genome.fa.s4.2.7.7.80.10.50.1000.53.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  53  of  82  ( 9773 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)
19435494--19435755	114	2.3	114	83	0	335	36	16	17	29	1.92
19435500--19435840	183	1.9	183	84	1	459	36	16	18	28	1.93
19435758--19435846	45	2.0	45	88	0	133	33	20	19	26	1.96
19435832--19435972	31	4.9	29	79	16	143	40	13	16	29	1.87
19435832--19435940	27	4.0	26	82	11	121	39	13	17	29	1.88
19435832--19435972	33	4.8	31	73	18	106	40	13	16	29	1.87
19435938--19436004	29	2.4	28	87	2	89	46	11	7	34	1.69
19440989--19441047	30	2.0	30	83	6	75	40	8	5	45	1.56
19443086--19443148	30	2.1	30	88	5	92	25	25	11	38	1.89
19443116--19443156	21	2.0	21	95	0	73	24	26	12	36	1.91
19443138--19443204	35	1.9	35	90	3	109	26	23	5	43	1.77
19444595--19444635	21	2.0	21	85	0	55	34	7	29	29	1.84
19448435--19448473	21	1.9	20	89	5	60	28	20	10	41	1.85
19448579--19448631	23	2.2	24	86	3	72	26	3	0	69	1.05
19477548--19477616	29	2.4	27	76	11	66	34	1	1	62	1.13
19477823--19477902	29	2.7	29	70	12	74	58	2	5	33	1.33
19481679--19481709	2	15.0	2	93	6	53	48	0	3	48	1.17
19490066--19490148	41	2.0	42	88	2	123	24	20	6	49	1.71
19491128--19491304	90	2.0	90	97	0	336	28	9	11	50	1.69
19494398--19494430	11	2.8	12	86	9	50	57	0	9	33	1.30
19494623--19494694	22	3.2	22	69	11	65	41	1	5	51	1.34
19494720--19494812	44	2.2	44	82	9	120	46	4	0	49	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19494742--19494807	22	3.0	22	68	16	64	45	4	0	50	1.22
19494731--19494835	44	2.5	43	80	10	119	48	4	0	45	1.30
19496051--19496075	2	12.5	2	100	0	50	48	0	0	52	1.00
19499762--19499797	14	2.5	15	86	9	56	61	16	5	16	1.53
19502111--19502144	17	2.1	16	83	5	50	0	0	70	26	0.86
19505320--19505357	18	2.1	18	85	9	51	44	13	5	36	1.66
19516868--19517075	35	5.9	35	86	3	220	45	13	4	36	1.65
19516868--19517078	71	3.0	70	81	4	217	45	13	4	36	1.64
19517056--19517085	13	2.3	13	100	0	60	50	6	0	43	1.28
19519420--19519574	61	2.5	61	89	0	229	23	18	32	25	1.97
19522086--19522132	24	2.0	24	82	0	58	27	10	21	40	1.86
19524502--19524543	2	21.0	2	100	0	84	50	0	0	50	1.00
19525346--19525379	1	34.0	1	87	0	50	2	94	2	0	0.38
19528481--19528510	15	1.9	16	93	6	53	90	6	3	0	0.56
19533780--19533810	12	2.7	12	95	5	55	35	0	0	64	0.94
19533781--19533820	15	3.0	14	86	13	50	37	0	0	62	0.95
19534816--19534865	2	26.5	2	88	11	79	50	0	0	50	1.00
19535201--19535706	269	1.9	269	82	2	640	26	23	17	32	1.96
19535469--19536812	366	3.7	364	74	8	1046	26	23	16	33	1.95
19537255--19538456	640	1.9	632	79	6	1336	25	23	17	33	1.97
19537821--19538967	367	3.1	366	78	7	1074	24	24	18	32	1.97
19544193--19544225	2	16.5	2	100	0	66	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)
19549477--19549519	20	2.1	20	86	4	59	13	0	9	76	1.01
19552939--19553790	86	10.0	86	89	1	1259	40	8	6	44	1.61
19558746--19558802	16	3.2	18	76	14	73	29	10	14	45	1.78
19558735--19558793	16	3.5	16	73	13	55	33	10	15	40	1.81
19558712--19558799	35	2.5	35	88	3	124	32	11	12	43	1.78
19558712--19558823	35	3.1	36	82	7	120	36	10	11	41	1.76
19566203--19566244	22	1.9	22	90	9	68	38	0	0	61	0.96
19568967--19568996	5	6.0	5	92	0	51	16	3	0	80	0.85
19570426--19570475	4	12.5	4	91	0	64	42	0	8	50	1.32
19570426--19570475	10	5.0	10	87	0	64	42	0	8	50	1.32
19570426--19570475	14	3.6	14	94	0	73	42	0	8	50	1.32
19570445--19570487	12	3.4	12	83	6	50	32	2	11	53	1.50
19570656--19570696	21	2.0	20	85	4	55	19	14	2	63	1.41
19573074--19573107	17	2.1	17	88	5	52	38	8	14	38	1.78
19578023--19578056	16	2.1	17	88	5	52	41	5	14	38	1.70
19583504--19583590	43	2.0	43	100	0	174	41	4	4	49	1.44
19586829--19586876	23	2.1	23	84	7	62	66	20	0	12	1.24
19587019--19587059	2	20.5	2	89	0	64	56	0	43	0	0.99
19588096--19588126	16	1.9	16	93	0	53	48	3	0	48	1.17
19589786--19589831	17	2.8	16	81	18	51	26	4	0	69	1.07
19590126--19590165	21	1.9	21	85	10	55	17	7	2	72	1.19
19590121--19590183	13	4.9	13	75	11	67	20	4	1	73	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19591690--19591737	20	2.3	20	80	13	53	14	6	0	79	0.92
19591689--19591738	21	2.4	21	80	6	57	14	6	0	80	0.90
19591734--19591777	13	3.5	13	93	3	72	15	0	13	70	1.17
19591887--19592324	38	11.8	37	81	4	407	42	18	14	24	1.88
19605328--19605355	12	2.3	12	100	0	56	35	7	0	57	1.26
19620462--19620499	19	2.0	19	94	0	67	28	0	28	42	1.56
19621815--19621856	11	3.6	11	81	15	50	80	0	2	16	0.81
19621805--19621856	21	2.3	22	87	9	70	78	1	1	17	0.93
19623432--19623486	15	3.8	13	80	17	56	78	1	0	20	0.85
19623432--19623482	17	3.2	16	84	13	61	78	1	0	19	0.85
19626416--19626440	13	1.9	13	100	0	50	48	8	0	44	1.32
19634140--19634170	4	7.8	4	100	0	62	25	22	0	51	1.48
19636017--19636213	71	2.7	74	83	2	247	24	18	14	42	1.88
19637513--19637643	65	2.0	65	89	0	199	9	31	10	48	1.71
19642129--19642155	14	1.9	14	100	0	54	7	11	14	66	1.43
19642415--19642443	3	9.7	3	100	0	58	34	0	0	65	0.93
19650181--19650205	13	1.9	13	100	0	50	72	8	0	20	1.10
19655198--19655254	29	1.9	30	82	10	73	31	7	14	47	1.70
19658824--19658941	2	59.0	2	88	6	168	50	1	1	44	1.21
19666110--19666165	28	2.0	28	100	0	112	42	7	10	39	1.67
19666250--19666299	20	2.6	20	84	6	59	60	14	0	26	1.34
19666670--19666709	18	2.2	19	86	4	55	35	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19669534--19669572	12	3.4	11	86	10	51	38	0	2	58	1.12
19670307--19670373	32	2.0	33	85	5	91	73	0	7	19	1.07
19673733--19673770	20	1.9	20	100	0	76	28	5	21	44	1.73
19673823--19673875	28	1.9	27	88	3	79	35	20	16	26	1.94
19677448--19677478	11	2.7	12	90	10	55	29	0	0	70	0.87
19677790--19677824	16	2.2	16	89	0	52	28	11	0	60	1.32
19677467--19678480	407	2.5	408	87	2	1395	38	12	3	45	1.61
19679893--19679923	13	2.3	14	94	5	55	64	0	0	35	0.94
19681516--19681626	46	2.4	48	75	13	115	24	18	13	44	1.85
19687323--19687484	35	4.9	32	75	10	137	35	25	14	24	1.93
19687309--19687484	67	2.6	67	88	1	246	35	26	13	25	1.92
19699152--19699187	14	2.6	14	90	0	54	22	11	25	41	1.86
19699342--19699399	23	2.5	24	81	16	68	31	1	3	63	1.21
19700908--19700947	19	2.0	20	85	4	55	52	2	17	27	1.57
19701414--19701457	11	4.3	11	78	21	51	68	9	22	0	1.18
19710684--19710782	21	4.7	21	74	12	85	23	14	26	36	1.93
19710708--19710833	47	2.8	44	77	8	128	23	12	25	38	1.90
19710708--19710856	47	3.3	47	80	3	126	24	12	24	37	1.91
19710728--19710877	22	6.5	22	65	20	67	24	12	26	36	1.91
19710928--19710989	21	2.9	22	83	7	83	43	20	11	24	1.85
19711825--19712000	88	2.0	89	88	3	266	35	23	11	29	1.90
19723330--19723375	20	2.3	20	85	7	58	50	8	30	10	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19731053--19731085	15	2.2	15	94	0	57	33	12	18	36	1.88
19731148--19731354	28	7.4	27	78	8	186	38	16	15	29	1.90
19731148--19731354	56	3.7	56	83	7	235	38	16	15	29	1.90
19731168--19731354	83	2.2	83	83	10	222	38	16	17	28	1.91
19733557--19733602	19	2.4	19	89	7	67	52	0	2	45	1.13
19733937--19734000	26	2.5	26	92	2	103	31	18	28	21	1.97
19733951--19734006	26	2.2	26	90	0	85	33	17	21	26	1.96
19734030--19734068	20	2.0	20	94	0	69	30	5	17	46	1.70
19762180--19762222	23	1.9	22	85	4	59	20	6	0	72	1.08
19762188--19762251	27	2.4	27	80	17	73	23	6	0	70	1.10

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