genome.fa.s6.2.7.7.80.10.50.1000.107.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  107  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)
31628203--31628240	14	2.4	17	87	12	55	52	0	0	47	1.00
31628220--31628263	12	3.7	11	80	14	52	45	2	0	52	1.13
31628215--31628277	24	2.7	23	78	9	65	50	1	0	47	1.10
31628232--31628280	20	2.5	20	76	6	55	53	2	0	44	1.12
31630064--31630139	38	2.0	38	100	0	152	18	26	28	26	1.98
31635543--31635576	2	17.0	2	100	0	68	50	0	0	50	1.00
31643187--31643234	9	5.2	9	75	5	51	22	41	4	31	1.73
31645317--31645406	38	2.4	38	92	0	144	38	27	18	14	1.90
31652346--31652373	13	2.2	13	100	0	56	32	14	7	46	1.71
31654755--31654798	18	2.5	17	85	7	61	15	29	2	52	1.55
31655135--31655162	2	14.0	2	100	0	56	50	50	0	0	1.00
31660365--31660402	18	2.2	18	85	4	51	39	10	21	28	1.86
31669773--31670036	50	5.3	50	93	0	447	25	23	31	20	1.98
31672253--31672299	21	2.4	19	74	16	51	40	0	0	59	0.97
31672263--31672296	11	3.2	11	87	8	52	41	0	0	58	0.98
31672254--31672307	18	2.8	19	80	8	56	40	0	1	57	1.09
31677039--31677081	22	2.0	22	86	8	63	55	9	6	27	1.57
31685068--31685120	23	2.3	23	78	12	65	24	5	0	69	1.09
31690748--31690814	34	1.9	35	87	3	100	31	7	13	47	1.70
31690742--31690818	14	5.0	15	71	20	52	32	7	15	44	1.75
31690892--31690943	18	2.7	20	74	17	56	36	3	0	59	1.16
31697148--31697276	60	2.2	60	87	2	179	11	26	20	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31700115--31700162	23	2.1	23	100	0	96	33	12	14	39	1.84
31705696--31705727	2	16.0	2	100	0	64	50	0	0	50	1.00
31707403--31707460	22	2.6	23	71	15	59	24	18	20	36	1.95
31711928--31711977	21	2.3	21	81	18	59	64	6	8	22	1.43
31712348--31712375	7	4.0	7	100	0	56	71	0	14	14	1.15
31713273--31713994	100	7.2	99	87	1	895	32	21	21	24	1.98
31713273--31713994	50	14.4	50	70	1	415	32	21	21	24	1.98
31714049--31715247	44	27.7	44	69	10	404	33	21	19	25	1.97
31714137--31715285	129	8.9	129	86	2	1405	33	22	19	25	1.97
31713998--31715283	85	14.9	85	69	13	429	32	21	19	25	1.97
31716683--31716715	11	3.0	11	95	0	57	48	0	6	45	1.27
31717262--31717299	15	2.6	15	84	15	53	10	0	7	81	0.87
31717270--31717299	16	1.9	16	93	6	53	10	0	10	80	0.92
31724373--31724860	50	9.8	50	73	3	363	32	21	20	24	1.97
31724363--31724866	100	5.0	100	88	0	722	33	21	20	25	1.97
31724994--31725097	45	2.3	44	85	1	127	25	21	27	25	1.99
31725155--31725269	44	2.6	44	77	9	126	29	20	20	29	1.98
31725157--31725320	44	3.7	43	76	6	125	29	20	22	27	1.99
31727065--31727092	7	4.0	7	100	0	56	14	14	0	71	1.15
31727463--31727512	21	2.3	21	81	18	59	22	8	6	64	1.43
31732696--31733619	50	18.7	50	69	4	481	31	21	21	25	1.98
31732827--31733103	142	2.0	142	85	1	376	33	20	21	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31732735--31733204	242	1.9	242	87	1	683	32	20	21	25	1.98
31732969--31733646	100	6.8	100	85	1	779	32	21	20	25	1.98
31733871--31734285	85	4.8	84	71	10	291	31	22	20	25	1.98
31733867--31734285	44	9.7	43	71	9	241	31	22	19	25	1.98
31733701--31734327	129	4.9	129	86	2	816	31	22	19	26	1.97
31748488--31748572	40	2.1	40	82	6	100	37	18	18	24	1.94
31752012--31752055	20	2.2	20	96	4	81	25	9	6	59	1.53
31752445--31752518	25	3.2	25	66	18	68	17	18	16	47	1.83
31756522--31756652	42	3.1	42	80	12	110	23	17	24	34	1.96
31756534--31756656	41	2.9	43	83	11	148	24	17	25	32	1.97
31756932--31756956	11	2.3	11	100	0	50	60	0	24	16	1.36
31758056--31758114	7	8.9	7	72	23	56	28	0	0	71	0.87
31758056--31758112	20	2.9	18	89	10	78	29	0	0	70	0.88
31760943--31760973	16	1.9	16	93	0	53	25	16	25	32	1.96
31762507--31762818	171	1.8	171	99	0	615	30	33	6	29	1.82
31764602--31764640	12	3.2	12	88	3	51	7	0	7	84	0.77
31764585--31764643	18	3.3	18	75	11	59	13	0	6	79	0.92
31766313--31766365	21	2.5	21	78	0	61	15	32	33	18	1.92
31774713--31774815	41	2.4	45	82	11	117	46	3	8	40	1.53
31774774--31774850	37	2.2	34	84	9	93	45	2	10	41	1.52
31774828--31774871	16	2.6	17	82	7	54	54	0	6	38	1.27
31774868--31774927	27	2.1	27	82	11	68	48	3	11	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31776546--31776926	44	8.6	44	71	13	178	28	22	19	29	1.98
31777238--31777684	45	10.0	45	76	4	413	23	20	23	31	1.98
31777242--31777684	89	5.0	89	83	1	521	23	20	23	31	1.98
31777238--31777684	178	2.5	177	85	1	606	23	20	23	31	1.98
31784210--31784253	16	2.6	17	82	7	54	54	0	6	38	1.27
31784234--31784289	27	2.1	26	87	12	78	51	1	7	39	1.40
31784250--31784309	27	2.1	27	82	11	68	48	3	10	38	1.53
31784321--31784398	3	26.0	3	74	10	61	61	2	6	29	1.34
31788523--31788559	16	2.3	16	95	0	65	75	10	2	10	1.14
31789393--31789426	13	2.5	14	95	4	61	73	0	11	14	1.10
31790648--31791489	50	16.9	50	70	4	516	32	25	20	21	1.98
31790638--31791489	100	8.5	100	90	0	1186	32	25	20	21	1.98
31791947--31791971	13	1.9	13	100	0	50	8	56	20	16	1.65
31792018--31792044	6	4.5	6	100	0	54	33	51	0	14	1.43
31793285--31793335	24	2.1	25	85	3	68	41	9	3	45	1.56
31796995--31797494	46	10.8	46	92	1	804	25	17	26	31	1.97
31797748--31797787	19	2.1	19	100	0	80	47	5	22	25	1.71
31797941--31798048	44	2.5	44	80	1	119	27	16	29	25	1.97
31798096--31798504	43	9.6	43	74	13	229	33	23	20	22	1.97
31798097--31798556	173	2.7	166	92	4	785	34	23	20	22	1.97
31798097--31798556	83	5.5	83	93	3	785	34	23	20	22	1.97
31800190--31800244	19	3.1	19	84	7	62	40	0	1	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31800198--31800244	2	24.0	2	86	4	60	42	0	2	55	1.12
31800198--31800251	6	7.7	7	80	16	51	42	1	1	53	1.22
31800880--31800923	16	2.8	16	78	0	52	43	9	2	45	1.48
31802814--31803154	45	7.6	44	73	12	230	38	18	18	24	1.93
31802801--31803168	135	2.7	133	76	9	345	39	17	18	24	1.92
31802801--31803175	90	4.2	90	81	1	421	38	18	18	24	1.92
31803053--31803196	45	3.2	45	74	9	141	40	17	18	23	1.91
31803743--31803959	28	7.8	28	81	4	226	59	5	12	21	1.53
31803741--31803959	55	3.9	56	81	7	259	59	5	13	21	1.55
31803743--31803959	83	2.6	84	81	5	255	59	5	12	21	1.53
31809811--31809845	12	2.9	12	84	16	54	17	0	5	77	0.96
31809823--31809873	9	5.2	10	81	13	54	19	5	3	70	1.24
31809828--31809865	20	1.9	20	88	0	58	21	5	2	71	1.19
31809910--31809939	3	10.0	3	100	0	60	33	0	0	66	0.92
31811437--31811478	12	3.7	12	78	12	52	14	2	9	73	1.18
31816949--31817019	21	3.5	20	77	7	63	33	7	5	53	1.51
31817364--31817475	57	2.0	57	90	0	179	45	8	12	33	1.71
31817387--31817473	29	3.0	29	67	21	74	47	6	11	34	1.67
31817860--31817930	37	1.9	37	94	0	124	38	18	1	42	1.59
31818363--31818417	25	2.2	26	83	9	69	50	1	1	45	1.22
31818399--31818438	16	2.5	16	91	0	62	47	2	7	42	1.45
31818427--31818569	68	2.1	67	93	2	252	41	4	9	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31818511--31818538	9	3.1	9	100	0	56	32	0	10	57	1.33
31818638--31818683	24	1.9	24	91	8	76	60	2	0	36	1.09
31822688--31822723	18	2.0	18	88	0	54	19	38	22	19	1.93
31825105--31825209	49	2.1	50	85	5	151	20	26	38	14	1.91
31832234--31832316	32	2.6	32	81	7	89	20	27	36	15	1.93
31833655--31833778	40	3.1	40	90	0	203	12	16	28	42	1.84
31833659--31833792	40	3.5	36	77	15	142	11	14	29	44	1.80
31834562--31834624	32	2.0	32	81	12	76	17	22	42	17	1.89
31845194--31845227	15	2.2	16	89	5	52	82	0	17	0	0.67
31845194--31845245	16	3.3	16	82	10	54	75	1	19	3	1.06

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