genome.fa.s10.2.7.7.80.10.50.1000.165.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  165  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)
53924317--53924356	19	2.1	19	100	0	80	35	25	12	27	1.92
53924533--53924868	112	3.0	112	98	0	645	41	14	20	22	1.89
53935111--53935187	34	2.3	34	88	4	111	38	15	12	32	1.86
53941476--53941514	18	2.2	18	95	0	69	7	28	28	35	1.85
53941895--53941957	27	2.3	26	76	10	63	50	11	0	38	1.38
53941924--53941953	15	2.0	15	93	0	51	40	10	0	50	1.36
53943099--53943189	45	2.0	45	100	0	182	37	17	10	34	1.85
53947279--53947534	72	3.6	72	99	0	503	42	24	6	27	1.78
53947535--53947560	3	8.7	3	100	0	52	69	0	0	30	0.89
53950323--53950506	72	2.6	72	99	0	359	41	23	6	27	1.79
53950507--53950607	3	33.7	3	100	0	202	67	0	0	32	0.91
53962794--53962818	13	1.9	13	100	0	50	64	4	0	32	1.12
53963189--53963247	25	2.5	23	79	12	66	27	1	5	66	1.22
53963297--53963447	76	2.0	76	90	1	241	43	6	9	40	1.63
53968336--53968380	15	3.1	15	80	3	56	40	11	4	44	1.60
53971267--53971348	26	3.2	26	96	0	146	31	7	24	36	1.83
53977658--53977699	5	8.6	5	85	15	61	59	0	2	38	1.10
53977658--53977708	13	3.7	13	82	14	66	58	1	1	37	1.20
53980703--53980753	25	2.0	25	96	0	93	21	25	3	49	1.67
53992328--53992382	21	2.8	21	71	18	55	40	3	7	49	1.48
53994784--53995048	66	4.0	66	98	0	512	30	12	13	43	1.82
53995295--53995353	24	2.5	24	67	10	57	45	3	1	49	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53995478--53995518	18	2.3	18	95	0	73	34	4	2	58	1.32
53996079--53996118	15	2.8	14	85	7	53	65	2	0	32	1.06
53997089--53997123	6	5.8	6	100	0	70	17	0	51	31	1.45
53997611--53997684	36	2.1	36	89	5	114	56	5	0	37	1.22
53999601--53999754	76	2.0	76	94	0	272	35	24	8	31	1.85
54006070--54006144	33	2.3	33	92	0	123	29	29	17	24	1.97
54006373--54006437	21	3.2	20	76	12	62	6	35	13	44	1.69
54006391--54006428	18	2.1	18	95	0	67	2	39	10	47	1.52
54007920--54007960	4	10.2	4	85	15	50	24	0	29	46	1.53
54009498--54009543	12	3.6	12	78	16	56	65	0	0	34	0.93
54009498--54009560	27	2.4	26	79	10	74	60	0	3	36	1.13
54011153--54011181	15	1.9	15	100	0	58	41	20	13	24	1.89
54014203--54014295	44	2.1	45	86	8	127	49	4	6	39	1.48
54022548--54022651	52	2.0	51	96	1	190	25	7	25	39	1.82
54030815--54030842	13	2.2	13	100	0	56	50	7	7	35	1.57
54031404--54031436	15	2.2	15	94	0	57	30	21	12	36	1.90
54052558--54052607	13	3.8	13	78	5	55	26	6	2	66	1.26
54067657--54068173	258	2.0	258	98	0	1007	25	25	14	33	1.94
54069007--54069573	286	2.0	286	98	0	1089	37	13	20	28	1.91
54076255--54076364	55	2.0	55	98	0	211	37	17	16	29	1.91
54080081--54080269	97	1.9	97	98	0	369	47	3	10	38	1.54
54083706--54083882	22	7.4	23	74	20	125	37	17	24	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54083706--54083882	47	3.7	46	85	10	232	37	17	24	20	1.93
54083706--54083882	99	1.8	96	89	6	275	37	17	24	20	1.93
54085382--54085439	30	1.9	30	89	0	89	41	3	24	31	1.71
54085651--54085682	13	2.5	13	94	0	55	31	0	12	56	1.37
54085777--54086018	50	4.7	50	86	4	297	26	24	29	19	1.99
54085777--54086026	100	2.4	103	88	6	364	26	24	29	20	1.99
54090815--54090868	24	2.2	24	90	0	81	20	18	42	18	1.89
54093146--54093197	22	2.4	22	81	12	63	63	0	1	34	1.06
54093182--54093211	8	3.8	8	90	0	51	76	3	0	20	0.92
54093422--54093658	9	25.2	9	64	19	74	33	3	2	60	1.28
54093424--54093571	28	5.2	27	70	10	89	29	5	2	62	1.31
54093677--54093864	92	2.1	92	82	5	229	28	6	19	44	1.76
54103212--54103236	13	1.9	13	100	0	50	12	0	0	88	0.53
54106067--54106102	17	2.1	18	90	10	58	44	11	0	44	1.39
54121759--54121811	25	2.1	25	96	0	97	11	13	11	64	1.51
54136147--54136261	57	2.0	57	98	0	221	37	25	9	27	1.87
54136448--54136477	15	2.0	15	93	0	51	30	16	6	46	1.73
54159513--54159741	46	5.0	46	86	0	278	20	24	14	40	1.90
54159518--54159739	92	2.4	92	86	0	309	20	24	14	40	1.89
54161905--54161941	20	1.9	20	88	5	58	51	8	0	40	1.32
54163063--54163094	16	1.9	17	93	6	57	46	0	18	34	1.49
54163451--54163497	20	2.2	23	81	14	64	46	0	23	29	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54165013--54165265	68	3.9	64	77	10	228	29	16	29	24	1.97
54166136--54166181	22	2.1	22	100	0	92	34	0	23	41	1.55
54167103--54167128	5	5.2	5	100	0	52	61	0	19	19	1.35
54171751--54171836	30	2.8	31	75	3	93	51	1	13	33	1.49
54178866--54178907	14	3.1	13	83	10	57	0	26	2	71	0.98
54180022--54180056	16	2.2	16	90	5	54	48	2	0	48	1.16
54181148--54181173	6	4.3	6	100	0	52	15	0	0	84	0.62
54181830--54182100	127	2.1	127	95	0	479	28	14	18	38	1.90
54182003--54182198	98	2.0	98	95	0	356	27	16	15	41	1.88
54181876--54182325	225	2.0	225	93	0	774	27	16	16	40	1.90
54182101--54182547	127	3.5	127	92	0	723	26	16	17	38	1.91
54190021--54190059	18	2.1	19	90	4	62	48	10	0	41	1.37
54190416--54190503	44	2.0	43	95	2	158	31	11	12	43	1.78
54191181--54191225	5	9.0	5	80	9	56	55	2	0	42	1.12
54192513--54192571	31	2.0	30	83	6	75	44	13	8	33	1.74
54192508--54192574	31	2.3	27	78	14	71	41	11	8	37	1.73
54193347--54193399	19	2.7	19	72	13	54	35	7	0	56	1.28
54198368--54198427	7	8.6	7	96	0	111	15	0	40	45	1.46
54213806--54213912	32	3.4	32	77	1	108	34	9	11	44	1.72
54214185--54214232	21	2.3	21	78	7	53	43	25	2	29	1.66
54217362--54217386	10	2.5	10	100	0	50	84	0	0	16	0.63
54223471--54223505	14	2.4	15	85	9	54	5	31	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54232366--54232415	24	2.0	25	85	11	68	34	16	20	30	1.94
54244666--54244736	37	1.9	37	94	0	124	33	15	38	12	1.85
54245286--54245362	38	2.0	38	100	0	154	49	12	14	23	1.78
54247086--54247130	22	2.0	22	84	16	58	37	4	8	48	1.55
54252134--54252196	30	2.1	30	96	0	117	26	3	12	57	1.51
54252326--54252358	11	2.9	12	86	13	52	66	0	0	33	0.92
54255364--54255416	24	2.2	24	82	3	61	47	1	5	45	1.37
54256871--54256903	12	2.6	13	85	4	50	33	3	0	63	1.10
54257182--54257225	23	1.9	23	86	9	63	75	0	0	25	0.81
54258009--54258079	34	2.1	34	100	0	142	36	8	11	43	1.71
54259074--54259175	51	2.0	51	98	0	195	26	20	19	33	1.97
54266640--54266687	19	2.6	18	76	20	53	50	4	0	45	1.21
54266968--54267630	228	2.9	227	83	3	762	30	25	22	21	1.98
54273471--54273505	12	2.9	12	82	0	52	68	0	0	31	0.90
54276255--54276281	3	9.0	3	100	0	54	33	0	33	33	1.58
54284363--54284642	50	5.6	49	82	5	294	25	17	27	28	1.98
54287759--54287971	65	3.3	65	91	0	309	37	22	10	30	1.87
54287749--54287980	98	2.4	98	81	2	277	34	21	10	33	1.88
54287755--54287971	33	6.6	33	81	2	249	36	21	11	30	1.88
54287976--54288074	29	3.4	29	98	0	189	23	30	12	34	1.91
54296642--54296899	39	6.6	39	90	0	372	29	28	22	19	1.98
54306002--54306087	44	2.0	44	95	0	154	46	17	13	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54310067--54310114	21	2.3	21	88	0	69	50	0	2	47	1.12
54313911--54313945	3	11.7	3	100	0	70	0	31	0	68	0.90
54316978--54317011	16	2.1	16	100	0	68	50	20	5	23	1.70
54323602--54325089	298	5.0	298	97	0	2692	28	21	14	35	1.92
54323602--54325089	595	2.5	595	96	0	2706	28	21	14	35	1.92
54328873--54328938	33	2.0	33	100	0	132	33	27	18	21	1.96
54332570--54332609	19	2.0	19	85	9	53	62	7	0	30	1.23
54333394--54333437	23	2.0	22	86	13	63	20	9	4	65	1.38
54334262--54334310	21	2.2	23	82	7	57	55	4	2	38	1.31
54336242--54336288	21	2.1	21	84	7	58	23	2	6	68	1.24

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