genome.fa.s12.2.7.7.80.10.50.1000.103.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  103  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)
30234126--30234514	113	3.4	114	79	5	491	26	21	18	33	1.96
30234220--30234570	114	3.1	114	77	10	455	28	21	16	33	1.95
30238711--30238762	23	2.3	23	83	6	70	51	0	1	46	1.12
30238941--30239004	31	2.1	29	82	5	74	29	1	14	54	1.49
30238957--30239004	13	3.4	14	76	18	55	27	0	14	58	1.37
30242217--30242389	43	4.0	43	83	3	195	26	21	17	34	1.96
30245659--30245717	21	2.8	21	81	0	73	1	40	20	37	1.63
30246913--30246937	12	2.1	12	100	0	50	56	16	0	28	1.41
30248394--30248451	22	2.6	22	77	0	71	50	24	3	22	1.65
30248622--30248872	41	6.1	41	86	0	331	29	30	18	20	1.97
30251585--30251619	14	2.6	14	86	4	54	77	0	8	14	0.99
30254911--30255558	131	5.0	130	82	2	697	32	16	12	39	1.86
30257334--30257398	24	2.7	24	78	2	76	35	23	24	16	1.95
30264468--30264518	25	2.0	25	100	0	102	35	15	7	41	1.76
30273982--30274026	23	2.0	23	82	8	56	33	4	11	51	1.58
30274070--30274096	2	13.5	2	100	0	54	0	0	48	51	1.00
30274431--30274459	2	14.5	2	100	0	58	48	0	0	51	1.00
30274633--30274798	42	4.0	42	89	3	255	31	18	20	29	1.96
30274629--30274801	84	2.1	83	93	3	294	30	19	21	28	1.97
30283358--30283737	133	2.8	130	77	9	363	33	14	21	30	1.93
30286104--30286155	19	3.0	16	75	13	50	51	0	3	44	1.19
30288523--30288555	17	1.9	17	100	0	66	36	6	6	51	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30288562--30288602	16	2.7	15	88	7	64	41	0	4	53	1.22
30288821--30288899	21	3.8	21	81	8	90	40	13	6	39	1.71
30288726--30288966	116	2.1	116	95	3	432	42	12	5	38	1.67
30288958--30289010	9	5.8	9	82	4	52	50	15	1	32	1.54
30288935--30288998	18	3.4	18	78	6	65	45	15	4	34	1.67
30289279--30289488	42	5.0	42	91	4	316	23	24	20	30	1.98
30289278--30289505	85	2.7	85	88	2	334	24	24	21	29	1.99
30289683--30289732	26	1.9	26	91	0	82	24	18	10	48	1.78
30293777--30294284	254	2.0	255	91	0	820	39	16	19	24	1.91
30306263--30306297	10	3.4	10	88	7	52	68	0	0	31	0.90
30306284--30306332	20	2.5	20	82	0	53	46	6	4	42	1.47
30307400--30307471	32	2.2	34	80	14	80	44	5	11	38	1.63
30307445--30307543	33	3.1	31	78	5	99	47	11	8	33	1.68
30310001--30310053	26	2.0	26	85	7	72	64	0	0	35	0.94
30310325--30310376	24	2.2	25	80	13	65	40	1	11	46	1.51
30313356--30313411	15	3.8	15	85	4	78	30	16	1	51	1.54
30314388--30314412	8	3.1	8	100	0	50	48	0	0	52	1.00
30316010--30316045	19	1.9	18	88	5	54	36	5	2	55	1.38
30316104--30316155	23	2.2	24	89	3	79	40	9	0	50	1.35
30324620--30325447	88	9.4	88	89	0	1208	29	18	23	27	1.98
30325414--30325509	44	2.2	43	81	3	111	29	22	21	26	1.99
30325440--30325525	44	2.0	44	90	4	138	31	18	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30325942--30325977	18	2.0	18	100	0	72	5	38	11	44	1.63
30329649--30329692	20	2.2	20	87	4	61	54	0	0	45	0.99
30329677--30329772	11	8.4	12	70	18	62	50	1	1	47	1.15
30329689--30329732	19	2.1	22	88	12	67	50	2	0	47	1.13
30329682--30329777	27	3.5	27	67	20	74	50	1	1	47	1.15
30329853--30329892	11	3.9	11	78	18	50	70	7	0	22	1.12
30330034--30330098	3	21.3	3	84	3	85	58	1	38	1	1.17
30330315--30330526	76	2.7	77	77	10	225	34	4	11	49	1.60
30334477--30334557	26	3.2	26	65	28	73	22	13	29	34	1.92
30334376--30334557	51	3.6	49	80	6	197	21	15	28	33	1.95
30334559--30334644	45	1.9	45	87	0	127	26	16	23	33	1.95
30338263--30338852	157	3.9	153	85	9	748	30	10	7	51	1.65
30338271--30338852	310	1.9	302	87	8	858	30	10	8	51	1.65
30338713--30338949	130	1.8	131	84	6	329	28	12	8	50	1.69
30339094--30339151	28	2.0	29	83	3	73	56	8	3	31	1.46
30339213--30339349	10	14.2	10	76	10	124	0	29	0	70	0.87
30339214--30339365	76	2.0	77	88	8	231	0	30	0	69	0.89
30339392--30339471	40	2.0	40	100	0	160	22	30	25	22	1.99
30346813--30346838	6	4.3	6	100	0	52	30	19	15	34	1.93
30347007--30347065	27	2.2	27	96	0	109	35	30	6	27	1.83
30347365--30347437	38	1.9	38	83	5	94	16	36	21	24	1.94
30348919--30348945	6	4.5	6	100	0	54	0	14	0	85	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30353199--30353252	25	2.2	25	86	0	72	24	24	16	35	1.95
30353463--30353533	25	2.8	25	77	12	65	25	26	18	29	1.98
30357854--30357938	37	2.3	37	87	0	125	28	11	20	40	1.87
30358820--30358871	24	2.2	24	85	0	68	38	15	1	44	1.58
30358830--30358876	24	2.0	24	95	0	85	34	19	2	44	1.62
30359280--30359351	22	3.3	22	73	7	67	41	18	23	16	1.89
30361157--30361195	20	2.0	20	94	0	69	25	35	25	12	1.92
30368889--30368921	13	2.6	13	90	4	50	60	9	15	15	1.58
30368043--30369769	617	2.8	605	86	6	2324	34	14	16	33	1.90
30370093--30370160	20	3.3	20	79	6	75	23	19	4	52	1.63
30370643--30370686	20	2.2	20	88	4	63	38	6	2	52	1.41
30371614--30371694	29	2.8	28	75	7	81	49	14	4	30	1.65
30373150--30373185	2	18.0	2	100	0	72	50	0	0	50	1.00
30374720--30374766	19	2.5	19	79	3	60	57	4	8	29	1.48
30376401--30376484	42	2.0	41	84	9	107	15	33	23	27	1.95
30378383--30378478	49	2.0	49	85	0	129	30	31	14	23	1.95
30380953--30380987	16	2.2	17	90	10	56	80	11	0	8	0.92
30383622--30383651	6	5.0	6	91	0	51	0	20	16	63	1.31
30385921--30385945	13	1.9	13	100	0	50	36	0	16	48	1.46
30387468--30387514	23	2.0	23	95	0	85	53	10	4	31	1.55
30387992--30388021	2	15.5	2	93	6	53	50	0	0	50	1.00
30395379--30395408	11	2.7	11	89	0	51	10	16	20	53	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30397916--30397983	33	2.1	33	94	5	120	42	36	7	13	1.72
30397964--30397994	12	2.7	12	95	5	55	41	29	12	16	1.85
30401087--30401130	19	2.4	19	84	3	63	52	4	4	38	1.42
30403364--30403600	89	2.6	90	77	6	239	35	16	19	29	1.93
30403315--30403626	90	3.5	88	76	7	286	33	16	20	29	1.94
30405404--30405475	33	2.2	33	87	7	101	61	4	0	34	1.16
30407451--30407488	2	19.0	2	100	0	76	50	0	0	50	1.00
30417277--30417355	10	8.2	10	71	18	51	59	0	0	40	0.97
30417255--30417351	28	3.4	27	80	14	99	58	1	1	39	1.12
30417275--30417353	20	4.0	20	80	4	81	58	0	0	41	0.98
30420989--30421416	215	2.0	215	94	0	757	33	14	25	25	1.94
30423391--30423549	43	3.7	42	79	7	169	23	18	27	30	1.97
30423432--30423540	42	2.6	42	85	4	130	24	18	25	31	1.98
30426467--30426524	22	2.6	22	81	7	64	41	17	5	36	1.72
30428790--30428831	2	21.0	2	100	0	84	50	0	0	50	1.00
30434485--30434523	16	2.5	15	80	12	51	30	0	0	69	0.89
30436026--30436057	2	16.0	2	100	0	64	50	0	0	50	1.00
30438620--30438656	18	2.0	19	85	15	51	40	0	5	54	1.24
30440393--30440429	18	2.1	18	100	0	74	21	21	16	40	1.91
30441891--30442089	100	2.0	101	96	1	373	65	6	5	22	1.36
30442845--30442890	18	2.5	19	89	6	69	15	4	23	56	1.57
30444025--30444063	19	2.1	19	85	0	51	51	10	2	35	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30445738--30446438	44	15.8	44	75	7	584	27	24	16	31	1.96
30445736--30446230	89	5.6	89	85	5	603	27	24	15	32	1.96
30445818--30446432	310	2.0	313	89	2	952	28	23	15	32	1.96
30446115--30446437	89	3.6	89	91	1	445	29	24	15	30	1.96
30448713--30448754	19	2.2	20	87	12	61	64	4	16	14	1.45
30450622--30450667	19	2.4	19	85	7	58	47	8	19	23	1.77
30452378--30452423	14	3.2	14	81	3	56	56	8	2	32	1.42
30452712--30452750	19	2.1	19	85	0	51	51	10	2	35	1.50
30463696--30463766	21	3.4	21	86	0	97	35	21	40	2	1.68
30463749--30463790	12	3.5	12	81	12	50	45	14	38	2	1.58

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