genome.fa.s3.2.7.7.80.10.50.1000.137.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  137  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)
41291895--41291920	4	6.5	4	100	0	52	53	23	0	23	1.46
41295088--41295121	11	3.2	11	83	8	52	17	0	14	67	1.23
41297059--41297119	26	2.3	26	83	11	70	63	1	1	32	1.13
41298374--41298438	31	2.1	31	91	0	103	46	12	9	32	1.73
41299880--41299904	4	6.2	4	100	0	50	24	0	0	76	0.80
41300641--41300716	24	3.2	24	76	10	84	72	2	10	14	1.22
41300621--41300768	47	3.1	47	88	1	226	66	3	13	16	1.37
41300641--41300719	23	3.4	23	72	17	74	72	2	10	15	1.22
41300658--41300732	23	3.2	22	71	23	64	69	4	8	18	1.30
41312433--41312472	18	2.2	18	86	8	55	57	5	0	37	1.21
41313032--41313556	243	2.2	240	79	6	560	43	10	13	32	1.79
41316735--41316863	66	2.0	66	90	3	206	62	7	16	13	1.52
41318491--41318526	19	1.9	19	88	5	56	44	16	5	33	1.71
41319671--41319729	30	2.0	30	86	0	82	54	6	5	33	1.49
41321799--41321854	17	3.2	17	72	18	60	64	10	3	21	1.40
41324327--41324416	44	2.0	45	85	6	121	48	10	10	31	1.69
41324371--41324569	96	2.1	96	82	2	238	34	13	16	35	1.88
41324816--41325194	100	3.7	100	78	15	373	27	15	14	41	1.86
41324914--41325113	99	2.0	99	89	3	305	27	16	14	41	1.87
41330653--41330693	19	2.1	20	86	4	57	53	0	0	46	1.00
41344682--41344716	7	5.0	7	92	0	61	57	0	2	40	1.14
41357301--41357334	12	2.9	12	86	4	52	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41357558--41357629	3	24.7	3	87	8	96	68	1	1	29	1.07
41368284--41368344	31	2.0	31	90	6	97	32	11	13	42	1.79
41368909--41368952	16	2.8	15	77	12	52	45	11	6	36	1.67
41377500--41377538	16	2.4	16	86	0	60	46	5	25	23	1.73
41377583--41377649	34	1.9	35	90	3	109	34	8	10	46	1.70
41377736--41377774	20	2.0	20	94	0	69	48	2	0	48	1.15
41384172--41384290	19	6.5	19	66	23	67	26	5	2	64	1.29
41385510--41385578	30	2.3	31	76	2	77	42	8	13	36	1.75
41387604--41387654	20	2.5	21	71	12	61	66	0	1	31	1.03
41388750--41388905	43	3.6	43	89	3	226	32	19	22	25	1.98
41389357--41389422	21	3.1	21	84	4	80	4	42	16	36	1.69
41397021--41397092	5	14.4	5	76	21	53	54	0	0	45	0.99
41397021--41397092	24	3.3	22	74	12	69	54	0	0	45	0.99
41397388--41397998	9	68.2	9	69	21	192	40	0	14	45	1.46
41397388--41397418	16	1.9	16	100	0	62	32	0	22	45	1.53
41397404--41398023	34	18.3	34	68	21	219	40	0	13	45	1.45
41397410--41398051	56	11.4	56	75	13	532	40	0	13	45	1.46
41397501--41397583	16	5.1	16	72	21	73	39	0	19	40	1.51
41397388--41397695	165	1.9	165	97	0	589	41	0	15	43	1.49
41397517--41397990	115	4.1	114	91	4	690	40	0	13	45	1.46
41397666--41397698	16	2.1	16	100	0	66	30	0	24	45	1.53
41397780--41397812	16	2.1	16	100	0	66	30	0	24	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41397838--41397883	22	2.1	22	95	0	83	41	0	10	47	1.38
41397892--41397989	22	4.8	21	70	22	82	37	0	12	50	1.40
41397592--41398045	114	3.9	116	86	7	434	40	0	13	46	1.46
41397409--41398037	25	22.0	29	71	19	211	41	0	13	45	1.46
41397985--41398054	25	3.1	21	78	13	77	41	1	11	45	1.49
41397985--41398050	22	2.7	26	73	20	70	40	1	12	45	1.51
41400671--41400726	16	3.5	16	80	7	69	23	7	3	66	1.33
41401240--41401266	8	3.4	8	100	0	54	48	51	0	0	1.00
41401380--41401420	13	3.1	14	82	6	50	46	24	7	21	1.77
41405531--41405702	37	4.7	37	94	1	287	37	15	22	24	1.93
41419426--41419484	31	1.9	31	85	0	82	44	10	10	35	1.72
41429292--41429349	29	2.0	29	86	6	82	43	6	8	41	1.62
41430112--41430159	17	2.7	17	75	18	53	70	2	0	27	0.98
41430234--41430286	25	2.2	25	86	3	72	67	7	0	24	1.16
41432916--41432962	15	3.2	14	82	8	58	36	0	2	61	1.08
41432901--41432961	14	3.9	15	78	12	61	36	0	4	59	1.19
41434435--41434474	20	2.0	21	90	5	64	40	15	30	15	1.87
41434592--41434649	20	2.9	20	75	10	64	53	10	17	18	1.71
41436612--41436682	3	23.3	3	87	8	99	30	1	0	67	0.99
41437003--41437027	8	3.1	8	100	0	50	48	0	0	52	1.00
41436912--41437224	115	2.9	108	88	4	459	29	15	19	35	1.93
41437011--41437224	107	2.0	106	91	0	347	29	14	19	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41437633--41437702	20	3.4	21	75	13	74	54	7	17	21	1.66
41437726--41437772	22	2.0	23	88	8	69	59	10	12	17	1.60
41438471--41438535	31	2.1	31	88	5	96	47	3	12	36	1.57
41440777--41440825	18	2.7	18	84	6	64	48	6	26	18	1.71
41446130--41446175	10	4.5	10	80	20	51	32	0	0	67	0.91
41452892--41452957	27	2.6	26	79	9	64	56	3	19	21	1.56
41454912--41454958	22	2.1	22	96	0	85	12	14	27	44	1.82
41455488--41455562	28	2.7	28	79	2	80	20	32	14	33	1.92
41456887--41456918	2	16.0	2	100	0	64	50	0	0	50	1.00
41456978--41457224	124	2.0	123	92	0	413	31	19	9	40	1.83
41463173--41463197	6	4.2	6	100	0	50	16	0	0	84	0.63
41463930--41464037	51	2.1	51	89	0	162	29	23	18	28	1.98
41468029--41468074	17	2.7	18	80	10	60	19	2	2	76	1.00
41468033--41468079	15	3.1	14	85	14	58	17	2	2	78	0.94
41468406--41468440	18	1.9	18	88	0	52	2	0	11	85	0.69
41469410--41469606	98	2.0	98	94	0	349	29	10	23	36	1.89
41470409--41470470	22	3.1	19	78	17	63	30	1	9	58	1.40
41473323--41473968	154	4.3	155	82	9	786	30	9	7	52	1.62
41473323--41473959	301	2.1	295	85	8	874	29	9	7	52	1.62
41474959--41475640	306	2.2	305	92	2	1132	52	7	9	30	1.61
41478918--41478958	21	2.0	21	95	0	73	39	0	0	60	0.96
41479223--41479279	25	2.2	26	84	3	71	50	1	3	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41487107--41487150	24	1.9	24	90	9	74	36	0	2	61	1.09
41487188--41487392	68	3.0	67	88	7	224	45	9	5	39	1.60
41487244--41487271	9	3.1	9	100	0	56	57	10	0	32	1.33
41487312--41487339	9	3.1	9	100	0	56	57	10	0	32	1.33
41487214--41487423	68	3.1	68	95	1	370	44	9	5	40	1.58
41487412--41487453	16	2.6	16	92	0	66	42	7	2	47	1.43
41487427--41487482	23	2.5	23	82	2	69	44	1	1	51	1.22
41493040--41493122	33	2.5	34	84	4	105	43	8	6	42	1.59
41493104--41493145	16	2.6	16	92	0	66	42	7	2	47	1.43
41494362--41494411	21	2.4	22	80	10	59	64	0	10	26	1.25
41498558--41498898	44	7.8	44	69	9	164	24	25	20	29	1.99
41498541--41499027	217	2.2	217	86	4	653	25	24	20	29	1.99
41498899--41499531	141	4.5	142	87	2	902	27	20	19	33	1.96
41499481--41499615	44	3.1	44	73	14	107	22	21	20	34	1.96
41501022--41501074	13	4.0	14	82	7	67	15	15	0	69	1.19
41501029--41501074	20	2.3	20	88	0	65	15	15	0	69	1.19
41501022--41501074	7	8.0	7	79	12	67	15	15	0	69	1.19
41501024--41501086	20	3.2	18	74	22	56	12	12	0	74	1.07
41501984--41502012	6	4.8	6	100	0	58	17	0	13	68	1.20
41506200--41506249	21	2.4	22	80	10	59	62	0	12	26	1.30
41529181--41529205	12	2.1	12	100	0	50	52	40	0	8	1.31
41529809--41529837	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41531909--41531945	2	18.5	2	100	0	74	48	0	0	51	1.00
41536842--41536954	56	2.0	56	100	0	226	28	14	29	28	1.95
41540006--41540104	16	6.6	16	68	16	77	60	0	1	38	1.04
41539990--41540097	57	1.9	57	92	0	180	62	0	1	36	1.06
41547792--41547834	21	2.0	21	82	8	52	23	18	27	30	1.98
41556935--41556992	29	2.0	30	82	3	73	41	1	5	51	1.34
41577068--41577104	14	2.8	13	88	8	56	37	13	5	43	1.67
41581406--41581461	20	2.7	21	81	13	53	69	7	12	10	1.36
41581417--41581461	21	2.1	23	88	12	69	68	8	8	13	1.38
41584247--41584396	35	4.4	35	87	5	225	40	18	22	19	1.92

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