genome.fa.s1.2.7.7.80.10.50.1000.35.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  35  of  93  ( 11113 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)
13691713--13691818	40	2.7	38	81	8	126	21	14	38	25	1.91
13693237--13693340	22	4.7	22	73	8	86	40	25	9	25	1.85
13693237--13693340	44	2.4	44	77	3	102	40	25	9	25	1.85
13693433--13693493	22	2.8	22	82	5	70	39	22	14	22	1.91
13695186--13695366	94	1.9	95	88	4	276	40	17	13	28	1.87
13700659--13700701	18	2.5	17	81	7	52	44	9	6	39	1.64
13702332--13702359	3	9.3	3	100	0	56	35	0	0	64	0.94
13738440--13738518	2	41.0	2	85	12	94	44	2	1	50	1.23
13744684--13744744	30	2.1	29	87	6	95	31	11	16	39	1.84
13746150--13746186	20	2.0	20	89	10	60	56	21	18	2	1.54
13749052--13749081	13	2.3	13	94	0	51	3	16	6	73	1.18
13755563--13755600	18	2.1	18	90	9	60	0	13	5	81	0.85
13755563--13755602	17	2.3	18	87	8	57	0	15	5	80	0.88
13755571--13755622	24	2.3	23	87	12	81	0	11	5	82	0.82
13756308--13756332	3	8.3	3	100	0	50	32	0	0	68	0.90
13758236--13758301	26	2.5	26	97	0	123	28	21	16	33	1.95
13765877--13766298	221	1.9	225	82	5	541	51	14	10	23	1.73
13768623--13768721	29	3.5	28	71	14	80	52	0	1	46	1.07
13769011--13769046	18	2.0	18	89	10	56	72	5	2	19	1.17
13771209--13771241	17	1.9	17	93	0	57	54	30	6	9	1.56
13773276--13773303	2	14.0	2	100	0	56	50	0	0	50	1.00
13775287--13775321	2	17.5	2	100	0	70	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13775369--13775403	2	17.5	2	100	0	70	48	0	51	0	1.00
13777267--13777611	124	2.8	124	87	0	458	38	23	16	21	1.93
13777434--13777498	34	1.9	34	84	6	87	36	20	18	24	1.94
13777535--13777610	34	2.2	34	88	0	107	31	27	21	19	1.97
13777544--13777628	34	2.5	34	84	0	89	35	27	18	18	1.95
13777664--13777715	27	1.9	27	84	0	68	32	23	13	30	1.93
13777663--13777721	27	2.2	26	79	8	64	32	22	16	28	1.96
13779625--13779658	11	3.1	11	86	0	50	29	14	23	32	1.94
13779729--13779761	11	2.7	13	81	18	52	39	21	12	27	1.88
13780782--13780841	2	30.0	2	91	6	95	46	1	1	50	1.21
13782301--13782356	6	9.3	6	88	0	85	21	32	0	46	1.52
13782302--13782417	24	4.3	29	72	24	101	17	31	2	49	1.60
13787000--13787068	35	2.0	35	88	0	102	62	5	0	31	1.19
13787936--13788212	90	3.1	89	80	3	243	26	16	35	21	1.95
13787936--13788186	91	2.8	89	81	4	236	26	15	35	22	1.93
13789779--13789956	85	2.1	86	87	3	252	34	12	15	37	1.85
13789927--13789957	12	2.5	13	89	10	55	29	12	25	32	1.93
13790116--13790158	11	3.9	11	84	0	50	32	16	18	32	1.93
13795906--13796031	61	2.1	60	91	2	200	35	3	7	53	1.46
13798928--13798993	2	32.0	2	93	6	114	48	1	1	48	1.20
13808890--13808919	16	1.9	16	93	6	53	40	33	3	23	1.71
13813195--13813331	63	2.2	63	81	2	150	24	15	18	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13817032--13817069	19	2.0	19	94	0	67	28	0	28	42	1.56
13832564--13832662	52	1.9	52	87	0	144	47	13	21	18	1.82
13834934--13834963	13	2.2	14	94	5	53	0	16	0	83	0.65
13835243--13835477	117	2.0	117	94	1	409	25	34	19	20	1.96
13837394--13837437	2	22.5	2	83	4	54	50	2	2	45	1.27
13840450--13840506	2	29.5	2	84	13	75	47	0	1	50	1.11
13840507--13840554	8	5.9	8	79	13	53	75	2	0	22	0.91
13840504--13840543	17	2.4	17	87	8	55	75	0	0	25	0.81
13840512--13840553	13	3.3	13	86	6	59	73	2	0	23	0.94
13840507--13840562	20	2.8	20	81	8	60	75	1	1	21	0.99
13840503--13840553	25	2.1	24	85	3	66	72	1	0	25	0.95
13840507--13840576	33	2.1	33	82	10	81	74	1	2	21	1.03
13840506--13840576	12	5.8	12	76	12	56	74	1	2	21	1.02
13842394--13842569	67	2.6	68	86	5	227	26	11	25	36	1.91
13842449--13842557	32	3.3	32	72	18	107	28	11	24	34	1.91
13842414--13842581	35	5.0	33	70	19	98	27	12	25	35	1.92
13843390--13843424	2	17.5	2	100	0	70	48	0	0	51	1.00
13844373--13844415	23	1.9	23	85	4	61	60	0	0	39	0.97
13846967--13847010	17	2.5	17	82	17	54	43	2	0	54	1.12
13849337--13849537	28	7.0	28	86	8	278	43	8	32	14	1.76
13849843--13849893	26	2.0	26	84	7	68	56	1	3	37	1.29
13850711--13850748	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13863829--13863905	32	2.7	26	75	21	82	46	14	2	36	1.58
13864132--13864227	33	2.9	33	88	0	138	31	25	12	31	1.92
13878492--13878550	24	2.5	24	88	5	84	38	5	20	35	1.75
13882945--13882996	26	2.2	21	69	27	50	46	15	1	36	1.57
13883697--13883742	16	2.9	16	83	0	56	45	10	15	28	1.79
13920513--13920565	28	1.9	27	88	3	79	28	22	18	30	1.98
13920610--13920655	20	2.3	20	92	0	74	45	19	6	28	1.75
13921741--13921793	15	3.6	14	82	10	61	1	20	0	77	0.87
13925782--13925811	15	2.0	15	93	0	51	53	3	20	23	1.60
13927168--13927202	17	2.1	17	89	5	54	62	0	2	34	1.10
13932768--13932859	32	2.9	32	78	12	107	33	19	22	23	1.97
13944122--13944182	30	2.0	30	90	6	97	27	14	18	39	1.90
13946227--13946347	60	2.0	59	90	3	197	55	6	4	33	1.45
13946367--13946410	23	2.0	22	81	4	52	43	4	4	47	1.44
13946489--13946594	45	2.2	49	83	11	132	43	4	0	50	1.29
13946549--13946602	18	2.9	18	86	5	72	46	1	1	50	1.23
13947604--13947784	67	2.7	66	83	3	202	39	13	17	29	1.88
13949535--13949570	16	2.2	17	90	5	56	16	11	0	72	1.12
13951178--13951217	19	2.1	19	95	0	71	27	10	15	47	1.77
13955543--13955594	24	2.2	24	86	6	70	46	9	7	36	1.66
13956789--13956842	14	3.7	14	78	9	63	20	12	27	38	1.89
13956790--13956850	14	4.2	14	79	8	59	16	13	27	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13969847--13969906	30	2.1	29	81	6	68	31	8	21	38	1.83
13980769--13980803	15	2.3	15	90	0	52	65	2	11	20	1.37
13987413--13987459	2	23.5	2	100	0	94	48	0	0	51	1.00
13990196--13990794	298	2.0	297	82	3	722	28	14	17	38	1.90
13992813--13992847	18	1.9	18	100	0	70	34	22	17	25	1.96
13996852--13996910	18	3.3	18	79	13	59	74	0	3	22	0.96
13997012--13997052	21	1.9	22	90	5	66	68	0	2	29	1.03
14001972--14002008	2	18.5	2	88	0	56	45	2	0	51	1.15
14006817--14006862	20	2.3	20	88	7	67	32	4	17	45	1.68
14018880--14018948	3	23.0	3	100	0	138	33	0	0	66	0.92
14020360--14020407	25	1.9	25	100	0	96	56	16	10	16	1.67
14021522--14021577	28	2.0	29	89	3	87	50	17	10	21	1.77
14022258--14022295	20	2.0	20	85	15	53	42	13	10	34	1.78
14027384--14027709	162	2.0	163	92	1	548	44	14	11	29	1.80
14029076--14029273	102	1.9	102	88	2	299	26	12	23	37	1.91
14029884--14029944	30	2.0	30	100	0	122	22	18	29	29	1.97
14030584--14030978	111	3.5	111	88	2	538	17	11	25	45	1.82
14030865--14030907	22	2.0	22	85	0	59	16	11	20	51	1.75
14030584--14031088	111	4.4	117	85	4	532	18	12	25	44	1.84
14040787--14040841	23	2.4	23	75	0	56	34	20	12	32	1.90
14041115--14041167	26	2.0	26	92	0	88	60	7	11	20	1.55
14044728--14044772	23	2.0	23	82	8	56	37	26	11	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14047432--14047551	24	5.1	24	75	9	95	38	22	18	20	1.93
14047387--14047756	69	5.4	69	78	8	367	36	21	18	23	1.95
14047519--14047741	45	4.9	45	81	5	232	35	22	18	22	1.96
14047497--14047695	93	2.1	93	85	0	263	37	22	17	22	1.94
14047382--14047756	138	2.7	137	83	4	425	36	21	18	24	1.95
14052664--14052721	25	2.3	27	82	14	70	36	22	6	34	1.81
14055394--14055423	12	2.6	11	90	10	51	10	0	0	90	0.47
14059899--14059958	29	2.1	29	96	0	111	10	10	23	56	1.62
14060218--14060259	19	2.2	20	87	8	61	59	4	0	35	1.19
14060241--14060265	13	1.9	13	100	0	50	72	4	0	24	1.02

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