genome.fa.s3.2.7.7.80.10.50.1000.54.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  54  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)
16354745--16354842	44	2.2	44	83	3	126	28	19	23	28	1.98
16354778--16354871	44	2.1	44	82	3	109	29	22	19	28	1.98
16354958--16355068	45	2.5	45	77	4	118	29	23	20	26	1.99
16360229--16360278	3	16.7	3	91	8	84	2	30	0	68	1.01
16360314--16360339	2	13.0	2	100	0	52	50	50	0	0	1.00
16361482--16361516	2	18.0	2	88	5	54	48	2	0	48	1.16
16362739--16362831	30	3.1	30	96	0	168	25	3	13	56	1.52
16371329--16371399	33	2.2	33	87	5	99	23	11	42	22	1.86
16371583--16371660	22	3.5	22	87	0	111	29	26	15	28	1.96
16380700--16380761	30	2.1	30	87	6	90	48	11	8	32	1.68
16389661--16389714	29	1.9	27	85	7	72	25	14	18	40	1.89
16391689--16391842	22	7.0	22	90	0	227	32	14	25	27	1.94
16394070--16394118	18	2.7	18	78	18	57	34	0	0	65	0.93
16397991--16398034	23	1.9	22	82	17	54	36	25	0	38	1.56
16398081--16398172	45	2.0	45	91	0	148	32	23	17	26	1.97
16398178--16398313	50	2.7	52	85	7	199	30	27	16	25	1.96
16400234--16400306	25	2.9	25	100	0	146	58	0	8	32	1.27
16401919--16402230	43	7.3	43	75	6	247	26	29	19	24	1.98
16401919--16402230	129	2.4	127	74	7	297	26	29	19	24	1.98
16401919--16402255	86	3.9	87	79	6	312	25	29	19	25	1.99
16402581--16402672	21	4.4	21	80	5	87	4	43	17	34	1.69
16402643--16402789	66	2.2	66	86	4	199	12	29	17	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16402643--16402812	66	2.6	66	84	3	191	12	28	18	40	1.87
16408242--16408275	16	2.1	16	94	0	59	29	0	17	52	1.45
16408253--16408309	26	2.2	25	87	3	78	31	3	17	47	1.65
16408311--16408603	9	34.7	9	68	18	82	39	1	15	44	1.55
16408313--16408443	16	7.8	16	72	13	70	37	1	18	42	1.60
16408382--16408578	34	5.6	34	74	15	132	42	1	12	43	1.52
16408431--16408580	34	4.4	32	81	11	140	42	1	11	45	1.48
16408849--16408924	31	2.3	33	86	10	104	39	1	10	48	1.46
16408932--16408984	16	3.3	16	84	12	65	30	1	24	43	1.65
16408933--16408979	23	2.0	23	95	0	85	27	2	25	44	1.65
16414060--16414444	41	9.4	41	84	6	467	34	27	23	14	1.94
16414669--16414739	25	2.8	25	82	4	79	26	7	8	57	1.54
16422104--16422146	15	2.9	14	77	12	50	34	0	0	65	0.93
16428258--16428282	12	2.1	12	100	0	50	48	0	0	52	1.00
16428322--16428363	22	1.9	22	85	0	57	59	2	0	38	1.10
16428491--16428553	27	2.2	29	80	8	76	28	1	3	66	1.16
16428528--16428580	20	2.6	20	75	3	61	20	0	5	73	1.03
16428540--16428635	29	3.4	30	75	16	89	33	1	2	63	1.13
16428614--16428659	24	2.0	23	86	4	65	32	2	0	65	1.05
16428605--16428680	32	2.4	30	79	12	80	35	1	0	63	1.03
16429792--16430117	41	7.8	41	76	15	276	22	18	22	37	1.94
16429972--16430129	51	3.3	51	73	19	185	22	18	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16429930--16430122	92	2.1	92	97	0	359	22	18	23	36	1.95
16430445--16430515	21	3.4	21	86	3	99	4	43	18	33	1.69
16433998--16434255	9	27.4	9	77	9	171	33	1	14	50	1.51
16434007--16434255	18	13.2	18	76	10	214	33	1	15	49	1.52
16433996--16434282	27	10.1	27	81	8	227	33	1	15	49	1.55
16436536--16436609	24	3.0	26	74	16	70	41	1	35	21	1.62
16436750--16436828	40	2.1	38	83	9	99	39	22	13	24	1.91
16436722--16437020	116	2.6	113	80	7	327	42	20	14	22	1.88
16437283--16437447	49	3.3	49	63	17	120	35	31	4	27	1.78
16437261--16437479	103	2.1	103	95	0	402	38	29	4	27	1.77
16437461--16437558	7	14.0	7	79	11	58	47	29	0	22	1.51
16437461--16437558	28	3.5	27	75	8	81	47	29	0	22	1.51
16437639--16437684	15	3.1	15	84	3	58	43	30	2	23	1.66
16437727--16437794	22	3.1	21	77	8	73	36	41	5	16	1.72
16437966--16437996	12	2.6	12	100	0	62	48	6	0	45	1.28
16438122--16438439	72	4.4	73	82	2	336	26	24	21	27	1.99
16438122--16438432	145	2.1	145	86	1	435	26	24	21	27	2.00
16438879--16438938	30	2.1	27	81	9	66	45	3	13	38	1.60
16440308--16440354	24	2.0	23	87	4	67	44	0	36	19	1.51
16456420--16456513	47	2.0	47	91	0	152	25	28	1	44	1.61
16478294--16478398	34	3.1	33	86	5	138	40	0	16	41	1.54
16478467--16478980	126	4.1	127	90	2	759	38	16	16	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16482522--16482556	18	1.9	18	94	0	61	34	8	31	25	1.86
16484317--16484385	30	2.3	30	89	0	111	40	1	24	33	1.64
16486864--16487203	51	6.7	51	78	8	347	30	25	15	29	1.96
16486864--16487203	102	3.4	101	85	4	420	30	25	15	29	1.96
16491998--16492038	2	21.0	2	95	5	75	48	0	0	51	1.00
16493674--16493714	9	4.7	9	82	11	50	68	0	0	31	0.90
16498286--16498461	63	2.8	63	81	1	192	35	31	6	26	1.83
16500230--16500259	7	4.3	7	100	0	60	86	0	13	0	0.57
16505712--16505756	22	2.0	22	86	8	63	31	11	4	53	1.56
16506318--16506412	42	2.3	42	87	3	129	50	17	21	10	1.76
16506657--16506728	31	2.4	31	95	2	128	29	9	6	54	1.59
16517319--16517756	215	2.0	215	98	0	840	34	19	13	32	1.91
16523118--16523184	34	2.0	33	85	2	89	13	10	25	50	1.73
16526346--16526430	38	2.2	37	87	8	118	32	0	7	60	1.24
16530755--16530828	6	12.7	6	83	8	73	71	12	5	10	1.29
16532967--16533133	87	1.9	87	87	1	244	28	23	24	23	2.00
16533194--16533279	44	2.0	44	80	0	100	32	18	23	25	1.97
16533138--16533799	132	5.0	132	93	0	1067	28	17	24	29	1.97
16533738--16533880	44	3.3	43	70	9	128	31	16	25	26	1.97
16533721--16533968	87	2.8	87	81	4	277	29	19	23	27	1.98
16533853--16534058	44	4.8	43	71	8	132	32	19	21	26	1.97
16537718--16537784	13	5.2	13	81	0	80	35	23	4	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16538168--16538237	21	3.2	21	66	18	61	20	17	12	50	1.78
16538105--16538237	45	3.0	45	94	2	223	21	18	15	45	1.85
16540188--16540297	28	3.9	29	80	4	143	56	7	14	21	1.63
16544284--16544377	19	4.8	19	89	5	143	38	10	14	36	1.81
16544284--16544384	40	2.7	38	86	8	143	38	9	15	35	1.81
16544368--16544411	22	2.0	23	86	4	63	34	4	13	47	1.63
16544921--16544972	25	2.1	25	85	7	70	32	3	5	57	1.40
16545525--16545566	19	2.2	20	86	4	59	33	7	9	50	1.62
16545807--16546001	98	2.0	98	96	0	363	28	10	24	36	1.88
16546978--16547011	10	3.5	10	96	4	61	35	8	11	44	1.72
16547555--16547645	38	2.3	39	90	5	148	67	0	2	30	1.03
16549631--16549744	40	2.9	40	82	7	137	21	21	21	35	1.96
16551638--16551680	22	2.0	22	82	13	54	13	4	32	48	1.63
16553376--16553427	24	2.2	24	89	0	77	53	7	3	34	1.48
16554186--16554267	43	1.9	43	87	2	121	21	20	31	25	1.98
16554209--16554323	60	1.9	60	85	0	158	26	25	26	21	2.00
16554287--16554474	43	4.4	43	84	0	250	25	32	18	23	1.97
16554811--16554912	42	2.4	42	88	0	141	6	43	15	34	1.74
16554811--16554912	21	4.9	21	82	0	123	6	43	15	34	1.74
16554894--16555040	66	2.2	66	84	4	190	14	27	17	40	1.89
16554914--16555064	66	2.3	65	86	5	205	15	24	19	40	1.90
16560508--16561341	9	94.3	9	67	21	219	40	0	13	45	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16560513--16560632	16	7.9	16	69	19	96	35	1	17	45	1.58
16560527--16560666	25	5.7	25	78	6	142	37	1	16	45	1.56
16560553--16560735	34	5.2	34	73	10	156	39	1	15	42	1.57
16560655--16560769	34	3.4	34	78	4	151	46	1	13	38	1.54
16560756--16560788	16	2.1	16	100	0	66	30	0	24	45	1.53
16560619--16560772	68	2.3	68	100	0	308	44	1	14	40	1.53
16560772--16561360	31	20.0	31	74	19	466	39	0	12	46	1.47
16560930--16560962	16	2.1	16	100	0	66	30	0	24	45	1.53
16560986--16561292	22	15.1	21	68	27	136	39	0	12	48	1.41
16561107--16561139	16	2.1	16	100	0	66	30	0	24	45	1.53

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