genome.fa.s23.2.7.7.80.10.50.1000.117.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  117  of  167  ( 19959 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)
39082986--39083022	9	4.1	9	92	0	65	45	13	10	29	1.77
39086034--39086067	16	2.1	17	88	5	52	58	0	2	38	1.13
39086042--39086101	19	3.1	19	75	11	59	61	1	0	36	1.06
39086042--39086115	10	7.3	10	70	13	53	60	2	0	36	1.11
39089423--39089471	18	2.6	18	87	6	62	40	16	0	42	1.48
39089430--39089524	48	2.0	48	85	0	127	37	15	7	38	1.76
39089618--39089716	47	2.1	47	83	7	121	35	22	18	24	1.96
39090921--39090949	13	2.1	14	93	6	51	6	10	0	82	0.83
39091278--39091338	33	1.9	30	83	9	77	54	3	0	42	1.17
39091569--39091608	16	2.5	16	88	8	55	57	2	0	40	1.12
39092908--39092981	19	3.8	19	75	18	71	33	1	4	60	1.24
39097468--39097689	104	2.1	104	80	4	241	25	19	29	25	1.99
39098528--39098604	40	1.9	40	91	0	127	16	23	14	45	1.84
39099561--39099619	30	2.0	30	96	0	109	23	22	1	52	1.56
39100684--39100725	15	2.8	15	82	10	50	57	2	11	28	1.47
39121117--39121254	55	2.5	55	90	3	206	31	26	14	26	1.95
39128756--39128803	15	3.1	14	80	16	51	31	0	4	64	1.12
39128756--39128795	15	2.6	15	88	4	53	30	0	2	67	1.04
39135083--39135116	16	2.1	16	88	0	50	35	20	2	41	1.68
39135426--39135455	14	2.1	14	93	0	51	3	13	0	83	0.77
39138355--39138578	49	4.7	49	72	10	185	25	27	20	27	1.99
39138407--39138574	93	1.8	92	82	6	214	25	27	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39141461--39141494	10	3.3	10	88	8	50	58	17	20	2	1.51
39162068--39162105	18	2.1	18	100	0	76	39	13	10	36	1.79
39163892--39164042	61	2.5	61	97	0	284	37	19	6	36	1.78
39167177--39167218	16	2.6	16	92	3	66	40	9	11	38	1.75
39173847--39173895	20	2.5	20	86	0	71	69	2	8	20	1.24
39173847--39173895	10	4.9	10	78	9	55	69	2	8	20	1.24
39176863--39176912	21	2.4	21	83	3	66	58	4	2	36	1.29
39177127--39177167	21	2.0	21	85	0	55	56	0	26	17	1.41
39178544--39178601	28	2.1	28	100	0	116	34	20	25	18	1.96
39180972--39180997	13	2.0	13	100	0	52	46	0	30	23	1.53
39184083--39184110	14	2.0	14	100	0	56	28	0	0	71	0.86
39196452--39196506	29	1.9	29	85	10	78	14	20	43	21	1.87
39213982--39214056	24	3.1	24	77	7	80	25	32	18	24	1.97
39222195--39222307	60	1.9	59	87	1	163	37	9	14	38	1.79
39223956--39223986	16	1.9	16	93	0	53	70	3	9	16	1.26
39225855--39225926	36	2.0	36	91	0	117	36	9	13	40	1.78
39229375--39229559	68	2.8	64	80	10	205	25	27	16	30	1.97
39230225--39230286	30	2.1	30	84	0	79	30	22	8	38	1.83
39235468--39235574	50	2.1	48	81	10	117	71	2	4	20	1.16
39238094--39238123	2	15.0	2	100	0	60	50	0	0	50	1.00
39243582--39243729	3	48.7	3	65	14	54	62	2	9	26	1.37
39243571--39243621	26	2.0	26	88	7	77	62	0	5	31	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39243564--39243622	15	3.8	17	77	16	58	64	0	6	28	1.19
39243679--39243811	35	3.9	34	71	11	92	59	0	10	29	1.36
39254730--39254790	29	2.1	29	93	0	104	45	9	4	39	1.59
39262860--39262908	6	8.2	6	93	0	71	36	0	10	53	1.35
39268406--39268438	17	1.9	17	93	0	57	18	6	6	69	1.30
39268723--39269371	44	14.7	44	93	1	962	27	24	15	32	1.95
39273759--39273836	35	2.2	35	93	2	129	10	32	11	46	1.74
39290357--39290527	85	2.0	86	96	1	317	34	15	15	34	1.89
39291177--39291695	260	2.0	260	98	0	993	37	14	11	36	1.82
39291934--39292525	297	2.0	297	98	0	1148	38	17	7	36	1.77
39292883--39293174	146	2.0	146	95	0	521	32	11	27	28	1.91
39293346--39293464	60	2.0	60	98	0	229	23	28	24	23	2.00
39294794--39294843	24	2.1	24	85	10	68	26	2	2	70	1.09
39295466--39295734	136	2.0	136	96	0	493	33	23	14	28	1.93
39298618--39298719	51	2.0	51	100	0	204	19	19	13	47	1.83
39306296--39306345	24	2.1	24	85	10	68	26	2	2	70	1.09
39308926--39308976	22	2.4	22	80	3	59	21	29	15	33	1.94
39309412--39309542	66	2.0	66	96	0	244	25	14	15	45	1.84
39323167--39323592	85	5.0	85	99	0	825	34	15	15	34	1.89
39324911--39324992	41	2.0	41	95	0	146	30	30	3	35	1.75
39326337--39326775	220	2.0	220	98	0	851	32	17	19	29	1.95
39327382--39328240	291	3.0	290	90	4	1263	31	11	15	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39327767--39328273	277	1.8	277	96	0	951	31	11	14	42	1.82
39329772--39329822	20	2.7	18	80	14	57	47	9	21	21	1.79
39333843--39333884	21	2.0	21	85	4	57	38	21	7	33	1.81
39333869--39333933	19	3.5	19	87	8	98	35	18	7	38	1.80
39334499--39335367	288	3.0	287	91	4	1308	30	14	20	35	1.92
39334567--39335441	293	3.0	293	91	4	1341	30	14	19	34	1.92
39335424--39336004	293	2.0	293	99	0	1144	33	16	22	27	1.95
39336719--39336768	24	2.1	24	85	10	68	26	2	2	70	1.09
39340700--39341093	38	10.3	38	86	2	527	30	26	21	21	1.98
39340700--39341093	78	5.1	76	88	1	527	30	26	21	21	1.98
39348957--39349029	37	2.0	37	97	0	137	41	10	8	39	1.70
39351887--39351937	16	3.0	17	74	8	50	49	0	0	50	1.00
39366244--39366272	13	2.2	13	100	0	58	48	0	0	51	1.00
39375615--39375722	49	2.2	49	91	1	171	25	24	7	43	1.80
39375961--39376002	22	2.0	22	85	4	59	47	7	11	33	1.68
39377036--39377120	43	2.0	43	88	0	125	22	24	3	49	1.65
39377794--39377834	19	2.2	19	91	4	66	34	14	0	51	1.43
39378362--39378387	9	2.9	9	100	0	52	53	0	0	46	1.00
39379452--39379489	16	2.4	16	86	4	51	55	5	5	34	1.45
39380087--39380120	16	2.1	16	88	0	50	50	14	17	17	1.79
39391443--39391473	15	2.1	15	100	0	62	38	6	32	22	1.80
39391630--39391668	18	2.3	17	86	8	53	38	5	12	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39392410--39392439	15	2.0	15	93	0	51	23	6	46	23	1.75
39395801--39395831	15	2.1	15	100	0	62	38	6	32	22	1.80
39395988--39396026	18	2.3	17	86	8	53	38	5	12	43	1.65
39396348--39396375	14	2.0	14	100	0	56	50	7	7	35	1.57
39407719--39407952	40	5.9	40	92	0	389	23	27	23	26	2.00
39412272--39412312	11	3.7	11	80	0	55	19	14	9	56	1.66
39412532--39412566	12	2.8	13	91	4	54	71	0	0	28	0.86
39413800--39413852	16	3.3	16	76	10	63	35	24	5	33	1.79
39414984--39415025	21	2.0	21	86	9	59	0	26	2	71	0.98
39415227--39415324	5	19.6	5	100	0	196	59	0	0	40	0.98
39419571--39419767	38	5.1	38	83	2	241	23	21	23	31	1.98
39419582--39419767	78	2.4	76	81	2	219	23	21	23	31	1.98
39419744--39419876	43	3.1	42	85	2	160	14	23	30	31	1.94
39420204--39420313	45	2.5	42	83	11	132	24	21	25	28	1.99
39420209--39420337	45	3.0	44	82	7	113	24	21	27	25	1.99
39422420--39422497	40	2.0	40	84	0	102	33	32	14	20	1.92
39427905--39427933	13	2.2	13	100	0	58	31	0	13	55	1.39
39436409--39436434	13	2.0	13	100	0	52	30	0	15	53	1.42
39441807--39441839	6	5.5	6	96	0	57	15	3	0	81	0.80
39441807--39441846	18	2.2	18	86	0	53	17	5	0	77	0.94
39459424--39459471	23	2.1	23	84	7	62	39	18	16	25	1.91
39459626--39459664	20	2.0	20	100	0	78	41	7	10	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39463851--39463901	16	3.3	15	72	20	50	37	21	7	33	1.82
39465075--39465119	4	11.2	4	82	17	58	0	31	0	68	0.89
39465075--39465119	13	3.4	14	87	9	67	0	31	0	68	0.89
39465084--39465116	9	3.8	9	96	4	59	0	30	0	69	0.88
39471951--39472101	43	3.5	42	81	12	166	32	24	18	24	1.97
39473200--39473224	13	1.9	13	100	0	50	40	24	4	32	1.73
39478826--39479077	68	3.8	65	79	11	205	25	27	17	30	1.97
39479744--39479804	30	2.0	30	83	0	77	31	22	8	37	1.84
39485352--39485389	14	2.9	13	81	11	51	57	10	13	18	1.63
39494661--39494732	34	2.1	35	84	7	94	41	11	26	20	1.86

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