genome.fa.s6.2.7.7.80.10.50.1000.108.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   

This is table  108  of  168  ( 20060 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)
31845634--31845699	34	1.9	34	84	6	89	46	15	6	31	1.70
31847137--31847189	13	3.9	14	78	7	56	35	18	5	39	1.75
31848189--31848311	63	1.9	64	85	1	167	26	23	25	24	2.00
31848556--31848704	76	2.0	76	95	0	271	31	13	26	28	1.94
31848973--31849318	116	3.1	109	87	6	507	34	16	17	31	1.92
31849728--31849752	2	12.5	2	100	0	50	48	0	0	52	1.00
31856093--31856254	76	2.1	76	98	0	315	31	15	27	25	1.96
31856523--31856861	109	3.1	109	96	0	601	34	17	17	30	1.93
31857459--31857505	6	7.3	7	95	4	50	65	0	2	31	1.04
31857470--31857505	3	12.0	3	100	0	72	66	0	0	33	0.92
31859451--31859510	26	2.3	26	94	0	102	31	13	16	38	1.87
31862892--31862952	32	1.9	32	83	6	79	45	1	3	49	1.28
31874615--31874667	21	2.4	22	81	9	63	43	1	0	54	1.11
31874770--31874806	15	2.6	15	87	8	51	43	0	2	54	1.14
31874779--31874822	21	2.2	19	84	8	52	40	2	0	56	1.11
31876578--31876950	114	3.3	114	80	4	457	33	17	21	27	1.96
31876562--31877041	113	4.2	114	77	5	456	33	17	21	27	1.96
31876562--31877040	227	2.1	227	91	2	775	33	17	21	27	1.96
31879671--31879716	23	2.0	23	82	0	56	19	4	17	58	1.55
31879826--31879919	44	2.1	45	96	2	172	17	6	25	51	1.69
31879834--31879935	44	2.3	44	89	3	150	17	5	23	52	1.66
31879871--31880271	219	1.8	218	89	4	628	18	15	17	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31881144--31881193	17	3.2	17	78	21	72	36	6	6	52	1.51
31881162--31881189	13	2.2	13	100	0	56	39	7	7	46	1.59
31881185--31881223	16	2.5	15	88	8	60	41	0	5	53	1.23
31881155--31881303	62	2.4	61	80	4	165	36	5	10	46	1.61
31881440--31881785	9	39.8	9	73	14	257	45	19	2	32	1.62
31881720--31881792	32	2.2	33	90	4	112	45	19	1	34	1.59
31887301--31887371	21	3.4	21	86	0	97	30	18	47	2	1.63
31887651--31887890	42	5.7	41	91	2	336	32	21	23	22	1.98
31887642--31887890	84	2.9	84	90	1	381	34	20	22	21	1.97
31889481--31889594	35	3.2	35	91	3	185	14	12	35	37	1.84
31897198--31897284	28	3.1	28	69	17	74	43	1	2	52	1.21
31897385--31897597	67	3.2	65	65	21	150	47	2	3	46	1.33
31897341--31897606	137	1.9	138	90	0	426	47	3	3	45	1.37
31897489--31897523	18	2.0	17	88	5	52	45	0	0	54	0.99
31897375--31897589	70	3.1	68	67	16	172	46	2	3	46	1.35
31897374--31897692	137	2.3	138	82	10	350	46	4	3	45	1.38
31897469--31897792	156	2.1	155	96	0	594	46	5	3	44	1.43
31897645--31897693	15	2.9	18	80	20	61	44	0	0	55	0.99
31897645--31897699	15	3.4	16	80	16	53	43	0	1	54	1.10
31897844--31897934	45	2.0	45	85	2	121	37	28	6	27	1.82
31897915--31897983	16	4.2	16	92	3	120	37	36	0	26	1.57
31897915--31897983	33	2.1	32	94	2	120	37	36	0	26	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31900247--31900289	18	2.4	18	92	7	70	51	2	0	46	1.13
31903565--31903606	21	2.0	21	90	0	66	28	4	0	66	1.12
31906082--31906418	116	2.9	115	93	3	554	40	6	7	46	1.56
31908065--31908124	13	4.7	13	80	13	63	26	0	0	73	0.84
31908066--31908134	26	2.7	25	82	10	70	26	1	0	72	0.93
31910694--31910723	13	2.3	13	94	0	51	73	0	20	6	1.05
31910730--31910765	18	2.0	18	88	0	54	83	0	5	11	0.80
31916869--31916902	17	2.0	17	88	0	50	41	0	2	55	1.15
31918076--31918147	37	2.0	37	89	5	112	25	22	16	36	1.94
31918111--31918523	46	8.6	46	89	6	493	28	22	14	34	1.93
31918077--31918239	46	3.9	41	87	8	158	27	20	15	36	1.92
31918253--31918523	98	2.8	92	87	7	346	28	22	14	33	1.94
31918128--31918509	196	1.9	196	93	0	656	28	21	14	34	1.94
31921405--31921459	3	18.3	3	100	0	110	34	0	0	65	0.93
31926527--31926604	20	3.8	20	73	14	70	20	0	30	48	1.50
31926601--31926661	21	2.9	21	69	13	54	21	9	32	36	1.86
31928200--31928266	34	2.0	34	85	5	91	20	1	28	49	1.58
31928298--31928331	7	4.7	7	88	3	50	29	14	26	29	1.95
31939050--31939086	5	7.4	5	88	11	58	18	16	0	64	1.29
31947151--31947308	44	3.6	43	84	8	185	32	18	20	27	1.97
31947151--31947285	43	3.1	43	87	8	184	32	17	21	28	1.96
31947097--31947473	94	4.1	94	76	10	364	32	18	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31947426--31947517	44	2.1	44	84	8	116	36	15	15	32	1.88
31947332--31947615	138	2.1	138	83	5	351	32	17	17	31	1.94
31947230--31947667	232	1.9	232	81	1	538	31	18	18	31	1.95
31948972--31949040	24	3.0	23	82	4	86	44	5	27	21	1.75
31951326--31951364	7	5.6	7	100	0	78	74	0	0	25	0.82
31951487--31951540	23	2.3	23	96	0	99	3	16	3	75	1.08
31958069--31958186	38	3.1	38	79	2	121	29	23	19	27	1.98
31960538--31960570	17	2.0	17	88	5	50	36	24	0	39	1.56
31962722--31962792	36	2.0	36	94	0	124	28	11	12	47	1.76
31967834--31967904	36	2.0	36	94	0	124	28	11	12	47	1.76
31974632--31974709	29	2.6	31	80	10	81	34	8	8	47	1.66
31979125--31979171	21	2.3	21	85	3	60	63	6	6	23	1.41
31979137--31979182	20	2.3	20	82	10	58	67	2	6	23	1.25
31979460--31979505	2	23.0	2	100	0	92	50	0	0	50	1.00
31990338--31990399	30	2.1	30	93	0	106	16	25	38	19	1.92
31993904--31994087	63	2.9	63	79	4	201	32	23	32	11	1.91
31994332--31994374	12	3.5	12	81	6	50	27	9	2	60	1.40
31994332--31994364	13	2.6	13	85	4	50	24	6	3	66	1.28
31994403--31994466	6	10.8	6	81	9	51	1	10	9	78	1.04
31994403--31994465	18	3.6	17	77	8	63	1	11	9	77	1.05
32011434--32011461	14	2.0	14	100	0	56	42	14	7	35	1.73
32014158--32014197	14	2.9	14	84	0	53	42	17	7	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32014123--32014189	34	1.9	35	87	3	100	46	11	8	32	1.72
32027800--32027934	56	2.4	56	97	0	252	34	4	14	46	1.65
32027838--32027925	28	3.1	28	62	28	69	34	2	17	46	1.60
32030502--32030617	54	2.1	54	84	4	144	50	6	8	35	1.58
32031941--32031979	18	2.2	18	85	0	51	7	12	7	71	1.29
32035808--32035837	15	2.0	15	100	0	60	46	0	0	53	1.00
32035803--32035836	9	3.8	9	84	0	50	44	0	0	55	0.99
32035910--32035942	16	1.9	18	88	11	52	54	0	6	39	1.25
32057619--32057643	4	6.2	4	100	0	50	24	0	24	52	1.48
32065696--32065736	3	13.7	3	100	0	82	65	0	0	34	0.93
32066547--32066581	10	3.3	10	85	14	52	60	34	0	5	1.21
32067770--32067805	2	18.0	2	100	0	72	50	0	0	50	1.00
32068035--32068078	18	2.3	19	80	7	54	22	2	2	72	1.07
32068228--32068267	21	1.9	21	90	10	64	30	10	2	57	1.45
32068294--32068721	109	3.9	109	93	0	658	31	15	18	34	1.92
32069706--32069736	6	5.2	6	100	0	62	0	32	0	67	0.91
32073069--32073108	19	2.1	19	90	0	62	50	0	0	50	1.00
32076084--32076133	13	3.9	12	82	10	55	36	2	22	40	1.65
32081243--32081290	25	1.9	25	95	0	87	41	14	12	31	1.83
32085464--32085564	51	2.0	51	96	0	184	42	5	30	20	1.76
32086595--32086627	15	2.1	16	88	5	50	15	0	21	63	1.30
32094137--32094600	195	2.4	195	91	1	732	38	9	18	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32096231--32096282	19	2.7	19	82	5	52	42	3	3	50	1.39
32096301--32096346	22	2.1	22	84	4	58	71	2	0	26	0.97
32096306--32096548	81	3.1	80	91	6	374	62	3	2	30	1.25
32096368--32096402	10	3.6	10	84	7	54	62	2	0	34	1.10
32096449--32096481	10	3.4	10	83	8	50	63	3	0	33	1.10
32096448--32096508	19	3.3	18	81	6	68	65	3	0	31	1.09
32096407--32096579	73	2.4	68	74	14	166	60	5	2	31	1.33
32096587--32096646	28	2.1	28	81	6	68	71	3	1	23	1.10
32100347--32100406	32	1.9	31	83	10	77	48	3	0	48	1.18
32101848--32101911	19	3.5	18	75	12	60	40	0	0	59	0.97

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168