genome.fa.s5.2.7.7.80.10.50.1000.9.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  9  of  103  ( 12320 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)
3474379--3474474	48	2.0	48	93	4	165	38	8	36	16	1.79
3474379--3474473	25	3.9	24	93	5	156	37	8	36	16	1.79
3477052--3477113	20	3.1	20	71	0	70	20	25	14	38	1.91
3478034--3478081	20	2.4	20	78	0	51	27	16	16	39	1.90
3482638--3482692	21	2.7	21	83	8	60	29	0	0	70	0.87
3482659--3482695	10	3.5	11	86	13	51	21	0	0	78	0.75
3490864--3491089	112	2.0	111	97	2	427	38	21	14	25	1.91
3492437--3492485	9	5.4	9	85	0	71	40	18	10	30	1.84
3492433--3492485	18	2.9	18	94	0	97	39	18	11	30	1.86
3494026--3494101	21	3.6	21	92	0	125	10	31	9	48	1.69
3497971--3498003	17	1.9	17	88	11	50	30	18	15	36	1.91
3498868--3498920	25	2.1	26	82	10	65	49	1	7	41	1.42
3506599--3506658	2	32.5	2	84	15	85	53	0	0	46	1.00
3507235--3507272	2	19.0	2	94	0	67	47	0	0	52	1.00
3523079--3523104	12	2.2	12	100	0	52	42	42	0	15	1.47
3526897--3526962	34	1.9	34	87	0	96	42	12	15	30	1.83
3537151--3537193	13	3.1	13	80	12	50	62	0	0	37	0.95
3537482--3537510	15	1.9	15	100	0	58	13	31	13	41	1.84
3540490--3540527	19	2.0	19	90	10	60	2	18	0	78	0.86
3540480--3540525	21	2.1	22	88	11	69	2	23	0	73	0.94
3540491--3540535	19	2.4	19	85	7	56	2	17	4	75	1.07
3554101--3554148	3	16.0	3	95	0	87	33	2	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3557297--3557350	16	3.4	16	77	10	58	25	3	1	68	1.16
3571774--3571934	71	2.3	71	94	0	277	4	43	14	37	1.66
3572827--3572905	39	2.0	39	92	0	131	50	8	17	22	1.74
3573189--3573576	212	1.8	216	85	5	563	46	3	6	43	1.48
3582100--3582137	7	5.4	7	90	0	58	52	2	13	31	1.54
3583868--3583893	6	4.3	6	100	0	52	53	0	15	30	1.42
3588918--3588956	14	2.9	14	80	3	53	51	0	0	48	1.00
3590350--3590452	38	2.6	40	85	8	133	21	15	39	23	1.91
3590350--3590455	40	2.7	38	85	8	135	21	15	39	23	1.91
3599800--3599838	19	2.1	19	85	0	51	74	5	20	0	1.01
3618477--3618504	3	9.3	3	100	0	56	32	0	0	67	0.91
3638098--3638173	38	2.0	38	97	0	143	17	18	14	50	1.79
3644637--3644671	14	2.4	15	90	4	54	34	2	0	62	1.10
3652923--3653019	49	2.0	49	97	0	185	32	25	21	19	1.97
3674870--3674897	14	2.0	14	100	0	56	35	14	14	35	1.86
3704204--3704303	28	3.5	28	74	12	112	42	7	21	30	1.79
3704188--3704319	59	2.2	59	97	0	246	44	9	16	29	1.78
3704231--3704319	28	3.0	29	69	15	92	43	8	17	29	1.80
3704406--3704455	19	2.7	18	78	6	55	56	6	0	38	1.24
3704440--3704493	16	3.3	17	78	19	53	53	5	3	37	1.42
3705286--3705491	35	6.1	33	68	19	115	24	12	26	36	1.91
3705292--3705464	67	2.6	68	88	5	257	24	11	27	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3705291--3705437	35	4.4	33	76	15	133	23	10	28	38	1.87
3714089--3714131	16	2.4	18	81	11	54	44	2	0	53	1.13
3717491--3717564	38	1.9	38	94	0	130	37	9	8	44	1.67
3717491--3717553	21	3.2	21	65	17	62	38	9	7	44	1.66
3720663--3720693	15	2.0	16	93	6	55	64	0	0	35	0.94
3721335--3721371	17	2.2	17	90	0	56	45	5	2	45	1.40
3723618--3723703	45	1.9	45	90	0	136	24	19	9	46	1.79
3724342--3724398	16	3.7	16	71	15	57	70	8	1	19	1.23
3724554--3724617	18	3.6	18	74	2	67	43	17	10	28	1.82
3724547--3724615	36	1.9	35	91	2	111	42	17	11	28	1.84
3725107--3725237	43	3.0	43	91	4	219	20	14	22	41	1.89
3726079--3726246	79	2.2	77	82	4	203	41	6	3	48	1.46
3726158--3726500	96	3.6	92	71	15	253	39	5	3	51	1.42
3726008--3726344	171	1.9	174	86	4	486	40	5	2	51	1.40
3726162--3726823	200	3.3	203	82	5	826	39	4	3	51	1.41
3726559--3726742	91	2.0	92	88	4	273	43	3	2	50	1.32
3726460--3726701	112	2.2	113	79	12	252	42	4	2	50	1.39
3727084--3727290	113	1.8	116	81	7	264	37	5	4	51	1.47
3729774--3729807	16	2.1	16	88	0	50	38	0	2	58	1.13
3733503--3733534	15	2.1	15	94	0	55	28	21	6	43	1.77
3736157--3736182	2	13.0	2	100	0	52	50	0	0	50	1.00
3736845--3736883	17	2.3	17	81	0	51	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739519--3739554	18	2.1	18	89	5	56	13	0	25	61	1.33
3747409--3747447	12	3.3	12	80	20	55	56	12	7	23	1.62
3747400--3747447	23	2.1	23	100	0	96	54	12	8	25	1.65
3747400--3747438	11	3.5	11	80	19	53	51	12	10	25	1.71
3748540--3748567	7	4.0	7	100	0	56	14	14	14	57	1.66
3748674--3748721	17	2.8	16	78	12	51	29	4	2	64	1.23
3749096--3749241	63	2.3	63	95	0	256	41	17	10	30	1.84
3749213--3749251	18	2.2	18	95	0	69	41	17	10	30	1.83
3749213--3749251	9	4.3	9	83	0	51	41	17	10	30	1.83
3749349--3749411	25	2.5	24	80	7	72	57	4	1	36	1.30
3749931--3749964	14	2.4	14	90	0	50	73	0	5	20	1.04
3751089--3751131	16	2.9	15	86	6	52	37	0	0	62	0.95
3751109--3751285	82	2.1	82	79	10	189	44	5	5	45	1.49
3757098--3757165	31	2.1	32	81	10	77	41	27	11	19	1.86
3763042--3763076	17	2.1	17	100	0	70	37	11	11	40	1.77
3769593--3769638	21	2.3	20	88	7	67	41	10	26	21	1.86
3769599--3769641	21	2.0	21	95	0	77	41	13	25	18	1.88
3784494--3784531	20	1.9	20	88	0	58	55	0	0	44	0.99
3785874--3785925	28	1.9	26	92	7	86	9	23	3	63	1.41
3788380--3788416	11	3.2	12	85	7	51	24	0	0	75	0.80
3804277--3804482	32	6.5	32	74	17	160	4	46	19	29	1.70
3805116--3805154	16	2.5	15	84	12	51	76	5	0	17	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3807179--3807234	22	2.6	21	77	8	58	71	0	3	25	1.02
3810216--3810249	3	11.3	3	93	0	59	0	35	0	64	0.94
3815767--3815797	15	2.1	15	93	0	53	35	0	25	38	1.56
3816029--3816099	33	2.1	34	84	5	90	29	9	1	59	1.38
3816029--3816109	33	2.4	33	81	8	83	29	8	1	60	1.34
3816926--3816962	17	2.2	17	90	0	56	40	5	10	43	1.63
3820574--3820607	14	2.4	14	90	5	50	17	29	11	41	1.85
3820589--3820647	29	2.0	29	83	0	73	16	28	10	44	1.81
3822627--3822917	103	2.8	102	75	1	258	25	19	12	42	1.86
3824071--3824114	18	2.4	18	79	20	56	77	4	2	15	1.04
3824073--3824116	19	2.4	18	81	11	54	77	4	2	15	1.04
3825290--3825381	35	2.6	35	75	0	103	41	17	14	27	1.88
3825639--3825698	29	2.1	29	83	0	75	26	28	1	43	1.65
3828753--3828806	20	2.6	21	88	5	74	66	0	33	0	0.92
3829942--3830009	35	1.9	35	84	0	91	29	11	29	29	1.92
3831655--3831689	16	2.2	16	89	0	52	60	14	0	25	1.35
3837251--3837497	124	2.0	123	97	0	458	30	14	13	40	1.86
3838144--3838186	2	22.0	2	95	4	79	51	0	0	48	1.00
3847005--3847216	78	2.7	78	89	0	307	33	12	19	33	1.90
3853145--3853250	20	5.3	20	100	0	212	4	47	18	29	1.69
3853320--3853352	16	2.1	15	94	5	57	12	15	0	72	1.12
3857847--3858116	35	7.7	35	80	3	258	42	13	6	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3857868--3858116	107	2.4	105	83	3	324	44	12	6	36	1.69
3857847--3858123	142	2.0	139	88	3	412	43	13	6	36	1.70
3875815--3875987	43	4.0	43	84	4	211	42	26	16	15	1.87
3875988--3876031	23	1.9	23	90	9	72	59	4	9	27	1.48
3885763--3885804	20	2.0	21	90	4	68	76	0	14	9	1.02
3885756--3885804	20	2.5	20	83	6	66	77	0	14	8	0.98
3885825--3885882	23	2.8	19	73	19	53	51	1	1	44	1.21
3890340--3890393	23	2.3	23	83	0	63	16	11	31	40	1.84
3892163--3892218	24	2.3	24	78	6	60	8	30	19	41	1.82
3896196--3896226	15	2.1	15	93	0	53	61	22	3	12	1.46

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