genome.fa.s3.2.7.7.80.10.50.1000.46.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   

This is table  46  of  150  ( 17918 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)
13021222--13021272	16	3.1	16	75	5	57	39	11	35	13	1.82
13021755--13021785	6	5.3	6	96	3	55	54	0	12	32	1.38
13023440--13023467	13	2.2	13	100	0	56	28	0	0	71	0.86
13023424--13023462	16	2.3	16	86	8	51	33	5	0	61	1.18
13024185--13024232	20	2.5	20	79	3	62	35	0	14	50	1.44
13047641--13048239	44	13.7	45	76	11	340	28	20	23	27	1.99
13047643--13048108	133	3.5	132	74	10	334	28	21	23	26	1.99
13047820--13048216	218	1.8	217	90	1	643	27	20	22	28	1.99
13047641--13048244	306	2.0	304	82	7	692	28	20	23	27	1.99
13048342--13048455	45	2.5	45	79	10	117	30	21	21	27	1.98
13050808--13051004	98	2.0	98	93	2	333	29	10	22	37	1.87
13051945--13052203	134	1.9	134	93	0	446	36	20	13	28	1.91
13057805--13057991	49	3.8	49	78	4	207	27	14	31	26	1.95
13057821--13058040	98	2.2	98	85	6	286	25	14	31	28	1.95
13072263--13072351	40	2.2	40	91	0	142	20	26	17	34	1.95
13072330--13072403	20	3.7	20	79	0	85	9	33	20	36	1.85
13072277--13072411	40	3.4	40	78	6	121	16	31	18	33	1.93
13072340--13072427	40	2.2	40	81	4	97	13	35	17	34	1.89
13084802--13084933	41	3.2	42	87	4	173	21	30	13	34	1.92
13084864--13084929	20	3.2	20	69	12	62	15	33	15	36	1.88
13084803--13084954	41	3.7	40	82	10	157	20	29	15	34	1.93
13095412--13095464	27	2.0	26	85	10	72	32	0	13	54	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13097632--13097681	25	2.0	25	88	7	75	32	0	2	66	1.03
13097685--13097752	32	2.2	30	84	10	84	32	5	1	60	1.30
13097679--13097752	30	2.3	33	82	15	93	32	5	1	60	1.27
13100002--13100068	34	1.9	35	93	3	118	32	8	11	46	1.72
13100155--13100193	20	2.0	20	94	0	69	48	2	0	48	1.15
13110730--13110781	19	2.8	19	94	5	90	50	11	0	38	1.39
13110992--13111032	19	2.2	19	95	0	73	51	17	0	31	1.46
13111049--13111124	27	2.8	27	93	0	134	22	38	22	17	1.93
13118732--13118973	50	4.7	51	82	6	242	23	27	21	27	1.99
13119849--13119885	20	2.0	19	85	15	51	40	21	0	37	1.54
13123915--13123961	19	2.5	18	80	16	51	51	0	0	48	1.00
13141033--13141062	2	15.5	2	93	6	53	46	0	0	53	1.00
13145214--13145249	15	2.3	16	90	4	56	66	2	0	30	1.06
13149824--13149984	54	3.0	53	78	5	180	24	32	16	26	1.96
13150894--13150957	32	2.0	32	82	14	78	28	25	0	46	1.53
13152080--13152116	13	2.8	13	84	15	58	2	18	0	78	0.87
13157794--13157899	25	4.2	25	68	9	72	22	23	16	36	1.94
13157798--13157937	75	1.9	75	81	3	174	24	20	19	36	1.95
13164133--13164167	18	1.9	18	88	11	54	28	11	2	57	1.48
13165673--13165787	51	2.3	51	96	0	212	27	30	0	41	1.56
13167579--13167613	18	1.9	18	88	0	52	25	34	8	31	1.86
13168028--13168086	25	2.3	26	88	2	84	52	1	8	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13168082--13168131	18	2.8	18	90	0	73	48	20	0	32	1.50
13168089--13168313	47	5.1	46	77	15	251	46	22	0	31	1.52
13168122--13168193	34	2.1	35	86	2	101	44	29	0	26	1.55
13168170--13168322	18	9.3	18	72	19	138	47	23	0	29	1.52
13168349--13168433	18	4.6	18	72	5	71	35	7	3	54	1.45
13168407--13168433	10	2.7	10	100	0	54	40	7	0	51	1.30
13168352--13168496	65	2.2	64	86	7	195	37	8	4	48	1.56
13168472--13168496	10	2.5	10	100	0	50	44	8	0	48	1.32
13171605--13171953	124	2.8	124	93	1	603	30	21	17	30	1.96
13172171--13172232	29	2.2	28	82	8	72	50	17	11	20	1.77
13175493--13175526	14	2.3	15	90	5	52	55	11	20	11	1.67
13175840--13175886	24	2.0	23	84	12	60	31	0	2	65	1.04
13180873--13180947	21	3.4	21	87	5	96	54	12	20	13	1.70
13181348--13181376	2	14.5	2	100	0	58	51	48	0	0	1.00
13184106--13184213	54	2.0	54	87	0	153	32	12	27	27	1.92
13187495--13187573	20	4.0	20	83	0	104	44	22	26	6	1.77
13190177--13190288	50	2.2	52	87	3	165	38	14	14	33	1.86
13190225--13190423	85	2.4	83	87	5	285	41	13	14	30	1.85
13190255--13190425	85	2.0	85	98	0	333	41	13	15	29	1.85
13195650--13195686	17	2.2	17	95	0	65	27	27	18	27	1.98
13195600--13195736	67	2.0	67	94	0	238	27	22	27	22	1.99
13195667--13195903	50	4.8	50	77	5	212	27	21	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13204175--13204221	23	2.0	23	91	0	76	42	4	10	42	1.59
13204277--13204315	19	2.2	18	86	9	53	74	2	12	10	1.17
13213983--13214078	31	3.1	31	95	3	174	45	13	9	31	1.75
13235121--13235189	24	2.8	24	78	10	79	50	10	5	33	1.60
13236009--13236033	13	1.9	13	100	0	50	80	0	20	0	0.72
13236748--13236890	44	3.2	44	68	11	121	23	27	20	27	1.99
13236742--13236903	88	1.8	88	92	2	272	24	27	22	25	2.00
13236923--13237511	88	6.7	88	90	2	857	21	27	20	30	1.98
13236923--13237507	44	13.4	44	84	3	752	21	27	20	30	1.98
13238796--13238838	15	2.6	16	89	10	61	13	9	0	76	1.01
13238820--13238896	30	2.7	28	82	7	100	11	10	5	72	1.26
13243032--13243056	11	2.3	11	100	0	50	28	16	28	28	1.97
13244863--13245060	40	4.9	40	81	2	209	35	23	19	21	1.95
13244896--13245005	20	5.5	20	70	0	76	34	24	19	21	1.96
13244864--13245018	80	1.9	79	89	1	238	36	23	18	20	1.95
13255265--13255295	14	2.1	15	94	5	55	19	22	0	58	1.40
13257145--13257176	16	2.0	16	100	0	64	62	0	12	25	1.30
13258008--13258056	24	2.0	24	92	0	80	24	20	20	34	1.96
13258568--13258616	20	2.3	20	83	13	55	14	6	4	75	1.14
13259238--13259271	17	2.0	17	100	0	68	17	41	17	23	1.90
13264751--13264950	69	2.9	69	82	6	257	32	23	23	21	1.98
13266134--13266326	104	1.9	104	97	0	368	24	25	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13266273--13266540	105	2.6	104	90	4	423	30	30	19	18	1.96
13266869--13266932	30	2.2	29	81	10	76	29	28	6	35	1.82
13266876--13266932	30	1.9	30	85	3	80	29	24	7	38	1.82
13283755--13283939	56	3.6	50	81	7	178	23	26	20	29	1.99
13309804--13309956	76	2.0	76	100	0	306	43	15	14	26	1.85
13313699--13313735	2	18.5	2	100	0	74	51	0	0	48	1.00
13314142--13314179	16	2.5	15	91	8	67	78	0	2	18	0.86
13314269--13314355	30	2.9	29	71	18	72	57	3	1	37	1.23
13314270--13314364	9	9.9	9	70	20	52	56	3	1	38	1.22
13314283--13314365	10	8.3	10	71	11	55	57	2	1	38	1.19
13318061--13318097	16	2.3	16	95	0	65	40	5	27	27	1.78
13318110--13318211	44	2.3	44	94	0	186	35	3	21	39	1.72
13318316--13318381	34	2.0	34	82	11	84	53	0	0	46	1.00
13318325--13318381	16	3.4	16	72	15	53	56	0	0	43	0.99
13318333--13318383	18	3.0	17	72	16	52	50	0	0	49	1.00
13323930--13323962	13	2.6	13	90	4	50	75	0	24	0	0.80
13331107--13331134	2	14.0	2	100	0	56	50	0	0	50	1.00
13331479--13331509	2	15.5	2	100	0	62	51	0	0	48	1.00
13331855--13331881	7	3.9	7	100	0	54	29	0	0	70	0.88
13331893--13331985	9	10.2	9	69	17	50	54	3	2	39	1.28
13333036--13333140	35	3.0	35	82	5	142	62	0	1	34	1.12
13333046--13333154	35	3.1	35	71	15	109	63	0	0	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13333545--13333597	27	1.9	28	96	3	99	64	22	1	11	1.36
13344751--13345251	254	2.0	253	93	1	869	33	22	13	30	1.92
13349371--13349406	2	18.0	2	100	0	72	50	0	0	50	1.00
13349951--13349990	20	2.0	20	85	9	55	62	12	0	25	1.30
13350003--13350042	21	1.9	21	94	0	71	62	22	0	15	1.32
13350295--13350350	18	3.1	18	78	12	62	21	1	5	71	1.15
13353765--13353816	23	2.3	23	93	0	86	50	15	0	34	1.45
13357385--13357450	33	2.0	33	90	0	105	33	25	12	28	1.92
13361113--13361167	20	2.9	18	79	10	65	81	5	10	1	0.92
13361110--13361169	8	7.8	8	72	7	52	81	5	11	1	0.91

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   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150