genome.fa.s12.2.7.7.80.10.50.1000.88.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  88  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)
26273752--26273890	44	3.2	44	65	15	115	24	20	28	26	1.99
26273928--26274064	43	3.2	43	63	13	100	21	21	24	32	1.97
26273599--26274393	87	9.0	87	89	3	1030	24	24	22	28	1.99
26274217--26274393	98	1.8	98	96	0	327	22	25	23	28	1.99
26275631--26275666	6	5.7	6	87	12	54	13	16	0	69	1.19
26275623--26275666	20	2.2	20	92	8	72	13	15	0	70	1.17
26275623--26275667	7	6.6	7	87	7	58	13	15	0	71	1.15
26276024--26276122	49	2.0	49	86	0	135	10	8	7	74	1.21
26276026--26276112	43	2.0	43	84	8	115	10	6	8	74	1.21
26280077--26280395	110	2.9	112	94	0	552	32	21	16	29	1.95
26280988--26281016	2	14.5	2	100	0	58	48	0	0	51	1.00
26280999--26281060	27	2.4	26	81	5	72	46	4	9	38	1.58
26282916--26283531	88	7.1	86	86	4	681	24	23	23	28	2.00
26283111--26283349	44	5.4	43	66	10	142	26	23	24	25	2.00
26287076--26287331	124	2.1	124	86	2	352	30	16	22	31	1.95
26288647--26288963	23	12.4	23	73	19	238	30	0	22	46	1.59
26288646--26288963	51	6.2	51	87	4	371	30	0	22	45	1.59
26288618--26288980	80	4.6	79	80	12	372	30	1	23	45	1.60
26291106--26291152	22	2.2	21	84	3	58	68	2	0	29	1.02
26291355--26291411	28	2.0	30	89	6	91	31	0	36	31	1.58
26291333--26291433	50	2.0	51	84	5	134	32	0	32	33	1.65
26291383--26291446	22	3.0	20	88	8	74	35	1	29	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26292502--26292542	21	2.0	21	90	9	66	4	17	0	78	0.93
26304327--26304359	16	2.0	17	88	5	50	63	0	3	33	1.10
26304630--26304671	19	2.2	20	82	4	50	26	11	4	57	1.54
26311746--26311821	40	1.9	40	84	10	102	30	22	28	18	1.97
26311760--26311837	40	2.0	40	84	5	104	34	17	28	19	1.95
26317223--26317271	16	3.2	16	75	16	50	73	8	2	16	1.16
26327283--26327351	30	2.4	29	80	9	79	23	11	21	43	1.85
26327966--26327991	11	2.4	11	100	0	52	61	0	0	38	0.96
26327951--26328016	8	7.8	8	81	9	60	71	0	0	28	0.87
26329259--26329517	136	1.9	136	97	0	491	28	3	11	56	1.50
26329259--26329548	136	2.1	136	92	3	478	27	3	11	58	1.47
26331952--26332050	39	2.5	39	83	3	119	42	21	8	28	1.81
26341077--26341110	2	17.0	2	100	0	68	50	0	0	50	1.00
26341110--26341163	2	27.0	2	100	0	108	0	0	50	50	1.00
26341773--26341838	27	2.4	27	85	7	80	36	3	0	60	1.12
26348552--26348577	2	13.0	2	100	0	52	50	0	0	50	1.00
26349014--26349049	11	3.2	11	88	4	54	16	33	0	50	1.46
26349029--26349146	51	2.3	51	88	4	166	33	25	0	40	1.62
26350934--26350968	18	1.9	18	88	0	52	25	34	8	31	1.86
26351371--26351483	25	4.7	25	69	18	96	38	2	15	43	1.60
26351483--26351798	29	11.4	29	85	10	448	49	30	0	20	1.50
26351479--26351798	81	3.9	81	86	10	440	49	29	0	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26351483--26351799	110	2.9	110	92	2	525	48	29	0	21	1.50
26351796--26352007	55	3.9	55	98	0	406	41	10	5	43	1.61
26355001--26355227	125	1.8	125	93	0	391	31	21	16	31	1.95
26355874--26355968	48	2.0	48	93	0	163	40	23	18	17	1.92
26356191--26356244	17	2.9	19	71	20	60	46	16	12	24	1.82
26361013--26361107	48	2.0	48	91	0	154	42	22	16	18	1.89
26361312--26361383	36	2.0	37	91	2	119	45	16	12	25	1.82
26367652--26367695	22	2.0	21	83	12	54	45	13	6	34	1.70
26370779--26370816	17	2.2	18	85	4	51	13	5	13	68	1.37
26370788--26370835	23	2.1	23	84	0	60	16	4	16	62	1.48
26384552--26384742	51	3.8	51	72	11	176	30	28	15	25	1.96
26384550--26384734	101	1.8	102	85	3	266	31	27	16	24	1.96
26385970--26386233	122	2.2	122	86	2	352	28	16	23	31	1.96
26387463--26387582	52	2.3	51	88	4	170	26	13	29	30	1.94
26389503--26389558	22	2.5	22	94	0	94	57	16	14	12	1.66
26412286--26412331	20	2.3	20	85	3	58	50	23	13	13	1.76
26415282--26415306	12	2.1	12	100	0	50	68	0	0	32	0.90
26417341--26417392	21	2.5	22	84	9	72	26	5	34	32	1.80
26421071--26421118	22	2.1	21	88	11	69	72	2	14	10	1.19
26421277--26421310	16	2.1	16	88	0	50	26	5	0	67	1.13
26424073--26424100	13	2.2	13	100	0	56	46	14	0	39	1.44
26427011--26427067	30	1.9	30	82	13	73	43	3	1	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26427239--26427275	13	2.8	13	91	0	65	45	24	0	29	1.53
26430355--26430389	17	2.0	18	88	5	54	31	14	0	54	1.40
26433461--26433506	12	3.9	11	81	13	56	52	0	2	45	1.13
26433458--26433536	28	2.7	28	76	21	81	53	0	1	45	1.08
26433486--26433523	14	2.4	17	87	12	55	47	0	0	52	1.00
26433657--26433685	3	9.7	3	100	0	58	65	0	0	34	0.93
26433684--26433714	3	10.3	3	100	0	62	35	0	0	64	0.94
26433761--26433808	19	2.5	20	86	6	64	50	4	8	37	1.52
26433771--26433809	20	2.0	20	95	5	71	51	2	5	41	1.38
26433852--26433900	5	10.0	5	86	4	55	73	2	6	18	1.14
26433858--26433900	10	4.4	10	88	2	61	74	0	6	18	1.04
26434337--26434370	17	1.9	18	88	5	52	41	0	23	35	1.55
26434782--26434842	19	2.9	22	76	16	74	16	18	26	39	1.91
26437013--26437037	8	3.1	8	100	0	50	52	0	24	24	1.48
26437606--26437656	3	17.0	3	100	0	102	33	0	0	66	0.92
26439641--26439681	15	2.7	15	88	7	57	24	4	4	65	1.32
26441378--26441420	23	1.9	22	90	4	68	53	0	0	46	1.00
26442696--26442752	22	2.5	23	80	8	71	56	19	0	24	1.42
26442713--26442767	22	2.5	21	88	11	76	45	25	0	29	1.54
26449164--26449204	21	2.0	21	85	0	55	34	12	2	51	1.52
26449187--26449314	44	2.8	46	77	10	129	39	7	2	50	1.42
26449195--26449314	45	2.6	45	77	10	127	40	6	1	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26452995--26453163	60	2.8	60	77	0	185	39	4	16	39	1.68
26453706--26453735	14	2.1	14	100	0	60	26	30	30	13	1.94
26453877--26454548	125	5.4	125	90	1	994	29	17	22	30	1.97
26453877--26454550	251	2.7	249	90	2	1048	29	17	22	30	1.97
26455574--26455631	25	2.3	25	96	0	107	44	15	0	39	1.47
26455546--26455677	70	1.9	71	95	1	239	50	13	0	35	1.42
26455576--26455674	25	4.1	25	70	15	64	50	13	0	36	1.41
26457370--26457467	51	1.9	51	81	8	119	46	2	23	27	1.63
26457429--26457481	11	4.7	12	84	15	69	43	0	30	26	1.55
26459668--26459859	55	3.5	55	88	4	280	27	8	14	50	1.71
26459960--26459992	13	2.5	13	95	0	57	54	21	6	18	1.64
26460640--26460777	10	14.4	10	72	14	78	65	0	1	32	1.07
26460641--26460777	9	14.4	9	75	13	107	64	0	1	32	1.07
26460641--26460777	19	7.2	19	72	15	97	64	0	1	32	1.07
26461012--26461123	9	11.8	9	69	16	66	30	6	1	61	1.31
26462494--26462880	198	1.9	200	90	4	609	35	18	12	32	1.89
26463277--26463301	2	12.5	2	100	0	50	52	0	0	48	1.00
26465101--26465131	2	15.5	2	100	0	62	48	0	51	0	1.00
26466981--26467035	28	2.0	26	86	6	74	36	20	5	38	1.75
26467243--26467272	2	15.0	2	92	0	51	50	3	0	46	1.18
26471768--26471857	26	3.3	26	67	17	74	42	14	5	37	1.69
26471768--26471875	56	1.9	55	94	1	189	40	13	7	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26474430--26474484	24	2.3	24	96	0	101	32	7	30	29	1.84
26475455--26475563	56	2.0	55	96	1	200	38	8	12	40	1.74
26477326--26477885	126	4.5	125	84	3	714	30	17	22	30	1.96
26477333--26477885	251	2.2	250	87	2	779	29	17	22	30	1.96
26481065--26481894	22	38.0	22	80	7	883	23	1	31	44	1.62
26481065--26481894	43	19.0	44	79	7	883	23	1	31	44	1.62
26481742--26481795	14	3.8	14	76	11	56	16	0	35	48	1.47
26481744--26481802	28	2.1	29	90	3	93	16	0	32	50	1.46
26481744--26481795	15	3.6	15	76	7	54	17	0	32	50	1.47
26481677--26481894	92	2.4	92	85	3	278	22	1	33	43	1.62

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