genome.fa.s9.2.7.7.80.10.50.1000.7.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: 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  7  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)
3409910--3409988	41	1.9	42	86	2	115	34	15	15	35	1.89
3412449--3412477	13	2.1	14	93	6	51	65	6	0	27	1.18
3431110--3431535	201	2.1	200	93	1	728	38	12	17	30	1.87
3434573--3434636	34	1.9	34	81	12	80	18	17	7	56	1.64
3438936--3439063	64	2.0	63	96	1	238	24	17	10	47	1.79
3446981--3447059	26	3.0	25	81	12	79	62	3	0	34	1.14
3451890--3451925	2	18.0	2	100	0	72	50	0	0	50	1.00
3472109--3472187	33	2.3	36	74	14	94	65	1	2	30	1.13
3479624--3479664	16	2.6	16	100	0	82	60	19	14	4	1.51
3479640--3480167	220	2.4	219	86	4	738	41	11	26	20	1.86
3480068--3480326	139	1.9	139	83	3	342	42	9	28	19	1.82
3483060--3483163	31	3.4	31	89	2	158	38	0	0	60	1.03
3483222--3483300	33	2.4	33	89	0	113	43	2	10	44	1.51
3483621--3483766	29	5.2	29	69	11	106	45	9	7	37	1.65
3483650--3483730	26	3.0	26	75	14	74	49	8	7	34	1.62
3483619--3483812	56	3.5	55	79	3	176	43	9	8	39	1.67
3483689--3483837	29	5.3	29	72	9	110	41	9	10	38	1.71
3483666--3483865	56	3.6	56	78	7	194	43	9	9	38	1.68
3483720--3483893	29	6.1	29	68	6	77	43	8	8	40	1.64
3484532--3484575	23	1.9	23	90	0	70	25	27	15	31	1.96
3486941--3487040	45	2.2	45	79	10	107	46	3	5	46	1.40
3487013--3487321	45	6.9	45	72	7	207	40	4	10	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3487116--3487184	22	3.1	22	64	4	57	47	0	7	44	1.30
3487028--3487321	93	3.3	89	79	8	265	41	4	10	43	1.59
3490915--3490952	2	19.0	2	94	0	67	52	0	47	0	1.00
3499913--3499969	9	6.4	9	89	2	80	14	0	0	85	0.59
3499911--3499976	27	2.5	26	85	9	89	16	0	0	83	0.65
3499918--3499976	18	3.3	18	83	4	75	18	0	0	81	0.69
3502274--3502308	17	2.1	17	88	0	52	14	34	0	51	1.42
3514712--3514761	11	4.6	11	78	12	50	50	0	0	50	1.00
3515578--3515647	7	10.4	7	77	11	58	70	1	1	27	1.05
3515561--3515659	33	3.3	30	78	17	107	68	1	3	27	1.10
3518146--3518247	50	2.0	50	98	0	195	45	10	9	34	1.72
3520241--3520278	18	2.1	19	85	5	51	21	0	2	76	0.91
3520537--3520582	23	2.0	23	95	0	83	32	0	19	47	1.50
3520784--3520817	15	2.1	17	89	10	54	41	14	0	44	1.45
3520782--3520821	17	2.3	18	80	20	50	40	12	0	47	1.41
3521045--3521116	31	2.4	30	83	2	81	22	29	20	27	1.99
3524603--3524632	11	2.6	12	94	5	53	40	0	0	60	0.97
3526876--3526967	48	1.9	48	86	0	130	28	13	21	36	1.91
3526863--3526951	26	3.6	26	67	11	69	30	13	17	38	1.89
3526955--3527032	23	3.4	23	87	0	120	24	11	29	34	1.91
3527034--3527111	22	3.6	22	78	3	86	46	20	10	23	1.81
3528529--3529157	214	3.0	213	86	3	876	39	7	5	47	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531395--3531424	9	3.3	9	95	0	51	60	33	6	0	1.23
3534556--3534585	9	3.2	9	90	9	51	10	0	0	90	0.47
3534556--3534585	10	3.1	10	95	4	53	10	0	0	90	0.47
3557368--3557408	20	2.0	20	100	0	82	19	9	36	34	1.85
3564813--3564847	2	17.5	2	93	0	61	0	45	0	54	0.99
3585960--3586099	66	2.1	66	91	0	226	24	15	17	42	1.88
3604124--3604162	19	2.1	18	85	4	51	12	12	12	61	1.57
3619646--3619690	23	2.0	21	87	8	63	42	0	0	57	0.98
3619646--3619693	24	2.0	23	84	11	62	41	0	0	58	0.98
3619633--3619694	32	2.0	29	81	9	70	43	0	0	56	0.99
3627250--3627274	13	1.9	13	100	0	50	0	24	16	60	1.36
3636024--3636061	18	2.1	18	100	0	76	28	13	21	36	1.91
3642113--3642179	25	2.9	22	72	22	64	47	4	1	46	1.31
3642201--3642246	24	1.9	24	82	8	58	8	10	0	80	0.91
3653413--3653438	11	2.4	11	100	0	52	46	0	46	7	1.31
3665205--3665232	5	5.6	5	100	0	56	78	0	21	0	0.75
3673918--3673959	2	21.0	2	85	0	57	50	7	0	42	1.30
3673909--3673956	22	2.2	22	92	7	80	50	10	0	39	1.37
3673918--3673956	12	3.4	12	86	13	64	51	7	0	41	1.31
3686140--3686260	45	2.7	45	73	0	125	28	18	17	36	1.93
3686239--3686284	24	1.9	24	86	0	65	23	15	17	43	1.87
3686256--3686357	45	2.3	45	87	0	141	27	19	15	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3686120--3686350	114	2.0	114	85	1	311	26	18	18	35	1.94
3686256--3686374	45	2.6	45	85	0	121	28	19	16	35	1.94
3697382--3697424	18	2.4	19	80	11	54	23	20	23	32	1.98
3697800--3697874	37	2.0	37	100	0	150	48	5	5	41	1.49
3699121--3699163	14	3.2	13	81	15	52	65	0	2	32	1.06
3699769--3699811	19	2.3	19	84	8	52	65	2	0	32	1.06
3699753--3699847	27	3.6	27	79	13	90	58	3	0	37	1.14
3707406--3707438	2	16.5	2	100	0	66	48	0	0	51	1.00
3708614--3708663	18	2.8	17	77	11	55	44	4	2	50	1.32
3708616--3708656	19	2.2	19	86	4	57	39	4	0	56	1.21
3720776--3720999	113	2.0	113	92	2	371	32	14	18	34	1.91
3725899--3726073	88	2.0	88	89	2	271	33	22	19	24	1.97
3726654--3726689	3	12.3	3	94	5	65	69	0	0	30	0.89
3727196--3727370	88	2.0	88	85	4	237	35	22	17	24	1.95
3727952--3728006	3	17.3	3	89	10	83	65	0	0	34	0.93
3727952--3728006	16	3.4	16	87	7	85	65	0	0	34	0.93
3727953--3728006	25	2.1	26	96	3	101	64	0	0	35	0.94
3728029--3728067	16	2.4	16	86	4	51	61	5	7	25	1.44
3728632--3728694	31	1.9	31	87	9	90	65	0	30	4	1.13
3729902--3729937	17	2.2	17	90	5	56	41	2	2	52	1.30
3729902--3729946	17	2.7	16	83	10	54	37	2	2	57	1.23
3746612--3746666	28	2.0	28	82	10	69	65	5	0	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3747248--3747277	14	2.1	14	93	6	51	80	0	16	3	0.85
3752573--3752608	3	12.0	3	93	0	63	63	33	2	0	1.08
3752576--3752624	9	5.8	9	81	13	50	59	34	6	0	1.22
3752884--3752953	21	3.3	21	93	0	122	40	28	22	8	1.84
3753076--3753112	3	12.3	3	88	0	56	37	32	29	0	1.58
3756309--3756398	43	2.1	45	85	6	123	60	4	2	33	1.29
3760101--3760228	62	2.1	59	81	7	141	36	2	5	55	1.36
3763877--3763955	37	2.1	37	100	0	158	21	5	10	63	1.45
3764018--3764103	33	2.6	33	86	1	118	65	0	5	29	1.16
3765296--3765330	11	3.1	11	88	8	52	85	0	14	0	0.59
3765568--3765817	124	2.0	127	85	3	346	32	6	16	45	1.71
3765908--3765945	11	3.5	11	89	3	51	18	55	0	26	1.43
3777809--3777856	25	2.0	23	88	8	69	31	2	6	60	1.33
3777837--3777878	17	2.5	17	88	0	57	33	0	0	66	0.92
3781090--3781136	22	2.1	22	88	0	67	46	12	2	38	1.54
3782572--3782605	8	4.1	8	92	3	50	0	11	2	85	0.71
3784902--3784931	2	15.0	2	100	0	60	0	50	0	50	1.00
3799154--3799228	22	3.5	22	73	14	68	52	2	0	45	1.15
3799563--3799624	21	3.0	21	76	17	67	56	0	1	41	1.09
3799640--3799707	12	4.9	14	75	21	54	61	0	0	38	0.96
3799485--3799726	65	3.7	65	74	12	194	56	2	1	40	1.19
3799413--3799730	128	2.6	128	83	10	366	56	2	0	40	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799698--3799741	15	2.9	15	87	12	56	47	0	0	52	1.00
3802526--3802602	33	2.3	33	90	0	127	35	18	36	10	1.85
3802540--3802602	18	3.7	18	70	12	60	38	17	33	11	1.85
3804058--3804096	16	2.4	16	86	0	60	48	5	0	46	1.24
3804506--3804539	17	1.9	18	88	5	52	50	0	0	50	1.00
3808329--3808366	16	2.4	17	91	8	62	65	0	5	28	1.14
3809674--3809710	19	2.0	19	89	5	58	59	0	0	40	0.97
3812005--3812049	23	2.0	21	87	8	63	48	2	2	46	1.26
3819172--3819227	23	2.4	23	94	5	96	78	0	21	0	0.75
3819173--3819223	10	4.6	10	81	18	57	78	0	21	0	0.75

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