genome.fa.s10.2.7.7.80.10.50.1000.99.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  99  of  172  ( 20562 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)
33417274--33418156	36	24.5	36	98	0	1626	27	27	16	27	1.97
33418135--33418177	21	2.0	21	100	0	86	37	39	13	9	1.78
33421227--33421262	17	2.1	17	100	0	72	52	5	0	41	1.24
33424776--33424851	38	2.0	38	100	0	152	36	10	13	39	1.79
33427883--33427946	21	3.1	21	78	14	71	10	35	28	25	1.89
33428454--33428628	92	1.9	93	85	5	248	27	25	17	29	1.98
33430309--33430460	27	5.6	27	93	3	232	30	28	13	26	1.94
33430309--33430485	55	3.2	55	90	0	264	31	29	13	25	1.94
33434016--33434243	40	5.7	40	93	0	384	21	26	20	31	1.98
33442235--33442386	27	5.6	27	92	3	223	30	28	13	26	1.94
33442235--33442411	55	3.2	55	90	0	255	31	29	13	25	1.94
33451014--33451116	51	2.0	51	98	0	197	26	22	8	42	1.82
33451766--33452168	201	2.0	201	100	0	806	27	23	17	31	1.97
33452112--33452296	40	4.7	40	81	5	178	27	28	20	24	1.99
33453252--33453311	30	2.0	30	100	0	120	40	13	30	16	1.87
33460136--33460320	79	2.3	82	83	7	229	25	27	23	24	2.00
33460117--33460320	40	5.1	40	81	8	229	25	26	23	25	2.00
33464443--33465387	40	23.6	40	97	1	1718	27	27	20	24	1.99
33468625--33468683	17	3.7	16	90	4	93	18	11	5	64	1.44
33468625--33468681	16	3.5	16	97	2	105	17	10	5	66	1.40
33468722--33468767	12	4.1	11	81	15	58	17	0	6	76	1.00
33468722--33468765	22	2.0	22	86	8	63	15	0	4	79	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33472470--33472494	13	1.9	13	100	0	50	40	16	0	44	1.47
33474475--33474577	30	3.5	30	68	6	84	33	16	23	27	1.96
33475190--33475252	5	12.0	5	79	15	58	76	3	17	3	1.05
33475190--33475252	11	6.0	10	74	20	58	76	3	17	3	1.05
33475320--33475401	30	2.7	31	84	5	105	64	0	23	12	1.27
33475325--33475371	24	2.0	24	83	4	60	65	0	21	12	1.25
33480803--33480899	30	3.2	30	76	2	106	27	27	15	28	1.96
33483242--33483289	20	2.4	20	75	0	60	20	29	18	31	1.97
33489351--33489394	21	2.1	21	91	0	70	31	4	34	29	1.78
33489361--33489418	22	2.6	22	83	5	64	32	5	31	31	1.80
33492318--33492348	12	2.6	12	100	0	62	25	16	12	45	1.83
33492396--33492452	5	11.0	5	75	20	55	1	17	1	78	0.91
33492396--33492459	16	4.2	14	77	16	65	1	17	3	78	0.96
33492400--33492448	26	1.9	25	84	12	64	2	16	2	79	0.92
33492396--33492463	21	3.2	21	78	15	70	1	17	2	77	0.96
33496636--33496686	15	3.5	15	76	12	52	7	15	15	60	1.56
33496628--33496685	30	2.0	29	86	10	82	10	15	15	58	1.62
33499955--33500017	11	6.0	10	77	22	67	74	3	4	17	1.12
33501268--33501359	30	3.1	29	72	6	85	31	17	23	27	1.97
33501677--33501721	17	2.9	15	81	15	56	4	24	4	66	1.29
33502399--33502463	20	3.3	19	73	16	51	38	16	21	23	1.93
33504297--33504352	21	2.7	21	72	5	51	8	17	1	71	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33504296--33504352	14	4.1	14	75	16	57	8	17	1	71	1.19
33504314--33504451	18	7.6	18	70	12	86	7	19	2	69	1.26
33504314--33504421	6	17.7	6	70	5	74	6	18	3	71	1.23
33505502--33505574	12	5.8	12	78	13	76	15	6	4	73	1.19
33505488--33505575	39	2.3	39	82	4	115	12	7	6	72	1.26
33508871--33508903	17	1.9	17	88	11	50	39	15	9	36	1.79
33514070--33514137	31	2.2	30	86	2	91	26	4	4	64	1.31
33522925--33522977	26	2.1	25	82	3	61	26	18	20	33	1.96
33523481--33523534	16	3.5	16	73	16	60	50	0	5	44	1.25
33523729--33523769	17	2.5	17	80	15	50	73	0	24	2	0.96
33525835--33525894	26	2.3	26	80	11	70	15	20	20	45	1.86
33529264--33529312	25	1.9	26	84	12	66	55	6	10	28	1.57
33529538--33529636	50	2.0	50	100	0	198	52	14	7	26	1.66
33537913--33537948	18	1.9	19	88	5	56	55	8	8	27	1.58
33538240--33538538	112	2.6	112	82	10	349	60	16	2	20	1.48
33538241--33538633	112	3.5	108	78	12	341	59	15	2	23	1.47
33538547--33538591	22	2.2	20	84	8	54	68	6	0	24	1.13
33549082--33549141	28	2.2	26	77	11	66	26	26	11	35	1.91
33549096--33549167	28	2.6	28	88	0	99	29	27	12	30	1.93
33555217--33555263	22	2.1	22	84	7	60	48	2	0	48	1.13
33555241--33555307	30	2.3	29	80	12	75	55	2	2	38	1.31
33564857--33564954	20	4.8	21	71	10	60	41	4	1	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33564905--33564950	19	2.4	19	85	3	56	52	0	2	45	1.13
33595425--33595487	20	3.2	20	81	0	72	57	11	15	15	1.66
33596109--33596160	20	2.6	19	76	11	52	50	11	25	13	1.75
33596440--33596506	20	3.3	20	72	17	59	52	10	14	22	1.72
33596675--33596699	7	3.6	7	100	0	50	48	0	24	28	1.52
33598158--33598249	43	2.1	43	97	0	175	47	2	22	27	1.63
33598691--33598835	40	3.6	40	87	3	202	26	23	28	21	1.99
33598691--33598839	80	1.9	80	89	0	235	26	22	28	22	1.99
33598691--33598862	80	2.2	80	86	1	229	25	22	28	23	1.99
33609036--33609077	22	1.9	22	85	0	57	23	0	2	73	0.94
33612901--33613045	3	48.7	3	74	14	95	26	4	6	62	1.37
33614592--33614632	21	2.0	20	86	13	57	19	2	2	75	1.03
33625256--33625313	25	2.3	25	84	0	89	31	15	17	36	1.91
33625679--33625803	62	2.0	62	98	0	241	26	12	24	36	1.92
33627709--33627792	25	3.4	25	88	3	125	30	17	15	35	1.91
33630625--33630707	41	2.0	41	100	0	166	34	21	4	38	1.75
33637237--33637279	22	2.0	22	85	0	59	53	9	16	20	1.70
33637244--33637292	11	4.5	11	76	0	53	51	10	20	18	1.75
33639172--33639303	48	2.8	46	84	10	169	35	7	5	51	1.53
33640283--33640315	7	4.7	7	100	0	66	27	0	15	57	1.38
33640912--33640946	18	1.9	18	94	0	61	25	31	8	34	1.86
33644207--33644282	37	2.1	37	89	0	116	26	31	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33644401--33645795	47	29.1	47	98	0	2439	29	29	8	32	1.87
33648461--33648963	126	4.0	126	88	1	717	28	17	17	36	1.93
33648461--33648963	251	2.0	249	89	1	765	28	17	17	36	1.93
33649539--33649570	16	2.0	16	100	0	64	37	25	0	37	1.56
33649491--33649580	39	2.4	38	87	7	132	43	21	0	35	1.53
33649491--33649580	19	4.8	19	85	10	132	43	21	0	35	1.53
33649678--33649716	17	2.3	17	90	0	60	56	20	0	23	1.42
33650323--33650376	19	2.8	19	75	10	56	40	3	1	53	1.29
33650727--33651500	3	258.0	3	100	0	1548	66	0	33	0	0.92
33656318--33656851	43	12.6	42	77	5	411	20	16	23	40	1.91
33656318--33656832	86	6.1	85	84	2	511	20	16	22	41	1.90
33661703--33661929	26	8.7	26	81	2	231	30	24	7	37	1.84
33663709--33663867	46	3.4	46	75	11	121	24	29	20	25	1.99
33666658--33666692	18	1.9	18	88	0	52	31	14	5	48	1.67
33670538--33670795	47	5.5	47	81	6	233	25	28	18	27	1.98
33670531--33670795	94	2.8	93	77	10	263	24	28	18	27	1.98
33676535--33676757	47	4.7	47	74	13	158	22	29	18	29	1.97
33678996--33679215	46	4.7	46	75	12	153	27	17	30	24	1.97
33678994--33679215	47	4.7	47	75	12	163	27	18	29	24	1.98
33681433--33681457	6	4.2	6	100	0	50	52	0	16	32	1.44
33684675--33684713	7	5.6	7	100	0	78	15	43	0	41	1.46
33684731--33684776	22	2.0	23	84	12	60	17	6	6	69	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33689300--33689364	34	1.9	34	96	0	121	20	23	12	44	1.84
33700636--33700705	32	2.2	32	84	5	88	61	7	4	27	1.41
33703550--33703733	40	4.6	41	82	12	208	26	22	27	24	2.00
33703602--33703766	79	2.1	79	82	8	194	27	21	27	24	1.99
33711500--33711763	40	6.7	40	89	5	360	25	21	27	25	1.99
33711500--33711796	119	2.5	118	81	9	338	26	21	27	25	1.99
33713675--33714180	177	2.9	176	84	3	635	29	23	19	28	1.98
33714467--33714591	64	2.0	64	95	0	223	36	16	16	29	1.92
33718090--33718119	11	2.7	11	94	0	51	30	16	23	30	1.96
33718474--33718563	29	3.1	28	85	4	117	28	26	15	28	1.96

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