genome.fa.s4.2.7.7.80.10.50.1000.96.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   191   192   
          193   194   195   196   197   198   

This is table  96  of  198  ( 23681 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)
30693731--30693780	18	2.8	18	100	0	100	40	50	0	10	1.36
30693884--30693941	9	6.4	9	87	0	89	25	10	22	41	1.85
30693884--30693941	18	3.2	18	95	0	98	25	10	22	41	1.85
30694794--30694832	2	19.5	2	100	0	78	48	0	0	51	1.00
30699331--30699360	15	2.0	15	93	0	51	26	6	10	56	1.57
30702212--30702425	101	2.1	101	83	3	270	32	14	21	31	1.94
30705994--30706221	101	2.3	101	85	0	294	32	16	23	27	1.96
30706130--30706212	33	2.5	33	80	3	96	32	16	26	24	1.96
30707578--30707647	27	2.6	27	77	8	72	21	18	21	38	1.93
30723702--30723749	10	4.6	10	80	10	51	35	0	2	62	1.07
30732001--30732097	46	2.1	46	96	0	176	19	13	28	38	1.90
30732958--30732982	9	2.8	9	100	0	50	68	0	24	8	1.16
30733743--30733804	26	2.4	26	91	0	97	35	12	14	37	1.85
30751458--30751531	27	2.7	27	81	10	80	21	20	8	50	1.74
30758541--30758752	101	2.1	101	91	1	336	30	15	24	29	1.96
30758542--30758767	33	6.7	33	70	10	109	29	16	26	28	1.97
30758643--30758797	68	2.3	66	81	4	159	29	16	27	26	1.97
30758572--30758793	101	2.2	100	84	4	277	28	16	26	27	1.97
30758708--30758787	33	2.4	32	80	10	90	30	18	28	22	1.98
30766375--30766623	50	4.9	50	76	8	193	28	21	27	23	1.99
30770105--30770207	40	2.6	40	73	0	98	36	17	33	12	1.88
30770105--30770209	20	5.2	20	73	4	77	37	18	32	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30772940--30772973	16	2.2	15	89	5	50	44	0	8	47	1.34
30784966--30785013	24	2.0	24	92	4	80	62	10	18	8	1.52
30785466--30785522	28	2.0	28	100	0	114	26	21	14	38	1.91
30786314--30786486	50	3.5	50	76	3	145	28	23	26	21	1.99
30788587--30788636	24	2.1	24	100	0	100	44	4	16	36	1.66
30792624--30792655	13	2.5	13	94	0	55	43	6	21	28	1.77
30804762--30804791	14	2.1	14	93	0	51	40	0	43	16	1.48
30807427--30807503	29	2.7	29	91	0	118	36	9	27	27	1.87
30807491--30807565	29	2.6	29	86	2	96	37	9	30	22	1.86
30811080--30811223	51	2.8	51	82	2	155	25	15	27	32	1.95
30811218--30811308	45	2.0	45	91	0	146	26	18	24	30	1.98
30813528--30813552	13	1.9	13	100	0	50	16	0	16	68	1.22
30816603--30816654	20	2.8	18	78	21	63	51	1	1	44	1.23
30818776--30819812	383	2.7	386	82	5	1212	37	19	13	29	1.90
30823234--30823275	21	2.0	21	90	0	66	16	21	26	35	1.94
30824853--30824887	18	1.9	18	88	0	52	62	11	5	20	1.48
30825515--30825560	23	2.0	23	95	0	83	32	17	15	34	1.91
30828139--30828185	24	1.9	25	82	4	60	27	25	4	42	1.73
30831393--30831426	16	2.2	16	89	5	52	76	0	0	23	0.79
30839552--30839728	45	4.0	45	85	2	216	23	15	25	34	1.95
30844346--30844527	45	4.1	45	81	5	201	20	15	28	35	1.94
30844357--30844527	90	1.9	88	86	2	243	21	15	27	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30853323--30853358	11	3.4	11	96	3	65	50	8	0	41	1.33
30857022--30857097	37	2.1	37	100	0	152	28	13	23	34	1.92
30860266--30860304	20	2.0	20	90	10	62	15	23	5	56	1.59
30860559--30860700	50	2.8	50	80	2	151	22	26	21	29	1.99
30868059--30868247	50	3.6	50	79	9	148	24	26	21	28	1.99
30881496--30881635	43	3.3	43	87	0	199	27	28	19	25	1.98
30881496--30881686	86	2.2	85	82	6	226	30	25	18	25	1.98
30883234--30883270	5	7.4	5	100	0	74	81	0	0	18	0.70
30883279--30883339	28	2.2	28	85	5	79	32	24	9	32	1.88
30887274--30887329	15	3.9	15	68	13	55	35	41	1	21	1.64
30887250--30887321	27	2.7	27	91	4	112	34	44	2	18	1.64
30887307--30887386	42	1.9	42	84	5	108	31	41	0	27	1.56
30898742--30899186	44	10.3	44	68	12	287	31	21	20	26	1.98
30898647--30899322	129	5.4	129	87	5	988	31	21	20	26	1.98
30898660--30899186	85	6.1	84	73	10	352	31	21	20	26	1.98
30899073--30899300	114	2.0	114	93	0	393	31	22	18	27	1.97
30900777--30900828	14	3.6	14	76	16	52	13	7	0	78	0.94
30900778--30900812	17	2.1	16	89	5	52	11	5	0	82	0.82
30901327--30901629	106	2.9	106	89	1	446	29	17	20	32	1.96
30914600--30914685	45	1.9	45	92	0	145	31	11	20	36	1.89
30918972--30919179	30	7.0	30	75	9	185	23	26	13	36	1.92
30919210--30919311	30	3.4	30	83	5	134	28	23	9	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30927842--30927920	30	2.6	31	86	4	101	29	21	11	37	1.88
30937711--30937858	75	2.0	74	83	10	185	45	7	12	33	1.70
30937838--30938284	138	3.2	137	86	3	594	40	10	4	44	1.59
30938296--30938331	18	2.1	17	94	5	63	38	0	5	55	1.23
30938554--30938631	39	2.0	39	100	0	156	30	15	17	35	1.91
30940299--30940349	23	2.2	23	89	6	77	41	19	9	29	1.84
30953980--30954248	43	6.3	43	88	1	396	25	28	19	26	1.99
30953980--30954248	129	2.1	129	92	0	439	25	28	19	26	1.99
30954518--30954601	42	2.0	43	81	6	100	45	9	8	36	1.67
30957727--30957802	7	10.4	7	74	13	55	38	42	1	18	1.59
30957730--30957850	21	5.5	22	75	11	88	38	39	1	19	1.62
30957751--30957781	16	1.9	16	93	0	53	32	48	0	19	1.49
30957730--30957802	37	1.9	38	83	8	96	35	43	1	19	1.59
30958123--30958491	113	3.3	113	90	1	533	26	23	20	29	1.99
30958070--30958506	113	3.9	113	86	3	523	27	24	20	27	1.99
30958512--30958803	111	2.6	110	84	3	370	25	23	21	28	1.99
30960371--30960516	41	3.6	41	86	3	197	23	19	23	33	1.97
30967641--30967690	25	2.0	25	92	3	84	44	0	18	38	1.50
30967639--30967692	24	2.3	23	87	9	81	42	0	16	40	1.48
30969119--30969158	21	1.9	21	85	10	55	47	10	0	42	1.37
30971308--30971486	50	3.6	50	83	3	211	22	26	24	26	2.00
30975399--30975424	11	2.4	11	100	0	52	30	7	0	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30977268--30977323	7	7.7	7	88	7	85	46	37	0	16	1.47
30977268--30977323	15	3.8	15	92	4	96	46	37	0	16	1.47
30977268--30977323	22	2.5	23	88	8	89	46	37	0	16	1.47
30981408--30981446	19	2.1	19	85	9	53	28	15	0	56	1.40
30986297--30986354	27	2.2	26	84	9	73	72	5	3	18	1.18
30994559--30994598	20	2.0	20	85	9	55	15	17	0	67	1.23
30994569--30994599	7	4.6	7	96	4	55	12	12	0	74	1.08
30995431--30995502	29	2.4	29	82	13	85	12	9	6	70	1.32
30995482--30995526	21	2.1	21	83	0	54	6	4	6	82	0.95
31011327--31011382	22	2.7	21	75	8	60	25	28	33	12	1.92
31013078--31013119	22	1.9	22	90	0	66	26	9	30	33	1.88
31014431--31014571	73	1.9	72	91	1	228	29	19	24	26	1.99
31014483--31015007	114	4.6	114	87	1	757	26	20	25	26	1.99
31015016--31015099	41	2.0	41	93	0	141	21	15	33	29	1.94
31015365--31015402	14	2.7	14	91	0	58	31	0	28	39	1.57
31015350--31015414	7	9.3	7	75	5	51	24	0	38	36	1.56
31015655--31015695	15	2.8	15	85	3	57	29	0	29	41	1.56
31015247--31015917	306	2.2	302	84	7	830	30	2	25	41	1.68
31019792--31019843	20	2.7	18	80	14	52	55	3	1	38	1.29
31019887--31020167	43	6.6	43	82	4	264	26	19	27	26	1.99
31019920--31020173	85	3.0	84	82	2	310	27	20	27	25	1.99
31019899--31020173	86	3.2	83	81	6	307	26	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31020259--31020301	21	2.0	22	90	4	70	44	25	20	9	1.81
31026876--31026902	14	1.9	14	100	0	54	7	14	7	70	1.32
31033814--31033881	33	2.1	33	94	0	118	51	19	10	19	1.74
31034928--31034974	23	2.0	23	87	0	67	17	38	0	44	1.48
31046284--31046626	51	6.8	50	78	5	269	31	25	14	28	1.95
31046387--31046521	26	5.3	26	61	19	68	30	27	13	28	1.94
31046282--31046609	102	3.2	102	85	1	372	30	25	14	29	1.95
31055074--31055211	50	2.6	52	79	11	147	25	18	31	25	1.97
31055116--31055235	50	2.4	50	81	5	152	28	20	29	22	1.98
31058644--31058682	18	2.2	18	90	0	60	58	7	12	20	1.58

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   191   192   
          193   194   195   196   197   198