genome.fa.s6.2.7.7.80.10.50.1000.49.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  49  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)
13804051--13804484	219	2.0	218	83	4	543	36	14	23	25	1.93
13804592--13804630	7	5.9	7	93	6	64	71	0	0	28	0.86
13809683--13809894	27	7.8	27	79	3	201	40	18	22	19	1.92
13809685--13809894	54	3.9	54	84	2	242	40	18	21	19	1.92
13809684--13809922	27	8.8	26	73	10	113	39	19	21	20	1.93
13810110--13810183	26	2.8	26	87	0	112	17	21	22	37	1.94
13816422--13816449	13	2.2	13	100	0	56	7	14	17	60	1.55
13817093--13817275	27	6.8	27	83	5	226	43	19	19	17	1.88
13817093--13817275	54	3.4	54	86	1	260	43	19	19	17	1.88
13817096--13817306	81	2.6	81	84	4	230	43	19	17	19	1.88
13819307--13820107	140	5.8	140	80	5	898	31	20	19	28	1.97
13826898--13827299	129	3.1	129	83	6	502	41	9	5	43	1.62
13827035--13827308	138	2.0	138	89	0	424	40	10	5	42	1.63
13828523--13828709	50	3.8	49	80	7	200	27	22	27	22	1.99
13829667--13830140	234	2.0	234	97	0	894	33	12	22	31	1.92
13834765--13834834	20	3.5	20	78	3	70	42	15	30	11	1.82
13834800--13834848	20	2.5	20	86	3	64	48	16	26	8	1.73
13842043--13842083	21	1.9	22	85	14	59	56	7	0	36	1.27
13856083--13856555	44	10.7	45	79	2	465	28	15	24	31	1.96
13856085--13856555	133	3.5	133	93	0	773	28	15	24	30	1.96
13856083--13856553	89	5.3	89	79	3	468	28	15	24	31	1.96
13858512--13858565	22	2.6	20	74	8	54	31	1	3	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13858580--13858622	19	2.2	20	84	12	54	32	11	0	55	1.36
13868434--13868482	21	2.6	18	78	12	53	67	2	6	24	1.24
13876459--13876734	27	10.2	28	85	6	297	44	18	19	17	1.87
13876467--13876734	81	3.3	80	86	2	340	43	18	20	17	1.88
13876903--13876953	26	2.0	26	84	0	66	17	19	19	43	1.89
13880005--13880252	27	9.3	26	77	8	230	43	19	18	17	1.88
13880005--13880253	54	4.6	54	82	6	276	43	19	18	17	1.88
13880005--13880252	107	2.3	107	85	5	322	43	19	18	17	1.88
13880438--13880500	26	2.4	26	89	0	99	17	22	20	39	1.92
13880606--13880691	30	2.7	32	70	17	79	23	22	25	29	1.99
13882559--13882672	60	1.9	60	96	0	210	27	17	20	35	1.95
13884915--13885010	50	1.9	50	82	0	120	29	21	29	19	1.98
13885312--13885350	20	2.0	20	85	10	53	56	5	20	17	1.60
13889606--13889631	10	2.6	10	100	0	52	42	0	7	50	1.31
13891512--13891556	13	3.5	13	84	0	63	51	13	8	26	1.70
13901865--13902008	54	2.7	51	79	13	139	37	21	19	21	1.94
13901865--13902008	27	5.4	27	77	5	123	37	21	19	21	1.94
13902046--13902087	13	3.4	13	77	12	52	21	7	21	50	1.72
13902037--13902087	24	2.1	24	92	0	84	19	9	21	49	1.77
13902643--13902693	25	2.0	25	84	0	66	23	13	23	39	1.91
13915641--13915760	41	2.9	42	82	3	154	31	19	20	29	1.96
13927151--13927473	168	1.9	168	84	5	438	26	22	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13940381--13940411	13	2.3	14	94	5	55	70	0	0	29	0.87
13940814--13940875	25	2.3	26	83	8	72	59	1	4	33	1.28
13941016--13941057	14	3.1	14	86	6	61	78	4	0	16	0.91
13942533--13943265	132	5.6	131	91	1	1137	30	24	18	27	1.98
13942611--13943259	44	14.8	44	64	16	168	30	24	18	26	1.98
13945120--13945171	19	3.1	16	75	17	52	0	13	3	82	0.80
13949407--13949458	25	2.0	26	85	3	70	59	1	5	32	1.32
13954759--13954918	48	3.3	47	86	3	194	31	18	14	35	1.91
13954784--13954933	48	3.1	48	86	2	203	34	19	14	32	1.91
13955723--13955760	17	2.3	17	86	13	53	23	0	5	71	1.07
13964596--13964643	24	2.0	24	88	12	71	64	4	0	31	1.12
13965769--13965854	14	6.2	14	76	2	84	31	31	0	37	1.58
13965752--13965841	7	13.0	7	75	2	74	32	33	0	34	1.58
13965769--13965838	27	2.6	27	88	2	95	30	34	0	35	1.58
13965804--13965854	21	2.5	21	83	3	59	31	31	0	37	1.58
13965884--13965922	20	2.0	20	85	10	53	17	12	2	66	1.35
13966554--13966625	22	3.3	22	94	0	117	25	27	16	30	1.97
13971113--13971152	20	2.1	19	86	9	55	55	0	7	37	1.29
13974205--13974255	22	2.5	20	81	9	57	31	23	1	43	1.65
13974207--13974249	22	2.0	21	86	4	59	25	25	2	46	1.65
13974423--13974549	37	3.2	40	76	7	134	33	24	18	24	1.97
13975395--13975457	25	2.8	21	74	21	65	1	33	0	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13975404--13975471	25	2.7	25	80	6	75	1	32	0	66	1.01
13975401--13975468	21	3.0	21	72	18	57	1	33	0	64	1.02
13975502--13975539	5	7.8	5	94	5	69	57	0	0	42	0.98
13975522--13975601	38	2.1	37	86	2	106	43	2	2	51	1.28
13983082--13983125	16	2.8	15	83	10	52	47	0	11	40	1.39
13983880--13984103	40	5.6	40	90	0	306	16	27	20	36	1.93
13983916--13984061	20	7.3	20	64	11	84	16	30	19	32	1.94
13990125--13990150	5	5.2	5	100	0	52	80	0	19	0	0.71
13994607--13994679	33	2.2	33	97	2	137	8	31	19	41	1.81
13996157--13996199	18	2.5	17	79	20	54	58	0	0	41	0.98
13996772--13996818	20	2.4	20	85	3	60	12	17	0	70	1.17
13998948--13998990	9	4.6	9	80	11	50	69	0	6	23	1.12
14000181--14000217	18	2.1	18	89	0	56	70	0	10	18	1.16
14003569--14003620	27	1.9	27	88	0	77	17	23	21	38	1.93
14011666--14011772	20	5.3	20	71	5	81	12	30	18	38	1.88
14023024--14023182	29	5.4	29	72	13	96	39	13	24	22	1.90
14023081--14023242	30	5.4	30	76	6	150	40	12	25	20	1.88
14023082--14023242	60	2.7	59	77	13	168	40	13	25	20	1.88
14023230--14023288	30	2.0	30	82	0	73	32	11	25	30	1.92
14025702--14025758	30	1.9	30	85	0	78	38	12	19	29	1.88
14026197--14026295	23	4.3	23	76	0	108	24	18	26	31	1.97
14029544--14029642	23	4.3	23	80	0	117	25	20	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14029544--14029642	46	2.2	46	84	0	135	25	20	24	30	1.99
14032012--14032050	18	2.2	17	86	13	53	30	0	20	48	1.50
14032276--14032374	23	4.3	23	85	0	135	21	21	27	30	1.98
14032276--14032374	46	2.2	46	88	0	153	21	21	27	30	1.98
14035298--14035329	16	2.0	16	93	0	55	46	6	21	25	1.74
14035510--14036355	425	2.0	424	91	0	1370	26	20	12	40	1.88
14052350--14052517	19	8.8	19	86	0	246	41	7	13	38	1.73
14052350--14052517	57	2.9	57	92	0	273	41	7	13	38	1.73
14052647--14052847	44	4.6	45	67	13	121	32	18	22	26	1.97
14053037--14053217	44	4.1	44	65	16	104	28	19	22	29	1.98
14052573--14053332	132	5.8	132	94	0	1308	28	19	24	28	1.98
14053662--14053772	19	5.8	19	88	0	168	40	9	14	36	1.77
14055058--14055129	30	2.4	30	80	0	90	38	12	20	27	1.89
14055133--14055262	30	4.4	30	73	13	124	38	11	26	23	1.89
14055133--14055305	89	1.9	89	82	2	213	38	14	24	23	1.92
14069310--14069357	16	2.8	17	74	20	55	52	4	10	33	1.55
14070514--14070630	59	2.0	59	86	1	162	40	25	20	13	1.89
14070477--14070586	38	2.9	38	88	0	166	40	30	18	11	1.86
14070471--14070607	22	6.8	22	67	19	84	40	29	17	12	1.86
14072693--14072730	19	2.1	19	85	5	51	44	13	5	36	1.66
14074524--14074557	14	2.5	14	95	4	61	14	0	35	50	1.44
14078185--14078213	1	29.0	1	100	0	58	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14079114--14079148	16	2.2	16	89	0	52	45	17	0	37	1.48
14080482--14080728	69	3.6	68	79	7	273	32	22	22	22	1.98
14080590--14080725	34	3.9	35	75	2	114	33	21	22	22	1.97
14080687--14080772	44	2.0	44	88	4	129	29	17	25	27	1.97
14080616--14080838	113	2.0	113	82	3	270	31	20	25	22	1.98
14080762--14080924	69	2.4	69	88	0	236	28	24	28	19	1.98
14080966--14081013	20	2.4	20	92	0	78	39	29	0	31	1.57
14085261--14085296	18	2.0	18	100	0	72	33	0	22	44	1.53
14087028--14087074	23	2.0	24	84	12	62	29	21	4	44	1.71
14087267--14087322	26	2.2	25	87	12	78	46	21	19	12	1.83

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