genome.fa.s23.2.7.7.80.10.50.1000.13.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  13  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)
4234298--4234410	54	2.1	54	89	0	172	21	10	16	51	1.74
4235569--4235600	5	6.4	5	100	0	64	18	18	0	62	1.33
4235702--4235760	30	1.9	31	86	6	84	61	0	0	38	0.96
4235701--4235751	15	3.4	14	75	21	50	64	0	0	35	0.94
4235702--4235776	30	2.4	30	78	10	80	62	0	0	37	0.95
4240851--4240883	2	16.5	2	93	0	57	3	51	0	45	1.16
4243343--4243381	19	2.1	19	90	0	60	30	25	7	35	1.84
4243472--4243498	5	5.4	5	100	0	54	62	0	0	37	0.95
4245864--4245936	38	1.9	38	100	0	146	32	5	12	49	1.63
4257165--4257235	35	2.0	35	100	0	142	46	19	8	25	1.78
4259803--4259842	16	2.6	16	84	4	55	42	25	12	20	1.86
4260021--4260053	17	1.9	17	93	0	57	51	33	3	12	1.54
4264707--4264731	13	1.9	13	100	0	50	64	4	0	32	1.12
4264807--4264832	12	2.2	12	100	0	52	23	23	23	30	1.99
4269450--4269492	21	2.0	21	100	0	86	37	4	18	39	1.72
4269590--4269688	29	3.0	34	76	22	120	23	15	21	40	1.90
4271530--4271658	32	4.0	32	85	1	186	34	11	8	44	1.71
4273150--4273207	21	2.8	21	84	7	82	31	36	6	25	1.83
4281530--4281562	17	1.9	17	88	11	50	57	0	0	42	0.98
4282139--4282176	17	2.2	17	86	9	51	68	2	0	28	1.03
4282455--4282481	3	9.0	3	100	0	54	0	33	0	66	0.92
4289414--4289471	25	2.3	25	80	13	66	13	15	0	70	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4289551--4289681	64	2.0	64	100	0	262	41	22	9	25	1.83
4297367--4297429	20	3.3	20	71	13	60	36	1	4	57	1.30
4298958--4298982	7	3.6	7	100	0	50	28	0	12	60	1.32
4299829--4299877	24	2.0	24	100	0	98	24	38	20	16	1.92
4300148--4301490	68	19.7	68	87	8	1788	47	26	0	26	1.55
4301249--4301363	52	2.2	52	90	3	178	50	25	0	24	1.50
4301294--4301318	7	3.6	7	100	0	50	48	40	0	12	1.40
4300221--4301494	91	14.0	93	70	18	624	47	25	0	26	1.54
4301301--4301490	67	2.8	68	88	4	287	49	26	0	23	1.50
4301493--4301736	116	2.1	116	93	1	409	40	9	6	44	1.62
4304162--4304530	125	3.0	125	91	0	569	34	23	14	28	1.93
4306530--4306629	49	2.0	50	94	1	175	31	29	4	36	1.76
4320145--4320187	22	2.0	23	86	9	63	37	0	2	60	1.10
4320214--4320297	26	3.3	26	86	5	100	60	5	1	32	1.28
4320239--4320311	26	2.8	26	87	6	87	64	5	1	28	1.24
4322213--4322295	27	3.1	27	89	0	121	18	21	33	26	1.96
4322357--4322402	24	1.9	24	90	0	74	50	17	15	17	1.79
4327646--4327698	23	2.4	22	76	20	56	9	18	1	69	1.25
4327693--4327744	27	1.9	27	88	0	77	7	26	1	63	1.32
4337179--4337208	2	15.0	2	100	0	60	50	0	50	0	1.00
4337614--4337644	2	15.5	2	93	0	53	51	0	3	45	1.17
4337916--4337962	20	2.5	19	80	13	62	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4337916--4337962	17	2.5	19	83	10	62	65	0	0	34	0.93
4340541--4340586	16	2.9	15	84	9	56	71	4	23	0	1.03
4350094--4350146	19	3.0	17	74	15	54	39	5	15	39	1.70
4350118--4350180	22	2.9	21	81	9	63	36	3	19	41	1.67
4353236--4353262	5	5.4	5	100	0	54	59	0	0	40	0.98
4356342--4356451	42	2.6	42	94	0	193	51	3	6	38	1.45
4356479--4356794	125	2.5	125	87	1	454	36	17	17	28	1.93
4362196--4362245	11	4.9	10	86	11	66	42	0	28	30	1.56
4362196--4362246	21	2.4	21	87	9	68	41	0	29	29	1.57
4366912--4367082	66	2.6	66	82	5	202	31	26	14	27	1.95
4367017--4367091	30	2.5	30	84	4	98	29	21	18	30	1.97
4371098--4371306	107	2.0	106	91	2	339	27	21	19	31	1.97
4382637--4383135	222	2.3	220	90	2	777	25	16	27	31	1.97
4382569--4383172	44	13.7	45	77	4	475	26	16	26	30	1.97
4385456--4385664	107	2.0	106	92	2	348	27	20	19	32	1.97
4392000--4392061	21	2.9	21	81	13	72	29	25	0	45	1.54
4392023--4392082	21	2.9	21	82	2	59	28	25	1	45	1.63
4392000--4392068	32	2.1	33	82	12	81	26	27	1	44	1.63
4394672--4394799	46	2.8	46	87	3	186	32	27	20	19	1.97
4396139--4396195	29	2.0	29	96	0	105	35	12	36	15	1.85
4397711--4398153	126	3.5	126	89	0	638	27	18	16	36	1.93
4398207--4398260	26	2.1	26	82	6	65	44	11	1	42	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398265--4398303	16	2.4	16	86	4	51	48	33	0	17	1.48
4403651--4403810	56	2.8	56	81	13	184	41	1	3	53	1.24
4411295--4411341	24	2.0	24	95	0	85	27	6	17	48	1.71
4414376--4414445	6	11.2	6	77	19	72	20	2	0	77	0.90
4414376--4414432	22	2.5	23	86	8	73	21	3	0	75	0.95
4414373--4414444	39	1.9	35	89	10	108	22	2	0	75	0.94
4414393--4414445	17	3.1	16	84	10	70	18	1	0	79	0.83
4414443--4414494	26	2.0	26	81	7	61	0	26	1	71	0.97
4414447--4414517	21	3.3	22	78	3	74	1	32	2	63	1.18
4414442--4414486	10	4.4	10	83	5	54	0	24	2	73	0.95
4418406--4418507	50	2.0	50	90	0	159	35	17	12	34	1.88
4421443--4421471	3	9.7	3	100	0	58	0	34	0	65	0.93
4427183--4427277	44	2.2	44	98	0	181	32	26	14	26	1.95
4427312--4427518	56	3.9	54	80	6	226	38	16	14	30	1.88
4427468--4427678	88	2.4	87	85	4	273	33	21	18	26	1.96
4427643--4427783	54	2.6	55	88	3	214	36	20	15	27	1.93
4427702--4427998	122	2.4	125	88	2	431	39	21	13	25	1.90
4427877--4428052	71	2.5	70	85	3	212	34	23	14	28	1.93
4431414--4431548	39	3.4	38	76	10	94	29	27	19	23	1.98
4432097--4432132	5	7.0	5	93	6	63	61	0	0	38	0.96
4435353--4435553	100	2.0	100	100	0	402	34	19	22	22	1.97
4444371--4444410	21	2.1	19	86	13	55	50	7	10	32	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4448529--4448591	32	1.9	33	84	9	85	9	7	3	79	1.04
4448600--4448633	8	4.2	8	84	0	50	58	2	0	38	1.13
4452263--4452320	30	1.9	30	93	6	100	55	6	0	37	1.27
4453021--4453073	27	2.0	27	100	0	106	20	33	37	7	1.81
4453084--4453130	22	2.2	21	85	7	67	17	42	27	12	1.85
4453091--4453132	22	1.9	22	95	0	75	19	40	28	11	1.87
4453215--4453278	6	11.2	6	88	6	53	57	0	42	0	0.98
4453219--4453269	16	3.1	16	88	11	68	62	0	37	0	0.95
4453231--4453269	3	13.7	3	89	10	64	64	0	35	0	0.94
4453299--4453369	6	11.7	6	77	7	54	73	0	26	0	0.84
4453294--4453358	26	2.5	26	80	9	71	70	0	29	0	0.87
4453302--4453359	20	3.0	20	85	5	75	68	0	31	0	0.89
4453422--4453651	111	2.1	109	84	9	301	58	9	6	26	1.53
4453630--4453704	12	5.7	12	70	20	51	70	2	2	24	1.13
4453630--4453704	30	2.8	25	75	21	71	70	2	2	24	1.13
4453535--4454394	146	5.9	145	88	7	1166	58	7	6	28	1.50
4453962--4453997	13	2.9	12	88	8	54	75	8	0	16	1.04
4454083--4454129	14	3.2	14	80	11	58	70	0	2	27	0.99
4454087--4454143	30	1.9	29	89	3	87	68	3	3	24	1.21
4453535--4454400	300	3.0	291	86	7	1228	58	7	6	27	1.49
4453383--4454979	840	1.9	840	99	0	3133	58	7	6	28	1.50
4454262--4454491	111	2.1	109	84	9	301	58	9	6	26	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4454470--4454544	12	5.7	12	70	20	51	70	2	2	24	1.13
4454470--4454544	30	2.8	25	75	21	71	70	2	2	24	1.13
4454375--4454985	146	4.2	147	89	6	840	57	7	6	28	1.50
4454802--4454837	13	2.9	12	88	8	54	75	8	0	16	1.04
4461172--4461213	22	1.9	22	90	9	68	2	23	0	73	0.94
4462524--4462550	14	1.9	14	100	0	54	18	0	0	81	0.69
4467019--4467051	12	2.8	12	86	13	50	0	18	0	81	0.68
4467770--4467807	15	2.3	18	86	13	55	26	2	7	63	1.35
4467750--4467826	40	1.9	40	81	5	93	29	1	7	61	1.32
4467946--4468011	9	8.0	8	73	17	55	37	0	4	57	1.19

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