genome.fa.s8.2.7.7.80.10.50.1000.158.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   

This is table  158  of  190  ( 22705 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)
46070503--46070577	19	3.8	19	84	5	96	29	2	1	66	1.13
46072328--46072367	19	2.0	20	85	4	55	25	20	7	47	1.75
46074240--46074280	20	2.0	20	90	9	66	14	14	4	65	1.42
46075203--46075255	7	7.7	7	77	12	56	64	1	18	15	1.38
46075207--46075255	13	3.6	14	78	13	57	65	2	18	14	1.37
46075203--46075255	21	2.6	21	82	8	65	64	1	18	15	1.38
46076544--46077495	89	10.7	89	92	1	1516	30	18	23	27	1.97
46081465--46081544	3	25.7	3	73	12	63	27	3	1	67	1.15
46081469--46081544	19	3.9	19	80	3	80	26	3	1	68	1.15
46081469--46081532	22	2.9	23	75	13	62	26	4	1	67	1.19
46085736--46085762	2	13.5	2	100	0	54	48	0	0	51	1.00
46087540--46087582	14	2.9	15	79	6	52	67	0	9	23	1.19
46088965--46089009	23	2.0	22	86	4	63	64	11	13	11	1.50
46093509--46093555	3	15.7	3	100	0	94	65	0	0	34	0.93
46100917--46100986	29	2.5	28	80	8	72	28	5	1	64	1.25
46100956--46100990	17	2.1	16	89	10	52	28	2	5	62	1.32
46101291--46101330	21	1.9	21	100	0	80	37	7	10	45	1.66
46102479--46102547	2	34.5	2	97	0	129	49	0	49	1	1.09
46102546--46102596	3	16.7	3	95	4	93	33	1	33	31	1.69
46102697--46102762	2	33.0	2	100	0	132	50	0	50	0	1.00
46117372--46117438	25	2.6	25	77	15	75	17	28	20	32	1.96
46121763--46121821	2	29.0	2	96	3	109	49	0	1	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46122548--46122661	57	2.0	56	84	6	149	30	17	23	28	1.97
46137091--46137187	50	2.0	49	87	2	140	29	26	15	27	1.96
46138630--46138661	2	16.0	2	100	0	64	50	0	0	50	1.00
46144351--46144418	28	2.5	30	73	23	69	35	0	4	60	1.17
46144392--46144435	22	2.2	19	88	12	61	38	0	4	56	1.20
46155736--46155875	41	3.4	41	92	0	235	17	20	30	31	1.96
46155736--46155905	82	2.1	82	85	0	223	18	19	28	33	1.96
46159613--46159648	18	2.0	18	88	0	54	66	5	19	8	1.38
46162360--46162440	24	3.3	24	76	8	83	17	24	20	37	1.94
46166832--46166883	17	3.1	17	78	8	52	44	0	0	55	0.99
46178194--46178291	29	3.4	29	92	0	151	22	20	4	53	1.63
46178866--46178909	13	3.8	12	82	11	56	77	0	22	0	0.77
46179011--46179035	13	1.9	13	100	0	50	80	0	20	0	0.72
46182057--46182293	41	5.5	41	85	10	312	23	16	21	37	1.93
46182162--46182267	52	2.0	52	96	0	194	24	16	17	40	1.90
46182121--46182293	93	1.9	93	95	2	312	23	17	20	38	1.93
46182219--46182310	41	2.2	41	84	3	114	23	18	22	34	1.96
46182080--46182324	134	1.8	134	87	1	366	24	16	20	37	1.93
46198138--46198272	25	5.6	24	76	13	118	38	20	24	17	1.93
46199339--46199376	19	2.0	20	94	5	69	60	0	0	39	0.97
46199871--46200422	76	7.3	76	79	4	548	26	19	19	34	1.96
46199875--46200422	148	3.6	152	82	5	573	26	18	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46199922--46200422	224	2.2	223	83	3	596	26	18	20	33	1.96
46201012--46201084	29	2.5	29	84	0	101	23	16	5	54	1.62
46201631--46201696	7	9.3	7	73	23	50	72	0	25	1	0.93
46202633--46202662	14	2.1	14	93	0	51	50	0	3	46	1.18
46203151--46203189	19	2.1	19	85	9	53	69	0	28	2	1.02
46203205--46203229	5	5.0	5	100	0	50	40	0	60	0	0.97
46203230--46203275	4	11.5	4	100	0	92	76	0	23	0	0.79
46210066--46210094	15	1.9	15	100	0	58	0	24	0	75	0.80
46210067--46210114	18	2.5	19	83	10	62	0	31	0	68	0.90
46215096--46215128	17	1.9	18	88	11	52	72	3	0	24	0.98
46215058--46215144	28	3.1	28	69	12	72	63	2	2	32	1.19
46217033--46217089	23	2.5	22	83	8	71	61	1	1	35	1.17
46220534--46220623	39	2.2	40	84	3	110	37	3	6	52	1.44
46232945--46232987	21	2.0	21	90	4	68	62	9	9	18	1.51
46234651--46234699	24	2.0	24	84	0	62	16	12	24	46	1.81
46237265--46237310	23	2.0	22	84	12	58	32	2	4	60	1.28
46237365--46237490	37	3.3	35	67	18	92	47	7	3	41	1.49
46237914--46237968	2	27.5	2	100	0	110	49	0	0	50	1.00
46240982--46241031	19	2.6	19	80	0	64	38	8	0	54	1.30
46241217--46241241	4	6.2	4	100	0	50	24	0	0	76	0.80
46243315--46243366	26	2.0	25	85	3	68	17	48	25	9	1.77
46244331--46244966	227	2.8	224	87	1	905	29	20	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46244712--46245188	183	2.6	183	86	1	670	28	19	18	32	1.96
46244376--46245197	227	3.6	226	82	5	724	29	20	18	32	1.96
46244465--46245193	44	16.1	44	69	13	322	28	20	18	32	1.97
46245311--46245424	51	2.2	51	80	0	129	29	20	16	33	1.95
46245350--46245511	87	1.9	87	80	0	189	29	21	18	30	1.97
46245311--46245562	138	1.8	138	81	3	319	28	22	18	30	1.97
46245449--46245671	123	1.8	123	82	3	288	26	25	16	32	1.96
46246024--46246084	24	2.5	24	81	0	77	29	21	8	40	1.82
46249104--46249164	29	2.1	28	84	3	77	29	13	16	40	1.86
46249438--46249486	22	2.2	22	89	7	73	34	26	0	38	1.57
46249457--46249515	30	2.0	30	93	0	100	32	33	0	33	1.58
46249487--46249528	22	1.9	22	90	0	66	33	33	0	33	1.58
46249581--46249634	9	5.8	9	76	8	54	38	0	0	61	0.96
46249725--46249758	15	2.3	15	95	5	61	29	0	5	64	1.17
46252146--46252410	124	2.1	123	88	3	390	30	22	15	30	1.95
46255887--46255942	26	2.2	25	84	9	69	58	1	10	28	1.41
46257865--46257961	10	10.0	10	70	16	55	54	3	2	40	1.28
46258172--46258221	17	2.9	17	81	18	59	34	6	2	58	1.34
46278115--46278190	37	2.0	39	82	10	95	51	1	0	47	1.09
46278159--46278188	15	2.1	14	93	6	51	56	0	0	43	0.99
46278218--46278249	7	4.6	7	100	0	64	68	0	0	31	0.90
46281956--46282055	17	5.5	17	76	11	83	37	2	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46281985--46282068	11	8.4	11	68	25	53	39	2	0	58	1.11
46281968--46282079	57	2.0	55	91	3	179	38	1	0	59	1.08
46282051--46282089	20	1.9	20	84	5	51	41	2	0	56	1.13
46284427--46284464	17	2.3	16	86	8	58	21	31	34	13	1.91
46286408--46286643	41	5.8	41	96	0	418	26	28	19	25	1.99
46293857--46294051	41	4.8	41	95	0	345	27	28	20	24	1.99
46293828--46294051	82	2.7	82	91	0	349	27	27	20	25	1.99
46294776--46295001	25	9.2	25	72	6	140	17	26	20	34	1.95
46294946--46295017	25	2.9	25	77	8	83	20	26	23	29	1.99
46294946--46295041	50	1.9	51	85	6	133	22	26	20	30	1.99
46296863--46296945	25	3.3	25	79	0	67	37	19	26	16	1.93
46299887--46300060	51	3.4	50	82	8	208	31	25	15	27	1.96
46301199--46301230	16	1.9	17	93	6	57	43	12	0	43	1.42
46313881--46313919	21	1.9	21	89	5	62	61	0	2	35	1.10
46319443--46319563	42	2.8	42	81	6	127	32	26	16	24	1.96
46321103--46321176	27	2.8	25	78	13	78	18	28	18	33	1.95
46321103--46321176	26	2.8	26	80	9	71	18	28	18	33	1.95
46321203--46321258	25	2.2	25	93	0	94	21	25	17	35	1.95
46321203--46321284	25	3.3	26	86	10	93	20	23	20	35	1.96
46322497--46322593	28	3.1	32	73	15	85	29	25	18	25	1.98
46322531--46322586	28	2.0	28	92	0	94	30	21	19	28	1.98
46322697--46322798	26	3.9	26	80	2	98	38	21	22	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46323691--46323732	12	3.5	12	75	12	50	23	42	0	33	1.55
46325871--46325911	21	1.9	22	85	14	59	68	2	4	24	1.22
46328195--46328307	55	2.1	55	96	0	208	26	32	8	31	1.87
46330185--46330254	25	2.8	25	80	6	79	22	28	18	30	1.98
46330213--46330268	25	2.2	25	81	6	60	21	26	17	33	1.96
46332423--46332635	51	4.2	51	91	1	347	30	23	13	32	1.93
46332423--46332635	101	2.1	102	91	0	347	30	23	13	32	1.93
46332709--46332741	17	1.9	17	88	11	50	45	21	0	33	1.52
46338837--46338894	18	3.2	18	81	16	66	36	0	0	63	0.94
46338831--46338892	26	2.4	27	81	10	76	38	0	0	61	0.96

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190