genome.fa.s5.2.7.7.80.10.50.1000.90.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  90  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)
33063023--33063059	17	2.1	18	90	5	58	51	0	0	48	1.00
33063131--33063293	86	1.9	84	91	3	256	43	0	3	52	1.21
33063232--33063287	10	5.3	10	74	18	51	35	0	1	62	1.06
33063153--33063287	42	3.2	42	65	14	105	41	0	2	55	1.12
33068054--33068106	21	2.6	20	78	3	61	66	1	0	32	1.03
33072910--33072943	14	2.3	15	90	5	52	64	2	0	32	1.08
33072996--33073034	20	2.0	21	90	10	64	48	0	2	48	1.15
33078346--33078436	41	2.2	41	100	0	182	47	13	13	26	1.79
33079345--33079408	31	2.1	31	90	0	101	45	7	15	31	1.75
33080193--33080418	115	2.0	113	99	0	434	65	8	11	13	1.46
33080483--33080532	25	2.0	25	84	0	64	72	2	20	6	1.16
33082483--33082522	2	20.0	2	94	0	71	52	0	0	47	1.00
33083325--33083546	112	2.0	112	94	3	394	42	4	3	49	1.39
33089973--33089997	7	3.6	7	100	0	50	28	0	12	60	1.32
33091903--33092552	327	2.0	328	99	0	1277	39	14	8	36	1.77
33092538--33092581	2	22.0	2	100	0	88	50	0	0	50	1.00
33096879--33096905	2	13.5	2	100	0	54	51	0	0	48	1.00
33106360--33106388	3	9.7	3	100	0	58	65	0	0	34	0.93
33106714--33106744	7	4.4	7	100	0	62	16	12	16	54	1.71
33109409--33109714	166	1.8	167	87	4	454	29	19	16	34	1.94
33127392--33127471	37	2.2	37	90	4	126	43	17	8	30	1.79
33128412--33128520	4	27.0	4	77	17	102	73	0	0	24	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33128424--33128521	22	4.6	23	76	15	63	73	1	1	24	0.96
33129683--33129764	6	13.2	6	75	15	60	75	4	0	19	0.98
33129686--33129734	8	6.6	7	80	19	55	81	0	0	18	0.69
33129682--33129764	25	3.4	22	74	20	67	74	4	0	20	0.99
33129682--33129758	31	2.5	31	83	14	88	75	3	0	20	0.96
33129813--33129876	3	20.3	3	81	15	60	65	0	0	34	0.93
33130048--33130089	13	3.2	13	93	0	66	66	0	4	28	1.12
33135413--33135483	28	2.5	28	80	6	72	19	7	18	54	1.65
33136143--33136201	23	2.7	21	84	7	73	27	5	0	67	1.11
33136156--33136197	14	3.0	14	80	10	50	26	4	0	69	1.08
33150086--33150111	11	2.4	11	100	0	52	0	7	0	92	0.39
33150134--33150211	17	4.5	17	83	12	97	0	28	0	70	0.87
33150146--33150211	6	10.8	6	73	14	55	0	25	0	72	0.84
33150135--33150220	24	3.8	23	80	18	108	0	27	0	70	0.87
33150136--33150219	28	3.1	27	80	13	75	0	28	0	70	0.87
33150134--33150283	24	6.7	22	71	15	94	0	33	2	64	1.05
33150232--33150275	17	2.6	16	79	10	52	0	34	0	65	0.93
33150459--33150491	17	2.0	17	88	5	50	18	12	6	63	1.48
33150558--33150608	23	2.3	22	83	12	61	25	1	0	72	0.95
33151508--33151585	38	2.1	38	87	4	113	43	25	7	23	1.80
33155254--33155353	49	2.0	49	96	0	182	29	16	21	34	1.94
33157848--33157882	3	11.7	3	100	0	70	68	0	31	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33168744--33168856	57	2.0	57	87	3	165	43	15	17	23	1.87
33182965--33182997	14	2.4	14	90	10	50	9	12	0	78	0.95
33183251--33183290	15	2.7	15	96	0	71	55	10	7	27	1.60
33184289--33184331	20	2.2	20	83	4	52	25	23	11	39	1.88
33189029--33189068	19	2.0	20	95	4	73	42	27	0	30	1.56
33193320--33193368	3	16.3	3	100	0	98	67	0	0	32	0.91
33199770--33199826	25	2.2	27	81	12	66	26	3	3	66	1.24
33199770--33199836	20	3.3	21	66	16	50	25	2	2	68	1.18
33199761--33199836	40	1.9	40	86	5	109	27	3	2	65	1.23
33211089--33211126	18	2.1	18	90	0	58	42	7	7	42	1.63
33213375--33213404	14	2.1	14	93	0	51	30	3	6	60	1.39
33214395--33214434	20	1.9	21	85	10	55	35	2	0	62	1.09
33214663--33214687	13	1.9	13	100	0	50	40	16	4	40	1.67
33216748--33216799	15	3.6	14	80	12	61	73	0	3	23	1.00
33221530--33221573	23	2.0	22	81	4	52	40	0	6	52	1.28
33226168--33226315	35	4.4	34	80	10	162	23	37	9	29	1.86
33226168--33226281	35	3.4	35	86	4	164	24	37	8	28	1.85
33226168--33226330	34	4.9	31	78	15	84	22	38	9	30	1.85
33226272--33226365	34	2.7	34	88	4	127	21	37	11	29	1.89
33226285--33226382	34	2.8	35	86	6	128	25	34	10	29	1.89
33226306--33226415	35	3.2	35	83	6	109	25	31	10	31	1.90
33228567--33228599	13	2.6	13	90	4	50	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33230343--33230679	101	3.3	100	93	0	548	26	19	13	40	1.88
33230591--33230755	76	2.2	76	87	2	233	24	23	10	41	1.86
33230665--33230855	101	1.9	101	91	0	310	25	23	12	39	1.89
33230492--33230910	177	2.4	177	90	2	637	25	21	12	41	1.88
33230769--33231065	76	3.9	77	84	1	348	24	20	11	42	1.86
33232817--33232845	6	5.0	6	95	4	51	31	17	0	51	1.45
33234892--33234970	35	2.3	34	89	6	115	60	16	1	21	1.42
33239852--33239902	15	3.4	14	86	5	66	31	3	15	49	1.63
33248532--33248569	19	2.0	19	94	0	67	42	28	0	28	1.56
33250377--33250420	18	2.5	18	88	3	63	27	2	0	70	0.99
33254103--33254127	13	1.9	13	100	0	50	48	8	0	44	1.32
33255902--33255940	17	2.3	17	86	8	53	25	2	0	71	0.98
33256096--33256414	101	3.2	101	94	0	532	25	19	14	41	1.89
33256703--33256759	19	3.0	19	85	10	73	28	1	0	70	0.98
33264385--33264485	43	2.4	43	83	8	127	26	13	20	38	1.91
33264365--33264485	42	2.9	42	81	8	140	26	14	19	40	1.89
33268906--33268941	18	2.0	18	100	0	72	44	33	16	5	1.71
33272053--33272086	13	2.6	13	90	0	50	38	32	17	11	1.86
33276883--33277081	42	4.6	42	78	8	211	30	16	31	22	1.96
33276982--33277076	48	2.0	48	91	4	156	30	16	29	23	1.96
33289907--33290063	78	2.0	78	93	0	269	26	24	17	31	1.97
33293406--33293647	118	2.1	118	99	0	475	31	11	21	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33294119--33294383	91	2.9	90	86	1	352	44	4	6	44	1.48
33305753--33305786	18	1.9	18	88	5	52	67	5	2	23	1.26
33306609--33306732	45	2.7	45	78	10	137	33	17	18	30	1.94
33306579--33306733	45	3.5	44	76	11	136	34	18	16	29	1.93
33306780--33306831	25	2.1	25	92	3	88	38	17	15	28	1.90
33306671--33306882	70	3.1	69	79	4	241	38	19	15	26	1.91
33306849--33306945	34	2.9	34	92	0	149	35	18	16	29	1.93
33306983--33307058	29	2.6	29	83	4	100	40	10	7	40	1.69
33307432--33307478	23	2.0	23	87	0	67	57	2	21	19	1.51
33312102--33312134	2	17.0	2	93	6	59	48	0	0	51	1.00
33315772--33315877	2	53.5	2	79	15	114	46	2	1	48	1.28
33324014--33324040	2	13.5	2	100	0	54	48	0	51	0	1.00
33325420--33325462	15	2.7	16	78	7	52	37	2	0	60	1.10
33341866--33341932	20	3.3	20	69	19	66	31	23	5	38	1.79
33341886--33341948	21	3.0	21	65	21	60	31	26	4	36	1.78
33341863--33341948	41	2.1	41	100	0	172	31	26	4	37	1.77
33342390--33342480	5	19.6	5	73	19	56	76	1	1	20	0.91
33342394--33342479	9	10.5	8	71	12	59	76	1	1	20	0.91
33342432--33342475	12	3.9	12	80	17	58	79	0	0	20	0.73
33343315--33343349	15	2.4	14	90	9	52	74	0	0	25	0.82
33343384--33343466	25	3.1	26	75	21	73	71	0	3	25	1.02
33349162--33349201	21	1.9	21	100	0	80	45	0	30	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33351037--33351114	40	2.0	40	86	0	111	20	19	21	38	1.94
33353559--33353589	16	1.9	16	93	0	53	35	0	0	64	0.94
33356895--33356943	2	24.5	2	82	0	62	51	6	0	42	1.27
33379560--33379610	25	2.0	25	88	0	75	11	5	19	62	1.49
33379697--33379744	20	2.6	19	81	12	55	14	8	6	70	1.31
33380729--33380777	24	2.0	25	84	4	64	42	4	12	40	1.61
33382100--33382132	15	2.1	16	88	5	50	54	21	12	12	1.69
33412952--33412998	20	2.3	20	85	0	58	31	0	0	68	0.90
33415611--33415670	30	2.0	31	86	3	86	46	5	11	36	1.62
33417612--33417645	2	17.0	2	100	0	68	50	0	0	50	1.00

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