genome.fa.s3.2.7.7.80.10.50.1000.16.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   

This is table  16  of  91  ( 10898 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)
5152896--5152925	14	2.1	14	93	0	51	30	0	0	70	0.88
5154450--5154545	35	2.7	35	93	4	158	4	38	16	40	1.68
5155327--5155934	38	15.7	37	80	10	441	39	19	16	23	1.91
5155322--5155948	76	8.1	75	82	6	662	39	19	16	24	1.91
5155397--5155935	118	4.6	116	87	3	712	39	20	16	23	1.92
5155785--5155945	84	1.9	84	90	0	259	39	19	15	26	1.91
5155865--5155944	38	2.1	38	92	0	133	40	20	13	26	1.89
5168174--5168202	11	2.7	11	94	5	51	27	0	0	72	0.85
5168277--5168314	17	2.2	18	85	4	51	21	2	2	73	1.07
5168831--5168861	16	2.0	16	93	6	55	32	0	3	64	1.09
5171190--5171230	21	2.0	20	85	4	55	29	12	17	41	1.85
5171203--5171241	20	2.0	20	89	0	60	30	15	15	38	1.88
5174879--5174907	2	14.5	2	100	0	58	51	0	0	48	1.00
5175680--5175778	28	3.6	27	98	1	180	24	4	31	40	1.74
5176555--5176581	14	1.9	14	100	0	54	66	14	0	18	1.25
5176650--5177098	69	6.5	67	81	5	382	20	14	35	29	1.92
5176658--5177084	173	2.5	172	92	1	685	20	13	35	29	1.91
5176660--5177098	35	12.7	34	82	5	431	20	14	35	30	1.92
5177893--5177928	11	3.3	11	88	11	56	83	0	0	16	0.65
5178229--5178285	14	4.2	13	75	14	53	70	0	3	26	1.03
5178247--5178285	14	2.7	15	80	15	55	71	0	0	28	0.86
5178239--5178284	17	2.6	17	89	3	65	71	0	2	26	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5190320--5190357	20	1.9	20	100	0	76	28	5	21	44	1.73
5197168--5197205	20	1.9	20	100	0	76	28	5	21	44	1.73
5197259--5197316	28	2.1	27	81	12	73	31	22	22	24	1.99
5202726--5202758	17	1.9	17	100	0	66	66	0	3	30	1.06
5202719--5202770	27	1.9	27	88	7	79	67	0	3	28	1.08
5203760--5203861	26	4.3	23	74	16	75	45	0	0	53	1.06
5203769--5203917	15	10.2	15	68	23	70	46	0	1	52	1.09
5203772--5203867	25	3.9	24	78	13	97	48	0	1	50	1.07
5203803--5203918	41	2.8	42	81	7	130	43	0	1	54	1.10
5203938--5204022	16	5.3	16	70	17	52	50	2	1	45	1.22
5203947--5204065	8	14.5	8	66	20	50	49	1	1	47	1.21
5204021--5204078	29	2.0	29	80	12	66	51	1	3	43	1.28
5208244--5208297	28	2.0	26	85	10	72	31	1	0	66	1.02
5208539--5208599	29	2.3	27	83	13	81	62	3	0	34	1.12
5213453--5213572	42	2.9	42	87	0	168	22	35	20	20	1.96
5216973--5217124	67	2.3	67	81	2	171	26	13	27	32	1.93
5223522--5223554	5	6.8	5	93	6	59	39	21	0	39	1.53
5223522--5223554	14	2.3	15	94	5	59	39	21	0	39	1.53
5223589--5223634	15	3.1	15	87	0	65	56	15	2	26	1.50
5227225--5227257	17	1.9	17	88	11	50	42	15	3	39	1.62
5227431--5227573	29	5.0	28	85	5	178	36	13	11	38	1.81
5227413--5227574	58	2.8	57	81	11	184	39	12	10	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5227409--5227582	87	2.0	90	80	5	203	39	12	10	37	1.79
5231867--5231913	22	2.1	23	84	11	62	51	12	4	31	1.59
5236471--5236508	19	2.0	19	100	0	76	26	0	31	42	1.56
5237171--5237207	10	3.6	10	85	7	56	27	2	21	48	1.63
5240300--5240337	19	2.0	19	94	0	67	34	15	13	36	1.87
5243699--5243773	27	2.8	27	77	0	78	21	32	22	24	1.98
5251379--5251438	24	2.5	23	76	12	59	28	0	16	55	1.42
5251386--5251437	18	2.9	18	77	8	52	28	0	19	51	1.47
5252863--5252906	18	2.3	20	80	7	56	70	0	2	27	0.99
5254184--5254263	27	2.9	27	79	1	88	25	23	12	38	1.90
5260531--5260561	2	15.5	2	100	0	62	51	0	0	48	1.00
5260696--5260732	10	3.6	10	88	3	56	48	0	8	43	1.32
5262081--5262488	21	18.7	22	67	23	127	54	2	1	41	1.25
5262112--5262214	26	4.1	25	75	15	88	55	1	0	41	1.17
5262269--5262370	26	4.1	26	70	20	65	54	0	2	41	1.22
5262089--5262676	151	3.9	151	87	3	813	55	2	2	40	1.24
5262577--5262649	26	2.7	26	76	19	71	53	0	2	43	1.15
5262544--5262659	42	2.7	41	81	5	115	50	0	3	45	1.18
5262593--5262658	20	3.2	20	75	12	62	56	0	1	42	1.08
5272475--5272519	22	2.1	23	88	12	69	62	8	0	28	1.25
5272569--5272672	52	2.0	51	88	5	156	44	9	5	39	1.61
5273445--5273497	24	2.2	24	86	3	72	66	1	28	3	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5274448--5274827	31	12.4	31	92	2	552	23	16	20	40	1.91
5278970--5279208	80	3.0	80	87	3	320	28	34	19	17	1.94
5281490--5281578	31	2.9	31	91	0	133	34	22	15	26	1.94
5281584--5281633	18	2.8	18	87	0	73	20	32	24	24	1.98
5281719--5282175	55	8.3	54	83	2	500	45	28	12	13	1.80
5281719--5282177	219	2.1	220	84	3	577	45	28	12	13	1.80
5282608--5282698	23	4.0	22	85	5	83	27	29	17	25	1.97
5282645--5282700	23	2.4	23	96	0	103	23	33	19	23	1.97
5282809--5283162	103	3.5	99	81	6	428	23	33	15	27	1.95
5282689--5283196	207	2.5	204	85	6	642	23	33	14	28	1.94
5283232--5283436	81	2.5	81	91	0	320	24	36	12	26	1.91
5283398--5283448	23	2.2	23	92	0	84	27	41	9	21	1.84
5288384--5288412	12	2.5	12	94	5	51	34	0	6	58	1.25
5288535--5289194	357	1.8	359	89	3	1044	40	6	7	44	1.60
5291617--5291653	3	12.3	3	100	0	74	67	0	0	32	0.91
5299322--5299440	39	3.0	39	68	21	95	28	13	12	45	1.80
5308563--5308595	2	16.5	2	100	0	66	51	48	0	0	1.00
5308673--5308754	37	2.2	37	93	0	137	25	36	9	28	1.88
5310035--5310085	24	2.1	24	85	0	66	39	15	9	35	1.81
5310703--5310751	25	2.0	24	84	4	62	20	20	12	46	1.82
5319914--5319973	28	2.1	30	84	6	79	40	23	6	30	1.80
5320139--5320176	19	2.0	19	94	0	67	42	28	0	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5322050--5322098	18	2.5	20	87	12	75	14	28	2	55	1.51
5322066--5322134	30	2.3	30	89	0	102	13	28	4	53	1.58
5324140--5324700	82	6.8	82	97	1	1018	22	13	38	25	1.91
5344509--5344544	16	2.2	17	90	5	56	61	0	0	38	0.96
5345293--5345337	23	2.0	23	95	0	81	24	13	37	24	1.91
5345340--5345628	47	6.1	47	82	1	319	26	19	30	23	1.98
5345340--5345648	141	2.2	141	81	1	386	25	18	31	24	1.98
5346328--5346561	31	7.5	31	89	2	310	25	14	19	40	1.90
5347939--5348284	144	2.4	144	81	3	392	29	19	18	32	1.96
5350025--5350359	118	2.8	118	89	0	508	28	28	19	23	1.98
5350318--5350390	31	2.4	31	100	0	146	19	34	17	28	1.95
5350407--5350476	31	2.3	31	82	5	79	30	31	18	20	1.96
5350198--5350507	147	2.1	149	89	1	489	26	31	18	24	1.97
5357312--5357434	63	2.0	63	88	0	183	38	14	28	18	1.90
5363716--5363784	22	3.1	22	79	8	77	55	1	1	42	1.18
5363733--5363793	22	2.7	23	80	15	72	63	0	0	36	0.94
5378833--5378909	3	25.3	3	72	17	61	27	5	0	67	1.12
5378833--5378910	13	5.8	14	75	10	56	28	5	0	66	1.12
5379020--5379061	8	4.8	9	82	11	52	23	0	2	73	0.94
5379020--5379061	17	2.4	17	92	4	66	23	0	2	73	0.94
5379277--5379335	21	2.9	20	80	16	68	28	0	3	67	1.06
5379259--5379312	26	2.2	24	86	6	72	31	1	3	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5379849--5379891	18	2.4	18	100	0	86	44	20	6	27	1.77
5380568--5380623	22	2.5	22	94	0	94	12	39	23	25	1.89
5381014--5381058	17	2.6	17	89	0	63	26	2	0	71	0.98
5381011--5381051	18	2.3	18	84	12	57	24	2	0	73	0.96
5383392--5383433	21	2.0	21	85	0	57	26	14	16	42	1.86
5393618--5394098	237	2.0	237	88	4	711	38	9	10	42	1.71
5402979--5403021	20	2.2	20	83	8	52	23	4	6	65	1.37
5404125--5404161	14	2.8	13	88	8	56	32	0	10	56	1.34
5410267--5410329	31	2.0	31	84	0	81	28	20	25	25	1.99
5414617--5414906	61	4.8	61	86	1	357	26	16	30	27	1.97

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