genome.fa.s7.2.7.7.80.10.50.1000.75.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:  26558743

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   

This is table  75  of  79  ( 9388 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)
24988391--24988438	3	16.0	3	100	0	96	66	0	0	33	0.92
24989212--24989250	15	2.6	16	84	12	55	43	0	2	53	1.14
24995051--24995124	31	2.6	26	74	24	69	44	1	1	52	1.17
24998180--24998221	21	2.0	21	86	13	59	35	0	0	64	0.94
25004027--25004076	21	2.3	22	86	6	66	42	2	0	56	1.11
25004027--25004076	22	2.4	21	81	15	59	42	2	0	56	1.11
25004733--25005248	255	2.0	256	99	0	1025	55	12	8	23	1.64
25006532--25006596	28	2.3	28	84	7	87	18	7	1	72	1.17
25020093--25020124	14	2.3	15	89	10	50	62	0	0	37	0.95
25020105--25020161	20	2.8	20	94	5	96	57	1	0	40	1.09
25025811--25025849	3	12.7	3	89	5	60	30	0	2	66	1.05
25035538--25035572	14	2.5	14	90	9	54	28	8	14	48	1.73
25037721--25037776	21	2.7	21	94	5	96	28	10	33	26	1.90
25039399--25039443	18	2.6	17	77	19	56	62	2	2	33	1.20
25047714--25047881	56	3.0	56	100	0	336	30	21	8	39	1.84
25064538--25064581	3	14.7	3	100	0	88	65	0	0	34	0.93
25068330--25068403	31	2.4	31	86	0	103	24	24	20	31	1.98
25068408--25068445	20	1.9	20	89	10	60	47	7	0	44	1.32
25070961--25070997	18	2.1	18	89	0	56	45	8	0	45	1.32
25070966--25071001	6	6.0	6	93	0	54	50	5	0	44	1.25
25074455--25074479	11	2.3	11	100	0	50	68	0	0	32	0.90
25080249--25080287	14	2.5	15	84	16	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25087237--25087295	30	2.0	29	83	3	73	28	10	11	49	1.72
25095175--25095251	29	2.5	30	81	6	84	31	10	16	41	1.82
25095428--25095483	29	1.9	29	89	7	87	46	10	5	37	1.62
25098594--25098619	2	13.0	2	100	0	52	50	0	0	50	1.00
25109713--25109750	2	19.0	2	100	0	76	50	0	0	50	1.00
25109763--25109813	24	2.2	23	85	3	66	37	1	7	52	1.42
25110563--25110624	27	2.3	27	81	13	74	51	4	1	41	1.33
25110560--25110666	10	11.1	9	69	20	58	54	3	2	39	1.33
25112390--25112557	59	2.8	59	88	1	212	39	14	22	23	1.91
25115282--25115366	33	2.8	29	77	19	93	36	7	14	42	1.72
25119074--25119113	21	1.9	21	84	0	53	40	25	10	25	1.86
25119076--25119125	14	3.6	14	80	0	55	38	24	12	26	1.90
25119204--25119249	20	2.2	21	88	3	67	23	4	32	39	1.75
25120210--25120240	9	3.4	9	90	0	53	38	22	12	25	1.90
25121025--25121064	21	2.0	20	85	9	55	47	7	0	45	1.31
25123026--25123060	6	5.8	6	86	0	52	68	0	2	28	1.04
25131795--25131840	24	1.9	24	82	8	58	4	58	2	34	1.30
25135870--25136414	2	272.5	2	100	0	1090	49	0	0	50	1.00
25137625--25137666	15	2.8	15	85	7	50	23	4	4	66	1.30
25152941--25153277	125	2.7	126	87	1	498	29	16	16	37	1.91
25153605--25153645	20	2.0	20	90	0	64	12	46	14	26	1.80
25153872--25154020	60	2.5	59	81	6	149	32	0	11	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25154457--25154508	15	3.4	15	94	5	95	36	0	5	57	1.23
25154455--25154506	16	3.3	16	94	5	97	36	0	5	57	1.23
25159967--25160056	27	3.3	27	83	6	101	21	32	24	22	1.98
25160117--25160224	49	2.2	49	91	1	171	48	11	14	25	1.77
25160468--25160558	34	2.7	34	96	0	164	41	16	1	40	1.55
25161528--25161621	48	2.0	48	97	0	179	46	9	4	39	1.56
25174593--25174647	26	2.1	26	100	0	110	21	27	27	23	1.99
25176976--25177041	26	2.5	26	78	9	80	34	9	21	34	1.85
25183077--25183116	17	2.2	18	86	8	55	22	0	2	75	0.93
25188773--25188903	66	2.0	67	84	4	176	33	13	6	46	1.68
25188773--25188911	67	2.1	67	82	5	165	35	12	5	46	1.66
25198123--25198147	2	12.5	2	100	0	50	48	0	0	52	1.00
25199050--25199089	18	2.2	18	86	8	55	22	0	22	55	1.44
25202675--25202740	26	2.5	27	77	2	71	15	24	22	37	1.92
25210276--25210306	14	2.2	14	94	0	53	38	0	12	48	1.42
25214939--25215009	36	2.0	36	85	0	97	30	7	19	42	1.78
25219208--25219275	12	6.1	10	86	11	64	16	0	4	79	0.89
25219215--25219275	6	10.5	6	91	1	90	16	0	3	80	0.84
25220247--25220286	9	4.4	9	84	12	55	80	0	20	0	0.72
25220247--25220288	5	9.2	5	89	10	56	78	0	21	0	0.75
25221999--25222029	14	2.2	14	94	0	53	38	0	12	48	1.42
25223309--25223379	26	2.7	26	84	2	97	14	26	22	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25225575--25225609	14	2.5	14	100	0	70	28	28	0	42	1.56
25232979--25233011	5	6.6	5	92	0	57	0	24	0	75	0.80
25233055--25233083	15	2.0	15	93	6	51	0	37	0	62	0.96
25233678--25233721	23	2.0	23	86	4	63	47	4	13	34	1.63
25237976--25238020	17	2.6	17	80	16	56	20	2	2	75	1.01
25237976--25238020	9	5.1	9	84	10	58	20	2	2	75	1.01
25243452--25243517	28	2.4	27	78	16	73	46	4	13	34	1.64
25248029--25248097	29	2.3	30	75	7	70	33	8	15	42	1.78
25250372--25250400	14	2.0	15	93	6	51	68	0	3	27	1.05
25250577--25250620	10	4.2	10	80	11	52	40	0	0	59	0.98
25255014--25255070	27	2.2	26	87	9	82	19	8	17	54	1.68
25279399--25279431	15	2.2	15	100	0	66	27	6	12	54	1.60
25282167--25282212	16	2.9	16	84	9	58	26	13	0	60	1.32
25282180--25282215	17	2.1	18	94	5	65	30	13	0	55	1.39
25291065--25292202	220	5.2	220	98	0	2186	27	22	24	25	2.00
25293884--25293929	16	2.9	16	84	9	58	26	13	0	60	1.32
25293897--25293932	17	2.1	18	94	5	65	30	13	0	55	1.39
25296905--25297077	85	2.0	84	89	1	265	26	34	6	31	1.83
25303361--25303519	39	4.3	38	82	14	215	32	7	13	45	1.72
25307385--25307707	45	7.2	45	73	12	281	30	15	24	29	1.96
25307385--25307745	89	4.1	89	89	1	519	30	15	24	29	1.95
25307409--25307745	44	7.6	44	76	5	304	31	14	25	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25307972--25308732	100	7.6	100	92	1	1122	30	20	24	24	1.99
25307976--25308727	50	15.0	50	67	9	316	30	21	24	24	1.99
25310061--25310146	3	28.7	3	82	9	104	32	1	2	63	1.14
25315821--25315879	31	1.9	31	89	0	91	44	0	23	32	1.54
25323824--25323909	29	3.0	29	87	0	127	54	8	3	33	1.47
25324064--25324200	31	4.5	31	89	0	213	36	23	20	19	1.95
25325381--25325581	66	3.1	66	94	1	343	40	9	4	44	1.58
25343864--25343915	24	2.2	24	85	0	68	32	48	5	13	1.66
25343870--25343987	24	4.8	24	74	10	87	38	42	5	13	1.69
25343929--25343963	2	17.5	2	93	0	61	48	48	0	2	1.16
25344933--25345035	54	1.9	54	85	0	143	34	14	20	30	1.92
25347906--25347963	27	2.1	27	81	12	66	46	0	1	51	1.11
25348145--25348189	24	1.9	24	86	4	65	57	2	8	31	1.41
25348422--25348474	3	17.7	3	100	0	106	66	0	0	33	0.92
25351026--25351061	18	2.0	18	89	10	56	55	5	0	38	1.23
25355000--25355031	4	8.0	4	100	0	64	25	25	0	50	1.50
25359371--25359409	19	2.0	19	85	5	51	61	2	0	35	1.10
25361433--25361562	47	2.8	47	80	2	127	26	21	13	37	1.91
25361532--25361700	91	1.9	91	83	5	225	29	20	16	33	1.95
25370472--25370649	88	2.0	88	98	0	347	32	11	17	38	1.86
25375203--25375236	17	2.0	17	100	0	68	41	29	5	23	1.78
25376982--25377025	22	2.0	22	86	8	63	52	4	9	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25377447--25377487	2	20.5	2	89	0	64	43	0	0	56	0.99
25377367--25377640	136	2.0	137	99	0	541	25	9	9	55	1.62
25377583--25377623	2	20.5	2	89	0	64	43	0	0	56	0.99
25384498--25384522	4	6.2	4	100	0	50	24	24	24	28	2.00
25394212--25394522	153	2.0	153	98	1	606	30	17	9	42	1.82
25398919--25400037	557	2.0	558	99	0	2231	38	17	21	23	1.93
25401101--25401125	5	5.0	5	100	0	50	0	20	0	80	0.72
25408340--25408587	69	3.6	69	81	2	257	33	19	21	24	1.97
25408340--25408661	138	2.3	137	80	6	337	32	19	22	25	1.97
25414616--25414642	4	6.8	4	100	0	54	0	0	22	77	0.76

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