genome.fa.s6.2.7.7.80.10.50.1000.43.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  43  of  109  ( 13028 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)
14045777--14045841	16	4.1	16	91	0	112	20	35	7	36	1.81
14052259--14052403	71	2.0	72	92	2	240	31	5	8	53	1.55
14052320--14052357	19	2.0	20	89	5	60	28	2	13	55	1.51
14052322--14052364	19	2.3	19	79	0	50	25	2	11	60	1.43
14053168--14053212	17	2.8	17	80	10	58	24	20	2	53	1.57
14053170--14053212	16	2.6	17	78	10	54	23	20	2	53	1.57
14054681--14054771	6	15.8	6	71	21	54	52	3	2	41	1.30
14054574--14055178	131	4.6	131	97	1	1103	51	5	4	38	1.45
14054812--14054902	6	15.8	6	71	21	54	52	3	2	41	1.30
14054943--14055033	6	15.8	6	71	21	54	52	3	2	41	1.30
14074132--14075369	618	2.0	619	99	0	2451	29	13	20	36	1.91
14080650--14081012	182	2.0	182	97	0	681	33	9	20	36	1.86
14090936--14091000	34	1.9	34	100	0	130	29	18	24	27	1.98
14095184--14095232	26	1.9	25	84	12	64	14	14	10	61	1.57
14096177--14096492	44	7.2	44	78	9	347	28	16	25	29	1.96
14096177--14096526	88	4.0	89	88	3	492	28	16	25	29	1.97
14097156--14097195	21	2.0	20	85	5	53	12	7	5	75	1.18
14100841--14100885	20	2.3	19	85	7	63	75	2	0	22	0.91
14109002--14109124	43	2.9	43	80	11	126	21	19	26	31	1.97
14111427--14111486	29	2.1	29	87	0	84	35	5	13	46	1.65
14112955--14113079	27	4.7	26	77	8	110	18	18	20	43	1.89
14112974--14113092	53	2.2	54	86	1	168	19	16	19	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14118241--14118365	65	2.0	63	85	6	171	22	7	18	52	1.70
14124715--14125086	123	3.0	123	94	1	636	36	8	26	29	1.85
14135727--14135811	28	3.1	28	79	6	93	16	17	31	34	1.93
14138962--14138998	18	2.1	18	89	0	56	62	0	21	16	1.33
14155317--14155361	20	2.3	19	84	3	54	33	22	6	37	1.80
14163078--14163111	15	2.3	15	89	0	50	23	23	17	35	1.95
14165349--14165547	98	2.0	99	98	1	382	44	7	19	29	1.77
14169312--14169365	27	1.9	29	92	7	94	42	20	5	31	1.75
14183708--14183745	20	1.9	20	94	0	67	50	7	5	36	1.54
14186068--14186119	16	3.2	16	81	10	61	40	3	25	30	1.73
14191944--14192008	32	2.0	32	82	5	78	38	24	12	24	1.90
14192398--14192427	14	2.1	14	93	0	51	83	0	16	0	0.65
14193046--14193107	28	2.2	27	77	8	70	56	3	8	32	1.44
14195529--14195566	20	1.9	20	100	0	76	28	5	39	26	1.78
14202736--14202952	72	3.0	72	100	0	434	34	12	9	42	1.76
14203138--14203196	19	3.0	20	82	4	77	33	3	11	50	1.56
14203863--14203920	18	3.2	19	78	7	57	60	1	5	32	1.29
14204264--14204296	16	2.1	16	88	5	50	54	0	0	45	0.99
14204248--14204301	26	2.0	28	92	7	94	48	0	0	51	1.00
14206894--14206947	27	2.0	27	96	0	99	35	14	16	33	1.90
14209375--14209407	7	4.7	7	100	0	66	45	12	0	42	1.41
14212589--14212620	16	2.0	16	93	0	55	25	15	0	59	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14212846--14213033	51	3.7	51	79	9	231	30	28	17	23	1.97
14212841--14213025	101	1.8	102	89	3	293	30	27	17	24	1.97
14212833--14213025	102	1.9	102	88	3	282	30	27	18	24	1.98
14221223--14221450	27	8.4	27	68	12	119	41	19	17	21	1.91
14221223--14221424	54	3.7	53	76	9	158	42	19	16	21	1.90
14221224--14221450	81	2.8	82	81	4	212	40	19	17	21	1.91
14221467--14221539	24	3.0	24	89	0	119	26	5	23	45	1.74
14221472--14221547	24	3.2	23	81	10	75	25	5	25	44	1.74
14221651--14221874	107	2.1	108	89	0	342	19	20	24	35	1.96
14221829--14221938	32	3.5	31	80	6	123	20	20	20	37	1.95
14222132--14222161	8	3.8	8	95	0	51	23	13	20	43	1.86
14222162--14222249	46	1.9	46	83	4	115	22	20	18	38	1.93
14225084--14225283	54	3.7	54	80	0	211	39	19	18	23	1.93
14225085--14225297	81	2.6	81	79	5	225	37	21	18	23	1.94
14225102--14225297	27	7.3	27	74	2	169	36	22	17	22	1.95
14225327--14225375	24	2.0	24	88	0	71	28	4	24	42	1.73
14225361--14225437	24	3.2	24	84	0	109	23	5	23	48	1.71
14225361--14225430	11	6.0	11	69	12	50	22	4	24	48	1.68
14225506--14225562	27	2.1	27	84	12	73	24	24	19	31	1.98
14225532--14225806	140	2.0	139	85	4	374	19	21	24	34	1.96
14225751--14225837	32	2.7	33	79	12	99	20	20	22	35	1.96
14225752--14225855	32	3.3	30	79	14	95	20	19	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14231778--14231813	17	2.1	17	89	5	54	19	2	11	66	1.35
14232284--14232317	9	3.7	9	84	7	50	0	11	0	88	0.52
14232284--14232317	10	3.5	10	88	4	52	0	11	0	88	0.52
14236887--14236948	32	1.9	32	84	12	83	40	1	1	56	1.19
14237033--14237126	44	2.1	46	84	7	122	36	21	7	35	1.81
14237204--14237244	19	2.2	19	91	8	66	68	2	0	29	1.03
14237664--14237695	6	5.3	6	100	0	64	84	0	0	15	0.63
14248311--14248362	25	2.1	25	100	0	104	3	19	19	57	1.55
14250645--14250682	16	2.4	16	90	0	58	31	0	34	34	1.58
14250661--14250751	45	2.0	44	87	2	128	31	5	28	34	1.80
14250661--14250767	45	2.5	43	82	8	123	33	4	28	32	1.78
14256764--14256800	17	2.2	17	90	4	58	18	2	10	67	1.32
14256955--14257400	113	3.9	114	76	4	420	34	17	21	27	1.95
14256955--14257327	114	3.3	114	78	3	439	34	17	20	27	1.95
14256939--14257414	227	2.1	227	90	1	749	34	16	20	27	1.95
14263728--14263777	21	2.4	21	82	0	64	30	18	46	6	1.73
14264183--14264386	42	4.8	42	87	2	302	22	20	21	35	1.96
14264179--14264386	85	2.5	84	88	5	314	23	20	21	35	1.96
14267197--14267230	9	3.7	9	84	7	50	0	11	0	88	0.52
14267197--14267230	10	3.5	10	88	4	52	0	11	0	88	0.52
14272720--14272813	46	2.1	44	86	11	129	36	20	5	38	1.75
14272805--14272846	16	2.6	16	92	0	66	33	23	0	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14283455--14283482	2	14.0	2	100	0	56	50	0	0	50	1.00
14286170--14286245	26	2.9	26	80	0	80	30	15	13	40	1.86
14304984--14305151	84	2.0	84	97	0	318	28	21	27	22	1.99
14313576--14313618	19	2.3	19	84	8	52	25	2	13	58	1.48
14322470--14322657	41	4.5	41	70	9	114	24	15	22	37	1.93
14322466--14322632	41	4.0	41	71	9	122	26	15	21	36	1.93
14328179--14328402	107	2.1	108	93	0	378	41	11	14	33	1.81
14332259--14332327	28	2.5	27	76	21	72	24	18	26	30	1.98
14332286--14332472	41	4.6	41	89	0	286	25	18	25	31	1.98
14337656--14337752	51	1.9	51	97	0	185	27	10	10	51	1.68
14354408--14354453	24	1.9	24	86	0	65	10	26	17	45	1.81
14357026--14357057	11	3.1	11	82	17	50	28	31	12	28	1.93
14359450--14359538	44	2.0	44	97	0	169	11	21	21	46	1.82
14365748--14365798	22	2.3	22	83	10	59	47	3	11	37	1.59
14392330--14392371	21	2.0	22	85	4	59	14	45	21	19	1.85
14397904--14397951	5	9.4	5	84	8	53	39	14	25	20	1.91
14402227--14402293	25	2.6	25	83	9	73	22	13	5	58	1.57
14403588--14403635	12	3.9	12	89	5	69	83	8	0	8	0.82
14403588--14403635	19	2.6	18	90	3	69	83	8	0	8	0.82
14403588--14403662	12	6.2	12	78	10	55	81	6	5	6	0.99
14403588--14403635	6	7.8	6	93	4	60	83	8	0	8	0.82
14404611--14404654	7	6.3	7	82	17	56	68	0	15	15	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14404611--14404654	21	2.1	21	91	0	70	68	0	15	15	1.22
14405889--14406111	87	2.6	87	84	2	304	30	24	23	21	1.99
14406170--14406687	128	4.0	128	89	0	750	32	20	22	24	1.98
14407466--14408369	459	2.0	458	93	2	1553	27	11	8	52	1.66
14408668--14410028	688	2.0	688	99	0	2686	32	19	14	33	1.92
14410729--14410796	4	16.0	4	75	17	57	20	4	5	69	1.28
14414277--14414452	25	7.1	25	72	8	108	39	25	11	23	1.89
14414277--14414452	75	2.4	74	82	2	228	39	25	11	23	1.89
14414385--14414457	24	3.0	25	84	4	78	42	21	10	24	1.85
14420895--14420919	8	3.1	8	100	0	50	40	0	24	36	1.55

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