genome.fa.s1.2.7.7.80.10.50.1000.13.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  13  of  93  ( 11113 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)
6382298--6382328	3	10.3	3	92	0	53	32	0	3	64	1.09
6389470--6389553	31	2.7	30	76	20	93	63	3	2	30	1.24
6389470--6389554	33	2.7	31	84	12	102	62	4	2	30	1.28
6390016--6390685	250	2.7	249	81	7	780	49	7	9	32	1.64
6390042--6390728	240	2.8	238	81	7	625	49	7	9	33	1.64
6390829--6390874	17	2.6	17	79	3	56	71	2	0	26	0.97
6390845--6390886	21	2.0	22	86	13	61	64	4	0	30	1.14
6403943--6403993	16	3.2	16	81	16	61	27	0	0	72	0.85
6403935--6403987	24	2.2	25	87	12	76	26	0	0	73	0.83
6404692--6404749	16	3.7	16	77	13	66	51	1	0	46	1.11
6406004--6406111	31	3.6	29	79	10	119	50	4	17	26	1.65
6405970--6406113	60	2.4	60	89	2	207	52	4	15	27	1.62
6406377--6406584	106	1.9	108	93	3	359	36	15	4	43	1.68
6407239--6407265	2	13.5	2	100	0	54	48	0	0	51	1.00
6414901--6415029	39	3.3	39	78	7	122	47	0	50	2	1.14
6414922--6415020	18	5.2	17	74	17	63	47	0	50	2	1.12
6414823--6415028	66	3.1	65	78	12	181	46	0	49	4	1.25
6434413--6434454	16	2.7	16	85	3	50	47	0	0	52	1.00
6434381--6434440	20	3.0	20	69	16	52	51	0	0	48	1.00
6435153--6435260	42	2.6	42	96	0	198	48	1	4	45	1.34
6469853--6469892	2	20.0	2	84	0	53	42	5	0	52	1.23
6470802--6470884	12	6.2	13	67	19	55	24	6	0	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6470823--6470884	20	3.3	18	74	14	54	20	6	0	72	1.06
6470832--6470904	27	2.6	28	78	6	76	23	8	0	68	1.16
6470983--6471047	19	3.5	18	73	22	55	23	3	0	73	0.97
6470980--6471042	23	2.7	23	85	9	74	23	3	0	73	0.98
6474846--6474950	52	2.0	52	92	0	174	20	6	27	45	1.75
6475029--6475126	34	2.9	34	89	1	142	24	11	18	45	1.82
6475144--6475180	19	1.9	19	88	0	56	27	18	13	40	1.88
6479084--6479131	15	3.0	17	73	17	57	47	0	6	45	1.27
6479095--6479138	24	1.9	22	86	9	61	50	0	4	45	1.22
6479094--6479145	24	2.3	22	77	9	59	48	0	3	48	1.20
6481648--6481726	26	3.0	26	92	0	131	27	21	13	36	1.92
6481741--6481824	25	3.4	25	73	6	89	39	10	10	39	1.75
6481691--6481820	50	2.6	50	83	3	145	38	13	10	36	1.80
6487399--6487495	48	2.0	49	91	2	160	42	13	12	31	1.81
6487721--6487890	77	2.2	79	80	3	182	32	8	15	42	1.78
6496691--6496884	82	2.4	80	90	1	298	37	10	3	48	1.55
6506073--6506121	19	2.5	19	83	9	55	75	0	6	18	1.00
6507782--6507839	8	7.1	8	90	2	89	74	0	1	24	0.92
6507781--6507865	24	3.6	24	77	13	97	74	0	2	23	0.94
6507778--6507862	16	4.7	20	84	12	80	72	0	2	24	0.96
6519982--6520340	37	9.7	37	88	4	478	22	16	20	40	1.91
6520470--6520518	19	2.5	19	83	9	55	75	0	6	18	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6525316--6525351	18	2.0	18	88	0	54	36	0	2	61	1.11
6526924--6527108	80	2.3	80	86	3	257	30	15	17	36	1.91
6527352--6527530	88	2.0	88	82	2	216	34	18	12	34	1.89
6527408--6527630	92	2.5	92	80	7	244	33	21	12	32	1.91
6527392--6527676	30	9.6	30	71	8	127	33	22	12	31	1.91
6535620--6535665	23	2.0	23	100	0	92	26	17	17	39	1.91
6551370--6551428	26	2.4	24	72	16	57	52	6	0	40	1.28
6551424--6551876	212	2.1	211	84	8	578	48	4	6	40	1.50
6551832--6552235	216	1.9	214	85	4	550	45	5	4	43	1.50
6552195--6552233	21	1.9	20	84	5	51	48	2	2	46	1.29
6552474--6552521	23	2.0	24	84	11	64	47	14	2	35	1.56
6561960--6562005	19	2.4	18	82	13	56	0	26	2	71	0.97
6563155--6563216	30	2.1	29	84	3	79	32	6	6	54	1.51
6563436--6563522	43	2.0	43	90	0	138	31	3	8	57	1.44
6567274--6567318	2	22.5	2	86	8	65	46	4	0	48	1.22
6567277--6567317	13	2.9	14	82	13	57	48	4	0	46	1.23
6567273--6567319	15	3.1	15	82	11	69	44	4	0	51	1.21
6570776--6570862	43	2.0	43	90	0	138	31	3	8	57	1.44
6574631--6574668	2	20.0	2	84	10	53	50	2	0	47	1.15
6579428--6579471	23	2.0	22	81	4	52	40	0	6	52	1.28
6587265--6587423	79	2.0	79	95	0	282	21	40	15	22	1.91
6587936--6588021	12	7.0	11	69	20	55	15	2	2	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6587937--6588021	16	5.2	16	72	17	52	14	2	2	81	0.90
6587939--6588027	37	2.4	39	82	12	100	15	2	4	77	1.03
6588823--6588953	24	5.5	24	85	3	165	13	29	19	36	1.91
6588823--6588957	72	1.9	72	85	3	191	14	30	20	35	1.92
6588823--6588977	48	3.2	49	79	5	138	14	28	20	36	1.92
6593950--6594282	166	2.0	166	92	4	557	29	6	25	38	1.81
6603809--6603852	16	2.7	17	80	19	58	72	0	9	18	1.10
6604091--6604124	13	2.6	13	80	0	50	50	0	0	50	1.00
6604154--6604252	42	2.4	42	81	6	103	40	5	4	50	1.43
6604166--6604272	42	2.6	41	74	12	101	38	4	2	54	1.36
6610466--6610506	10	4.1	10	87	0	55	36	0	12	51	1.40
6610472--6610502	16	1.9	16	93	0	53	35	0	12	51	1.40
6626810--6626993	99	1.9	99	92	0	314	37	16	17	28	1.91
6628624--6628682	15	3.9	15	82	8	75	3	59	0	37	1.14
6628625--6628681	30	1.9	30	88	0	87	1	59	0	38	1.08
6628624--6628677	5	10.8	5	74	21	51	1	59	0	38	1.08
6630366--6630439	30	2.5	30	77	18	75	54	6	5	33	1.50
6630431--6630468	19	2.0	19	89	0	58	44	0	2	52	1.14
6652747--6652835	21	4.2	21	62	21	51	44	5	1	48	1.33
6652732--6652917	63	3.0	63	95	0	336	43	6	3	46	1.47
6652759--6652849	22	4.3	22	65	23	59	46	6	1	46	1.36
6652981--6653027	23	2.0	23	91	0	76	48	14	14	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6660114--6660163	8	6.2	8	86	9	59	12	0	86	2	0.67
6660114--6660163	13	4.2	12	82	12	59	12	0	86	2	0.67
6660116--6660160	21	2.1	21	88	8	65	11	0	86	2	0.65
6660114--6660163	25	2.1	24	88	7	75	12	0	86	2	0.67
6660124--6660168	21	2.1	21	84	8	56	15	0	80	4	0.87
6670039--6670123	20	4.5	19	68	25	56	23	4	0	71	1.04
6670036--6670123	30	3.1	26	73	23	70	23	4	0	71	1.04
6670230--6670303	4	17.5	4	75	18	53	27	1	0	71	0.94
6670230--6670303	9	8.8	8	72	20	53	27	1	0	71	0.94
6670241--6670289	14	3.6	13	78	8	53	30	2	0	67	1.02
6670232--6670289	23	2.6	22	76	13	64	27	1	0	70	0.97
6672760--6672879	35	3.4	35	83	0	132	43	14	20	22	1.87
6673108--6673188	29	2.9	28	83	3	108	16	22	8	53	1.70
6678718--6678785	27	2.8	23	78	20	68	51	1	1	45	1.19
6678743--6678784	15	2.8	15	86	13	52	54	0	0	45	0.99
6679230--6679292	19	3.2	19	77	18	74	42	0	0	57	0.99
6679260--6679290	16	1.9	16	100	0	62	48	0	0	51	1.00
6690205--6690262	28	2.1	28	90	3	91	41	5	18	34	1.73
6690908--6690988	4	21.0	4	70	16	55	49	0	1	49	1.08
6690908--6690961	15	3.6	15	80	7	56	48	0	1	50	1.11
6692013--6692086	33	2.2	33	80	0	85	35	16	8	40	1.78
6694488--6694514	8	3.4	8	100	0	54	51	22	14	11	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6703765--6703843	2	39.5	2	87	9	117	49	1	1	46	1.17
6706838--6706872	8	4.4	8	100	0	70	51	22	14	11	1.74
6715224--6715278	28	2.0	28	88	0	83	36	9	25	29	1.87
6715702--6715794	43	2.2	43	90	3	134	32	12	18	36	1.89
6716099--6716382	43	6.6	43	70	10	134	31	14	16	37	1.89
6716148--6716425	86	3.2	85	69	15	228	29	15	15	38	1.89
6716071--6716465	172	2.3	172	86	0	549	31	15	15	37	1.89
6716143--6716425	43	6.6	42	72	13	159	30	15	15	37	1.90
6716313--6716452	43	3.3	43	79	6	124	30	17	14	37	1.90
6717778--6717811	11	3.0	11	86	4	50	79	0	11	8	0.94

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