genome.fa.s1.2.7.7.80.10.50.1000.7.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  7  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)
3472923--3473009	2	43.5	2	95	4	158	49	0	0	49	1.00
3487377--3487521	72	2.0	73	90	1	229	30	19	8	41	1.82
3492195--3492227	2	16.5	2	93	0	57	51	0	0	48	1.00
3494963--3495040	33	2.4	33	91	0	120	35	8	41	14	1.77
3499711--3499745	2	18.0	2	88	5	54	51	2	0	45	1.16
3499709--3499745	19	1.9	19	94	0	65	51	2	0	45	1.15
3499713--3499745	17	1.9	17	93	0	57	51	3	0	45	1.16
3503469--3503508	21	1.9	21	94	0	71	5	62	27	5	1.37
3504638--3504668	3	10.3	3	100	0	62	67	0	0	32	0.91
3517816--3517844	14	2.1	14	100	0	58	34	24	13	27	1.93
3541657--3542175	102	5.0	102	87	2	725	24	21	17	36	1.94
3541657--3542175	210	2.5	205	87	5	742	24	21	17	36	1.94
3557763--3557798	4	9.0	4	88	11	56	47	27	0	25	1.52
3558365--3558403	19	2.1	19	85	9	53	43	10	5	41	1.61
3575506--3575534	3	10.0	3	92	7	51	68	0	31	0	0.89
3599556--3599638	40	2.1	37	82	8	94	62	2	0	34	1.08
3612125--3612154	2	15.0	2	100	0	60	0	50	0	50	1.00
3612202--3612229	2	14.0	2	100	0	56	0	50	0	50	1.00
3620272--3620305	10	3.1	11	84	16	52	64	0	0	35	0.94
3637269--3637318	17	2.8	18	78	9	57	10	4	84	2	0.84
3638690--3638728	2	19.5	2	100	0	78	51	0	0	48	1.00
3645247--3645384	71	2.0	70	94	1	240	36	10	14	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3666502--3666539	11	3.5	11	89	3	51	18	55	0	26	1.43
3671707--3671840	65	2.1	64	88	8	200	34	14	7	44	1.73
3671884--3672157	138	2.0	137	87	3	390	30	11	9	48	1.70
3676405--3676447	24	1.9	21	86	13	59	44	4	9	41	1.57
3689445--3689499	27	2.0	28	82	10	69	36	1	9	52	1.44
3689786--3689814	2	14.5	2	100	0	58	0	51	0	48	1.00
3708633--3708672	20	1.9	20	85	10	53	10	10	20	60	1.57
3740639--3740681	20	2.2	19	84	16	52	11	4	2	81	0.93
3740859--3741064	104	2.0	105	85	4	283	36	2	16	43	1.63
3764195--3764311	19	5.8	20	67	23	68	41	3	0	54	1.17
3764216--3764276	25	2.5	24	76	7	59	42	4	0	52	1.23
3764195--3764315	63	1.9	62	91	1	197	41	5	0	52	1.25
3769348--3769375	2	14.0	2	100	0	56	50	0	0	50	1.00
3774462--3774495	17	2.1	16	88	5	50	58	5	29	5	1.45
3788657--3788696	20	2.0	20	100	0	80	35	10	20	35	1.86
3792054--3792097	18	2.6	16	85	10	52	38	2	2	56	1.24
3797862--3798383	262	2.0	261	99	0	1026	34	13	16	35	1.88
3801604--3801642	18	2.2	18	86	4	53	20	0	2	76	0.90
3801920--3801952	17	2.0	17	88	5	50	39	3	0	57	1.14
3810313--3810342	3	10.0	3	92	0	51	63	33	3	0	1.11
3831793--3831857	4	15.0	4	81	15	60	73	0	0	26	0.83
3831794--3831865	10	7.9	9	80	18	78	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3831794--3831862	5	14.6	5	89	8	69	76	0	0	23	0.78
3856526--3856551	2	13.0	2	100	0	52	50	0	0	50	1.00
3857478--3857514	1	37.0	1	94	0	65	0	97	0	0	0.04
3863798--3863838	2	20.5	2	89	0	64	43	0	0	56	0.99
3868857--3868885	2	14.5	2	100	0	58	0	51	0	48	1.00
3871701--3871725	2	12.5	2	100	0	50	52	0	48	0	1.00
3872284--3872313	11	2.7	11	89	0	51	40	0	33	26	1.57
3879389--3879470	30	2.7	30	82	1	92	12	31	25	30	1.92
3879672--3879724	5	10.6	5	100	0	106	39	0	0	60	0.97
3891906--3891969	31	2.0	32	84	3	85	32	25	4	37	1.77
3893531--3893687	78	2.0	78	96	0	287	32	22	10	33	1.89
3903316--3903352	15	2.3	17	86	13	60	48	0	5	45	1.25
3907470--3907507	2	19.0	2	100	0	76	50	0	0	50	1.00
3915485--3915516	15	2.1	15	94	0	55	3	12	0	84	0.74
3927021--3927045	2	12.5	2	100	0	50	0	48	0	52	1.00
3936294--3936451	50	3.2	50	95	0	271	7	54	8	29	1.58
3936456--3936584	68	2.0	62	85	8	168	7	48	9	34	1.64
3936456--3936584	31	4.0	31	80	9	141	7	48	9	34	1.64
3938062--3938263	85	2.4	85	84	1	246	40	10	7	40	1.69
3951080--3951170	28	3.2	28	82	14	107	41	1	2	54	1.19
3951109--3951173	33	2.0	33	81	6	78	44	0	1	53	1.09
3951203--3951249	24	1.9	25	87	12	71	40	0	4	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3951243--3951344	33	2.9	38	76	15	103	49	0	0	50	1.07
3951266--3951344	38	2.1	35	82	13	88	46	1	0	51	1.08
3952500--3952694	89	2.2	90	89	4	297	17	16	11	53	1.73
3953534--3953595	27	2.3	27	97	0	115	56	4	30	8	1.49
3954759--3955096	51	6.6	50	73	11	224	43	19	21	15	1.88
3954740--3955056	102	3.1	98	79	10	257	42	20	21	16	1.89
3954872--3954944	24	3.2	24	63	31	59	42	16	24	16	1.88
3954811--3955096	102	2.9	97	76	10	272	44	19	20	15	1.87
3956576--3956646	36	2.0	35	88	2	106	26	30	15	26	1.96
3963009--3963067	30	1.9	31	86	3	84	37	20	11	30	1.89
3968563--3968675	23	5.0	22	69	17	63	47	3	1	46	1.30
3968721--3968777	10	5.4	11	73	21	50	50	1	1	45	1.22
3969208--3969299	26	3.3	28	71	7	73	56	1	2	40	1.18
3969275--3969311	12	3.1	12	84	0	56	51	0	0	48	1.00
3971116--3971171	26	2.2	24	81	6	67	53	1	1	42	1.21
3971120--3971181	22	2.6	23	80	12	63	50	1	1	46	1.20
3977319--3977395	37	2.1	37	82	4	93	25	7	27	38	1.83
3981645--3981708	2	32.5	2	90	9	105	48	0	50	0	1.01
3985944--3986014	30	2.4	30	83	4	81	38	4	2	54	1.34
3986084--3986157	33	2.2	33	85	0	103	43	6	10	39	1.66
4004260--4004293	12	2.9	11	87	12	50	17	5	0	76	0.98
4007232--4007273	20	2.0	21	86	4	59	23	9	23	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4007039--4007289	129	1.9	130	84	4	337	22	16	18	42	1.89
4022898--4022922	9	2.8	9	100	0	50	24	44	0	32	1.54
4025398--4025438	2	20.5	2	100	0	82	48	0	0	51	1.00
4039123--4039153	15	2.1	15	93	0	53	32	3	3	61	1.28
4064653--4064704	12	4.5	11	78	9	50	51	1	1	44	1.23
4065305--4065362	22	2.6	22	94	0	98	22	18	8	50	1.74
4078582--4078676	32	3.0	32	71	22	101	15	34	13	35	1.87
4078546--4078676	63	2.1	63	85	5	178	16	35	12	35	1.87
4087300--4087370	36	2.0	36	91	0	115	32	38	18	11	1.86
4104287--4104325	19	2.1	19	85	0	51	66	5	7	20	1.36
4127958--4127987	2	15.0	2	100	0	60	50	0	0	50	1.00
4139791--4139837	24	2.0	24	82	0	58	74	8	14	2	1.15
4140140--4140184	18	2.4	18	85	10	56	66	2	24	6	1.27
4141721--4141763	22	1.9	23	85	4	61	53	4	6	34	1.49
4149158--4149281	62	2.0	62	100	0	248	48	12	22	16	1.80
4154115--4154148	2	17.0	2	100	0	68	50	0	0	50	1.00
4162582--4162639	2	29.5	2	80	3	64	0	43	1	55	1.10
4162725--4162770	22	2.1	21	92	8	74	60	0	4	32	1.16
4173359--4173384	13	2.0	13	100	0	52	23	7	15	53	1.67
4182081--4182119	17	2.2	19	86	9	55	41	2	15	41	1.61
4183925--4183981	24	2.4	22	78	16	60	29	56	7	7	1.53
4204630--4204662	15	2.1	16	88	5	50	63	9	12	15	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4223088--4223129	21	2.0	21	81	9	50	2	0	47	50	1.14
4238514--4238687	90	1.9	90	90	2	278	30	24	16	28	1.97
4242389--4242413	2	12.5	2	100	0	50	48	0	0	52	1.00
4244502--4244545	19	2.3	19	84	7	54	34	2	11	52	1.50
4250845--4250887	2	21.5	2	95	0	77	51	0	0	48	1.00
4251125--4251149	9	2.8	9	100	0	50	36	0	8	56	1.29
4252145--4252202	2	29.5	2	92	3	100	48	0	1	50	1.11
4263160--4263254	40	2.4	39	84	6	122	24	40	13	22	1.90
4263559--4263921	182	2.0	181	100	0	717	41	22	7	28	1.81
4264405--4264457	20	2.7	20	80	11	63	37	9	26	26	1.87

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