genome.fa.s9.2.7.7.80.10.50.1000.2.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   94   95   96   
          97   

This is table  2  of  97  ( 11551 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)
88358--88385	4	7.0	4	100	0	56	25	0	0	75	0.81
100683--100724	6	7.2	6	86	5	59	19	16	35	28	1.93
109247--109271	6	4.2	6	100	0	50	64	0	36	0	0.94
110057--110092	3	12.0	3	90	0	54	0	36	2	61	1.11
111014--111051	19	2.0	19	90	10	60	52	5	2	39	1.38
117147--117228	2	41.0	2	86	4	103	42	0	6	50	1.27
117344--117446	38	2.6	40	84	3	138	24	15	36	23	1.93
119266--119303	20	1.9	20	88	0	58	23	18	5	52	1.65
121123--121190	33	2.1	33	100	0	136	29	17	29	23	1.97
125010--125101	30	3.1	29	80	3	94	40	6	11	41	1.68
125128--125157	15	1.9	16	93	6	53	40	3	3	53	1.34
131745--131831	2	43.0	2	88	6	131	49	1	0	48	1.08
144229--144254	2	13.0	2	100	0	52	50	0	0	50	1.00
157375--157440	32	2.1	32	85	0	87	36	21	15	27	1.93
161392--161453	33	2.0	31	84	9	81	40	14	8	37	1.76
180797--180874	29	2.6	31	78	13	92	53	0	0	46	1.00
182111--182141	3	10.3	3	100	0	62	67	0	0	32	0.91
185475--185511	2	18.5	2	100	0	74	51	0	0	48	1.00
201468--201537	29	2.3	29	83	9	79	64	0	4	31	1.13
202790--202818	6	4.8	6	100	0	58	0	17	34	48	1.47
214721--214749	2	14.5	2	100	0	58	48	0	0	51	1.00
217448--217474	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219219--219245	2	13.5	2	100	0	54	51	0	0	48	1.00
219284--219325	2	21.0	2	90	0	66	47	2	0	47	1.15
219316--219400	45	1.9	44	95	2	152	49	10	11	28	1.72
223673--223719	21	2.2	21	96	0	85	17	14	29	38	1.89
224964--225016	2	26.5	2	100	0	106	50	0	0	49	1.00
249752--249785	2	17.0	2	100	0	68	50	0	0	50	1.00
251757--251796	2	21.5	2	82	14	50	52	0	0	47	1.00
251757--251796	13	3.2	13	86	10	57	52	0	0	47	1.00
251750--251797	15	3.4	13	76	18	51	54	2	0	43	1.12
251757--251799	11	4.1	11	79	11	54	53	0	0	46	1.00
273513--275011	402	3.7	402	77	4	1598	29	23	17	29	1.97
273448--275070	810	2.0	810	94	0	2814	29	24	16	29	1.97
279348--279392	24	1.9	23	81	4	54	42	11	20	26	1.85
279520--279692	86	2.0	86	100	0	346	28	13	16	41	1.87
311286--311317	2	16.0	2	93	0	55	3	0	50	46	1.17
316218--316269	19	2.7	20	80	14	63	34	0	0	65	0.93
316217--316265	18	2.5	19	87	9	64	30	0	0	69	0.89
322930--322955	2	13.0	2	100	0	52	50	0	0	50	1.00
339850--339880	16	1.9	16	93	0	53	38	3	12	45	1.59
364540--364589	25	2.0	25	100	0	100	60	8	12	20	1.57
367390--367422	3	11.0	3	93	0	57	63	0	3	33	1.10
367864--367945	23	3.5	23	75	20	71	51	1	2	45	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368575--368664	20	4.7	20	68	15	64	57	2	0	40	1.11
368847--368903	18	3.2	18	82	0	78	52	15	7	24	1.67
373468--373492	2	12.5	2	100	0	50	0	0	48	52	1.00
380198--380222	2	12.5	2	100	0	50	52	0	48	0	1.00
387152--387181	13	2.3	13	94	0	51	33	16	13	36	1.88
414415--414446	6	5.3	6	100	0	64	34	50	0	15	1.45
415437--415464	3	9.3	3	100	0	56	32	0	32	35	1.58
416295--416324	3	10.0	3	100	0	60	33	0	66	0	0.92
417223--417403	81	2.2	81	82	3	213	46	9	3	40	1.54
450384--450412	12	2.3	13	94	5	51	17	24	13	44	1.85
456202--456231	15	1.9	16	93	6	53	30	0	10	60	1.30
474076--474110	14	2.6	14	86	4	54	82	14	0	2	0.77
483121--483183	28	2.3	27	81	10	74	36	6	4	52	1.48
498178--498467	99	3.0	96	96	3	553	39	7	12	40	1.71
499085--499118	12	2.8	12	83	16	52	76	0	23	0	0.79
499467--499505	2	20.0	2	94	5	71	48	0	0	51	1.00
516440--516511	32	2.2	32	97	0	135	31	20	9	37	1.85
517180--517266	31	2.8	32	85	1	104	29	27	16	26	1.96
519860--519891	2	16.0	2	100	0	64	50	0	0	50	1.00
533187--533239	16	3.3	16	75	0	61	41	7	5	45	1.56
540014--540066	16	3.3	16	72	0	52	41	9	5	43	1.61
544583--544672	3	30.7	3	71	18	57	26	2	0	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544582--544689	36	2.9	36	79	10	112	23	2	0	74	0.95
553053--553104	15	3.3	15	77	15	59	26	0	15	57	1.38
559465--559650	55	3.4	54	81	3	219	12	15	30	42	1.83
562810--563104	156	1.9	156	89	0	455	29	19	18	32	1.96
562810--563149	156	2.2	156	84	1	421	29	18	17	34	1.94
564799--565141	31	11.1	31	85	1	384	36	22	16	24	1.94
565668--565768	53	1.9	53	91	0	166	26	29	18	24	1.98
565756--566255	47	10.4	47	78	5	500	22	34	16	27	1.95
565766--566255	197	2.6	188	82	5	584	22	34	15	27	1.95
565797--566257	244	1.9	244	85	0	645	22	34	15	27	1.95
568339--568376	16	2.4	16	80	20	53	65	2	5	26	1.27
568518--568550	7	4.7	7	100	0	66	0	12	0	87	0.53
571663--571690	2	14.0	2	100	0	56	50	0	0	50	1.00
582475--582512	10	4.1	9	87	12	51	65	0	0	34	0.93
588186--588263	40	2.0	40	87	5	113	20	21	21	35	1.96
598477--598549	21	3.4	21	77	11	67	47	0	0	52	1.00
606349--606410	8	7.9	8	79	13	58	48	0	1	50	1.10
606349--606415	15	4.4	14	73	15	62	49	0	1	49	1.10
606377--606443	26	2.6	26	83	6	84	44	0	1	53	1.09
606465--606506	11	4.1	10	79	14	50	4	9	0	85	0.72
622549--622585	3	12.3	3	100	0	74	32	0	0	67	0.91
626536--626600	21	3.0	21	74	17	62	43	0	1	55	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626536--626623	23	3.8	23	69	24	60	42	0	1	56	1.06
645236--645263	2	14.0	2	100	0	56	0	0	50	50	1.00
645303--645328	2	13.0	2	100	0	52	0	0	50	50	1.00
645508--645537	3	10.0	3	100	0	60	66	0	33	0	0.92
661501--661539	10	3.8	10	80	6	51	58	5	2	33	1.33
674919--674965	2	23.5	2	100	0	94	48	0	0	51	1.00
677074--677104	3	10.3	3	100	0	62	67	0	0	32	0.91
687191--687270	40	2.0	40	83	9	101	41	3	0	55	1.18
692810--693018	108	2.0	101	85	8	278	22	14	17	44	1.85
697025--697210	95	2.0	94	84	3	248	26	15	22	34	1.94
703739--703826	42	2.1	42	89	4	133	28	15	21	34	1.94
725481--726047	281	2.0	281	94	0	983	43	14	12	29	1.82
744484--744593	54	2.0	54	94	3	195	30	22	23	23	1.99
761435--761483	23	2.1	23	84	0	62	61	6	0	32	1.21
765240--765268	13	2.1	14	93	6	51	62	0	0	37	0.96
775119--775145	3	9.0	3	100	0	54	66	0	0	33	0.92
776987--777139	79	2.0	74	92	7	245	20	13	9	56	1.63
777486--777549	31	2.1	30	82	8	76	51	18	20	9	1.73
778702--778730	2	14.5	2	100	0	58	51	0	48	0	1.00
784904--785163	129	2.0	128	92	2	432	25	22	23	28	1.99
825699--825724	2	13.0	2	100	0	52	50	0	50	0	1.00
834315--834719	164	2.5	162	79	7	433	27	16	14	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
834302--834871	164	3.5	159	76	11	400	29	16	13	40	1.87
834756--835365	155	4.0	154	85	4	740	31	14	11	41	1.82
847107--847148	21	1.9	23	90	9	70	30	2	0	66	1.04
848502--848532	3	10.3	3	100	0	62	0	0	64	35	0.94
849797--849830	2	17.0	2	100	0	68	0	50	0	50	1.00
852664--852769	55	1.9	56	84	9	146	31	5	0	62	1.25
855421--855454	2	17.0	2	93	0	59	47	2	50	0	1.16
855538--855566	6	4.8	6	100	0	58	0	13	17	68	1.20
862682--862787	53	2.0	53	98	0	203	29	26	19	24	1.99
868625--868692	15	4.3	15	72	27	61	52	0	0	47	1.00

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   94   95   96   
          97