genome.fa.s1.2.7.7.80.10.50.1000.21.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  21  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)
9284665--9284733	21	3.3	20	82	6	75	28	30	14	26	1.95
9289155--9289197	21	2.1	20	95	4	77	46	0	0	53	1.00
9289388--9289412	13	1.9	13	100	0	50	56	4	0	40	1.18
9289622--9289769	45	3.3	45	77	9	140	35	19	16	27	1.94
9289789--9289903	45	2.6	45	80	0	122	36	11	17	34	1.86
9289499--9289888	160	2.5	159	86	1	505	36	15	17	30	1.91
9289673--9289888	113	1.9	114	79	2	247	37	14	17	30	1.90
9289864--9289942	26	3.1	25	79	13	81	46	11	11	30	1.75
9289931--9290003	29	2.5	30	82	6	78	45	10	8	35	1.69
9292162--9292202	7	5.9	7	100	0	82	0	41	0	58	0.98
9292894--9292953	29	2.1	29	100	0	120	40	6	16	36	1.75
9299596--9299852	102	2.4	106	79	8	294	39	11	8	40	1.72
9299790--9300061	96	2.8	94	77	7	233	39	7	9	43	1.65
9308778--9308822	22	2.0	22	95	4	81	42	8	0	48	1.34
9308920--9309009	29	3.2	28	80	7	103	48	10	10	31	1.69
9308920--9309028	29	3.9	29	78	9	102	51	10	10	28	1.68
9308996--9309052	25	2.3	25	85	11	73	57	8	7	26	1.54
9309081--9309172	27	3.4	27	83	1	121	44	7	11	35	1.70
9319198--9319300	29	3.6	28	74	8	82	46	6	12	33	1.68
9321262--9321349	43	2.0	43	93	0	149	38	14	25	21	1.92
9321600--9321631	2	16.0	2	93	0	55	46	3	0	50	1.17
9321670--9321717	22	2.1	23	84	3	62	50	4	2	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9322327--9322382	25	2.2	25	87	0	76	37	7	16	39	1.76
9325454--9325498	19	2.4	18	85	7	54	48	4	0	46	1.22
9325538--9325603	25	2.7	24	77	9	71	56	4	3	36	1.35
9326594--9326738	48	3.0	48	95	2	256	29	26	4	40	1.75
9329140--9329337	78	2.5	79	84	4	274	35	13	14	36	1.84
9331376--9331479	30	3.5	30	80	5	104	31	6	11	50	1.65
9333941--9334049	55	2.0	55	90	0	173	34	18	2	44	1.64
9360014--9360063	2	25.0	2	95	0	91	48	0	2	50	1.12
9360893--9360969	25	2.9	26	78	9	75	29	1	1	67	1.07
9360903--9360971	25	2.7	25	84	4	84	30	1	0	68	0.99
9361975--9362022	23	2.1	23	96	0	87	37	10	2	50	1.49
9387044--9387113	31	2.3	31	82	0	86	48	1	15	34	1.54
9387773--9387858	31	2.8	31	83	3	93	54	2	9	33	1.45
9393503--9393914	206	2.0	205	97	1	772	35	7	21	35	1.82
9395297--9395328	15	2.1	15	94	0	55	25	3	0	71	1.00
9395308--9395343	18	1.9	19	88	5	56	19	5	0	75	1.00
9416989--9417023	17	2.1	17	88	0	52	31	25	34	8	1.86
9419574--9419743	2	85.5	2	78	8	177	45	5	2	46	1.38
9420090--9420123	17	2.1	17	88	5	52	47	0	0	52	1.00
9420064--9420134	35	2.0	36	86	2	99	50	4	0	45	1.21
9421206--9421296	42	2.2	42	91	0	155	45	28	12	14	1.80
9421564--9421713	78	1.9	80	88	4	232	26	14	3	55	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9427720--9427787	32	2.1	32	89	5	102	36	8	25	29	1.86
9430179--9430247	35	2.0	35	85	0	93	49	18	11	20	1.78
9430415--9430553	71	2.0	71	81	5	165	22	25	6	45	1.76
9432092--9432120	14	2.1	14	100	0	58	37	0	20	41	1.53
9436473--9436505	6	5.5	6	100	0	66	15	0	0	84	0.61
9460360--9460404	6	7.2	6	89	5	63	31	2	2	64	1.18
9461082--9461110	12	2.3	13	94	5	51	55	0	0	44	0.99
9481617--9481700	38	2.3	35	83	6	96	48	1	1	48	1.16
9481620--9481700	35	2.2	38	82	6	96	50	1	1	46	1.17
9481892--9481933	18	2.5	17	81	11	50	40	2	0	57	1.12
9483281--9484204	251	3.7	249	83	3	1074	34	10	5	48	1.62
9486430--9486690	129	2.0	129	88	2	391	24	18	29	27	1.98
9487021--9487314	147	2.0	146	96	0	543	23	21	22	32	1.98
9488871--9489775	251	3.6	250	83	5	1023	34	10	6	49	1.62
9489591--9489964	201	1.9	194	83	4	480	34	9	9	46	1.69
9491234--9491258	13	1.9	13	100	0	50	48	8	0	44	1.32
9492867--9492916	20	2.3	21	80	16	57	38	0	0	62	0.96
9500896--9500923	13	2.2	13	100	0	56	85	0	14	0	0.59
9511942--9511971	6	5.0	6	95	0	51	0	63	0	36	0.95
9517686--9517773	15	6.0	15	67	17	60	51	0	1	47	1.08
9517653--9517760	55	1.9	56	80	12	125	47	0	1	50	1.11
9517954--9517984	16	1.9	16	93	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9517994--9518043	25	2.0	25	84	7	66	40	4	4	52	1.39
9518095--9518142	18	2.5	19	81	18	55	4	16	0	79	0.89
9519404--9519450	19	2.5	19	96	3	87	40	0	0	59	0.97
9519403--9519458	18	3.2	18	79	18	64	42	0	0	57	0.99
9520270--9520300	16	1.9	16	93	0	53	19	3	9	67	1.33
9522116--9522521	120	3.2	125	74	14	349	39	3	10	46	1.55
9522502--9522553	20	2.5	21	81	3	61	48	0	7	44	1.31
9522448--9522586	75	1.9	73	83	7	183	38	2	10	48	1.49
9528503--9528563	29	2.1	29	87	9	88	39	4	11	44	1.62
9533667--9533716	26	1.9	26	83	0	64	22	6	12	60	1.53
9545244--9545286	17	2.5	18	81	11	54	27	2	0	69	1.00
9551141--9551189	25	2.0	25	84	8	64	48	2	0	48	1.12
9552947--9553047	30	3.4	30	85	5	127	55	1	4	37	1.33
9554780--9554986	29	7.3	30	74	13	165	33	11	12	42	1.78
9554793--9554907	31	3.8	31	83	4	171	33	13	12	40	1.82
9554778--9554904	60	2.1	60	95	0	227	35	12	11	40	1.80
9554947--9555045	50	2.0	50	91	0	162	37	17	13	32	1.88
9555054--9555189	24	5.7	24	80	3	157	21	15	21	41	1.89
9555063--9555189	48	2.6	48	86	2	184	20	15	22	40	1.90
9555050--9555186	72	1.9	72	86	3	195	20	14	21	43	1.88
9556030--9556176	71	2.1	72	81	8	167	61	2	4	31	1.31
9557129--9557172	15	2.9	15	82	3	61	38	20	4	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9558768--9558810	2	21.5	2	90	0	68	48	4	0	46	1.22
9566375--9566789	221	1.9	221	94	0	731	35	15	11	36	1.85
9566804--9566932	66	2.0	63	96	3	231	20	17	11	50	1.76
9568877--9568962	25	3.5	25	71	12	70	16	11	1	70	1.21
9571198--9571613	218	1.9	217	83	2	530	30	18	16	33	1.94
9571943--9572014	35	2.1	35	91	0	117	12	40	1	45	1.50
9574277--9574302	2	13.0	2	100	0	52	0	50	0	50	1.00
9574828--9574852	2	12.5	2	100	0	50	48	0	0	52	1.00
9576469--9576495	3	9.0	3	100	0	54	0	33	0	66	0.92
9577159--9577183	12	2.1	12	100	0	50	76	0	24	0	0.80
9577207--9577255	21	2.3	21	79	6	55	65	0	26	8	1.20
9595271--9595299	15	1.9	15	100	0	58	31	6	27	34	1.83
9595502--9595663	26	6.2	25	66	14	69	28	3	1	67	1.13
9595516--9595579	29	2.2	30	83	8	87	28	1	0	70	0.97
9595567--9595683	26	4.3	26	77	13	110	28	2	1	67	1.13
9595618--9595670	20	2.5	21	85	11	65	24	1	1	71	1.06
9595518--9595672	7	22.4	7	68	18	51	28	2	0	68	1.07
9595618--9595683	20	3.6	19	70	29	63	24	1	3	71	1.09
9609349--9609395	19	2.3	20	82	7	60	59	0	2	38	1.09
9610522--9610559	2	19.0	2	100	0	76	50	0	0	50	1.00
9616946--9620859	800	4.9	800	99	0	7783	32	17	25	24	1.97
9624390--9624424	17	2.1	17	100	0	70	22	11	5	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9625798--9625829	13	2.5	13	94	0	55	15	0	0	84	0.63
9627553--9627601	22	2.1	23	85	7	64	16	6	4	73	1.19
9628023--9628078	22	2.6	23	76	15	57	37	1	3	57	1.27
9628423--9628667	134	1.8	134	89	3	386	48	8	7	35	1.62
9628735--9628774	16	2.6	15	92	7	71	75	0	15	10	1.05
9632725--9632750	3	8.7	3	100	0	52	69	0	0	30	0.89
9636554--9636618	31	2.1	31	82	0	76	24	1	6	67	1.22
9637210--9637289	39	2.0	40	82	2	99	42	23	17	16	1.88
9638774--9638853	39	2.0	40	87	2	117	35	23	22	18	1.96
9647409--9647436	3	9.3	3	100	0	56	32	0	0	67	0.91

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