genome.fa.s9.2.7.7.80.10.50.1000.79.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  79  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)
31384174--31384440	124	2.1	126	88	4	398	53	1	2	42	1.22
31384379--31384443	15	4.6	15	71	24	52	47	0	3	49	1.17
31385508--31385629	45	2.7	45	80	0	145	35	22	15	27	1.94
31385608--31385731	24	5.2	24	91	0	176	41	18	19	20	1.91
31385768--31385817	26	1.9	26	88	8	75	40	16	14	30	1.87
31385738--31385861	29	4.2	30	72	16	107	40	12	12	34	1.81
31385738--31385861	30	4.3	27	73	20	90	40	12	12	34	1.81
31387788--31387847	18	3.3	18	79	13	52	70	5	0	25	1.08
31387805--31387848	18	2.5	18	88	3	63	75	0	0	25	0.81
31388150--31388189	9	4.1	9	82	17	53	65	0	35	0	0.93
31388152--31388193	21	2.0	21	100	0	84	61	0	38	0	0.96
31388215--31388276	4	17.2	4	72	21	57	74	0	25	0	0.82
31388213--31388356	17	7.7	17	73	20	103	65	1	31	0	1.06
31388292--31388356	18	3.7	18	80	10	80	70	0	29	0	0.87
31388298--31388353	6	9.2	6	79	16	53	71	0	28	0	0.86
31388292--31388356	10	6.2	10	75	21	62	70	0	29	0	0.87
31388297--31388351	24	2.2	25	90	6	85	72	0	27	0	0.85
31388387--31388420	11	3.0	11	91	8	59	88	0	11	0	0.52
31388149--31388418	79	3.4	79	88	5	379	61	2	34	1	1.15
31388375--31388420	23	2.0	23	87	8	67	82	0	17	0	0.67
31390047--31390146	29	3.5	29	78	10	100	35	8	12	45	1.71
31390225--31390342	45	2.6	45	82	0	155	33	22	11	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31398906--31399103	98	2.0	98	91	0	315	33	18	12	34	1.89
31420547--31420598	22	2.3	23	90	3	79	51	3	0	44	1.19
31424759--31424801	22	1.9	23	85	4	61	18	9	27	44	1.80
31425696--31425773	22	3.5	22	91	0	129	24	5	26	43	1.75
31426084--31426881	197	4.1	197	91	0	1303	18	12	26	42	1.86
31435631--31435655	10	2.5	10	100	0	50	92	0	8	0	0.40
31436259--31436299	21	1.9	22	85	5	57	51	0	4	43	1.23
31436341--31436394	22	2.5	22	76	11	56	50	3	0	46	1.19
31436474--31436579	45	2.4	41	79	14	131	44	3	0	50	1.26
31436485--31436573	45	2.0	45	91	4	144	42	3	1	52	1.25
31450722--31450802	42	1.9	43	87	2	119	51	4	27	16	1.64
31456813--31456876	21	3.1	20	80	11	67	45	0	0	54	0.99
31460777--31461840	538	2.0	537	99	0	2092	27	17	25	29	1.97
31464852--31464902	21	2.4	21	80	6	59	45	0	1	52	1.12
31469276--31469305	15	1.9	16	93	6	53	63	0	36	0	0.95
31469321--31469665	178	1.9	178	95	2	615	38	7	8	45	1.64
31469871--31469908	20	1.9	19	89	5	58	50	0	0	50	1.00
31470718--31470752	2	17.5	2	100	0	70	51	0	0	48	1.00
31471768--31471816	24	2.0	24	96	0	89	48	14	0	36	1.44
31476844--31476918	32	2.4	31	84	2	87	25	16	30	28	1.96
31477640--31477701	31	2.0	31	90	0	97	38	4	16	40	1.69
31478516--31478595	23	3.5	23	84	0	97	28	12	36	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31478620--31478730	23	4.8	23	73	2	96	27	13	34	25	1.93
31478813--31478869	23	2.5	23	85	0	78	29	12	35	22	1.91
31478964--31479018	23	2.4	23	81	0	65	32	16	29	21	1.95
31479171--31479231	23	2.7	23	92	0	104	24	18	31	26	1.97
31479628--31479900	55	5.0	55	87	1	377	10	12	32	44	1.76
31479929--31479993	25	2.6	25	97	0	121	23	23	29	24	1.99
31479970--31480120	31	4.9	31	85	2	196	25	14	22	37	1.92
31479970--31480110	62	2.3	62	92	2	230	24	14	24	36	1.93
31483903--31484490	86	6.8	86	84	3	702	28	30	18	22	1.98
31483903--31484490	172	3.4	172	86	2	824	28	30	18	22	1.98
31483903--31484490	258	2.3	258	85	1	786	28	30	18	22	1.98
31488007--31488332	31	10.5	31	90	2	512	38	18	15	26	1.91
31491427--31491460	9	3.7	9	88	7	50	82	0	17	0	0.67
31491782--31491841	16	3.7	16	74	14	52	51	0	3	45	1.17
31491575--31492176	205	3.0	203	82	8	747	49	3	3	43	1.36
31495186--31495219	1	34.0	1	93	0	59	0	97	2	0	0.19
31503587--31503632	17	2.5	19	80	16	60	0	2	15	82	0.76
31506035--31506103	36	1.9	36	85	5	95	13	20	26	40	1.88
31518743--31518790	23	2.1	23	96	0	87	25	16	8	50	1.73
31522416--31522519	53	1.9	54	86	5	149	36	15	18	29	1.91
31553761--31553852	35	2.6	34	72	16	89	44	2	5	47	1.38
31554991--31555227	27	8.6	28	79	3	167	37	14	10	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31554990--31555227	55	4.3	55	80	0	269	37	14	10	36	1.82
31554997--31555227	110	2.1	110	84	1	302	37	15	10	36	1.81
31555383--31555418	2	18.0	2	100	0	72	50	0	0	50	1.00
31558358--31558438	26	3.1	26	89	0	117	50	23	12	13	1.75
31558551--31558867	158	2.0	158	92	0	526	40	13	11	34	1.81
31558938--31558974	19	2.0	18	89	5	56	72	2	0	24	0.97
31558938--31558976	10	4.0	10	86	6	53	71	2	0	25	0.98
31560271--31560316	23	2.1	21	88	8	65	30	6	13	50	1.66
31564348--31564397	2	25.0	2	100	0	100	50	0	0	50	1.00
31565288--31565352	29	2.3	29	83	2	87	15	29	9	46	1.77
31566944--31566984	10	4.2	10	84	15	59	68	0	0	31	0.90
31566950--31566991	18	2.4	17	96	4	75	76	0	0	23	0.79
31571495--31571585	2	46.0	2	79	14	82	43	3	3	48	1.35
31571551--31571585	13	2.8	13	95	4	63	45	0	0	54	0.99
31571551--31571588	15	2.5	15	84	16	60	44	0	0	55	0.99
31575127--31575170	21	2.0	22	91	4	72	20	22	18	38	1.93
31582209--31582260	27	1.9	27	96	0	95	30	9	25	34	1.88
31585452--31585484	16	2.1	16	94	0	57	9	3	6	81	0.95
31598599--31598653	27	2.0	27	86	6	76	29	23	27	20	1.99
31601971--31602007	18	2.1	18	94	0	65	54	18	8	18	1.68
31609359--31609472	2	57.5	2	88	8	171	47	0	2	49	1.15
31609982--31610027	24	1.9	24	81	0	56	36	34	15	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31611852--31611908	21	2.6	22	80	5	71	22	12	19	45	1.83
31611942--31612264	26	13.7	23	73	14	173	34	26	13	24	1.93
31611941--31612072	46	2.9	46	84	7	171	34	28	12	24	1.92
31612011--31612382	26	15.5	26	70	15	198	36	25	12	24	1.91
31612055--31612263	73	2.9	72	87	6	291	35	25	14	24	1.93
31612011--31612404	95	4.1	95	79	6	372	36	25	13	24	1.92
31613715--31613760	24	1.9	24	86	8	67	43	8	19	28	1.80
31616540--31616564	2	12.5	2	100	0	50	52	0	0	48	1.00
31618288--31618364	29	2.7	29	87	0	109	50	9	23	16	1.74
31618641--31618713	26	2.8	25	82	15	94	19	20	20	39	1.92
31643111--31643188	29	2.7	29	88	2	113	19	30	6	43	1.76
31644947--31644980	16	2.1	17	94	5	61	64	0	0	35	0.94
31647270--31647300	15	2.1	15	93	0	53	64	0	3	32	1.09
31649037--31649148	21	5.5	21	70	21	103	41	0	5	51	1.30
31649040--31649148	42	2.7	39	90	7	157	41	0	5	52	1.31
31650143--31650550	47	8.9	47	87	5	586	36	5	11	46	1.63
31650092--31650512	141	3.0	135	78	12	394	36	4	11	46	1.62
31650314--31650391	25	3.2	25	65	17	74	35	3	11	48	1.58
31654694--31654732	19	2.1	19	85	0	51	61	2	0	35	1.10
31661770--31661880	21	5.5	21	70	16	99	43	0	3	52	1.25
31661773--31661880	42	2.7	40	88	8	150	42	0	3	52	1.25
31661794--31661879	15	5.8	15	72	25	76	43	1	3	52	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31662224--31662250	2	13.5	2	100	0	54	48	0	0	51	1.00
31663922--31663962	16	2.6	16	88	7	57	48	7	9	34	1.64
31667778--31667861	42	2.0	42	100	0	168	42	9	9	38	1.70
31673097--31673143	22	2.1	22	96	0	85	38	0	12	48	1.41
31679844--31679913	32	2.2	33	86	2	97	48	15	11	24	1.78
31688424--31688474	22	2.3	22	100	0	102	27	7	19	45	1.78
31688594--31688698	22	4.8	22	77	0	111	51	16	4	27	1.64
31688590--31688698	44	2.5	44	84	0	137	51	16	4	27	1.64
31691306--31691414	53	2.1	53	98	0	209	37	9	4	48	1.56
31692547--31692611	2	34.0	2	90	9	109	50	0	0	49	1.00

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