genome.fa.s7.2.7.7.80.10.50.1000.77.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:  26558743

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   

This is table  77  of  79  ( 9388 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)
25765672--25765739	3	22.7	3	100	0	136	32	0	0	67	0.91
25771676--25771732	4	14.2	4	96	0	105	24	0	26	49	1.51
25773447--25773534	33	2.5	37	73	19	87	64	6	0	28	1.19
25775255--25775288	13	2.6	13	95	0	59	38	17	2	41	1.65
25778674--25779534	280	3.0	282	80	7	732	26	16	18	37	1.92
25779560--25779622	21	3.0	22	80	17	71	65	1	33	0	1.03
25781359--25781710	126	2.8	125	86	3	451	30	14	20	33	1.93
25783204--25783253	26	1.9	26	91	0	82	42	12	30	16	1.84
25785224--25785268	23	2.0	23	100	0	90	26	6	22	44	1.77
25785270--25785430	25	6.6	25	77	13	174	42	15	0	41	1.47
25787683--25787805	51	2.4	51	91	1	203	45	0	26	28	1.54
25790701--25790901	102	2.0	101	90	1	312	29	27	16	26	1.97
25791391--25791430	2	20.0	2	100	0	80	50	50	0	0	1.00
25796643--25796709	30	2.2	31	84	7	84	41	2	4	50	1.37
25797661--25797727	34	1.9	35	90	3	109	44	13	8	32	1.75
25800425--25800495	31	2.2	32	85	9	101	32	14	11	42	1.81
25802140--25802170	1	31.0	1	93	0	53	0	0	3	96	0.21
25802114--25802209	44	2.2	44	92	1	156	11	6	3	79	1.03
25802464--25802509	4	11.8	4	95	4	85	26	0	26	47	1.52
25814055--25814409	146	2.4	145	92	1	570	39	18	17	24	1.92
25821157--25821197	20	2.0	20	100	0	82	24	14	14	46	1.82
25821158--25821202	20	2.5	17	86	13	56	26	15	15	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25821365--25821423	29	2.0	29	100	0	118	33	16	16	32	1.92
25824592--25824639	13	3.4	14	83	13	55	79	6	12	2	1.01
25824604--25824647	17	2.5	17	85	7	52	79	4	11	4	1.02
25825447--25825617	66	2.6	65	84	1	207	29	17	30	22	1.97
25828715--25828770	29	1.9	29	92	0	94	35	14	7	42	1.73
25830555--25830700	76	1.9	76	85	4	204	29	12	8	49	1.71
25831729--25831779	24	2.1	24	96	0	93	45	25	13	15	1.83
25836923--25837098	95	1.9	95	95	0	316	28	17	21	33	1.95
25842193--25842585	174	2.3	170	86	6	533	35	20	18	25	1.95
25848398--25849013	164	3.7	164	88	2	844	26	20	18	34	1.95
25854249--25854292	11	4.2	11	82	11	56	18	4	27	50	1.66
25854262--25854336	9	8.2	9	79	8	71	24	9	25	41	1.84
25854254--25854338	20	4.5	20	76	8	81	23	8	25	42	1.82
25859590--25859683	47	2.0	46	87	2	134	39	13	6	40	1.71
25863103--25863140	2	19.0	2	100	0	76	50	0	0	50	1.00
25866640--25866713	30	2.4	31	80	11	80	60	2	4	32	1.29
25870942--25870985	17	2.6	17	82	13	63	29	2	11	56	1.46
25874124--25874164	15	2.6	16	75	25	50	68	0	0	31	0.90
25874944--25874972	13	2.2	13	100	0	58	24	0	0	75	0.80
25875851--25875880	11	2.7	11	89	0	51	63	10	6	20	1.47
25880873--25881004	8	16.5	8	98	0	192	18	0	31	50	1.48
25881197--25881236	4	10.0	4	86	0	53	20	2	27	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25888064--25888105	21	2.0	21	100	0	84	47	9	23	19	1.78
25891073--25891108	2	18.0	2	100	0	72	50	0	0	50	1.00
25891640--25891671	2	16.0	2	100	0	64	50	0	0	50	1.00
25896333--25896389	21	2.8	19	82	15	62	35	40	12	12	1.80
25896540--25896596	21	2.8	19	82	15	62	35	40	12	12	1.80
25896324--25896740	207	2.0	206	96	0	762	35	24	14	25	1.93
25903075--25903106	3	10.7	3	100	0	64	34	31	0	34	1.58
25922614--25922655	22	2.0	21	85	4	57	47	7	0	45	1.30
25935512--25935542	6	5.2	6	92	0	53	16	64	16	3	1.42
25940336--25940361	3	8.7	3	100	0	52	34	65	0	0	0.93
25941721--25942178	139	3.2	141	86	4	604	27	16	21	33	1.95
25941721--25942212	144	3.5	142	84	5	613	27	15	21	35	1.94
25943996--25944076	4	20.8	4	86	5	76	19	3	29	46	1.67
25946691--25946741	22	2.3	21	80	12	57	45	1	0	52	1.12
25952425--25952672	138	1.8	136	80	8	297	37	7	18	35	1.80
25959003--25959044	21	2.0	22	85	4	59	57	4	0	38	1.20
25961657--25961682	11	2.4	11	100	0	52	92	7	0	0	0.39
25962056--25962088	2	16.5	2	100	0	66	0	0	48	51	1.00
25975598--25976009	137	3.0	137	97	0	770	26	11	21	41	1.86
25975872--25976377	160	3.2	160	95	0	879	26	11	21	41	1.86
25977374--25977408	17	2.0	18	94	5	63	45	5	8	40	1.58
25978407--25978538	31	4.4	31	70	5	99	20	18	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25978734--25978831	31	3.2	31	88	1	126	43	20	14	21	1.87
25992228--25992662	166	2.6	165	87	3	597	31	18	17	33	1.94
25994548--25994586	2	19.5	2	89	0	60	48	2	2	46	1.29
25998617--25998645	3	9.7	3	100	0	58	34	34	0	31	1.58
25998861--25999382	283	1.9	278	84	10	704	20	12	16	49	1.79
26000705--26000807	51	2.0	52	88	1	154	35	17	14	32	1.90
26000609--26000908	153	2.0	151	88	3	442	31	16	16	35	1.91
26000769--26000954	101	1.8	103	89	2	295	29	13	16	40	1.87
26007096--26007152	30	1.9	30	85	7	80	45	3	12	38	1.59
26012477--26012772	148	2.0	148	97	1	567	41	3	8	45	1.51
26014115--26014149	4	8.8	4	100	0	70	22	0	0	77	0.78
26017055--26017079	9	2.8	9	100	0	50	72	0	0	28	0.86
26017945--26018008	22	3.0	22	74	2	67	42	0	3	54	1.16
26017984--26018020	19	2.0	19	89	5	58	43	0	2	54	1.14
26023808--26023833	13	2.0	13	100	0	52	61	15	0	23	1.33
26025875--26025985	27	4.1	27	82	0	132	36	21	27	14	1.92
26025875--26025985	54	2.1	54	89	0	168	36	21	27	14	1.92
26028401--26028459	16	3.1	19	69	20	52	40	3	28	27	1.72
26035746--26035779	4	8.5	4	93	0	50	44	32	0	23	1.54
26040856--26040908	24	2.2	24	93	0	88	62	0	0	37	0.96
26040867--26040939	14	5.5	14	70	18	66	60	0	0	39	0.97
26040852--26040933	28	3.1	27	81	13	98	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26041434--26041494	26	2.3	26	78	18	65	36	0	1	62	1.05
26048602--26048639	3	12.7	3	94	0	67	0	2	31	65	1.06
26049738--26049784	24	1.9	25	83	12	62	57	10	10	21	1.62
26051837--26051880	23	2.0	22	87	12	65	27	6	0	65	1.17
26051838--26051878	17	2.4	17	84	15	50	26	7	0	65	1.18
26054506--26054817	155	2.0	156	99	0	617	39	18	16	25	1.92
26059059--26059087	4	7.2	4	100	0	58	24	0	0	75	0.80
26061273--26061306	16	2.1	16	88	0	50	44	23	5	26	1.76
26063551--26063606	22	2.5	23	82	11	71	30	0	0	69	0.89
26068696--26068753	4	14.5	4	92	0	98	46	25	1	25	1.62
26071516--26071575	28	2.1	28	84	6	77	25	15	15	45	1.84
26071879--26071909	16	2.0	15	93	6	53	12	6	16	64	1.47
26072520--26072580	29	2.1	28	85	8	79	45	16	13	24	1.83
26074317--26074377	32	1.9	32	86	0	86	36	13	6	44	1.69
26078711--26078750	19	2.1	19	86	9	55	52	2	2	42	1.28
26088487--26088512	3	8.7	3	100	0	52	69	0	0	30	0.89
26088640--26088912	133	2.1	133	80	4	300	35	19	17	27	1.94
26091450--26091675	125	1.8	125	92	1	382	29	15	23	32	1.95
26092331--26092364	15	2.3	15	90	5	52	67	5	0	26	1.13
26092483--26092552	22	3.2	22	95	0	131	38	0	27	34	1.57
26093405--26093467	23	2.8	22	78	4	63	39	0	6	53	1.26
26093423--26093469	23	2.0	23	87	0	67	42	0	6	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26098593--26098646	3	17.7	3	92	3	90	31	0	0	68	0.90
26108128--26108185	30	1.9	30	89	0	89	3	39	15	41	1.64
26108167--26108213	23	2.0	23	91	0	76	0	27	23	48	1.51
26108289--26108373	41	2.1	41	95	0	152	9	30	14	45	1.76
26111335--26111411	13	5.9	13	92	0	127	38	28	6	25	1.81
26112310--26112334	13	1.9	13	100	0	50	16	52	16	16	1.76
26127384--26127423	21	2.0	21	85	5	55	32	12	10	45	1.75
26130171--26130215	21	2.1	21	100	0	90	20	22	17	40	1.92
26130612--26130824	113	1.9	113	87	2	311	43	17	10	28	1.82
26134856--26134885	2	15.0	2	92	0	51	50	3	0	46	1.18

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