genome.fa.s6.2.7.7.80.10.50.1000.50.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:  35726063

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   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  50  of  109  ( 13028 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)
16315357--16315418	7	8.7	7	75	16	56	19	3	38	38	1.68
16319158--16319273	43	2.7	44	81	11	150	24	18	28	28	1.98
16321728--16321781	22	2.5	22	79	8	58	22	18	22	37	1.95
16322348--16322830	161	3.0	161	92	1	783	26	14	20	38	1.90
16323466--16323512	23	2.0	23	100	0	94	29	8	19	42	1.80
16325738--16325778	21	2.0	21	90	0	64	63	2	0	34	1.08
16326300--16326340	22	1.9	22	90	5	66	48	0	0	51	1.00
16326377--16326459	27	3.1	27	78	3	87	18	22	33	25	1.96
16329993--16330041	18	2.7	18	90	0	80	2	38	28	30	1.68
16329993--16330047	6	9.2	6	83	0	65	1	36	29	32	1.68
16331590--16331628	16	2.5	16	95	4	71	61	5	0	33	1.18
16331746--16331867	60	2.0	60	92	3	201	54	13	0	32	1.39
16331855--16331896	21	2.0	22	95	4	77	57	11	0	30	1.35
16332152--16332213	27	2.3	27	88	0	88	16	30	25	27	1.96
16332299--16332342	20	2.3	19	85	14	63	52	0	0	47	1.00
16333158--16333210	13	4.1	13	78	9	63	37	28	5	28	1.80
16337028--16337130	38	2.7	38	84	0	125	15	25	29	30	1.96
16337028--16337112	19	4.5	19	90	0	125	15	25	29	29	1.96
16343051--16343127	33	2.3	32	82	6	91	25	23	18	32	1.97
16351138--16351166	4	7.2	4	100	0	58	75	0	0	24	0.80
16352112--16352162	19	2.7	20	80	17	63	45	0	1	52	1.12
16361686--16361761	40	1.9	40	83	5	100	30	25	27	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16361837--16362058	41	5.4	41	83	4	270	16	25	22	35	1.95
16361837--16362058	82	2.7	82	91	1	338	16	25	22	35	1.95
16361838--16362075	123	1.9	123	82	3	300	17	25	23	34	1.96
16362209--16362236	2	14.0	2	100	0	56	50	0	0	50	1.00
16367440--16367501	21	3.0	21	87	0	88	35	20	41	1	1.62
16368067--16368233	43	3.9	42	87	3	235	28	20	20	30	1.98
16368067--16368253	43	4.3	42	87	2	230	28	21	20	29	1.98
16368067--16368233	85	2.0	85	86	4	239	28	20	20	30	1.98
16371349--16371403	28	2.0	28	85	0	74	29	25	20	25	1.99
16372930--16372970	6	6.7	6	85	2	55	58	0	24	17	1.38
16378234--16378270	9	4.1	9	92	0	65	45	13	10	29	1.77
16379166--16379191	5	5.2	5	100	0	52	19	19	19	42	1.90
16386071--16386175	43	2.4	43	82	0	129	27	16	26	29	1.97
16386959--16387033	36	2.1	36	97	0	141	42	17	17	22	1.89
16387631--16387661	9	3.4	9	90	0	53	41	22	9	25	1.84
16388188--16388244	16	3.6	16	90	0	87	35	0	35	29	1.58
16392302--16392431	40	3.3	41	80	5	144	33	21	22	22	1.97
16392472--16392751	41	6.8	41	99	0	551	16	24	30	28	1.97
16392472--16392877	123	3.4	123	87	9	633	17	23	29	28	1.97
16392724--16392778	27	2.0	27	96	0	101	18	21	30	29	1.97
16392683--16392813	68	1.9	68	95	0	235	19	22	29	29	1.98
16392751--16392877	41	3.1	41	91	0	218	20	22	28	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16392642--16392860	109	2.0	109	92	0	366	19	23	28	28	1.98
16392601--16392877	150	1.8	150	93	0	482	18	23	28	28	1.98
16394401--16394457	30	1.9	30	85	0	78	45	17	24	12	1.83
16401036--16401095	18	3.4	18	64	13	52	43	6	10	40	1.64
16401295--16401457	43	3.8	43	90	0	254	22	17	31	28	1.97
16404711--16404781	26	2.8	26	82	6	92	23	19	19	36	1.95
16404763--16404902	73	1.9	73	85	2	192	20	26	21	32	1.97
16404763--16404856	25	3.8	25	71	10	95	19	26	21	32	1.97
16404737--16404864	25	5.2	25	70	15	86	20	25	21	32	1.97
16410176--16410208	14	2.3	15	89	5	50	72	3	6	18	1.18
16410820--16410883	26	2.5	26	94	2	112	37	17	7	37	1.79
16413578--16413644	25	2.7	25	78	0	71	38	16	7	37	1.77
16419516--16419568	20	2.6	19	80	11	61	9	15	1	73	1.17
16419514--16419560	19	2.5	19	80	10	60	10	17	2	70	1.26
16419621--16419663	17	2.5	17	76	0	50	9	11	0	79	0.95
16419990--16420077	45	2.0	45	97	0	167	43	11	20	25	1.85
16425370--16425416	25	1.9	24	83	12	60	19	8	2	70	1.24
16431214--16431265	26	2.0	26	84	0	68	65	7	0	26	1.20
16431254--16431325	20	3.5	19	75	11	63	65	4	6	23	1.35
16431542--16431603	19	3.4	17	78	22	63	27	0	3	69	1.04
16431561--16431606	8	4.9	10	78	21	55	26	0	2	71	0.97
16431552--16431606	19	3.0	18	81	5	74	25	0	3	70	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16435406--16435467	14	4.5	14	75	17	58	70	3	8	17	1.25
16438408--16438445	12	3.1	12	85	7	58	39	0	5	55	1.23
16443239--16443615	186	2.0	186	99	0	745	32	12	20	34	1.90
16446491--16446594	31	3.2	31	65	17	75	52	4	6	35	1.49
16446462--16446602	67	2.1	67	94	0	246	53	3	7	36	1.46
16446932--16446980	24	2.0	24	84	7	64	67	4	2	26	1.19
16449296--16449354	30	2.0	30	100	0	118	37	16	11	33	1.86
16457857--16458175	111	2.8	110	81	6	356	31	19	20	28	1.97
16458081--16458277	102	1.9	101	83	5	254	34	17	19	28	1.95
16458349--16458389	15	2.8	14	85	10	55	21	0	34	43	1.53
16458412--16458498	39	2.2	39	95	0	156	27	2	20	49	1.61
16458480--16458537	22	2.7	21	78	7	62	24	0	36	39	1.55
16458504--16458584	7	11.3	7	76	4	63	18	1	45	34	1.57
16458488--16458537	22	2.3	22	82	0	64	24	0	40	36	1.55
16458486--16458584	21	4.6	21	79	3	81	21	1	42	35	1.60
16458633--16458671	7	5.6	7	84	0	51	15	0	33	51	1.44
16458684--16458713	14	2.1	14	93	0	51	20	0	43	36	1.52
16458946--16459031	45	1.9	45	85	0	118	45	13	8	32	1.74
16460194--16460273	31	2.6	31	87	0	115	20	15	20	45	1.86
16460921--16461124	87	2.3	87	89	1	329	43	16	27	12	1.84
16461074--16461144	21	3.4	21	78	0	70	40	15	38	5	1.71
16461488--16461783	43	6.9	43	85	3	380	28	18	28	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16476958--16477050	11	8.5	11	66	3	53	66	5	5	22	1.33
16477012--16477059	17	2.8	17	75	15	53	75	2	4	18	1.07
16477385--16477430	24	1.9	24	95	0	83	28	30	2	39	1.69
16480728--16480775	23	2.0	25	88	12	73	52	2	0	45	1.12
16487047--16487086	6	6.5	6	97	2	71	0	67	0	32	0.91
16501107--16501141	16	2.2	16	90	5	54	51	5	0	42	1.25
16505022--16505066	18	2.5	18	85	0	54	26	26	22	24	2.00
16505985--16506098	61	1.9	58	87	5	165	39	4	6	50	1.47
16505985--16506118	58	2.2	60	83	8	168	40	3	6	49	1.47
16506201--16506247	15	3.2	15	87	3	51	46	4	14	34	1.64
16506208--16506247	15	2.7	15	92	0	62	42	5	15	37	1.68
16525888--16526123	93	2.6	94	80	7	252	37	20	8	34	1.82
16526294--16526357	29	2.2	29	86	5	85	64	1	3	31	1.19
16526569--16526661	20	4.7	20	65	17	50	26	9	2	61	1.39
16526538--16526622	38	2.2	36	75	15	82	30	7	2	60	1.36
16526667--16526692	12	2.2	12	100	0	52	23	0	0	76	0.78
16529237--16529265	15	1.9	15	100	0	58	55	0	17	27	1.42
16529538--16529601	22	2.9	22	90	2	74	37	15	7	39	1.77
16529549--16529614	22	3.1	21	89	10	100	33	16	9	40	1.80
16530081--16530476	131	3.0	132	90	2	595	24	24	20	30	1.99
16530416--16531316	88	10.2	87	82	3	847	27	23	19	29	1.98
16530415--16531316	176	5.1	176	83	2	941	27	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16530547--16531313	264	2.9	263	84	1	971	27	23	18	29	1.98
16531170--16531308	44	3.2	44	68	4	127	28	23	19	28	1.98
16531403--16531986	45	13.0	45	89	0	826	30	22	16	30	1.96
16530566--16531986	90	16.0	90	79	4	836	29	23	17	29	1.97
16530566--16531986	135	10.6	135	73	5	879	29	23	17	29	1.97
16533338--16533370	14	2.3	15	89	5	50	24	30	15	30	1.95
16534737--16534781	18	2.4	18	89	10	65	46	15	20	17	1.84
16537422--16537497	36	2.1	36	80	11	84	51	1	9	38	1.42
16538040--16538105	22	3.1	21	85	10	91	33	15	9	42	1.78
16541287--16541339	19	2.7	19	80	11	54	30	13	0	56	1.37

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   98   99   100   101   102   103   104   105   106   107   108   109