genome.fa.s12.2.7.7.80.10.50.1000.27.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  27  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)
7194538--7194572	14	2.4	15	90	4	54	42	37	0	20	1.52
7198212--7198245	16	2.1	17	88	5	52	38	0	0	61	0.96
7199320--7199359	19	2.2	18	86	4	53	40	2	0	57	1.12
7199370--7199451	38	2.1	38	84	9	101	60	2	4	31	1.30
7199435--7199698	137	1.9	135	83	3	341	50	13	14	21	1.77
7201687--7201726	17	2.2	19	86	8	57	40	2	0	57	1.12
7204472--7204534	27	2.3	27	97	0	117	22	34	31	11	1.89
7204584--7204629	19	2.3	20	85	10	60	17	2	6	73	1.14
7217174--7218091	42	21.8	42	81	2	847	23	17	17	40	1.90
7224313--7224386	6	12.2	6	97	1	94	39	0	43	17	1.49
7230706--7230748	21	2.1	20	86	4	59	32	16	11	39	1.84
7233525--7233599	37	2.0	38	84	7	100	48	10	16	25	1.78
7243617--7243663	2	24.5	2	80	8	53	46	4	0	48	1.21
7243901--7243937	2	18.5	2	88	0	56	45	5	0	48	1.25
7256294--7257232	89	10.6	89	90	1	1398	30	18	24	27	1.98
7262339--7262573	124	1.9	124	88	1	355	27	16	9	46	1.78
7263681--7264046	180	2.0	180	93	0	624	40	18	11	30	1.85
7264753--7264958	44	4.7	44	84	1	171	31	18	22	26	1.97
7264743--7264967	88	2.5	88	79	6	256	31	20	21	27	1.98
7264879--7265246	146	2.5	147	87	1	517	32	18	20	29	1.96
7264918--7265202	51	5.7	50	68	12	176	33	18	18	29	1.95
7265174--7265283	44	2.5	44	87	0	157	25	16	28	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7267628--7267667	21	1.9	21	89	0	62	67	2	2	27	1.16
7268284--7268326	23	1.9	23	85	4	61	37	4	20	37	1.74
7280285--7280326	21	2.0	21	86	9	59	52	4	4	38	1.44
7282284--7282407	47	2.6	47	87	2	169	23	20	18	37	1.94
7282501--7282562	20	3.0	20	70	21	65	48	1	14	35	1.54
7284125--7284230	45	2.6	39	76	16	113	21	16	18	43	1.88
7284136--7284232	45	2.2	45	90	0	149	21	15	19	43	1.88
7286030--7286206	82	2.2	83	82	9	220	24	27	20	28	1.99
7286036--7286181	41	3.6	41	89	3	222	22	28	21	27	1.99
7293864--7293997	41	3.3	41	80	8	157	23	27	20	28	1.99
7304670--7304696	12	2.2	12	100	0	54	70	0	0	29	0.88
7306354--7306384	9	3.4	9	90	0	53	25	12	22	38	1.90
7306437--7306473	9	4.1	9	92	0	65	45	13	10	29	1.77
7307808--7307874	18	3.6	18	73	13	64	31	5	1	61	1.29
7308024--7308259	2	118.0	2	73	9	117	39	7	1	51	1.39
7316683--7316722	20	2.0	20	95	0	71	32	25	12	30	1.92
7324850--7325086	44	5.4	43	77	4	213	32	17	25	24	1.96
7324835--7325086	88	2.9	88	93	0	405	31	18	25	25	1.97
7324811--7325059	44	5.6	45	77	4	227	32	18	24	24	1.97
7324827--7325129	88	3.4	87	85	5	351	30	18	25	26	1.98
7346778--7346828	14	3.4	14	73	21	50	45	3	1	49	1.32
7346763--7346828	31	2.1	31	83	5	80	42	4	4	48	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7346855--7346898	22	2.2	20	88	12	63	47	0	0	52	1.00
7346873--7346903	16	2.0	16	93	6	55	38	0	0	61	0.96
7346892--7346937	17	2.6	19	80	12	55	52	0	2	45	1.13
7353646--7353699	19	2.8	19	88	0	90	35	9	18	37	1.83
7353646--7353725	19	3.9	21	82	8	78	35	7	18	38	1.79
7354628--7354697	27	2.5	29	90	6	110	41	8	1	48	1.42
7354760--7354839	27	3.0	27	94	0	133	27	28	30	13	1.94
7354919--7354957	21	1.9	20	94	5	69	74	0	25	0	0.82
7354919--7354959	10	3.9	11	90	9	68	73	0	26	0	0.84
7355126--7355160	3	11.7	3	100	0	70	34	0	0	65	0.93
7355126--7355270	12	11.8	12	66	15	55	35	1	6	55	1.35
7358133--7358170	18	2.1	18	95	0	67	18	42	5	34	1.73
7358136--7358177	18	2.3	18	87	0	66	23	45	2	28	1.66
7370145--7370284	46	3.0	46	94	0	235	30	27	7	33	1.85
7371220--7371280	28	2.3	25	83	10	77	63	1	0	34	1.04
7371342--7371404	27	2.4	27	94	2	110	23	33	36	6	1.80
7378630--7378797	23	7.3	23	90	0	264	29	27	20	22	1.98
7381307--7381335	12	2.4	12	100	0	58	34	6	0	58	1.25
7382929--7382962	16	2.1	16	88	0	50	20	14	20	44	1.87
7384891--7384935	22	2.0	22	100	0	90	33	8	26	31	1.87
7386211--7386313	41	2.5	41	91	0	161	31	19	25	24	1.98
7389671--7389714	24	1.9	23	90	9	72	68	6	0	25	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7389724--7389752	15	1.9	15	100	0	58	62	0	20	17	1.33
7389751--7389793	16	2.6	17	81	3	52	79	0	20	0	0.74
7389749--7389796	12	3.8	12	78	13	51	77	0	22	0	0.78
7391048--7391329	46	5.9	50	74	13	236	28	19	23	28	1.98
7391079--7391309	91	2.5	92	82	7	268	28	21	22	27	1.99
7391650--7391686	9	4.1	9	92	0	65	45	13	10	29	1.77
7394035--7394084	16	3.1	16	75	13	50	26	2	4	68	1.18
7394227--7394259	12	2.8	12	90	0	57	30	3	0	66	1.06
7395469--7395531	19	3.2	19	80	8	65	58	6	0	34	1.23
7395470--7395532	21	3.3	19	82	6	65	57	6	0	36	1.24
7399420--7399445	9	2.9	9	100	0	52	0	11	19	69	1.18
7401305--7401349	22	2.0	22	100	0	90	37	17	8	35	1.81
7402206--7402251	18	2.6	18	82	3	58	34	6	4	54	1.46
7405695--7405733	15	2.7	15	84	4	53	58	0	2	38	1.12
7410498--7410535	20	1.9	20	94	0	67	71	2	0	26	1.00
7413468--7413518	23	2.3	21	81	15	59	47	0	11	41	1.40
7417508--7417546	16	2.4	16	82	0	51	2	15	7	74	1.15
7419534--7419573	21	2.0	20	85	5	53	40	37	7	15	1.75
7419570--7419622	19	2.6	21	79	8	65	43	22	1	32	1.64
7419870--7419908	16	2.4	17	86	4	53	53	2	17	25	1.56
7425814--7425887	6	12.3	6	88	0	112	21	13	13	51	1.75
7443351--7443386	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7454104--7454166	30	2.1	30	93	0	108	57	14	3	25	1.52
7454197--7454227	14	2.2	14	94	0	53	61	12	6	19	1.53
7454517--7454572	17	3.6	16	72	16	55	23	0	5	71	1.06
7458491--7458548	26	2.2	26	78	6	64	22	8	36	32	1.85
7462521--7462618	51	1.9	52	89	2	153	34	10	17	37	1.83
7466014--7466052	20	1.9	21	89	5	62	43	5	7	43	1.55
7470375--7470455	34	2.4	34	82	2	90	32	12	14	40	1.83
7470658--7470748	45	2.0	45	89	0	137	24	21	19	34	1.97
7476344--7476368	12	2.1	12	100	0	50	16	0	0	84	0.63
7477955--7478346	45	8.8	43	74	5	316	27	24	18	29	1.98
7477822--7478326	89	5.7	89	81	1	539	28	23	17	30	1.97
7477822--7478355	178	3.0	178	82	1	606	28	23	17	30	1.97
7477824--7478346	44	11.7	44	74	3	339	28	23	17	30	1.97
7477808--7478310	134	3.8	134	78	5	425	28	23	17	30	1.97
7479633--7479723	46	2.0	46	86	0	128	13	23	17	46	1.83
7484547--7484591	23	1.9	23	82	13	56	15	8	40	35	1.79
7487195--7487236	22	1.9	22	90	0	66	33	0	33	33	1.58
7487186--7487288	52	2.0	51	81	9	120	33	0	33	33	1.58
7487238--7487329	22	4.2	22	87	2	123	41	0	28	30	1.56
7489987--7490146	62	2.6	62	87	0	221	29	11	13	45	1.79
7495766--7495853	28	3.2	27	78	10	97	31	19	26	22	1.98
7516867--7516911	17	2.5	19	75	13	51	62	0	4	33	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7516902--7517026	9	13.2	9	68	21	69	62	4	3	30	1.29
7516904--7517026	10	12.9	10	68	16	66	62	4	3	30	1.29
7516894--7516938	21	2.1	22	91	4	74	66	0	0	33	0.92
7516902--7516986	28	3.0	28	79	8	91	62	3	2	31	1.25
7516970--7517021	19	2.8	18	75	21	54	67	3	3	25	1.25
7517212--7517290	29	2.6	30	82	6	79	40	5	0	54	1.22
7517398--7517566	87	1.9	88	80	7	200	40	11	13	34	1.80
7526285--7526332	20	2.5	20	86	6	64	43	2	0	54	1.12
7526689--7526833	11	13.9	11	72	20	107	58	0	1	40	1.07
7526689--7526824	40	3.3	41	87	7	186	58	0	1	39	1.07

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