genome.fa.s10.2.7.7.80.10.50.1000.41.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  41  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)
13127099--13127128	16	1.9	15	93	6	51	13	23	13	50	1.77
13129187--13129343	27	5.8	27	83	4	190	27	15	28	29	1.96
13129188--13129343	82	1.9	81	88	3	233	26	15	28	29	1.96
13129187--13129341	55	2.9	54	83	3	195	27	15	27	29	1.96
13130681--13130760	37	2.2	37	86	4	108	27	31	17	23	1.97
13130879--13131211	47	7.1	47	95	0	576	28	30	9	31	1.88
13133095--13133172	39	2.0	39	92	0	129	37	30	10	21	1.87
13143942--13144050	14	7.8	14	71	10	53	18	0	30	50	1.53
13143937--13144015	21	3.8	21	77	0	77	20	1	27	50	1.56
13144012--13144077	21	3.2	20	76	8	69	16	0	36	46	1.47
13144390--13144438	15	3.4	14	85	5	53	16	0	32	51	1.45
13144327--13144438	22	5.2	21	70	9	73	21	1	30	46	1.62
13144385--13144545	7	22.7	7	72	14	55	21	0	36	42	1.53
13144385--13144438	7	7.4	7	83	6	63	18	0	29	51	1.46
13144442--13144491	21	2.3	23	80	13	61	20	0	44	36	1.52
13144884--13145395	115	4.4	115	80	6	516	26	13	21	38	1.91
13145500--13145619	58	2.1	59	84	4	154	22	35	4	38	1.74
13148535--13148564	8	3.8	8	90	0	51	36	6	0	56	1.26
13148521--13148564	16	2.5	18	89	10	65	38	6	0	54	1.27
13148813--13148841	15	1.9	15	100	0	58	27	0	13	58	1.36
13149004--13149233	9	25.8	9	70	14	86	47	17	1	33	1.58
13149089--13149113	13	1.9	13	100	0	50	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13148990--13149154	56	2.8	58	86	8	221	49	15	1	33	1.53
13149102--13149184	43	1.9	43	92	0	139	46	18	1	33	1.56
13149131--13149217	36	2.5	36	86	3	124	45	18	2	33	1.62
13151136--13151250	43	2.7	43	87	2	171	26	26	21	25	2.00
13151598--13151646	24	2.0	24	100	0	98	38	8	4	48	1.52
13157967--13158065	42	2.3	42	82	1	135	29	25	20	25	1.99
13163641--13163669	14	2.1	14	93	6	51	34	0	10	55	1.34
13164083--13164128	21	2.2	21	84	0	56	34	19	45	0	1.51
13168280--13168456	27	6.5	27	80	3	167	25	16	29	28	1.97
13168280--13168435	82	1.9	81	84	3	206	25	16	29	28	1.97
13168276--13168456	82	2.2	81	80	2	202	25	16	28	28	1.97
13170834--13170876	15	2.7	17	75	17	56	76	0	20	2	0.89
13174863--13175027	51	3.3	49	79	5	152	26	17	27	29	1.98
13176700--13176745	23	2.0	23	100	0	92	43	4	8	43	1.55
13179199--13179236	20	1.9	20	94	0	67	31	5	10	52	1.58
13182210--13182257	20	2.3	20	78	3	51	25	14	12	47	1.79
13182219--13182261	20	2.2	20	86	0	59	25	9	11	53	1.67
13204381--13204443	31	2.0	31	90	0	99	34	14	19	31	1.91
13207035--13207213	47	3.8	49	80	13	205	29	27	20	22	1.99
13207043--13207213	94	1.8	93	92	1	288	28	28	21	22	1.99
13214244--13214280	16	2.3	16	100	0	74	37	45	5	10	1.62
13217521--13217650	40	3.4	37	75	15	104	29	15	21	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13217550--13217652	40	2.5	40	81	9	120	30	15	21	33	1.94
13226983--13227073	46	2.0	46	95	0	164	36	10	25	27	1.89
13234210--13234302	46	2.0	46	91	4	152	33	16	26	23	1.95
13240182--13240286	55	1.9	55	84	0	138	19	28	27	24	1.98
13240178--13240303	55	2.3	54	78	5	135	17	26	26	29	1.97
13244275--13244311	13	2.8	13	91	0	56	18	37	27	16	1.92
13245941--13246204	40	6.6	40	83	6	320	25	26	22	25	2.00
13252090--13252218	46	2.8	46	92	0	213	20	21	29	28	1.98
13268578--13268702	40	3.1	40	82	8	148	24	23	28	23	1.99
13272666--13272705	13	3.1	13	85	0	62	20	37	27	15	1.92
13280882--13281198	46	6.7	45	75	10	169	24	29	18	27	1.98
13287721--13287862	70	2.0	70	93	0	239	26	14	23	34	1.94
13288081--13288181	50	2.0	50	96	0	184	33	17	15	32	1.92
13289119--13289389	56	4.8	56	99	0	533	44	9	23	23	1.82
13290421--13290603	79	2.3	81	83	7	223	24	22	27	24	2.00
13290422--13290605	40	4.6	40	82	9	207	24	22	28	24	2.00
13290474--13290638	79	2.1	79	83	6	201	26	21	27	24	1.99
13293378--13294464	362	3.0	362	99	0	2129	32	24	15	27	1.95
13297778--13297856	31	2.5	31	95	0	140	26	24	18	30	1.98
13298075--13298171	26	3.8	26	90	1	153	25	24	24	24	2.00
13298971--13299054	27	3.1	27	93	3	134	20	26	22	30	1.98
13299116--13299443	27	12.1	27	76	7	209	31	8	19	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13299101--13299438	54	6.2	53	76	7	250	30	8	19	41	1.81
13299204--13299438	81	2.9	80	85	5	305	29	8	20	41	1.82
13299404--13299532	27	4.8	27	81	0	107	40	8	18	32	1.81
13301592--13302004	46	8.7	49	73	9	256	23	28	19	28	1.98
13310127--13310225	35	2.8	34	76	8	101	30	9	18	42	1.81
13312689--13313010	46	6.8	46	75	13	173	23	30	18	27	1.98
13312647--13313007	48	7.7	47	72	17	195	24	29	18	27	1.98
13314876--13314923	21	2.2	22	81	11	62	41	2	2	54	1.24
13314883--13314923	21	2.0	21	90	0	64	41	2	2	53	1.27
13315146--13315180	5	7.2	5	90	6	54	80	0	2	17	0.84
13329274--13329302	15	1.9	15	100	0	58	51	0	20	27	1.47
13347351--13347943	297	2.0	297	100	0	1186	31	8	19	40	1.82
13373279--13373315	19	2.1	19	85	14	53	67	10	5	16	1.38
13373683--13373792	21	5.5	18	71	25	71	60	1	3	34	1.25
13373714--13373792	12	6.6	12	72	18	51	59	1	2	36	1.19
13375333--13375994	44	15.0	44	90	0	1002	28	28	15	27	1.96
13381321--13381476	47	3.3	47	90	3	240	29	31	8	30	1.87
13381321--13381476	49	3.3	49	90	5	239	29	31	8	30	1.87
13399126--13399206	27	3.0	28	70	12	69	56	2	4	35	1.34
13399261--13399318	21	2.8	19	76	19	55	58	1	6	32	1.35
13401387--13401455	15	4.6	15	79	0	75	13	17	11	57	1.64
13401378--13401465	30	3.0	30	78	8	90	11	17	14	56	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13401387--13401466	15	5.4	14	77	4	61	11	17	12	58	1.62
13403857--13404032	46	3.8	46	80	12	225	21	21	28	28	1.98
13403854--13404024	93	1.8	93	96	0	315	21	21	29	28	1.98
13404944--13405008	22	3.0	22	80	8	78	20	23	23	33	1.97
13405167--13405268	27	3.8	27	84	5	125	19	23	20	36	1.95
13405166--13405268	54	1.9	53	86	2	143	20	23	20	35	1.96
13405400--13405510	31	3.6	31	87	0	150	21	17	12	48	1.80
13405400--13405542	6	23.3	6	70	14	96	20	16	13	48	1.80
13405555--13405618	34	2.0	32	81	9	76	23	17	25	34	1.96
13412689--13412831	39	3.5	38	70	20	99	33	19	15	31	1.93
13412694--13412849	85	1.8	85	91	0	258	32	19	16	32	1.93
13412694--13412874	85	2.1	85	86	3	247	32	19	16	31	1.94
13413045--13413278	42	5.5	43	86	2	294	31	29	15	23	1.95
13413045--13413279	85	2.8	85	85	5	298	31	29	15	23	1.95
13415234--13415279	18	2.5	18	89	3	65	52	4	0	43	1.21
13415317--13415392	29	2.6	29	89	2	116	42	10	0	47	1.38
13417596--13417673	34	2.3	35	91	4	124	44	6	10	38	1.64
13418275--13418358	40	2.1	40	84	0	105	19	16	16	47	1.83
13419665--13419768	40	2.6	40	78	0	109	25	22	20	31	1.98
13419815--13420167	40	8.9	40	70	7	166	28	22	19	29	1.98
13419567--13419924	156	2.3	155	85	2	486	27	20	20	30	1.98
13419713--13420158	196	2.3	196	82	3	533	29	21	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13430172--13430200	15	1.9	15	100	0	58	41	0	0	58	0.98
13431939--13431976	8	4.8	8	86	0	58	55	21	21	2	1.56
13432589--13432634	20	2.3	21	82	14	62	26	17	28	28	1.98
13434188--13434215	14	2.0	14	100	0	56	78	0	21	0	0.75
13437309--13438057	205	3.7	205	92	1	1204	30	18	22	29	1.97
13438689--13438749	19	3.3	19	93	6	108	37	8	16	37	1.78
13439289--13439337	26	2.0	25	88	8	73	22	6	8	63	1.44
13452087--13452134	20	2.5	20	86	3	62	64	2	6	27	1.28
13452158--13452187	15	2.0	15	93	0	51	40	10	0	50	1.36
13453770--13453803	6	5.7	6	100	0	68	67	0	0	32	0.91

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