genome.fa.s12.2.7.7.80.10.50.1000.58.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  58  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)
16295791--16295830	17	2.4	17	86	0	53	17	15	32	35	1.91
16308885--16308934	3	16.7	3	87	8	75	0	28	0	72	0.86
16309522--16309558	2	18.5	2	100	0	74	51	0	0	48	1.00
16311368--16311399	15	2.1	15	94	0	55	50	0	0	50	1.00
16318483--16318623	63	2.3	62	84	6	171	35	17	7	40	1.76
16318516--16318623	31	3.5	30	70	17	85	36	16	8	38	1.79
16336434--16336563	44	2.9	45	82	4	165	43	13	20	22	1.86
16336950--16336999	25	2.0	25	100	0	100	24	12	16	48	1.79
16341594--16341637	23	1.9	23	81	9	54	22	6	9	61	1.50
16342217--16342261	21	2.2	20	88	7	65	77	2	11	8	1.07
16342217--16342261	10	4.5	10	83	10	65	77	2	11	8	1.07
16342217--16342264	15	3.2	15	74	11	53	77	2	12	8	1.08
16352226--16352250	8	3.1	8	100	0	50	76	0	0	24	0.80
16354019--16354178	80	2.0	80	100	0	320	42	20	8	28	1.81
16354739--16354792	16	3.4	16	92	0	90	35	1	35	27	1.68
16355006--16355047	15	2.7	16	82	14	52	52	2	0	45	1.13
16355015--16355056	15	2.9	15	82	10	52	52	0	0	47	1.00
16355041--16355348	61	5.1	60	68	14	249	49	7	1	41	1.41
16355009--16355544	120	4.4	121	96	1	891	49	6	2	41	1.41
16355125--16355176	15	3.6	15	80	12	56	53	1	0	44	1.11
16355245--16355296	15	3.6	15	80	12	56	53	1	0	44	1.11
16355058--16355483	59	7.0	63	65	23	243	48	7	2	41	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16355342--16355532	59	3.2	59	70	20	194	49	4	4	41	1.43
16355585--16355645	28	2.2	28	85	5	81	50	3	0	45	1.17
16355592--16355735	47	3.1	46	64	23	104	50	4	2	43	1.33
16355560--16355767	91	2.3	90	89	4	317	47	4	3	45	1.39
16355610--16355748	47	3.0	47	67	17	128	50	4	2	43	1.34
16361391--16361434	2	22.0	2	100	0	88	50	0	50	0	1.00
16367479--16367525	16	2.9	16	72	12	51	42	12	0	44	1.42
16370987--16371064	40	1.9	40	82	7	95	33	26	16	23	1.96
16371506--16371539	18	1.9	18	88	5	52	11	41	26	20	1.87
16376524--16376570	16	2.9	16	75	12	60	44	10	0	44	1.38
16376549--16376593	22	2.1	21	84	12	56	53	11	0	35	1.37
16376708--16376747	17	2.4	17	86	0	62	20	15	10	55	1.68
16395764--16395818	26	2.1	27	89	3	85	30	14	25	29	1.95
16400063--16400171	51	2.1	52	89	1	166	44	7	19	28	1.77
16416692--16416739	17	2.8	17	90	0	78	27	27	2	43	1.66
16420275--16420307	17	1.9	17	100	0	66	24	27	6	42	1.78
16427559--16427594	14	2.6	13	87	12	54	0	13	0	86	0.58
16427560--16427593	18	1.9	18	88	5	52	0	14	0	85	0.60
16437439--16437480	19	2.3	19	84	15	61	23	23	2	50	1.61
16445271--16445315	22	2.0	22	83	8	56	40	4	0	55	1.20
16452694--16452724	16	1.9	16	100	0	62	25	9	0	64	1.24
16454663--16454732	36	1.9	36	85	0	95	15	12	28	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16462795--16462836	21	2.0	21	100	0	84	33	4	19	42	1.72
16463775--16463857	36	2.3	36	83	8	98	16	14	28	39	1.88
16463809--16463900	36	2.6	36	85	0	112	19	9	28	42	1.83
16467237--16467344	55	1.9	56	92	1	182	35	5	12	46	1.66
16468080--16468130	19	2.6	19	77	20	52	52	0	3	43	1.19
16468584--16468658	39	1.9	39	81	10	91	38	6	14	40	1.73
16469310--16469369	21	2.9	20	77	15	59	61	0	1	36	1.06
16469325--16469383	23	2.6	22	86	10	75	64	1	1	32	1.13
16470125--16470164	20	2.0	20	90	0	62	55	2	0	42	1.13
16470126--16470190	19	3.4	19	77	12	71	52	4	3	40	1.38
16470175--16470232	29	2.0	30	86	10	84	53	5	1	39	1.33
16479967--16480022	16	3.5	16	80	0	76	39	5	25	30	1.78
16480089--16480155	16	4.2	16	73	3	55	35	4	28	31	1.77
16479969--16480241	133	2.0	134	90	0	431	34	4	25	35	1.76
16480301--16480352	26	2.0	26	88	3	79	46	0	3	50	1.20
16480450--16480483	12	2.8	13	86	13	54	50	0	0	50	1.00
16481038--16481069	13	2.5	13	100	0	64	62	9	9	18	1.52
16483185--16483264	31	2.6	31	93	0	124	18	13	21	46	1.84
16484099--16484132	12	2.8	13	86	13	54	50	0	0	50	1.00
16485245--16485296	24	2.2	24	83	13	63	46	5	9	38	1.61
16485325--16485398	27	2.9	26	72	7	71	54	2	8	35	1.44
16486620--16486669	26	2.0	26	88	4	75	52	6	0	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16488661--16488695	14	2.5	14	90	0	52	28	0	34	37	1.58
16488669--16488697	14	2.1	14	100	0	58	27	0	27	44	1.54
16493315--16493366	26	2.0	27	84	3	70	69	0	1	28	0.99
16493541--16493585	16	2.9	15	77	6	54	26	11	4	57	1.52
16499345--16499486	49	2.8	51	80	6	164	30	16	19	33	1.95
16499354--16499486	51	2.7	48	79	9	133	30	17	18	33	1.94
16499811--16499872	29	2.1	29	85	11	83	17	8	17	56	1.64
16501832--16501864	17	2.0	17	88	5	50	45	21	0	33	1.52
16502876--16503123	32	7.8	32	75	0	244	37	14	12	35	1.84
16502856--16503123	64	4.2	64	92	0	410	37	14	12	35	1.83
16528105--16528261	73	2.2	73	94	2	280	33	34	6	25	1.81
16541230--16541275	16	2.9	16	78	18	51	47	2	19	30	1.61
16547742--16547886	51	2.9	51	85	6	188	24	15	29	31	1.95
16547890--16547976	45	1.9	45	92	0	147	25	16	24	34	1.95
16551820--16551856	9	4.1	9	92	0	65	29	10	13	45	1.77
16552106--16552233	4	32.0	4	100	0	256	25	0	25	50	1.50
16554969--16555041	17	4.2	17	76	11	69	58	15	0	26	1.37
16554978--16555041	17	3.7	17	78	17	78	57	14	0	28	1.37
16554976--16555043	34	2.0	34	100	0	136	55	14	0	29	1.40
16565510--16565545	17	2.1	17	94	0	63	33	30	0	36	1.58
16575226--16575324	42	2.4	42	84	3	119	17	20	15	47	1.83
16575256--16575336	21	3.9	21	75	6	65	16	19	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16575738--16575808	35	2.0	35	100	0	142	35	2	22	39	1.69
16578125--16578217	29	3.3	28	70	10	73	27	22	13	35	1.93
16578129--16578207	27	2.9	27	69	17	63	26	20	15	37	1.92
16578010--16578289	57	4.9	57	78	3	251	27	22	16	33	1.95
16578421--16578584	53	3.1	52	78	6	186	29	26	9	34	1.88
16585369--16585401	17	1.9	17	88	11	50	42	0	15	42	1.46
16587585--16587642	23	2.6	21	76	12	62	60	1	3	34	1.24
16602467--16602554	27	3.2	27	78	20	101	38	7	18	35	1.80
16602898--16602958	12	5.4	12	73	21	53	47	0	3	49	1.18
16602895--16602928	12	2.8	13	86	13	54	50	0	0	50	1.00
16602927--16603054	61	2.1	60	84	4	159	44	0	3	52	1.16
16603153--16603245	44	2.1	46	82	8	111	35	22	6	35	1.80
16603237--16603296	16	3.8	16	86	0	84	33	25	0	41	1.55
16603228--16603296	32	2.2	32	89	5	104	31	26	1	40	1.65
16604582--16604660	24	3.2	23	76	20	72	34	3	6	55	1.43
16604599--16604674	25	3.1	25	81	9	93	36	2	6	53	1.41
16605167--16605289	51	2.4	51	89	1	185	28	25	0	45	1.59
16606433--16606464	7	4.6	7	100	0	64	28	0	12	59	1.34
16607117--16607151	18	1.9	18	94	0	61	25	31	8	34	1.86
16607665--16607995	23	13.7	23	84	11	425	45	23	1	29	1.62
16607879--16608002	28	4.6	29	76	18	117	43	25	1	29	1.64
16608435--16608677	23	10.5	23	79	15	261	46	25	0	27	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16608683--16608900	116	1.9	116	97	0	409	38	8	9	43	1.69
16608876--16608917	17	2.4	18	80	4	50	42	9	2	45	1.49
16611931--16612278	125	2.8	125	86	3	481	33	21	16	29	1.95
16613992--16614023	2	16.0	2	100	0	64	50	0	0	50	1.00
16614379--16614429	24	2.1	24	82	7	59	33	1	13	50	1.53
16624252--16624344	29	3.2	29	81	3	107	41	3	19	35	1.67
16627612--16627735	59	2.1	59	87	3	178	55	8	3	32	1.47
16630564--16630603	18	2.1	20	86	9	57	32	12	0	55	1.38
16632781--16632895	61	1.9	60	85	5	162	49	6	4	39	1.50
16636123--16636213	43	2.1	43	87	2	130	35	10	9	43	1.73

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