genome.fa.s6.2.7.7.80.10.50.1000.139.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  139  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)
40729382--40729441	30	2.0	31	83	9	79	20	38	0	41	1.52
40740152--40740201	18	2.7	19	80	20	61	40	0	0	60	0.97
40740124--40740203	28	2.9	28	83	12	94	40	0	0	60	0.97
40741492--40741591	8	11.6	8	70	16	58	59	1	0	40	1.04
40741503--40741592	35	2.6	35	79	11	112	57	1	0	41	1.06
40741530--40741586	17	3.2	17	70	5	51	56	0	0	43	0.99
40751248--40751283	18	2.1	17	89	5	54	63	2	8	25	1.36
40751715--40751761	19	2.5	20	79	6	53	76	6	12	4	1.12
40754985--40755021	18	2.1	18	94	0	65	62	2	0	35	1.10
40754985--40755050	9	6.9	9	73	21	55	63	1	1	33	1.13
40759577--40759613	3	12.3	3	94	0	65	62	0	35	2	1.10
40760654--40760704	23	2.3	22	83	10	59	29	7	1	60	1.36
40760768--40760798	6	5.2	6	100	0	62	16	0	0	83	0.64
40761068--40761098	16	1.9	16	100	0	62	70	6	0	22	1.09
40762198--40762238	21	2.0	21	85	0	55	2	19	0	78	0.87
40763285--40763349	14	5.0	14	70	21	52	78	0	9	12	0.96
40774202--40774233	13	2.5	13	95	5	57	34	6	0	59	1.23
40774832--40774883	18	3.1	18	83	8	56	42	1	0	55	1.10
40778283--40778312	13	2.3	13	94	0	51	3	10	0	86	0.67
40778978--40779039	31	2.0	31	87	0	88	51	6	14	27	1.66
40781212--40781260	26	1.9	25	83	4	62	34	12	10	42	1.76
40784957--40785021	30	2.2	30	91	5	105	20	6	16	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40787596--40787790	98	2.0	98	95	0	354	36	25	10	27	1.89
40789348--40789460	19	5.8	19	88	4	172	36	15	9	38	1.80
40789325--40789460	40	3.4	38	86	8	164	38	14	8	38	1.78
40789348--40789459	59	1.9	59	92	0	188	36	14	9	39	1.79
40789341--40789460	40	3.2	38	87	6	172	36	15	9	39	1.79
40790265--40790336	22	3.3	22	94	0	117	25	27	16	30	1.97
40798426--40798462	15	2.6	14	87	8	56	64	2	0	32	1.07
40803961--40803991	2	15.5	2	100	0	62	48	0	0	51	1.00
40806740--40806781	21	2.0	20	86	4	57	59	7	2	30	1.37
40809702--40809735	17	2.0	17	88	0	50	38	0	2	58	1.13
40812345--40812372	3	9.3	3	100	0	56	67	0	0	32	0.91
40814365--40814476	30	3.7	30	91	0	179	26	22	6	44	1.76
40814365--40814470	15	7.1	15	67	11	65	27	21	6	44	1.77
40819062--40819171	30	3.7	30	90	4	170	25	20	6	47	1.74
40819084--40819167	15	5.6	15	69	10	73	27	19	7	46	1.75
40821747--40821787	15	2.6	16	81	14	50	43	0	7	48	1.30
40823103--40823144	12	3.1	13	80	19	50	52	2	9	35	1.47
40823555--40823617	19	3.2	19	71	13	56	66	4	3	25	1.26
40823551--40823628	30	2.7	28	78	7	77	61	5	3	29	1.35
40847821--40847848	14	2.0	14	100	0	56	14	7	28	50	1.69
40858627--40858819	51	3.8	49	81	4	217	25	18	26	29	1.98
40858629--40858819	101	1.9	100	90	3	276	25	18	27	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40861311--40861345	17	2.1	17	88	0	52	45	20	5	28	1.73
40864472--40864547	21	3.7	20	84	6	91	15	25	15	43	1.86
40864781--40864807	8	3.4	8	100	0	54	37	0	14	48	1.45
40867072--40867117	22	2.1	22	92	8	76	69	8	0	21	1.15
40867072--40867126	22	2.5	21	82	5	65	67	10	0	21	1.21
40867464--40867506	2	21.5	2	100	0	86	51	0	0	48	1.00
40874726--40874772	18	2.6	18	79	0	58	38	17	10	34	1.84
40885485--40885509	7	3.6	7	100	0	50	0	0	16	84	0.63
40888226--40888274	2	24.0	2	95	4	89	48	2	0	48	1.12
40893157--40893191	15	2.3	15	90	9	54	25	0	22	51	1.48
40893445--40893657	47	4.6	47	92	5	364	33	11	15	39	1.83
40893556--40893632	24	3.2	24	67	23	63	35	11	14	38	1.82
40893445--40893732	89	3.2	93	87	9	374	32	11	15	40	1.82
40893619--40893687	36	1.9	36	93	0	120	30	8	14	46	1.75
40893667--40893732	22	2.9	23	80	12	82	30	12	15	42	1.83
40893572--40893732	83	1.9	83	89	2	252	32	11	14	42	1.81
40893448--40893777	130	2.5	133	84	8	379	32	10	15	40	1.82
40894346--40894413	33	2.1	33	88	0	100	36	5	2	54	1.40
40894371--40894415	24	1.9	23	82	13	56	35	8	0	55	1.31
40912217--40913043	89	9.3	90	90	2	1163	30	18	23	26	1.98
40918629--40918672	21	2.0	22	83	12	56	65	4	13	15	1.41
40920244--40920420	86	2.1	86	94	0	309	45	14	14	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40921206--40921266	21	2.9	22	80	9	65	40	0	4	54	1.22
40921281--40921332	19	2.7	19	82	8	61	21	3	3	71	1.18
40921281--40921331	10	5.3	9	81	11	57	21	3	1	72	1.11
40934341--40934370	8	3.9	8	91	8	53	90	0	10	0	0.47
40934341--40934370	15	2.0	15	93	0	51	90	0	10	0	0.47
40946390--40946424	15	2.3	15	90	0	52	82	0	0	17	0.66
40946987--40947040	26	2.1	26	100	0	108	27	25	3	42	1.72
40951493--40951517	3	8.3	3	100	0	50	32	0	0	68	0.90
40951970--40952015	16	3.1	15	76	11	51	54	8	0	36	1.32
40955455--40955629	41	4.3	41	85	8	207	26	20	28	24	1.99
40959732--40959805	25	2.8	26	79	6	78	33	18	20	27	1.96
40959896--40959947	25	2.1	24	82	3	59	34	11	28	25	1.91
40973170--40973222	19	2.6	21	77	14	58	45	7	15	32	1.74
40978303--40978335	17	1.9	17	88	11	50	60	0	9	30	1.27
40978302--40978407	9	11.4	9	71	13	63	65	2	3	28	1.24
40979742--40979802	29	2.1	29	81	6	70	50	4	0	44	1.23
40979757--40979818	25	2.2	29	75	18	69	48	1	0	50	1.10
40979634--40979838	103	2.0	102	86	5	292	44	3	1	49	1.32
40980129--40980289	72	2.2	73	82	3	202	45	7	10	36	1.67
40980359--40980551	97	2.0	98	84	1	253	49	3	2	44	1.33
40980534--40980559	13	2.0	13	100	0	52	61	0	0	38	0.96
40986773--40986804	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40997949--40998004	28	2.0	28	85	0	76	50	5	16	28	1.67
41002524--41002681	51	3.1	51	78	3	158	25	27	13	33	1.93
41004933--41004957	7	3.6	7	100	0	50	32	12	28	28	1.92
41008176--41008205	12	2.5	12	100	0	60	43	6	33	16	1.74
41013138--41013196	21	2.8	20	80	14	57	54	3	1	40	1.27
41013163--41013235	21	3.6	21	71	14	80	58	0	2	38	1.12
41013164--41013256	40	2.3	40	96	0	177	58	0	2	39	1.10
41013185--41013255	9	7.3	9	73	14	52	56	0	1	42	1.08
41015266--41015314	24	2.1	22	85	7	62	24	0	2	73	0.94
41022122--41022180	29	2.0	30	83	3	75	30	1	10	57	1.42
41022122--41022180	30	2.0	29	83	9	75	30	1	10	57	1.42
41022531--41022567	19	1.9	19	100	0	74	43	13	10	32	1.79
41022580--41022613	3	11.3	3	100	0	68	32	0	0	67	0.91
41025864--41025891	5	5.6	5	100	0	56	21	21	35	21	1.96
41029516--41029552	13	2.7	14	83	8	58	70	2	0	27	1.01
41035451--41035507	26	2.2	26	81	9	62	0	28	5	66	1.13
41039476--41039549	33	2.2	33	83	7	96	41	10	10	36	1.75
41047646--41047703	30	2.0	30	83	10	75	37	8	20	32	1.83
41068932--41068970	17	2.3	17	90	0	60	46	25	15	12	1.81
41070298--41070338	19	2.1	20	86	4	57	39	0	0	60	0.96
41070493--41070580	10	9.0	9	70	21	54	34	5	2	57	1.34
41070493--41070592	20	5.1	19	75	18	73	34	6	3	57	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41070949--41070974	12	2.2	12	100	0	52	7	15	30	46	1.74
41071043--41071478	114	3.9	114	86	3	598	24	21	26	26	1.99
41071043--41071478	223	1.9	225	86	4	612	24	21	26	26	1.99
41071378--41071557	73	2.5	73	90	1	290	26	22	27	23	2.00
41072071--41072117	14	3.3	15	82	8	62	27	0	31	40	1.57
41072129--41072198	15	4.9	14	77	18	72	24	0	40	35	1.56
41072563--41072812	134	1.9	133	88	5	378	48	13	13	25	1.79
41072787--41072868	32	2.6	31	92	5	139	57	19	14	8	1.63
41072847--41073140	108	2.8	106	83	10	370	50	11	11	26	1.72
41076571--41076603	17	1.9	17	100	0	66	30	6	6	57	1.47

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