genome.fa.s6.2.7.7.80.10.50.1000.48.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  48  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)
15712483--15712537	16	3.4	16	75	9	58	14	47	14	23	1.81
15712482--15712553	32	2.3	32	85	2	101	13	45	13	26	1.81
15712578--15712608	16	1.9	16	100	0	62	29	6	38	25	1.81
15717268--15717312	23	2.0	23	95	0	81	42	28	4	24	1.74
15725106--15725138	3	11.0	3	93	0	57	0	30	0	69	0.88
15726939--15727053	21	5.5	21	64	10	65	42	16	23	17	1.88
15726933--15727061	42	3.1	42	73	8	127	43	14	22	19	1.87
15738508--15738604	50	1.9	50	87	4	142	31	23	22	21	1.98
15738508--15738604	25	3.9	24	84	6	122	31	23	22	21	1.98
15741784--15741842	18	3.2	18	81	11	59	66	0	0	33	0.92
15741784--15741844	19	3.3	18	77	9	52	65	0	0	34	0.93
15742058--15742116	18	3.2	18	81	11	59	66	0	0	33	0.92
15742058--15742118	19	3.3	18	77	9	52	65	0	0	34	0.93
15741766--15742314	274	2.0	275	99	0	1091	44	10	11	33	1.75
15742423--15742503	39	2.1	39	86	4	110	28	27	23	20	1.99
15743148--15743193	20	2.2	21	88	3	67	52	13	26	8	1.69
15745277--15745305	15	2.0	15	93	6	51	79	0	6	13	0.93
15745463--15745501	20	2.0	19	85	5	51	66	2	2	28	1.18
15746987--15747566	44	13.2	44	66	11	224	27	23	19	29	1.98
15746770--15747660	132	6.8	132	91	2	1425	27	24	18	29	1.98
15749270--15749317	7	6.7	7	79	13	53	12	16	4	66	1.39
15749270--15749317	15	3.4	14	80	13	53	12	16	4	66	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15750234--15750278	22	2.0	22	91	0	72	66	6	15	11	1.42
15752234--15752259	13	2.0	13	100	0	52	46	15	7	30	1.74
15753999--15754032	18	1.9	18	94	5	61	20	11	17	50	1.77
15754233--15754261	15	2.0	15	93	6	51	79	0	6	13	0.93
15756272--15756312	21	2.0	20	90	4	64	65	0	4	29	1.13
15756860--15756907	24	2.0	24	87	0	69	27	27	16	29	1.97
15758188--15758292	44	2.4	43	85	6	133	49	11	5	33	1.62
15760250--15760327	38	2.0	41	87	12	119	61	0	2	35	1.10
15760852--15760902	16	2.8	19	67	27	56	37	0	11	50	1.39
15760963--15761013	16	2.8	19	67	27	56	37	0	11	50	1.39
15760793--15761030	111	2.1	111	99	0	467	40	7	7	45	1.59
15761076--15761139	33	1.9	33	90	6	103	26	1	37	34	1.66
15761083--15761304	107	2.1	107	84	0	300	22	1	32	42	1.62
15761264--15761296	15	2.2	15	94	0	57	24	3	24	48	1.65
15761279--15761369	27	3.1	27	78	17	110	21	0	34	43	1.53
15761291--15761368	33	2.4	33	91	0	129	21	0	37	41	1.54
15761903--15761945	18	2.4	18	88	0	59	44	9	27	18	1.80
15763148--15763237	45	2.0	45	93	0	153	24	32	13	30	1.93
15764329--15764398	28	2.6	26	78	8	77	47	14	14	24	1.81
15766564--15766619	19	2.8	19	89	5	85	30	1	0	67	1.01
15766591--15766647	26	2.1	27	83	3	71	28	1	5	64	1.25
15767173--15767197	5	5.0	5	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15769087--15769125	19	2.0	18	85	14	51	41	2	0	56	1.13
15777085--15777211	35	3.7	33	75	10	103	31	29	20	18	1.96
15777085--15777184	17	5.8	17	72	9	76	31	31	20	18	1.96
15800416--15800443	13	2.2	13	100	0	56	42	7	21	28	1.79
15803252--15803285	10	3.5	10	88	8	52	85	0	14	0	0.60
15803250--15803296	25	1.9	25	86	4	69	80	0	19	0	0.70
15803379--15803424	21	2.2	21	88	0	65	30	10	32	26	1.90
15804493--15805823	88	15.1	88	90	0	1995	27	24	23	24	2.00
15805822--15806094	99	2.7	100	87	2	379	32	23	20	23	1.98
15805822--15806083	50	5.3	50	75	5	226	32	23	20	24	1.98
15806115--15806213	50	2.0	50	87	0	144	29	21	23	26	1.99
15806281--15806562	132	2.1	132	87	2	397	29	17	25	28	1.97
15808074--15808117	22	2.0	22	81	0	52	27	4	6	61	1.41
15808720--15809140	111	3.8	110	92	1	652	31	15	17	35	1.92
15809668--15809725	3	19.3	3	100	0	116	32	0	0	67	0.91
15821157--15821215	19	3.2	19	82	4	84	49	0	13	37	1.43
15822388--15822426	17	2.3	17	95	0	69	46	2	0	51	1.14
15822517--15822566	18	2.8	18	79	11	66	56	0	2	42	1.11
15822551--15822682	68	1.9	70	90	3	214	50	5	4	40	1.46
15827852--15827909	26	2.2	26	96	0	107	29	17	10	43	1.82
15828357--15828598	108	2.3	103	88	6	351	39	15	16	28	1.89
15828782--15829154	108	3.6	97	85	9	358	32	13	13	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15828887--15829154	108	2.4	110	92	3	434	31	14	14	40	1.85
15828675--15829076	205	1.9	208	89	6	632	33	12	14	39	1.85
15830121--15830162	7	6.1	7	88	5	68	11	47	0	40	1.40
15830121--15830163	13	3.1	14	86	10	61	11	48	0	39	1.40
15830404--15830443	6	6.7	6	97	0	71	15	0	12	72	1.12
15837724--15837765	15	2.7	16	70	7	50	21	2	14	61	1.43
15838722--15838755	16	2.2	16	89	5	52	61	0	0	38	0.96
15845064--15845112	24	2.0	24	100	0	98	22	20	24	32	1.98
15855945--15856138	43	4.5	42	76	14	155	27	14	24	32	1.94
15859527--15859591	25	2.7	24	81	6	69	75	4	3	16	1.10
15860453--15860521	23	3.0	23	93	4	113	49	13	0	37	1.42
15860979--15861047	32	2.2	32	83	0	84	33	14	13	39	1.85
15864472--15864744	136	2.0	137	99	0	539	43	10	5	39	1.63
15874243--15874270	3	9.3	3	100	0	56	67	0	32	0	0.91
15883309--15883356	25	1.9	25	95	0	87	35	16	25	22	1.95
15883461--15883537	24	3.2	24	68	15	59	38	22	23	15	1.92
15891270--15891328	26	2.3	26	85	5	84	38	20	22	18	1.93
15893896--15893943	25	2.0	25	87	4	71	39	18	25	16	1.91
15899894--15899974	42	1.9	43	94	2	146	28	27	30	13	1.94
15908181--15908294	36	3.3	36	66	24	109	23	33	28	14	1.94
15908212--15908326	31	3.5	31	67	23	92	24	34	29	11	1.90
15908181--15908325	67	2.2	67	100	0	290	24	33	28	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15908359--15908451	39	2.2	42	87	9	129	63	1	2	33	1.13
15917236--15917372	63	2.2	63	98	0	265	33	12	17	36	1.87
15918130--15918550	210	2.0	211	99	0	826	44	19	15	20	1.87
15925922--15925953	2	16.0	2	93	0	55	46	0	3	50	1.17
15937204--15937776	114	5.0	114	90	1	853	24	22	25	27	2.00
15938115--15938406	82	3.6	82	100	0	584	28	2	25	43	1.67
15938455--15938508	21	2.6	21	72	21	51	50	1	5	42	1.36
15938498--15938541	8	5.2	8	82	17	54	56	0	9	34	1.31
15938503--15938551	9	5.4	9	88	9	73	61	0	8	30	1.25
15961175--15961395	76	2.9	76	78	6	191	23	23	19	33	1.97
15962369--15962459	43	2.1	43	89	0	137	19	31	28	19	1.97
15963386--15963460	25	3.0	25	90	0	105	30	17	33	18	1.94
15975637--15976095	229	2.0	229	86	2	645	25	23	19	30	1.98
15978676--15978766	25	3.6	25	92	0	137	28	21	30	18	1.97
15984770--15984871	52	2.0	52	98	0	195	50	2	13	33	1.57
15985001--15985070	3	23.3	3	83	16	92	67	0	0	32	0.91
15984986--15985070	27	3.2	26	88	8	118	64	1	1	32	1.08
15985834--15985858	7	3.6	7	100	0	50	88	0	0	12	0.53
15986643--15986814	88	2.0	87	81	1	200	25	23	22	28	1.99
15986849--15987033	44	4.2	44	70	13	130	25	21	19	32	1.97
15986875--15987075	44	4.6	44	69	14	135	27	22	18	31	1.97
15986870--15987162	44	6.7	44	66	14	122	26	22	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15986761--15987210	132	3.4	131	89	1	643	26	22	18	32	1.97
15986761--15987356	132	4.5	130	83	4	581	25	22	19	32	1.97
15986761--15987345	264	2.2	263	82	4	687	25	22	19	32	1.97
15987134--15987382	44	5.6	44	73	7	191	25	22	20	30	1.98
15987134--15987382	88	2.8	86	76	8	259	25	22	20	30	1.98
16000150--16000185	3	12.0	3	100	0	72	66	0	0	33	0.92
16008919--16008984	25	2.6	25	83	4	80	24	3	34	37	1.71
16010984--16011056	25	2.9	25	87	2	101	36	36	4	21	1.73
16012679--16012706	3	9.3	3	100	0	56	0	0	32	67	0.91
16019452--16019561	42	2.6	42	82	2	123	13	22	19	44	1.85

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