	3.8	20	81	8	86	55	11	0	33	1.36
20476184--20476222	17	2.2	17	86	9	51	56	5	2	35	1.35
20477198--20477395	99	2.0	99	95	0	360	36	20	12	30	1.89
20479718--20479793	32	2.4	31	80	10	82	27	21	26	25	1.99
20488139--20488360	51	4.4	51	90	1	349	31	13	23	30	1.93
20488139--20488360	101	2.2	101	90	0	354	31	13	23	30	1.93
20489597--20489674	32	2.5	32	81	6	79	25	16	29	28	1.97
20494388--20494412	12	2.1	12	100	0	50	32	16	0	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20511430--20511479	23	2.1	23	88	3	73	20	26	24	30	1.98
20511443--20511488	23	2.0	23	86	0	65	23	30	19	26	1.98
20516296--20516375	37	2.1	39	86	6	112	35	23	17	23	1.96
20517285--20517335	5	10.2	5	100	0	102	60	0	0	39	0.97
20523929--20524008	8	10.0	8	80	11	67	37	0	0	62	0.95
20523929--20524008	32	2.5	31	78	9	90	37	0	0	62	0.95
20524226--20524262	19	2.0	20	84	10	51	37	2	0	59	1.12
20540678--20540717	7	5.9	7	88	5	64	42	0	2	55	1.13
20541771--20541826	14	3.5	17	72	18	57	42	0	3	53	1.18
20553403--20553442	20	2.0	21	90	5	64	25	5	0	70	1.08
20553404--20553449	21	2.2	20	84	3	56	26	4	0	69	1.07
20553397--20553467	22	3.2	21	71	11	61	32	2	0	64	1.08
20565786--20565933	49	3.0	49	94	0	260	31	6	22	39	1.79
20573209--20573257	25	1.9	26	91	4	82	42	10	14	32	1.79
20574820--20574859	13	3.0	13	82	17	55	17	0	10	72	1.11
20582294--20582392	43	2.3	43	87	0	144	33	24	17	25	1.96
20591919--20591979	27	2.3	27	88	0	95	40	13	29	16	1.86
20592040--20592081	17	2.6	16	84	3	57	78	0	19	2	0.86
20592055--20592107	20	2.7	18	78	18	52	75	0	18	5	0.99
20593338--20593404	34	1.9	35	87	3	100	44	14	8	31	1.76
20593839--20593925	30	2.9	31	76	11	92	55	6	10	27	1.59
20597052--20597111	32	1.9	31	86	10	86	65	0	3	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20600117--20600141	9	2.8	9	100	0	50	44	8	0	48	1.32
20601597--20601642	20	2.3	20	85	7	58	50	19	10	19	1.77
20602197--20602259	33	2.0	33	84	6	85	22	14	4	58	1.54
20602387--20602416	2	15.0	2	100	0	60	50	0	0	50	1.00
20605873--20606015	72	2.0	72	92	0	241	34	18	18	28	1.95
20608537--20608591	26	2.1	26	86	6	76	56	18	7	18	1.64
20611076--20611258	50	3.7	49	78	4	177	26	16	26	29	1.97
20611124--20611254	51	2.6	50	85	1	172	27	19	25	28	1.98
20616117--20616247	31	4.2	28	67	23	66	45	3	1	49	1.29
20616152--20616212	29	2.1	29	81	6	70	54	3	0	42	1.17
20616054--20616245	97	2.0	97	85	5	264	46	4	2	47	1.33
20616507--20616703	106	1.9	105	81	6	245	45	7	10	37	1.67
20631453--20631492	20	2.1	19	90	4	62	37	0	0	62	0.95
20631623--20631652	5	5.8	5	96	4	51	76	0	3	20	0.92
20637805--20637838	18	1.9	18	94	5	61	67	0	0	32	0.91
20637864--20637900	9	4.0	9	89	3	56	67	8	2	21	1.29
20640169--20640195	6	4.5	6	100	0	54	18	0	62	18	1.32
20640423--20640477	27	2.0	27	96	0	101	40	7	30	21	1.81
20642463--20642838	160	2.4	157	80	6	443	38	14	12	34	1.85
20642926--20643125	79	2.5	82	90	4	334	27	7	16	49	1.71
20643764--20643808	20	2.2	20	96	0	81	44	17	4	33	1.69
20647722--20647760	17	2.2	18	86	9	53	28	2	2	66	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20657963--20657997	15	2.3	15	100	0	70	65	14	0	20	1.26
20658367--20658458	16	5.8	16	68	15	57	63	4	2	30	1.26
20659943--20660716	44	17.7	44	68	18	170	27	22	20	29	1.99
20659811--20660802	217	4.6	217	93	0	1680	27	22	20	29	1.98
20672130--20672167	19	2.0	19	94	0	67	23	18	21	36	1.95
20673006--20673237	50	4.6	50	91	0	320	21	30	22	26	1.99
20675020--20675091	29	2.4	31	79	4	85	51	11	13	23	1.73
20689913--20689937	12	2.1	12	100	0	50	40	0	24	36	1.55
20695506--20695700	37	5.2	37	79	4	178	36	19	15	28	1.92
20695506--20695700	74	2.6	74	82	4	223	36	19	15	28	1.92
20697545--20697603	20	3.0	20	73	9	66	13	27	20	38	1.90
20708334--20708600	103	2.6	104	90	3	412	19	20	30	30	1.97
20730043--20730118	38	2.0	38	92	0	125	31	6	36	25	1.81
20742847--20742885	15	2.8	13	78	14	51	33	12	7	46	1.71
20746504--20746638	44	3.1	43	80	6	137	31	18	22	26	1.97
20746452--20746801	188	1.9	189	87	1	515	31	20	20	28	1.97
20755793--20755894	30	3.2	30	69	15	96	36	4	18	40	1.72
20759669--20759723	21	2.7	21	88	5	87	38	9	14	38	1.78
20759702--20759746	23	2.0	23	91	4	74	35	6	17	40	1.76
20759681--20759749	22	3.2	22	80	13	72	37	5	17	39	1.74
20759950--20759994	23	2.0	23	81	0	54	22	0	15	62	1.33
20762142--20762271	44	3.0	44	83	5	165	26	15	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20762196--20762299	44	2.4	44	85	3	129	27	15	29	26	1.96
20762400--20785648	44	543.2	44	67	15	4003	28	18	24	28	1.98
20762135--20764089	264	7.5	265	76	9	967	28	18	24	28	1.98
20762705--20763357	342	1.9	332	88	4	970	28	18	24	28	1.98
20762925--20763379	122	3.6	122	70	14	352	28	18	25	27	1.98
20763267--20763331	34	1.9	34	96	0	121	23	24	24	27	2.00
20762972--20763819	254	3.3	255	85	3	1112	29	18	24	27	1.98
20763226--20763369	78	1.8	78	86	5	211	25	19	27	28	1.99
20762664--20763401	342	2.1	343	82	9	959	28	18	24	28	1.98
20764052--20764201	78	1.9	78	90	2	239	26	19	24	30	1.98
20764050--20764719	298	2.2	297	88	1	973	28	19	24	28	1.98
20764350--20764496	78	1.9	78	90	2	233	26	18	23	31	1.97
20764068--20764845	298	2.6	295	83	6	900	28	18	24	28	1.98
20764350--20765105	386	2.0	386	88	1	1122	28	17	24	29	1.98
20764733--20764885	78	2.0	78	88	2	227	26	16	24	31	1.97
20764689--20764923	122	1.9	122	84	1	310	26	18	24	30	1.98
20763744--20767925	684	6.1	680	74	9	3057	28	18	24	28	1.98
20765078--20765144	34	1.9	35	84	3	91	28	19	23	28	1.98
20765034--20765183	78	1.9	78	86	2	212	26	16	25	31	1.97
20765412--20765481	34	2.1	34	91	0	113	22	18	27	31	1.97
20765330--20765550	122	1.8	122	83	9	299	25	19	24	30	1.98
20764736--20765832	298	3.7	292	81	8	1097	28	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20765675--20765911	122	1.9	122	85	3	325	25	18	26	28	1.98
20766056--20766203	78	1.9	77	90	1	233	22	23	23	29	1.99
20766441--20766592	78	1.9	78	85	2	207	26	21	24	27	1.99
20766397--20767017	122	5.0	122	71	12	440	27	19	23	28	1.98
20766823--20766967	78	1.9	78	89	0	227	26	16	25	31	1.96
20767159--20768026	386	2.3	384	84	2	1107	27	18	24	29	1.98
20767753--20767922	86	2.0	87	92	1	288	25	20	24	28	1.99
20768500--20769169	298	2.2	297	85	1	899	28	18	24	28	1.98
20768839--20768905	34	2.0	34	87	0	98	23	22	23	29	1.99
20768800--20768949	78	1.9	78	87	0	219	24	19	25	30	1.98

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