genome.fa.s3.2.7.7.80.10.50.1000.45.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  45  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)
12674955--12674993	19	2.1	19	85	9	53	41	10	0	48	1.37
12683170--12683209	19	2.1	19	85	0	53	60	10	2	27	1.42
12685035--12685068	16	2.1	16	88	0	50	44	2	11	41	1.56
12685242--12685270	14	2.1	14	100	0	58	27	20	10	41	1.85
12686758--12686792	17	2.1	17	100	0	70	28	17	11	42	1.83
12688352--12688407	29	1.9	28	82	13	69	57	1	3	37	1.27
12688430--12688474	17	2.6	17	89	6	65	44	0	6	48	1.29
12688804--12688837	16	2.0	18	88	11	54	64	0	0	35	0.94
12688890--12688923	17	2.0	17	88	0	50	50	0	2	47	1.16
12689443--12689499	25	2.1	27	84	15	75	59	0	0	40	0.97
12697884--12697935	26	2.0	26	92	0	86	53	5	7	32	1.53
12707344--12707396	13	4.1	13	80	7	63	49	3	0	47	1.19
12707352--12707388	9	4.1	9	85	0	56	51	0	0	48	1.00
12710146--12710191	21	2.2	21	84	3	58	32	4	8	54	1.51
12712397--12712441	13	3.5	13	75	0	54	37	13	31	17	1.89
12712388--12712447	26	2.3	26	97	0	111	36	15	33	15	1.88
12718203--12718230	13	2.2	13	100	0	56	39	14	21	25	1.91
12721683--12722121	221	2.0	221	87	2	641	40	20	12	25	1.88
12722908--12722953	2	23.0	2	90	0	74	50	2	2	45	1.26
12730607--12730636	13	2.2	14	94	5	53	50	0	3	46	1.18
12734733--12734757	13	1.9	13	100	0	50	68	0	16	16	1.22
12737824--12737971	72	2.1	72	97	0	278	39	10	20	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12739674--12739707	10	3.3	10	84	8	50	8	5	11	73	1.24
12739672--12739714	11	4.0	10	82	11	50	9	4	11	74	1.20
12763559--12763604	23	2.0	23	83	4	58	30	45	4	19	1.70
12778405--12778486	41	2.0	41	95	0	146	29	7	15	47	1.73
12781627--12781677	24	2.1	24	92	0	84	29	17	27	25	1.98
12782232--12782269	19	2.0	19	94	0	67	34	5	18	42	1.73
12782307--12782389	41	2.0	41	90	0	130	31	6	12	50	1.63
12793844--12793877	13	2.6	13	100	0	68	52	20	17	8	1.71
12793844--12793881	13	3.1	12	92	7	51	50	23	15	10	1.75
12795515--12795553	2	19.5	2	100	0	78	48	0	0	51	1.00
12796218--12796256	19	2.0	19	90	5	60	66	5	0	28	1.12
12796218--12796271	18	2.8	19	86	5	65	66	3	1	27	1.19
12796218--12796272	19	2.8	19	81	13	51	67	3	1	27	1.17
12796284--12796317	8	4.6	7	86	13	50	67	0	0	32	0.91
12796284--12796317	15	2.3	15	94	0	59	67	0	0	32	0.91
12796802--12797028	43	5.3	43	75	10	182	25	28	20	25	1.99
12796884--12797042	43	3.7	43	83	2	196	25	31	18	23	1.98
12796883--12797046	86	1.9	85	86	3	231	26	31	18	24	1.98
12798697--12798757	28	2.2	28	85	5	79	32	24	9	32	1.88
12801359--12801400	19	2.2	19	91	0	66	14	2	2	80	0.90
12801737--12801812	21	3.6	21	72	13	66	35	40	0	23	1.55
12802103--12802139	14	2.6	14	91	0	56	32	48	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12802098--12802174	21	3.6	21	76	1	64	33	42	0	23	1.54
12802162--12802204	15	2.9	15	82	3	52	39	32	0	27	1.57
12802551--12802867	41	7.8	41	86	3	390	30	26	19	23	1.98
12802551--12802867	123	2.6	122	87	3	431	30	26	19	23	1.98
12802907--12803042	40	3.4	40	82	7	161	22	20	22	35	1.96
12807717--12808247	50	10.6	50	77	6	409	22	27	21	28	1.99
12807685--12808178	244	2.0	244	95	0	880	22	26	21	29	1.99
12808586--12808642	30	1.9	29	85	3	78	36	22	3	36	1.72
12814295--12814351	6	9.3	6	77	11	62	14	3	3	78	1.01
12814290--12814350	17	3.9	16	77	12	56	14	3	4	77	1.07
12814291--12814333	23	1.9	22	90	4	68	18	2	2	76	1.00
12818792--12818828	19	1.9	19	88	0	56	54	16	5	24	1.63
12823563--12823609	23	2.0	24	87	4	69	38	17	6	38	1.75
12823563--12823628	21	3.0	23	77	18	77	37	16	7	37	1.77
12823586--12823640	19	2.7	21	86	11	87	38	14	9	38	1.78
12830058--12830090	14	2.4	14	94	0	57	69	3	21	6	1.24
12837203--12837248	17	2.6	17	83	10	58	60	6	21	10	1.52
12843646--12843684	20	2.0	20	90	10	62	15	23	5	56	1.59
12844993--12845183	41	4.6	41	92	0	274	23	28	19	27	1.99
12850697--12850759	24	2.6	24	87	0	90	46	1	17	34	1.58
12864140--12864192	14	3.5	14	76	16	52	50	0	0	49	1.00
12864140--12864194	16	3.6	16	83	13	71	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12865073--12865114	22	1.9	22	95	0	75	47	4	2	45	1.36
12872211--12872237	5	5.4	5	100	0	54	81	0	0	18	0.69
12872741--12873068	161	2.0	162	97	0	622	34	10	21	32	1.88
12873288--12873338	22	2.3	23	89	3	77	49	11	0	39	1.40
12876333--12876402	36	1.9	36	100	0	140	45	8	8	37	1.65
12883332--12883368	17	2.1	18	85	14	51	70	2	2	24	1.14
12897498--12897558	23	2.5	23	84	7	68	50	19	11	18	1.76
12898920--12899566	324	2.0	321	93	2	1109	44	8	25	21	1.81
12899933--12899979	24	1.9	25	91	4	78	46	4	6	42	1.48
12902836--12902883	21	2.3	21	88	0	69	25	31	6	37	1.81
12921866--12921951	26	3.3	26	75	6	102	16	45	24	13	1.84
12928188--12928214	2	13.5	2	100	0	54	48	0	0	51	1.00
12932786--12932915	57	2.3	57	87	0	179	27	10	16	45	1.80
12932786--12932931	57	2.6	57	84	2	150	27	10	17	44	1.81
12934391--12934421	13	2.4	13	94	0	53	35	19	3	41	1.67
12934900--12935026	20	6.3	20	72	8	96	39	22	28	10	1.86
12945048--12945099	20	2.5	20	84	9	61	32	1	19	46	1.61
12947463--12947516	27	2.0	28	92	3	92	18	22	35	24	1.96
12947498--12947629	33	3.7	34	71	19	115	21	21	26	31	1.98
12947388--12947592	103	2.0	103	92	0	338	20	19	28	31	1.97
12948870--12948900	6	5.3	6	92	7	55	12	19	16	51	1.76
12948870--12948900	11	2.7	12	95	5	55	12	19	16	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12951545--12951617	17	4.3	17	73	0	65	27	27	27	17	1.98
12956070--12956098	13	2.2	13	100	0	58	44	20	13	20	1.85
12961568--12961620	3	17.7	3	100	0	106	0	32	0	67	0.91
12968930--12968978	22	2.4	21	83	10	66	34	10	0	55	1.34
12973639--12973680	20	2.0	21	82	13	52	45	2	4	47	1.36
12976906--12976963	22	2.7	21	76	10	53	43	17	1	37	1.59
12976934--12976976	19	2.4	19	84	7	54	34	18	4	41	1.71
12977490--12977808	44	7.3	44	67	12	154	25	25	19	29	1.98
12977419--12977810	131	3.0	132	88	1	608	25	25	20	29	1.99
12977941--12978076	45	3.0	44	70	14	116	26	24	22	27	2.00
12977776--12978114	89	3.8	89	80	0	347	25	23	22	28	1.99
12978056--12978380	143	2.3	143	83	2	393	30	20	17	32	1.95
12978351--12978647	44	6.7	44	73	4	213	26	21	19	31	1.97
12978131--12978413	143	2.0	143	80	1	325	30	21	16	31	1.95
12978977--12979032	24	2.3	24	100	0	112	28	26	12	32	1.93
12985880--12985912	15	2.1	16	88	5	50	63	0	6	30	1.18
12986737--12986794	22	2.7	21	76	10	53	41	17	3	37	1.66
12986788--12986822	14	2.5	14	85	0	52	31	22	11	34	1.90
12994395--12994513	41	2.9	41	78	2	114	18	21	26	34	1.96
13002365--13002468	41	2.5	41	80	0	109	19	23	25	32	1.97
13002411--13002499	41	2.2	42	85	4	119	20	17	23	38	1.93
13002411--13002511	41	2.5	41	83	3	105	20	16	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13010342--13010396	24	2.3	24	90	0	83	36	5	21	36	1.77
13018148--13018278	14	9.2	14	72	9	95	46	29	1	22	1.61
13018167--13018210	22	2.0	22	90	0	70	45	34	0	20	1.51
13018225--13018273	7	7.0	7	80	0	53	42	36	0	20	1.52
13018323--13018410	7	12.1	7	73	11	54	45	34	0	20	1.51
13018345--13018378	16	2.1	16	94	0	59	52	26	0	20	1.46
13018816--13019086	41	6.6	41	78	7	266	31	25	21	21	1.98
13018840--13019086	82	3.0	81	85	3	316	31	25	21	21	1.98
13018842--13019085	123	2.0	123	82	7	300	31	26	22	20	1.98
13019471--13019520	25	2.0	25	92	0	82	40	12	12	36	1.79

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