genome.fa.s12.2.7.7.80.10.50.1000.75.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  75  of  120  ( 14336 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)
22600240--22600308	22	3.0	23	85	6	79	59	0	1	39	1.06
22600248--22600308	11	5.6	11	82	1	70	59	0	1	39	1.08
22600222--22600301	22	3.5	22	79	14	81	57	0	1	41	1.07
22600253--22600314	22	3.0	22	86	6	85	59	0	3	37	1.13
22603878--22604080	89	2.3	86	77	10	216	38	18	7	35	1.79
22604351--22604448	46	2.2	46	94	1	171	43	19	3	33	1.66
22608922--22609019	46	2.2	46	94	1	171	43	19	3	33	1.66
22609072--22609115	9	5.0	8	80	20	52	70	0	2	27	0.99
22609075--22609124	10	5.3	9	81	13	57	72	0	2	26	0.96
22609068--22609150	27	2.9	29	82	10	109	60	1	4	33	1.26
22609409--22609450	18	2.2	20	80	16	54	40	2	0	57	1.12
22609951--22610000	21	2.4	21	86	0	64	46	4	20	30	1.69
22609964--22610005	21	2.0	21	90	0	66	47	4	16	30	1.67
22612077--22612540	231	2.0	231	98	0	892	22	17	19	40	1.91
22613878--22613916	18	2.2	18	86	9	53	41	23	10	25	1.86
22617808--22618327	263	2.0	261	93	0	896	30	23	17	29	1.97
22621650--22621683	13	2.7	13	86	4	52	58	2	0	38	1.13
22624263--22624449	97	1.9	97	93	0	320	32	15	20	32	1.94
22624422--22624604	41	4.5	41	92	0	276	29	22	22	25	1.99
22624422--22624649	82	2.8	82	83	2	208	29	22	22	25	1.99
22625317--22625341	13	1.9	13	100	0	50	16	0	16	68	1.22
22632626--22632812	41	4.6	41	86	2	241	28	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22632750--22632865	41	2.8	41	76	2	99	28	18	25	27	1.98
22632626--22632851	123	1.8	123	79	3	258	29	20	23	26	1.99
22637647--22637781	37	3.6	37	75	11	150	32	14	17	35	1.90
22637648--22637799	74	2.1	74	93	0	259	32	12	17	37	1.87
22643482--22643592	19	5.8	19	86	0	168	38	9	14	37	1.78
22643489--22643592	38	2.7	38	95	0	190	39	8	13	38	1.75
22646463--22646508	24	1.9	24	86	0	65	45	17	26	10	1.81
22648703--22648727	13	1.9	13	100	0	50	88	12	0	0	0.53
22652480--22652524	23	2.0	23	82	8	56	44	6	2	46	1.42
22652531--22652568	11	3.5	11	100	0	76	47	26	0	26	1.52
22655541--22655588	26	1.9	25	84	16	64	45	0	2	52	1.12
22655754--22655805	15	3.6	15	80	12	56	44	0	1	53	1.11
22657205--22659683	132	18.8	132	90	0	3796	28	18	23	29	1.97
22659620--22659725	43	2.4	43	78	6	106	28	15	26	30	1.96
22660009--22660119	19	5.8	19	85	0	159	39	9	14	36	1.78
22660016--22660119	38	2.7	38	93	0	181	40	8	13	37	1.75
22664047--22664100	27	2.0	28	85	3	74	38	14	29	16	1.89
22664748--22664786	18	2.1	18	85	9	51	33	5	5	56	1.43
22671576--22671717	70	2.0	70	95	0	257	34	16	19	28	1.94
22673343--22673410	6	11.0	6	85	3	55	22	5	1	70	1.17
22673345--22673394	26	1.9	26	84	8	66	18	8	2	72	1.19
22673386--22673410	11	2.3	11	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22687247--22687419	50	3.5	50	87	0	247	24	24	30	20	1.99
22687682--22687720	12	3.2	12	85	0	51	51	5	23	20	1.67
22694836--22694950	25	4.6	25	82	0	113	36	20	15	26	1.93
22694892--22694960	25	2.8	25	84	0	66	40	17	13	28	1.87
22696792--22696822	3	10.7	3	93	6	55	70	0	0	29	0.87
22696959--22696998	18	2.2	18	86	8	55	37	0	2	60	1.11
22698364--22698432	22	3.1	22	80	0	84	28	14	13	43	1.83
22698436--22698535	34	2.9	34	86	0	128	31	20	24	25	1.98
22700183--22700218	15	2.4	15	90	0	54	47	16	13	22	1.82
22709456--22709538	31	2.8	29	80	7	78	34	10	12	42	1.77
22709762--22709786	13	1.9	13	100	0	50	40	20	8	32	1.81
22716366--22716476	44	2.5	44	88	5	154	27	23	20	27	1.99
22716400--22716733	44	7.7	43	69	11	160	28	26	18	26	1.98
22716399--22716792	218	1.8	218	90	1	637	27	26	19	26	1.99
22730699--22730728	14	2.1	14	100	0	60	60	13	13	13	1.60
22732856--22732890	18	1.9	18	94	0	61	40	14	42	2	1.60
22735596--22735655	24	2.5	25	78	8	70	15	41	8	35	1.77
22735644--22735692	6	8.2	6	77	8	55	16	28	4	51	1.63
22735623--22735695	30	2.4	30	83	0	92	16	32	5	45	1.70
22738040--22738470	230	1.9	231	84	5	591	32	16	9	41	1.80
22738863--22738914	24	2.2	24	82	0	59	53	11	3	30	1.54
22749255--22749290	17	2.1	17	100	0	72	36	16	11	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22755594--22755622	8	3.6	8	100	0	58	20	0	0	79	0.74
22756039--22756268	87	2.6	91	82	6	253	37	18	11	32	1.86
22756367--22756464	27	3.6	27	70	9	74	65	2	4	28	1.22
22756477--22756522	19	2.4	19	92	0	74	69	4	2	23	1.17
22758455--22758525	19	3.7	19	75	15	74	26	4	4	64	1.30
22758396--22758496	29	3.5	28	75	12	89	30	6	1	60	1.34
22758396--22758526	58	2.2	58	80	10	142	29	6	3	61	1.35
22761420--22761494	39	1.9	39	86	5	107	40	20	21	18	1.92
22761367--22761873	114	4.4	114	92	2	838	36	19	20	23	1.95
22761367--22762021	342	1.9	341	82	5	833	36	19	20	23	1.95
22762581--22762667	21	4.1	21	75	16	81	14	0	32	52	1.42
22762738--22762789	7	7.4	7	77	0	50	15	1	36	46	1.57
22762757--22762796	21	1.9	21	84	0	53	20	0	32	47	1.50
22762738--22762801	28	2.3	28	83	0	74	17	3	34	45	1.64
22762738--22762789	14	3.7	14	78	0	59	15	1	36	46	1.57
22762924--22762959	15	2.3	16	90	4	56	61	2	0	36	1.11
22763161--22763198	20	1.9	20	88	0	58	34	0	10	55	1.34
22763821--22763849	15	1.9	15	100	0	58	37	0	13	48	1.43
22763803--22763872	16	3.9	16	69	25	50	41	0	10	48	1.36
22763845--22763895	25	2.1	24	85	3	66	47	0	5	47	1.26
22764344--22764440	49	2.0	49	100	0	194	40	14	8	37	1.76
22765755--22766476	9	82.4	9	65	17	197	45	19	3	31	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22765753--22765824	19	3.7	19	87	5	99	44	16	1	37	1.57
22765886--22765928	20	2.2	19	87	4	59	55	11	2	30	1.48
22765892--22765940	15	3.5	15	75	16	59	57	12	2	28	1.46
22765886--22766032	21	7.0	21	74	19	119	46	18	2	31	1.63
22765906--22766474	16	33.8	16	65	19	130	45	20	2	31	1.66
22766038--22766116	41	1.9	41	92	0	131	49	20	2	27	1.62
22765976--22766170	25	7.8	26	72	14	117	44	23	3	29	1.70
22766092--22766415	120	2.7	120	92	0	549	44	20	3	30	1.68
22766330--22766447	25	4.7	25	70	12	80	46	19	3	30	1.66
22772464--22772583	43	2.8	42	86	6	159	29	20	25	25	1.99
22772463--22772791	42	7.7	43	76	5	240	25	19	24	30	1.98
22772466--22772750	85	3.3	84	75	9	204	25	18	25	29	1.98
22772510--22772791	127	2.2	126	81	4	309	24	18	24	32	1.97
22775139--22775168	10	3.0	10	90	0	51	30	23	0	46	1.52
22776563--22776601	20	2.0	19	85	5	51	41	7	7	43	1.62
22783453--22783491	9	4.4	9	83	6	53	53	2	7	35	1.43
22783447--22783482	17	2.1	17	94	0	63	52	5	8	33	1.55
22789086--22789246	46	3.5	46	85	0	189	16	22	15	45	1.85
22789223--22789383	45	3.6	45	87	0	232	24	20	16	37	1.93
22789223--22789422	90	2.2	90	81	0	229	23	20	18	38	1.93
22795646--22795687	21	2.0	21	85	4	57	21	14	26	38	1.91
22795995--22796158	25	6.6	25	72	13	88	37	23	12	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22795944--22796159	50	4.3	50	82	1	245	37	23	12	25	1.91
22813630--22813665	12	3.0	12	87	0	54	13	0	5	80	0.88
22817823--22817854	16	2.0	16	93	0	55	37	21	6	34	1.79
22820832--22820881	25	1.9	27	84	8	68	68	2	4	26	1.18
22826938--22826986	24	2.1	23	84	3	62	55	4	34	6	1.44
22833250--22833370	59	2.1	59	98	0	233	37	18	9	35	1.82
22841530--22841719	50	3.8	50	87	0	254	21	29	21	27	1.99
22850441--22850523	25	3.3	25	89	0	121	30	16	24	28	1.97
22853159--22853270	56	2.0	56	92	1	190	43	3	4	48	1.40
22853603--22853897	43	6.9	43	88	1	378	24	28	20	27	1.99

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