genome.fa.s9.2.7.7.80.10.50.1000.86.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  86  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)
33840014--33840550	103	5.2	101	77	11	468	27	36	13	22	1.92
33839947--33840493	172	3.2	172	80	8	530	27	36	14	21	1.92
33840015--33840550	138	3.9	137	82	8	585	27	36	13	22	1.92
33839947--33840548	69	8.7	68	80	10	516	27	36	13	21	1.92
33840820--33840853	16	2.1	16	94	0	59	11	14	0	73	1.10
33860232--33860276	23	2.0	23	90	0	72	35	4	0	60	1.17
33885683--33885748	25	2.6	26	95	4	125	54	0	0	45	0.99
33885850--33885916	26	2.6	26	81	9	82	49	1	4	44	1.31
33885881--33885939	22	2.9	19	72	18	57	52	1	0	45	1.10
33885675--33885974	168	1.8	160	88	6	449	53	2	2	41	1.27
33886180--33886231	25	2.0	26	88	3	79	53	1	1	42	1.23
33886202--33886257	21	2.8	19	80	17	60	51	0	0	48	1.00
33886197--33886279	28	3.1	28	74	5	73	56	0	0	43	0.99
33886246--33886283	16	2.4	16	86	4	51	65	0	0	34	0.93
33886322--33886396	22	3.2	22	78	10	78	53	1	0	45	1.08
33886340--33886399	25	2.4	25	88	5	86	53	1	0	45	1.10
33890096--33890179	41	2.0	41	83	0	105	50	2	5	41	1.40
33903965--33904716	375	2.0	374	95	0	1360	22	20	15	40	1.91
33914057--33914090	6	5.7	6	89	0	50	14	2	82	0	0.79
33918210--33918309	28	3.6	28	82	8	123	38	15	8	39	1.76
33918273--33918349	27	2.8	28	76	2	75	44	15	10	29	1.80
33918241--33918362	55	2.2	56	82	1	138	40	12	9	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33918457--33918506	26	1.9	26	83	0	64	36	8	14	42	1.74
33918465--33918519	26	2.1	26	83	10	67	34	9	14	41	1.77
33918394--33918596	106	1.9	106	85	4	284	42	11	8	37	1.72
33921466--33921612	46	3.3	44	74	13	122	47	8	2	42	1.44
33921539--33921582	23	2.0	22	81	4	52	40	2	4	52	1.34
33921617--33921682	33	2.1	32	83	8	82	48	9	0	42	1.35
33921653--33921750	45	2.3	43	85	5	126	50	5	0	44	1.24
33925401--33925455	23	2.4	23	84	6	67	70	16	0	12	1.16
33925418--33925462	23	2.0	22	91	4	72	68	11	0	20	1.19
33925957--33926008	27	1.9	27	84	0	68	28	5	48	17	1.70
33929585--33929654	32	2.2	32	84	0	86	22	31	20	25	1.98
33931206--33931305	52	1.9	52	87	0	146	30	13	10	47	1.75
33933597--33933640	14	3.1	14	83	12	54	52	2	0	45	1.13
33939457--33939520	21	3.0	23	69	21	66	70	3	4	21	1.20
33942280--33942325	15	2.9	16	84	12	60	50	4	0	45	1.21
33947197--33947287	45	2.0	45	91	4	148	29	21	14	34	1.93
33953667--33953715	16	3.1	16	76	5	55	69	12	4	14	1.33
33954344--33954417	22	3.5	22	78	14	84	52	1	0	45	1.09
33954331--33954402	19	3.7	20	79	15	80	51	1	0	47	1.09
33954333--33954415	41	2.0	42	86	4	116	51	2	0	45	1.14
33954563--33954595	5	6.8	5	93	6	59	81	0	0	18	0.68
33954559--33954630	9	7.8	9	72	15	58	70	2	0	26	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33954445--33954706	128	2.0	130	83	8	331	60	5	0	34	1.20
33954639--33954695	27	2.1	27	83	3	71	52	3	0	43	1.18
33954745--33954884	27	5.1	27	76	9	115	51	2	0	45	1.18
33954923--33954956	8	4.2	8	85	14	52	11	0	0	88	0.52
33954923--33954956	16	2.2	16	94	5	61	11	0	0	88	0.52
33955046--33955078	16	2.1	16	94	0	57	24	6	0	69	1.10
33955713--33955777	29	2.2	31	83	10	82	36	0	4	58	1.19
33955713--33955788	29	2.5	30	79	10	75	34	1	3	60	1.23
33959397--33959444	22	2.1	23	85	11	64	25	8	8	58	1.55
33972884--33972963	31	2.6	31	84	9	94	52	0	16	31	1.44
33975538--33975585	18	2.7	17	80	3	60	41	8	8	41	1.65
33981524--33982869	335	4.0	336	97	0	2464	37	15	21	25	1.93
33981524--33982869	671	2.0	672	96	0	2482	37	15	21	25	1.93
33993464--33993498	15	2.3	16	85	14	56	51	0	2	45	1.16
33994647--33994681	15	2.5	14	90	9	54	45	2	0	51	1.16
33994881--33994964	39	2.2	40	80	10	102	33	19	8	39	1.81
33995554--33995623	22	3.1	22	69	18	72	51	14	7	27	1.68
33996062--33996128	29	2.3	29	79	5	73	35	10	14	38	1.81
33996378--33996437	10	6.3	10	73	9	54	75	0	0	25	0.81
33996403--33996437	5	7.2	5	87	6	54	80	0	0	20	0.72
33996378--33996437	19	3.2	20	83	6	72	75	0	0	25	0.81
33996411--33996445	14	2.5	14	90	9	54	80	0	2	17	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33996403--33996453	24	2.1	24	85	10	68	78	0	1	19	0.85
33997725--33997762	8	4.8	8	87	9	51	81	0	0	18	0.69
33997730--33997763	17	2.0	17	94	0	59	79	0	0	20	0.73
34005662--34005719	29	2.0	29	96	0	107	39	10	25	24	1.87
34006496--34006791	62	4.8	62	89	2	472	32	12	20	35	1.89
34006486--34006791	121	2.5	122	90	3	474	32	11	19	35	1.88
34011970--34012037	24	3.1	22	73	20	63	0	36	1	61	1.05
34014799--34014980	75	2.4	75	83	1	204	21	21	24	32	1.98
34015791--34015891	53	1.9	53	84	8	134	53	2	0	42	1.22
34015956--34016010	27	2.0	27	85	0	74	49	3	1	45	1.30
34015962--34016021	27	2.2	27	82	5	68	55	3	1	40	1.27
34016077--34016128	27	1.9	27	88	0	77	50	1	3	44	1.31
34016249--34016573	171	1.9	174	85	6	455	34	14	6	44	1.70
34017938--34018007	35	2.0	35	100	0	140	48	8	20	22	1.76
34023851--34024016	5	32.4	5	67	17	56	27	2	0	69	1.05
34023853--34023899	6	7.3	6	81	13	58	23	0	0	76	0.78
34023835--34023899	33	2.0	33	90	0	103	26	1	1	70	1.04
34023848--34023935	34	2.6	34	85	8	117	28	1	0	70	0.95
34023968--34024015	21	2.4	20	80	10	53	22	0	0	77	0.78
34027893--34027930	3	12.7	3	94	0	67	34	2	34	28	1.71
34031541--34031595	26	2.1	26	100	0	110	40	7	14	38	1.74
34031654--34031678	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34042136--34042196	31	2.0	31	90	6	97	24	22	9	42	1.84
34042679--34042718	22	1.9	21	90	10	64	47	0	0	52	1.00
34042671--34042729	28	2.1	28	81	6	66	50	0	0	49	1.00
34045899--34046006	35	3.1	34	80	11	121	52	18	6	22	1.68
34047206--34047250	14	3.4	14	79	17	60	40	0	0	60	0.97
34047174--34047252	19	3.9	19	75	14	54	39	0	1	59	1.06
34055428--34055464	13	2.6	15	79	16	51	62	2	0	35	1.10
34055903--34055934	16	2.0	16	93	0	55	78	0	3	18	0.89
34056031--34056060	8	3.9	8	91	8	53	90	0	0	10	0.47
34056031--34056059	15	1.9	15	100	0	58	89	0	0	10	0.48
34056109--34056178	25	2.7	26	84	8	81	42	2	1	52	1.24
34056240--34056295	27	2.1	27	83	6	69	42	0	5	51	1.24
34058689--34058750	15	4.1	15	72	15	56	50	0	41	8	1.32
34064474--34064520	12	4.3	11	79	17	53	2	36	2	59	1.21
34068696--34068746	22	2.3	22	93	0	84	15	29	5	49	1.68
34080720--34080757	2	19.0	2	100	0	76	0	50	0	50	1.00
34081103--34081146	18	2.4	18	76	0	52	68	0	4	27	1.09
34081582--34082017	216	2.0	217	88	0	649	27	9	12	50	1.71
34083566--34083649	44	1.9	44	100	0	168	36	10	7	45	1.67
34089065--34089112	19	2.5	19	100	0	96	54	14	10	20	1.70
34091214--34091262	25	2.0	25	84	8	64	51	0	0	48	1.00
34099239--34099516	60	4.7	60	78	1	222	36	14	10	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34111376--34111409	15	2.2	16	89	5	52	52	2	2	41	1.31
34122813--34122874	31	2.0	31	87	6	90	41	19	17	20	1.90
34123184--34123278	31	3.1	31	87	0	145	22	14	21	42	1.89
34130249--34130280	2	16.0	2	100	0	64	50	0	0	50	1.00
34133336--34133375	20	2.0	21	90	5	64	22	2	5	70	1.19
34133337--34133384	25	1.9	25	83	8	62	22	2	6	68	1.23
34141491--34141542	24	2.1	25	82	3	61	28	28	1	40	1.67
34144558--34144600	20	2.2	20	87	8	61	58	0	2	39	1.11
34158154--34158199	2	23.0	2	95	0	83	50	2	0	47	1.13
34167646--34167686	12	3.4	12	86	6	57	0	41	2	56	1.13

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