genome.fa.s5.2.7.7.80.10.50.1000.1.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  1  of  103  ( 12320 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)
8755--8789	6	6.0	6	90	3	54	14	0	65	20	1.26
8848--8873	2	13.0	2	100	0	52	0	50	0	50	1.00
10274--10307	3	11.7	3	93	6	61	67	0	0	32	0.91
10998--11101	51	2.0	51	90	3	165	41	18	12	27	1.86
14058--14134	18	4.3	18	81	3	75	23	5	36	35	1.77
14058--14115	6	9.7	6	94	0	80	24	1	39	34	1.65
17985--18023	20	2.0	21	90	10	64	28	2	0	69	1.02
18682--18738	21	2.6	22	86	5	89	22	10	21	45	1.82
18772--18931	26	6.6	23	78	10	117	35	26	13	25	1.92
18836--18931	26	3.7	26	90	0	129	36	22	14	26	1.93
18957--19010	26	2.1	26	89	0	81	42	22	9	25	1.83
18975--19047	37	2.0	37	91	0	119	42	19	9	28	1.82
19012--19086	26	2.9	26	90	4	107	38	22	12	26	1.89
19078--19128	21	2.4	21	80	0	57	39	23	9	27	1.86
33013--33047	17	2.1	16	94	5	61	60	0	0	40	0.97
33138--33211	17	4.4	17	70	13	55	54	1	0	44	1.08
36242--36362	37	3.3	37	89	2	181	28	10	37	23	1.88
47483--47516	3	11.3	3	93	0	59	32	2	0	64	1.08
48912--48941	13	2.2	14	94	5	53	66	0	0	33	0.92
49186--49225	2	20.5	2	94	5	73	52	0	0	47	1.00
49431--49455	3	8.3	3	100	0	50	64	0	36	0	0.94
56539--56600	3	20.7	3	89	0	97	38	33	27	0	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60637--60670	4	8.5	4	100	0	68	73	26	0	0	0.83
61181--61205	6	4.2	6	100	0	50	32	16	0	52	1.44
73838--73875	19	2.0	20	89	5	60	31	0	0	68	0.90
74530--74592	21	2.9	22	83	4	83	25	11	19	44	1.83
74533--74608	22	3.5	22	78	3	64	26	11	17	44	1.83
74637--74854	74	3.0	73	81	6	278	38	23	11	25	1.89
74637--74847	26	8.5	26	72	12	138	38	23	11	26	1.88
74838--74891	21	2.6	21	84	0	72	37	31	12	18	1.89
80856--80895	20	2.0	21	95	5	73	5	55	5	35	1.44
81179--81277	26	3.9	24	76	15	76	47	0	2	50	1.12
81234--81318	16	5.3	16	71	19	61	43	0	2	54	1.13
81328--81479	25	6.5	22	68	16	74	53	1	0	43	1.16
82594--82621	3	9.3	3	100	0	56	67	0	0	32	0.91
83837--83878	14	3.0	14	76	10	50	30	2	7	59	1.37
86548--86574	2	13.5	2	100	0	54	51	0	48	0	1.00
88816--88852	13	2.8	14	80	12	51	21	0	0	78	0.75
88816--88866	26	2.0	26	84	7	68	23	0	0	76	0.79
88828--88868	17	2.5	17	88	7	59	21	0	0	78	0.76
104260--104480	108	2.0	110	90	3	347	26	25	16	32	1.96
128037--128069	2	16.5	2	100	0	66	51	0	0	48	1.00
128100--128145	2	23.0	2	95	0	74	50	4	0	45	1.21
136607--136636	6	5.0	6	100	0	60	33	16	0	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137501--137581	23	3.0	29	63	26	77	18	18	40	22	1.91
141348--141409	29	2.1	29	100	0	124	45	16	11	27	1.81
147897--147927	12	2.6	12	94	0	53	41	0	6	51	1.27
155425--155545	62	2.0	62	96	0	224	24	9	21	44	1.81
159073--159257	92	2.0	92	95	0	334	25	21	20	32	1.97
160045--160073	2	14.5	2	100	0	58	51	0	48	0	1.00
163684--163791	45	2.4	44	85	3	135	36	22	17	24	1.95
163615--163755	69	2.0	69	86	5	196	36	20	17	25	1.94
163684--163807	45	2.8	45	83	2	124	34	22	18	24	1.96
163613--163893	114	2.5	113	91	1	445	34	19	18	27	1.95
163798--163898	45	2.2	45	92	0	166	32	19	19	27	1.97
163721--163876	69	2.3	69	81	6	181	35	19	18	26	1.95
163880--163995	57	2.0	58	93	5	200	37	12	18	31	1.89
163879--163994	32	4.0	27	75	20	101	36	12	18	31	1.89
163882--164034	29	5.2	29	78	14	152	35	13	16	34	1.87
164802--164855	2	27.0	2	92	0	90	50	3	0	46	1.19
171051--171085	16	2.2	16	89	0	52	11	17	14	57	1.66
180638--180672	18	1.9	18	94	0	61	51	17	11	20	1.75
181113--181275	84	2.0	83	90	1	254	33	18	23	23	1.97
186392--186447	2	28.5	2	89	10	89	48	0	1	50	1.11
188505--188544	17	2.3	18	91	4	64	70	0	0	30	0.88
195166--195222	29	2.0	29	92	0	96	38	7	5	49	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
198583--198622	12	3.2	12	82	6	53	20	2	2	75	1.04
198666--198712	2	23.5	2	87	8	69	46	2	0	51	1.13
207696--207720	8	3.1	8	100	0	50	36	0	40	24	1.55
209939--210116	86	2.1	87	96	1	331	32	17	20	29	1.96
221275--221356	24	3.4	24	75	0	74	39	21	26	12	1.89
231837--231899	20	3.1	20	77	22	69	66	0	0	33	0.92
231841--231922	7	12.3	7	69	21	52	65	0	1	32	1.00
231856--231926	27	2.7	26	82	2	88	64	0	1	33	1.02
231962--232017	16	3.4	17	73	14	55	67	1	0	30	1.01
231956--232003	25	1.9	25	87	8	71	72	0	0	27	0.84
231937--232000	31	2.0	32	90	3	103	71	0	0	28	0.86
231952--232063	13	8.4	13	68	16	52	66	0	1	30	1.07
232690--232735	23	2.0	23	83	4	58	30	4	2	63	1.26
232765--232815	15	3.4	15	83	0	57	37	5	3	52	1.44
233916--233950	17	2.1	17	88	0	52	91	2	5	0	0.50
238371--238434	33	1.9	33	96	0	119	25	18	29	26	1.98
240535--240588	26	2.0	27	82	3	65	51	0	3	44	1.19
258720--258748	13	2.1	14	93	6	51	6	51	34	6	1.55
260288--260321	2	17.0	2	100	0	68	0	50	0	50	1.00
269363--269402	21	1.9	21	89	0	62	15	42	0	42	1.46
269440--269487	23	2.0	24	88	4	71	31	22	18	27	1.97
319400--319431	14	2.3	14	100	0	64	59	12	6	21	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340426--340668	122	2.0	122	87	4	357	31	19	13	34	1.91
343337--343370	15	2.3	15	89	0	50	38	0	8	52	1.33
347397--347450	2	26.0	2	92	3	81	48	5	46	0	1.25
347453--347487	1	35.0	1	88	0	52	2	0	94	0	0.23
347743--347794	2	25.5	2	88	3	77	50	1	46	1	1.23
347938--347985	15	3.1	15	72	16	53	10	39	2	47	1.49
347924--347985	31	2.0	31	93	0	106	9	35	1	53	1.44
356415--356450	18	2.0	18	100	0	72	44	11	16	27	1.82
364693--364765	36	2.0	36	94	0	128	16	34	5	43	1.71
383566--383631	33	2.0	33	96	0	123	27	13	15	43	1.84
386420--386524	50	2.1	51	98	1	203	36	13	7	42	1.73
389793--389856	27	2.4	27	94	0	110	26	3	26	43	1.69
389811--389858	14	3.5	14	74	25	57	27	2	25	45	1.64
407191--407255	31	2.1	30	82	2	76	56	7	6	29	1.51
407303--407356	21	2.7	20	75	8	56	57	0	0	42	0.98
415061--415095	2	17.5	2	93	0	61	2	45	0	51	1.16
415131--415169	2	19.5	2	100	0	78	0	0	48	51	1.00
415264--415302	2	19.5	2	100	0	78	0	0	48	51	1.00
419012--419063	2	26.0	2	92	0	86	50	3	0	46	1.20
419399--419442	7	6.1	7	94	2	70	18	27	25	29	1.98
445301--445340	17	2.4	16	91	4	62	70	0	0	30	0.88
446546--446581	8	4.4	8	93	6	63	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446542--446585	17	2.4	18	82	17	56	77	0	0	22	0.77
448121--448348	74	3.1	74	89	3	318	23	27	23	25	2.00
468521--468567	24	2.0	24	82	0	58	36	17	10	36	1.84
474859--474900	21	2.0	21	100	0	84	23	28	14	33	1.94
479394--479566	27	6.4	27	74	6	120	25	22	32	19	1.97
479497--479601	27	3.9	27	86	3	122	24	20	36	18	1.95
479528--479610	27	3.0	27	83	11	98	25	22	33	18	1.96
479613--479671	27	2.2	27	84	6	75	32	20	28	18	1.96
479682--479741	28	2.2	28	84	3	77	23	18	33	25	1.97
484374--484532	79	2.0	80	93	1	275	35	6	17	40	1.77

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