genome.fa.s6.2.7.7.80.10.50.1000.123.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  123  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)
35728677--35729085	108	3.8	108	93	1	667	30	17	18	33	1.94
35731221--35731324	44	2.5	41	75	18	122	35	31	3	28	1.75
35731234--35731324	44	2.0	46	91	4	150	37	30	4	27	1.76
35731308--35731361	16	3.4	16	86	0	72	27	33	3	35	1.75
35731501--35731559	26	2.3	26	83	11	70	33	0	8	57	1.29
35731520--35731569	26	1.9	26	83	0	64	32	4	8	56	1.47
35734431--35734467	2	18.5	2	100	0	74	48	0	0	51	1.00
35735927--35736006	3	26.7	3	100	0	160	66	0	0	33	0.92
35736054--35736095	21	2.0	20	86	13	59	69	0	16	14	1.20
35740391--35740430	13	3.0	13	83	16	55	45	0	0	55	0.99
35740391--35740425	15	2.5	14	90	9	54	40	0	0	60	0.97
35748240--35748303	33	1.9	33	100	0	128	31	18	14	35	1.91
35752301--35752342	7	6.3	7	79	20	54	26	0	0	73	0.83
35752300--35752342	10	3.9	11	77	22	54	25	0	0	74	0.82
35752297--35752338	22	1.9	22	90	9	68	26	0	0	73	0.83
35757436--35757467	2	16.0	2	100	0	64	50	0	0	50	1.00
35758084--35758131	22	2.2	22	85	7	62	37	10	6	45	1.64
35758246--35758304	31	1.9	31	86	6	84	42	11	13	32	1.81
35758992--35759053	28	2.2	28	85	5	81	27	1	3	67	1.15
35758992--35759053	29	2.1	29	88	5	90	27	1	3	67	1.15
35762516--35762557	22	1.9	23	85	9	61	54	11	7	26	1.62
35762469--35762674	83	2.5	83	92	2	335	50	16	10	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35762889--35762952	12	5.4	12	77	7	69	53	25	9	12	1.68
35762896--35762952	11	5.0	11	82	6	69	54	21	10	14	1.69
35762896--35762948	23	2.3	23	93	0	88	54	18	11	15	1.70
35763069--35763158	23	3.8	23	76	11	101	44	1	33	21	1.59
35763312--35763531	115	1.9	115	85	1	307	39	20	17	22	1.92
35763427--35763684	75	3.4	75	89	5	378	41	18	17	22	1.90
35763592--35763848	113	2.3	114	83	4	338	42	18	14	24	1.87
35764175--35764428	7	35.7	7	70	11	61	45	31	1	20	1.63
35764313--35764356	22	2.0	22	90	0	70	38	31	6	22	1.81
35764329--35764428	8	13.2	8	74	12	61	40	36	1	23	1.61
35764329--35764428	15	6.7	15	75	7	87	40	36	1	23	1.61
35764451--35764493	22	2.0	22	86	9	61	41	37	4	16	1.69
35764874--35764902	15	1.9	15	100	0	58	31	20	13	34	1.92
35765756--35765789	17	1.9	17	88	5	50	41	0	5	52	1.25
35767290--35767352	26	2.4	26	83	0	72	44	11	12	31	1.78
35772484--35772733	83	3.0	82	93	1	430	29	12	12	45	1.79
35773327--35773374	17	2.9	17	90	3	71	27	2	20	50	1.60
35774551--35774687	46	3.0	46	84	0	157	38	8	24	28	1.85
35781864--35782148	145	2.0	145	96	0	525	34	10	21	33	1.88
35783821--35783869	17	2.9	17	84	3	64	30	2	18	48	1.59
35785092--35785230	46	3.0	46	92	2	226	37	10	24	28	1.88
35787357--35787384	13	2.2	13	100	0	56	21	25	7	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35788886--35789046	42	3.8	42	78	8	148	31	26	16	25	1.96
35810992--35811024	16	1.9	18	88	11	52	12	6	0	81	0.85
35811386--35811448	30	2.1	30	96	0	117	57	12	3	26	1.51
35815965--35815992	5	5.6	5	100	0	56	42	17	17	21	1.89
35816850--35816886	9	4.1	9	85	0	56	32	10	10	45	1.74
35824278--35824408	41	3.2	40	81	7	136	27	15	25	31	1.96
35827937--35827991	26	2.1	26	96	0	101	20	50	21	7	1.71
35830292--35830349	21	2.7	23	74	15	61	39	6	0	53	1.28
35831016--35831040	12	2.1	12	100	0	50	32	8	16	44	1.76
35840488--35840557	27	2.6	27	86	6	88	51	2	10	35	1.50
35840805--35840829	13	1.9	13	100	0	50	32	0	4	64	1.12
35844403--35844451	24	2.0	24	100	0	98	36	12	20	30	1.89
35845645--35845690	21	2.2	21	84	0	56	21	17	8	52	1.71
35848833--35848870	16	2.5	16	87	8	53	31	5	18	44	1.72
35851398--35851586	91	2.1	88	87	4	263	31	12	23	32	1.92
35854286--35854313	13	2.2	13	100	0	56	46	21	0	32	1.52
35854951--35855118	36	4.6	36	71	8	106	30	23	23	22	1.99
35854991--35855302	76	4.1	76	79	0	318	32	24	19	23	1.98
35857697--35857757	29	2.1	29	87	9	88	27	21	18	32	1.96
35857785--35857912	61	2.1	61	88	0	184	26	26	16	30	1.97
35857829--35857939	29	3.8	29	74	7	91	26	26	17	30	1.97
35857804--35857926	29	4.1	29	71	8	86	26	26	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35859152--35859176	2	12.5	2	100	0	50	52	0	0	48	1.00
35859417--35859455	16	2.4	16	83	8	53	20	10	15	53	1.70
35860485--35860910	184	2.3	184	87	1	611	41	9	7	42	1.65
35860853--35860909	26	2.1	27	83	3	71	57	0	1	40	1.09
35882297--35882351	27	2.0	27	82	6	67	40	3	0	56	1.17
35885207--35885247	2	21.0	2	95	5	75	48	0	0	51	1.00
35885542--35885575	17	2.0	17	88	0	50	73	2	14	8	1.19
35886947--35887139	44	4.4	44	67	11	108	28	22	20	28	1.98
35886924--35887860	133	7.1	133	92	0	1421	27	23	20	28	1.99
35893580--35893608	2	15.0	2	92	7	51	48	0	0	51	1.00
35896448--35896548	3	33.7	3	100	0	202	33	0	0	66	0.92
35897616--35897678	31	2.0	32	84	3	83	33	11	15	39	1.83
35902521--35902571	26	2.0	26	84	7	68	50	7	5	35	1.55
35903330--35903374	2	22.0	2	95	4	81	48	0	2	48	1.13
35904192--35904235	21	2.1	21	87	8	63	61	0	0	38	0.96
35904195--35904242	22	2.2	22	88	7	71	60	0	0	39	0.97
35908682--35908721	20	2.0	21	90	5	64	27	7	15	50	1.70
35936875--35936912	2	19.0	2	94	0	67	0	50	2	47	1.15
35942641--35942691	13	4.2	12	78	12	50	45	0	1	52	1.12
35942646--35942690	12	3.9	11	80	11	54	44	0	0	55	0.99
35948421--35948474	8	6.5	8	82	6	54	83	5	7	3	0.91
35948421--35948474	25	2.1	26	82	3	65	83	5	7	3	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35950703--35950819	44	2.7	42	79	11	112	24	23	24	26	2.00
35950795--35950947	44	3.5	44	78	8	131	29	19	23	27	1.98
35950997--35951034	19	2.0	19	100	0	76	31	26	15	26	1.96
35951115--35951409	44	6.6	44	68	14	158	27	21	24	26	1.99
35950779--35951238	237	1.9	237	97	0	875	30	21	22	26	1.98
35951158--35951542	44	8.7	46	70	11	239	29	20	23	26	1.99
35951114--35951406	134	2.2	135	91	1	473	27	21	24	26	1.99
35951114--35951493	134	2.9	134	85	6	420	28	20	23	27	1.99
35951561--35952136	40	13.7	40	77	12	480	31	23	21	23	1.98
35951556--35952158	83	7.1	83	80	8	630	32	23	21	23	1.98
35951555--35952136	123	4.6	123	79	10	536	31	23	21	23	1.98
35957372--35957402	13	2.5	13	94	5	55	16	0	0	83	0.64
35957372--35957402	6	5.0	6	92	7	53	16	0	0	83	0.64
35958290--35958346	30	1.9	30	88	0	87	42	5	1	50	1.35
35960878--35960945	22	3.1	22	93	0	109	25	26	17	30	1.97
35966241--35966473	128	1.8	128	90	1	378	31	20	22	25	1.98
35966549--35966826	133	2.1	133	93	1	477	28	23	23	24	1.99
35966549--35966878	133	2.5	133	87	2	430	29	21	23	25	1.99
35966694--35967111	217	1.9	218	88	2	626	29	20	24	25	1.99
35966464--35967104	44	14.7	44	71	8	351	28	20	24	26	1.99
35972748--35972781	3	11.3	3	93	0	59	38	0	0	61	0.96
35977989--35978015	14	1.9	14	100	0	54	25	7	14	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35978914--35978947	16	2.2	16	89	5	52	70	8	5	14	1.31
35979930--35980200	4	66.0	4	82	10	282	24	6	26	42	1.79
35982862--35982917	18	3.1	18	84	7	78	14	5	1	78	1.00
35982867--35982917	6	8.5	6	74	8	50	15	3	1	78	0.99
35987919--35988195	27	10.2	27	82	3	297	40	25	15	19	1.90
35988654--35988718	5	13.2	5	85	9	89	36	0	1	61	1.05
35989333--35989585	113	2.2	113	87	1	373	25	20	24	29	1.99
35989869--35989957	21	4.2	20	75	11	70	26	1	23	48	1.58
35989869--35989944	14	5.4	14	76	10	57	25	1	23	50	1.57
35989994--35990058	21	3.0	21	76	10	69	15	0	40	44	1.46

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