genome.fa.s3.2.7.7.80.10.50.1000.19.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:  36364294

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   

This is table  19  of  91  ( 10898 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)
6231382--6231435	20	2.8	20	88	2	83	25	1	40	31	1.66
6242679--6242840	43	3.8	43	88	0	207	23	34	17	24	1.96
6251209--6251236	2	14.0	2	100	0	56	50	0	0	50	1.00
6256926--6257075	63	2.4	63	78	3	160	43	14	17	24	1.87
6257501--6257635	28	4.8	28	83	3	155	30	12	25	31	1.93
6257496--6257635	56	2.5	56	81	6	176	31	12	25	30	1.92
6263258--6263316	22	2.7	22	86	0	64	23	22	23	30	1.99
6267751--6267791	19	2.1	20	90	4	66	75	0	21	2	0.92
6267753--6267791	14	2.7	14	88	4	51	74	0	23	2	0.94
6274489--6274529	18	2.3	18	86	0	55	29	12	17	41	1.85
6276073--6276145	36	2.0	37	89	2	112	34	13	21	30	1.92
6276112--6276246	28	4.8	28	81	3	155	28	14	25	31	1.94
6278805--6278975	42	4.0	42	86	0	198	25	19	32	22	1.97
6282445--6282482	2	19.0	2	100	0	76	50	0	0	50	1.00
6297880--6297910	4	7.8	4	100	0	62	25	0	22	51	1.48
6298352--6298381	2	15.0	2	100	0	60	50	0	0	50	1.00
6298615--6298679	30	2.2	30	97	0	121	33	13	4	47	1.64
6304345--6304374	2	15.0	2	100	0	60	50	0	0	50	1.00
6304608--6304672	30	2.2	30	97	0	121	33	13	4	47	1.64
6310445--6310565	65	1.9	64	85	1	170	28	15	21	33	1.94
6311164--6311212	10	4.9	10	94	0	80	46	0	20	32	1.51
6311164--6311212	20	2.5	20	93	0	89	46	0	20	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6314648--6314731	28	3.0	28	72	8	80	36	5	25	32	1.80
6320787--6320891	36	2.9	36	85	1	138	33	22	14	29	1.94
6326031--6326149	42	2.8	42	92	0	193	23	23	31	21	1.98
6326485--6326691	60	3.5	60	85	1	263	27	19	20	32	1.97
6333870--6333994	42	3.0	42	90	0	187	22	22	32	22	1.98
6334329--6334476	60	2.5	60	84	0	188	27	18	20	33	1.96
6348412--6348458	23	2.1	23	84	4	60	44	0	4	51	1.21
6348464--6348521	26	2.5	22	86	11	71	51	0	1	46	1.11
6348670--6348717	24	2.0	24	91	0	78	39	6	16	37	1.74
6349521--6349558	19	2.0	19	100	0	76	26	0	31	42	1.56
6354630--6355001	187	2.0	185	99	0	726	27	21	13	36	1.92
6355698--6355741	22	2.0	22	95	0	79	40	20	9	29	1.83
6363422--6363465	22	2.0	22	90	0	70	29	9	22	38	1.85
6367281--6367319	19	2.1	18	90	4	60	48	0	0	51	1.00
6375143--6375307	82	2.0	82	84	4	217	27	21	21	29	1.99
6376821--6376858	18	2.1	18	85	9	51	47	10	0	42	1.38
6379641--6379672	15	2.1	15	94	0	55	18	3	37	40	1.67
6380027--6380079	20	2.7	20	100	0	106	35	18	9	35	1.84
6381199--6381254	28	2.0	28	86	3	78	35	12	8	42	1.74
6382973--6383074	39	2.6	39	84	6	143	24	36	15	23	1.94
6383497--6383587	36	2.7	33	82	12	114	21	41	15	20	1.89
6384281--6384324	15	3.1	15	78	18	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6384383--6384475	22	4.4	21	71	16	75	39	1	2	56	1.18
6384286--6384589	82	3.8	78	71	17	210	41	0	2	55	1.19
6384333--6384520	64	3.0	64	74	14	212	38	1	2	58	1.17
6384668--6384725	26	2.2	26	87	6	80	44	0	1	53	1.10
6384681--6384719	20	2.0	20	90	10	62	43	0	0	56	0.99
6384651--6384716	12	5.3	12	70	20	55	42	0	1	56	1.08
6384457--6384725	116	2.3	117	79	8	300	39	0	3	56	1.20
6384685--6384740	26	2.2	26	83	3	78	48	0	0	51	1.00
6384918--6384978	19	3.1	19	72	15	52	44	1	4	49	1.33
6384962--6384992	16	1.9	16	93	0	53	45	0	3	51	1.17
6384917--6384989	22	3.5	21	73	17	71	43	1	4	50	1.29
6384936--6384998	19	3.2	19	70	18	56	46	1	3	49	1.27
6386120--6386172	28	1.9	27	88	3	79	33	20	18	26	1.96
6390653--6390677	13	1.9	13	100	0	50	44	0	8	48	1.32
6392601--6392638	19	2.0	19	94	0	67	0	28	0	71	0.87
6392610--6392645	15	2.3	15	95	4	63	0	30	0	69	0.89
6397257--6397286	2	15.0	2	92	0	51	0	0	46	53	1.00
6397356--6397801	233	1.9	233	81	3	540	20	10	24	44	1.82
6399035--6399094	30	2.1	29	81	6	68	30	8	23	38	1.84
6406002--6406041	20	2.0	20	85	9	55	35	12	17	35	1.88
6417575--6417682	35	3.1	35	86	1	144	47	14	4	33	1.65
6420638--6420746	34	3.1	34	86	2	128	40	13	8	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6423111--6423160	25	2.0	24	85	14	66	18	28	12	42	1.85
6423126--6423206	26	3.1	26	81	8	94	16	25	14	43	1.86
6423207--6423252	5	9.6	5	90	4	69	0	21	0	78	0.76
6432872--6433239	179	2.0	181	85	5	496	32	16	13	38	1.86
6434313--6434554	35	6.9	35	76	6	195	42	15	7	34	1.75
6434336--6434554	71	3.1	71	74	5	223	43	14	7	34	1.73
6438018--6438045	2	14.0	2	100	0	56	50	0	0	50	1.00
6469753--6469823	27	2.6	27	81	0	97	23	21	29	25	1.99
6470036--6470070	18	1.9	18	88	0	52	37	0	5	57	1.23
6474673--6474755	35	2.4	35	83	0	94	21	10	15	51	1.74
6489576--6489607	15	2.3	15	89	10	50	34	0	3	62	1.11
6490025--6490068	18	2.4	18	88	0	61	40	2	9	47	1.48
6490025--6490081	10	5.8	10	83	4	62	38	1	10	49	1.48
6491526--6491584	19	3.2	19	74	13	68	33	6	0	59	1.24
6508280--6508342	26	2.5	26	75	17	69	34	0	0	65	0.93
6509816--6509868	19	2.8	18	81	15	63	33	0	3	62	1.13
6513826--6513866	19	2.2	19	86	0	55	51	4	0	43	1.23
6514901--6514995	34	2.8	34	79	4	102	27	10	29	32	1.90
6517999--6518031	8	4.0	8	92	7	57	60	0	0	39	0.97
6517996--6518035	17	2.4	17	100	0	80	60	0	0	40	0.97
6519101--6519183	34	2.4	34	84	4	105	25	8	30	36	1.85
6520424--6520472	10	5.1	9	80	9	53	0	26	2	71	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6520425--6520472	19	2.6	19	75	15	55	0	27	2	70	0.98
6520637--6520728	34	2.6	35	81	3	114	35	26	9	28	1.88
6521059--6521083	13	1.9	13	100	0	50	24	40	12	24	1.88
6522711--6522770	19	3.1	19	78	9	59	0	38	3	58	1.15
6523168--6523220	14	3.6	14	76	14	54	9	20	0	69	1.15
6525169--6525262	34	2.8	34	85	6	102	34	29	7	28	1.85
6530325--6530365	20	2.0	20	95	0	73	41	0	14	43	1.45
6530334--6530383	25	2.0	25	84	7	66	44	0	20	36	1.52
6533632--6533678	2	24.0	2	87	12	71	48	0	2	48	1.13
6533713--6533761	2	24.5	2	100	0	98	48	0	0	51	1.00
6533632--6533794	83	2.0	81	96	3	292	43	4	10	40	1.60
6534829--6534871	19	2.3	19	88	4	70	51	0	4	44	1.22
6535230--6535281	16	3.3	15	82	12	61	67	0	3	28	1.08
6535432--6535484	13	3.9	14	82	9	65	71	1	26	0	0.96
6535448--6535486	20	2.0	20	89	0	60	71	0	28	0	0.86
6535432--6535493	15	4.3	15	78	11	67	70	1	27	0	0.96
6535570--6535688	51	2.4	49	87	8	177	47	6	44	0	1.35
6535582--6535761	77	2.4	76	73	13	174	55	3	40	1	1.26
6535659--6535715	28	2.0	28	90	6	89	35	7	54	3	1.45
6535725--6535775	16	3.2	16	78	15	61	80	0	19	0	0.71
6535721--6535775	20	3.1	17	82	17	67	80	0	20	0	0.72
6535725--6535777	6	9.2	6	81	10	58	79	0	20	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6535713--6535775	26	2.4	25	84	10	74	77	0	22	0	0.76
6535773--6535825	25	2.1	25	85	0	70	45	11	30	13	1.78
6542782--6542826	20	2.3	19	84	7	54	6	22	6	64	1.41
6543078--6543142	30	2.2	30	83	5	80	43	16	7	32	1.77
6543653--6543695	20	2.2	20	95	0	77	44	0	13	41	1.44
6543660--6543706	20	2.4	19	86	10	67	40	0	17	42	1.49
6563936--6564026	42	2.2	42	88	4	130	28	19	29	21	1.98
6566989--6567023	2	17.5	2	100	0	70	51	0	0	48	1.00
6569501--6569577	38	2.0	38	97	0	145	44	12	5	37	1.66
6579336--6579439	38	2.7	40	80	6	122	22	39	16	22	1.92

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