genome.fa.s7.2.7.7.80.10.50.1000.34.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  34  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)
11634148--11634177	2	15.0	2	100	0	60	50	0	0	50	1.00
11637445--11637478	16	2.1	16	100	0	68	35	5	11	47	1.65
11638423--11638453	8	3.8	8	95	4	53	90	0	0	9	0.46
11638414--11638453	9	4.4	9	90	9	64	87	2	0	10	0.63
11638414--11638455	17	2.5	17	88	0	66	85	2	0	11	0.68
11642226--11642272	18	2.7	18	80	9	53	23	0	4	72	1.02
11643519--11643564	20	2.2	20	84	3	56	65	15	2	17	1.37
11644125--11644158	17	2.0	17	100	0	68	23	17	17	41	1.90
11651338--11651389	24	2.2	24	85	0	68	48	9	3	38	1.54
11655749--11655800	24	2.2	24	92	0	86	51	9	1	36	1.46
11658528--11658584	27	2.1	27	80	6	62	71	3	8	15	1.24
11663549--11664023	27	17.6	27	82	2	472	35	19	19	25	1.95
11664064--11664146	24	3.5	24	85	4	98	20	6	25	48	1.72
11664317--11664455	32	4.4	32	81	4	165	18	20	22	38	1.93
11664447--11664508	22	2.8	21	73	4	52	19	20	16	43	1.88
11669231--11669257	11	2.5	11	100	0	54	37	25	0	37	1.57
11669778--11669827	13	3.7	13	80	19	50	68	0	6	26	1.13
11673390--11673425	17	2.1	17	94	0	63	27	25	30	16	1.97
11683100--11683134	15	2.3	15	90	0	52	65	5	5	22	1.36
11686277--11686322	17	2.5	19	83	16	62	45	10	0	43	1.39
11686281--11686322	18	2.3	18	88	12	59	50	9	0	40	1.35
11703048--11703164	50	2.3	50	86	2	155	27	24	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11707108--11707168	30	2.0	30	100	0	122	16	32	26	24	1.96
11721078--11721103	10	2.6	10	100	0	52	57	0	42	0	0.98
11723936--11723988	26	2.0	26	92	0	88	33	11	13	41	1.80
11724555--11724613	29	2.0	30	83	3	75	47	6	8	37	1.61
11729255--11729302	25	1.9	25	86	0	69	35	16	18	29	1.93
11735577--11735645	18	3.8	17	74	12	57	40	7	18	33	1.78
11736913--11737278	26	14.2	26	70	12	175	28	7	5	58	1.47
11736913--11736976	29	2.4	28	87	10	89	25	4	3	67	1.25
11737064--11737174	29	4.0	30	73	17	87	28	6	4	60	1.41
11737026--11737180	55	2.8	55	84	7	192	27	5	3	62	1.36
11738978--11739159	98	1.9	98	82	3	233	43	10	13	31	1.78
11738969--11739180	97	2.2	98	78	2	230	43	10	12	33	1.76
11741087--11741622	27	20.1	27	80	4	464	18	17	21	42	1.89
11741087--11741622	53	10.1	53	80	6	507	18	17	21	42	1.89
11741091--11741622	80	6.7	80	79	6	469	18	17	21	42	1.89
11744512--11744585	34	2.2	34	82	4	87	31	21	20	27	1.98
11745047--11745626	27	21.3	26	77	8	412	19	18	20	41	1.91
11745047--11745626	54	10.6	54	79	6	517	19	18	20	41	1.91
11745048--11745625	81	7.1	79	78	8	523	19	19	20	41	1.91
11745335--11745405	36	2.0	36	85	0	97	16	16	21	45	1.86
11745228--11745499	142	1.9	143	84	4	361	18	19	20	41	1.91
11745309--11745432	63	2.0	61	84	6	160	16	16	22	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11749867--11749901	18	1.9	18	94	0	61	20	0	25	54	1.45
11751531--11751578	24	1.9	25	91	8	80	33	12	10	43	1.77
11752393--11752442	26	1.9	26	91	0	82	36	12	8	44	1.71
11753439--11753758	98	3.3	96	73	7	256	43	12	11	32	1.79
11753452--11753916	195	2.4	194	78	8	496	44	12	11	32	1.77
11757147--11757469	98	3.3	97	70	9	251	47	10	9	31	1.71
11756982--11757462	195	2.5	196	81	5	519	45	12	10	31	1.76
11759180--11759206	2	13.5	2	100	0	54	51	0	0	48	1.00
11759245--11759729	242	2.0	243	99	0	963	43	8	17	30	1.79
11762330--11762385	30	1.9	28	82	13	69	60	10	14	14	1.58
11763963--11764013	24	2.3	23	83	12	63	35	5	7	50	1.55
11763961--11764013	23	2.2	24	83	9	65	35	5	7	50	1.54
11765136--11765368	116	2.0	116	100	0	466	17	22	14	45	1.84
11767216--11767292	27	2.9	27	86	0	109	18	14	25	41	1.88
11769958--11769998	3	13.7	3	94	0	55	68	7	0	24	1.15
11771690--11771783	27	3.5	26	78	12	109	39	19	10	30	1.85
11781513--11781583	31	2.4	28	77	9	79	46	9	15	28	1.77
11782484--11782669	27	6.9	27	77	3	160	20	15	20	43	1.88
11782489--11782633	53	2.7	53	82	4	175	20	14	19	46	1.84
11783024--11783066	8	5.4	8	85	0	50	9	20	23	46	1.79
11784106--11784159	25	2.2	25	83	6	65	18	44	11	25	1.83
11791132--11791228	6	15.8	6	93	4	167	17	1	0	81	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11792456--11792642	85	2.2	87	84	1	243	25	20	17	37	1.93
11800016--11800167	66	2.3	67	87	2	207	32	7	20	39	1.80
11803808--11803883	39	1.9	40	81	7	93	25	18	34	22	1.96
11803952--11803995	17	2.6	17	88	0	61	13	25	45	15	1.83
11829069--11829158	44	2.0	46	85	8	123	35	5	22	36	1.78
11829326--11829360	18	2.0	17	88	5	52	54	0	0	45	0.99
11832831--11833157	23	14.3	23	74	10	240	40	22	3	32	1.73
11832820--11833157	46	7.4	46	79	5	283	39	23	4	32	1.74
11832863--11833246	113	3.4	113	75	11	287	41	22	3	32	1.70
11832991--11833188	46	4.3	45	78	6	191	39	21	3	36	1.69
11834450--11834505	28	2.0	28	92	0	94	64	3	10	21	1.40
11834864--11834899	18	2.1	17	90	10	56	50	0	0	50	1.00
11841900--11841946	3	15.3	3	82	12	60	0	29	0	70	0.88
11842177--11842204	3	9.3	3	100	0	56	32	0	0	67	0.91
11842558--11842615	30	1.9	30	89	6	91	22	36	27	13	1.92
11844153--11844185	16	2.0	17	88	5	50	27	6	3	63	1.32
11844785--11844827	16	2.7	15	82	10	50	60	2	4	32	1.30
11849426--11849476	19	2.8	19	80	11	54	64	11	1	21	1.36
11849562--11849611	23	2.1	24	82	10	59	70	0	14	16	1.18
11849761--11849818	9	6.6	9	75	14	50	15	1	5	77	1.02
11849761--11849818	19	3.2	19	81	15	70	15	1	5	77	1.02
11849761--11849820	8	6.8	8	77	17	57	16	1	5	76	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11850059--11850084	11	2.4	11	100	0	52	34	0	0	65	0.93
11859086--11859134	19	2.6	18	78	9	53	40	2	0	57	1.10
11859915--11859968	28	1.9	28	84	0	72	20	12	11	55	1.67
11862087--11862239	33	4.5	33	72	22	120	18	18	29	32	1.96
11868270--11868303	11	2.8	13	91	8	54	44	11	8	35	1.72
11882716--11882825	54	2.0	54	91	3	177	38	25	10	26	1.87
11885083--11885115	14	2.4	14	94	0	57	36	33	9	21	1.85
11888851--11888897	24	2.0	24	83	8	60	29	10	8	51	1.66
11895001--11895042	17	2.4	18	88	4	59	45	4	19	30	1.71
11904099--11904146	23	2.1	23	84	0	60	16	8	35	39	1.79
11917561--11917653	19	5.1	19	72	12	86	31	9	11	47	1.73
11917542--11917661	54	2.2	54	92	0	195	32	10	13	44	1.77
11919763--11919818	26	2.1	26	83	9	69	71	1	19	7	1.18
11919786--11919830	18	2.5	17	82	13	54	71	2	17	8	1.23
11921995--11922054	28	2.1	28	87	0	84	36	16	23	23	1.94
11933320--11933347	14	2.0	14	100	0	56	35	14	14	35	1.86
11941957--11942016	30	2.0	30	100	0	120	33	13	26	26	1.93
11943992--11944320	27	12.2	27	85	0	399	19	17	20	42	1.90
11952991--11953052	25	2.5	25	85	10	83	45	0	1	53	1.10
11956448--11956503	21	2.7	21	97	0	103	62	19	0	17	1.33
11960784--11960829	23	2.0	23	86	0	65	41	4	19	34	1.71
11964360--11964627	27	9.9	27	98	0	509	15	19	40	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11971838--11971876	17	2.2	17	86	9	51	56	5	2	35	1.35
11972852--11973049	99	2.0	99	95	0	360	36	20	12	30	1.89
11975372--11975447	32	2.4	31	80	10	82	27	21	26	25	1.99
11983793--11984014	51	4.4	51	90	1	349	31	13	23	30	1.93
11983793--11984014	101	2.2	101	90	0	354	31	13	23	30	1.93
11985251--11985328	32	2.5	32	81	6	79	25	16	29	28	1.97
11990042--11990066	12	2.1	12	100	0	50	32	16	0	52	1.44
12007094--12007143	23	2.1	23	88	3	73	20	26	24	30	1.98
12007107--12007152	23	2.0	23	86	0	65	23	30	19	26	1.98
12011960--12012039	37	2.1	39	86	6	112	35	23	17	23	1.96

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