genome.fa.s12.2.7.7.80.10.50.1000.104.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  104  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)
30464211--30464476	42	6.3	42	89	4	360	26	20	21	30	1.98
30464548--30464590	22	2.0	22	90	0	68	48	27	13	9	1.73
30467053--30467088	16	2.1	16	90	10	54	55	0	0	44	0.99
30467340--30467415	38	2.0	38	97	0	143	31	30	5	32	1.80
30472319--30472351	2	16.5	2	100	0	66	51	0	0	48	1.00
30474797--30474863	7	8.7	7	77	18	53	20	2	1	74	1.03
30475368--30475400	16	2.1	16	88	5	50	63	12	0	24	1.28
30486805--30486836	16	2.1	16	94	5	57	40	21	6	31	1.78
30487137--30487744	82	7.4	82	90	1	896	32	25	20	22	1.98
30489577--30489609	16	2.1	16	88	5	50	63	12	0	24	1.28
30495387--30495421	3	11.7	3	87	0	52	60	0	5	34	1.21
30496908--30497042	40	3.4	39	74	7	110	37	22	23	17	1.94
30497081--30497277	41	4.8	41	79	5	184	15	25	24	34	1.94
30497079--30497277	82	2.4	82	76	5	204	15	25	24	34	1.95
30498531--30498604	37	2.0	38	89	7	116	20	1	44	33	1.60
30501997--30502637	9	72.3	9	66	22	152	45	13	1	39	1.53
30501978--30502441	31	15.0	31	76	17	434	46	12	1	39	1.49
30502029--30502082	22	2.3	22	87	9	72	48	11	1	38	1.50
30502044--30502235	22	9.1	22	73	22	155	48	11	0	39	1.43
30502138--30502508	164	2.2	171	90	7	589	44	12	1	40	1.51
30502425--30502457	16	2.1	16	100	0	66	45	24	0	30	1.53
30502420--30502561	25	5.6	25	71	14	80	42	16	1	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30502199--30502561	34	10.5	33	68	21	94	44	14	1	40	1.53
30502513--30502632	16	7.9	16	68	19	87	45	17	2	35	1.62
30502479--30502618	25	5.7	25	78	6	142	45	16	1	37	1.56
30509183--30509353	66	2.6	65	87	4	227	40	19	27	12	1.88
30509335--30509436	42	2.4	42	88	0	141	33	16	44	5	1.72
30509324--30509436	21	5.4	21	84	0	127	33	16	43	6	1.73
30509744--30509989	43	5.7	42	79	3	197	22	17	30	29	1.97
30509786--30509989	86	2.4	86	85	1	266	21	17	32	28	1.96
30510108--30510150	22	2.0	22	90	0	68	44	25	20	9	1.81
30513681--30513722	2	21.5	2	90	4	68	52	0	0	47	1.00
30516015--30516058	21	2.0	22	83	12	56	50	4	0	45	1.22
30518935--30518969	2	17.5	2	100	0	70	48	0	0	51	1.00
30528733--30528787	27	2.0	29	86	13	80	58	0	32	9	1.30
30530393--30530701	109	2.9	109	86	2	410	33	19	15	31	1.93
30531274--30531390	3	39.3	3	77	8	114	63	1	4	30	1.24
30532963--30533299	90	3.9	90	73	11	236	27	22	20	29	1.98
30532997--30533512	46	12.0	43	73	12	323	28	22	19	30	1.98
30533013--30533423	170	2.4	170	93	1	700	27	21	20	30	1.98
30533003--30533512	90	5.9	88	69	14	283	28	22	19	30	1.98
30545296--30545589	109	2.7	109	87	2	403	33	19	14	31	1.93
30545771--30545811	10	4.4	10	79	14	52	60	0	9	29	1.28
30545771--30545811	18	2.2	20	83	12	52	60	0	9	29	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30545986--30546046	28	2.2	27	82	11	70	52	4	9	32	1.56
30546167--30546283	3	39.3	3	77	8	114	63	1	4	30	1.24
30557343--30557403	29	2.2	28	82	11	72	60	4	1	32	1.28
30559295--30559472	81	2.2	82	88	1	268	37	15	16	30	1.90
30559421--30559528	56	1.9	57	90	1	173	35	15	11	37	1.83
30559478--30559686	80	2.6	81	93	1	357	37	17	11	33	1.87
30566908--30566945	20	1.9	20	89	10	60	65	5	0	28	1.14
30573536--30573563	4	7.0	4	100	0	56	50	25	0	25	1.50
30579002--30579048	18	2.6	17	83	9	58	63	0	6	29	1.19
30579007--30579063	15	3.7	15	77	20	55	61	1	8	28	1.36
30580827--30581468	44	14.5	44	81	4	736	30	24	14	30	1.95
30580827--30581472	89	7.3	88	83	4	771	30	24	14	30	1.95
30580827--30581472	134	4.9	133	83	4	658	30	24	14	30	1.95
30581489--30581680	44	4.4	44	65	17	103	28	23	20	27	1.99
30581477--30581658	44	4.2	44	65	13	106	26	26	20	26	1.99
30583052--30583084	7	4.7	7	85	14	50	12	15	0	72	1.12
30585999--30586024	13	2.0	13	100	0	52	46	15	7	30	1.74
30587771--30587826	23	2.3	23	77	14	60	57	0	8	33	1.30
30587925--30587965	18	2.3	17	84	12	55	63	0	7	29	1.21
30587930--30587983	15	3.7	15	75	25	53	61	1	9	27	1.37
30589440--30589548	38	2.9	38	88	0	155	27	11	21	40	1.86
30599129--30599315	51	3.7	51	79	5	200	31	25	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30599128--30599311	101	1.8	102	88	3	282	32	25	16	26	1.96
30608011--30608090	41	2.0	39	83	13	101	51	3	5	40	1.42
30608272--30608554	43	6.6	43	83	6	308	30	25	20	24	1.99
30614155--30614242	43	2.0	43	100	0	176	46	11	4	37	1.60
30614318--30614360	21	2.0	21	90	0	68	27	41	0	30	1.56
30614456--30614523	34	2.0	34	82	0	82	35	39	0	25	1.56
30614480--30614523	20	2.2	20	88	12	63	36	45	0	18	1.49
30614497--30614643	77	1.9	76	86	4	206	42	29	0	26	1.60
30615146--30615344	41	4.9	41	94	0	335	29	25	21	23	1.99
30615377--30615513	40	3.4	39	78	10	134	18	19	21	39	1.93
30615403--30615508	40	2.7	41	85	5	146	18	22	24	33	1.97
30615926--30615993	22	3.1	22	77	10	77	41	0	1	57	1.08
30616260--30616330	32	2.1	34	84	5	92	26	5	2	64	1.29
30616260--30616350	34	2.8	34	83	8	100	28	4	3	63	1.29
30616291--30616339	22	2.2	22	85	0	62	26	2	2	69	1.10
30616231--30616353	34	3.9	31	75	13	99	31	4	2	60	1.30
30616377--30616440	25	2.4	26	85	12	78	29	3	1	65	1.17
30618156--30618312	42	3.8	42	81	6	140	41	18	24	15	1.89
30618213--30618368	42	3.7	43	79	10	160	41	16	23	18	1.90
30618175--30618372	85	2.3	84	80	2	218	42	17	23	16	1.88
30618171--30618325	21	7.3	21	68	5	98	41	17	24	16	1.90
30620794--30620874	28	2.8	28	79	9	92	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30620799--30620851	10	5.9	9	79	14	56	33	0	0	66	0.92
30620840--30620885	24	2.0	24	87	8	69	39	0	0	60	0.97
30622291--30622360	18	3.9	19	72	18	53	32	2	2	61	1.25
30624026--30624097	22	3.3	22	94	0	117	30	16	27	25	1.97
30625165--30625640	44	10.7	44	76	6	343	29	20	17	33	1.95
30625162--30625335	92	1.9	92	90	0	276	29	21	17	31	1.96
30625167--30625639	89	5.3	89	81	3	431	29	19	17	33	1.95
30625171--30625640	133	3.5	132	80	5	437	29	19	17	33	1.95
30638073--30638110	18	2.2	17	90	4	58	44	0	2	52	1.14
30639437--30639477	2	21.0	2	85	5	57	43	4	0	51	1.23
30639467--30639530	25	2.7	23	81	15	76	59	0	4	35	1.18
30639465--30639525	27	2.4	25	86	5	86	55	0	4	39	1.21
30639624--30639665	21	2.0	22	90	4	68	54	4	4	35	1.42
30639661--30639692	3	10.7	3	100	0	64	34	31	0	34	1.58
30641541--30641756	44	4.9	43	74	6	191	26	26	16	30	1.97
30641541--30641750	88	2.4	88	97	0	393	26	26	16	30	1.97
30641877--30642030	44	3.5	44	76	4	159	28	21	18	31	1.97
30643284--30643377	48	2.0	48	86	0	134	12	23	17	46	1.82
30643287--30643388	48	2.1	48	81	0	114	12	25	15	46	1.82
30648153--30648199	2	24.0	2	82	4	60	42	6	0	51	1.27
30648174--30648248	28	2.7	27	74	8	80	56	0	4	40	1.18
30661021--30661053	17	2.0	17	88	5	50	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30661057--30661099	11	3.9	11	84	0	50	23	0	9	67	1.19
30667123--30667158	15	2.4	15	90	0	63	77	0	2	19	0.88
30667161--30667215	14	3.9	14	77	15	60	72	1	21	3	1.09
30667161--30667215	29	1.9	29	88	3	85	72	1	21	3	1.09
30667899--30667945	24	2.0	24	84	16	62	34	0	14	51	1.43
30672923--30672983	30	2.0	30	100	0	122	22	19	6	50	1.70
30674226--30674310	9	9.4	9	92	0	116	42	23	8	25	1.82
30676734--30676868	72	1.9	72	90	0	216	29	17	22	29	1.97
30676965--30676994	15	2.0	15	100	0	60	33	13	40	13	1.83
30684968--30685003	18	2.0	18	94	0	63	19	5	0	75	1.00

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