genome.fa.s1.2.7.7.80.10.50.1000.16.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:  37323695

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   

This is table  16  of  93  ( 11113 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)
7376434--7376591	28	5.7	28	78	3	122	41	8	8	41	1.67
7376434--7376584	55	2.8	54	81	3	158	40	9	8	41	1.68
7376519--7376600	28	3.0	27	80	5	83	39	8	10	41	1.71
7383137--7383202	32	2.1	31	88	5	98	30	0	10	57	1.32
7389703--7389773	2	37.0	2	83	8	85	47	2	1	47	1.25
7391105--7391153	6	8.7	6	77	8	50	81	12	2	4	0.91
7391095--7391153	27	2.1	27	87	6	82	79	10	3	6	1.03
7395308--7395359	24	2.2	24	86	10	72	80	5	3	9	0.99
7397927--7397985	22	2.7	22	81	0	64	23	10	20	45	1.81
7397944--7397990	22	2.1	22	88	0	67	27	12	19	40	1.88
7397990--7398040	22	2.3	22	79	0	57	27	15	17	39	1.90
7398045--7398130	23	3.7	23	85	1	109	34	27	10	26	1.89
7398142--7398229	22	4.0	22	66	8	54	40	20	10	28	1.85
7398219--7398261	22	2.0	22	85	0	59	51	13	6	27	1.67
7398397--7398525	52	2.5	51	83	2	159	37	14	7	39	1.75
7404493--7404522	15	1.9	15	93	6	51	63	6	0	30	1.20
7404668--7404713	14	3.3	14	82	8	58	76	0	0	23	0.79
7414252--7414375	2	64.5	2	76	17	104	45	4	1	49	1.30
7415961--7416033	26	2.8	26	81	6	87	52	0	2	45	1.15
7415965--7416016	15	3.1	15	75	21	50	50	0	3	46	1.20
7415990--7416032	8	5.1	8	80	8	50	55	0	2	41	1.12
7416002--7416088	16	5.4	16	71	14	54	42	1	2	54	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7416103--7416162	22	2.7	23	78	14	72	55	3	0	41	1.16
7416892--7416925	2	17.0	2	100	0	68	50	0	0	50	1.00
7419409--7419438	2	15.0	2	100	0	60	50	0	50	0	1.00
7419522--7419553	2	16.0	2	100	0	64	50	0	50	0	1.00
7419409--7419636	116	2.0	115	98	1	431	41	7	32	17	1.78
7427801--7427866	30	2.2	29	83	2	87	37	3	1	57	1.23
7438370--7438405	2	18.0	2	100	0	72	50	0	0	50	1.00
7439010--7439036	8	3.4	8	100	0	54	66	0	0	33	0.92
7439640--7439671	16	2.0	16	93	0	55	28	0	6	65	1.16
7440367--7440415	23	2.2	23	85	3	64	51	0	2	46	1.12
7440389--7440435	24	1.9	25	82	4	60	46	4	0	48	1.21
7445701--7445751	5	9.8	5	79	12	50	70	0	1	27	0.98
7460144--7460205	28	2.2	29	82	2	72	53	0	0	46	1.00
7469564--7469633	35	1.9	35	88	5	104	35	8	20	35	1.83
7475695--7475771	30	2.6	29	80	11	86	59	0	3	36	1.16
7479132--7479212	29	2.7	30	81	12	105	67	0	1	30	0.98
7479158--7479205	22	2.1	23	82	17	57	72	0	2	25	0.95
7480474--7480605	50	2.7	48	77	12	137	54	5	5	34	1.46
7480710--7480744	3	11.7	3	100	0	70	65	0	0	34	0.93
7480743--7480768	3	8.7	3	100	0	52	34	0	0	65	0.93
7482369--7482395	6	4.5	6	100	0	54	18	0	48	33	1.49
7482985--7483019	2	17.5	2	100	0	70	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)
7483909--7483942	11	3.0	11	91	4	50	67	0	2	29	1.05
7483907--7483947	12	3.4	12	86	10	57	65	2	2	29	1.18
7485376--7485422	3	15.7	3	82	8	60	61	2	2	34	1.20
7500670--7500694	3	8.3	3	100	0	50	36	0	32	32	1.58
7504341--7504378	2	19.0	2	100	0	76	50	0	0	50	1.00
7508760--7508827	33	2.1	33	97	0	127	32	7	13	47	1.70
7509274--7509310	2	19.5	2	89	10	60	0	48	0	51	1.00
7509361--7509397	2	18.5	2	100	0	74	0	48	0	51	1.00
7509397--7509433	2	18.5	2	100	0	74	48	0	0	51	1.00
7516258--7516488	45	5.1	45	81	0	219	37	16	16	29	1.91
7516426--7516554	66	2.0	66	84	0	168	34	13	18	33	1.90
7516628--7516734	45	2.4	45	91	0	169	34	14	19	31	1.91
7516826--7516883	26	2.2	26	82	11	66	43	8	8	39	1.66
7516818--7516880	26	2.6	24	78	11	65	47	9	7	34	1.65
7522072--7522118	2	23.5	2	95	0	85	46	0	53	0	1.00
7536423--7536493	22	3.4	21	76	14	76	42	2	0	54	1.14
7536748--7536793	23	2.0	23	91	0	74	39	6	13	41	1.70
7537304--7537411	2	55.5	2	81	12	127	49	1	1	46	1.23
7537968--7537993	2	13.0	2	100	0	52	50	0	50	0	1.00
7538069--7538095	12	2.2	12	100	0	54	59	14	25	0	1.36
7544264--7544343	40	2.0	40	100	0	160	37	17	20	25	1.94
7546742--7546785	23	1.9	23	90	0	70	81	2	15	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7546749--7546795	19	2.5	18	83	16	60	85	4	10	0	0.74
7546748--7546795	23	2.1	23	84	0	60	85	4	10	0	0.73
7546883--7547164	150	1.9	150	90	0	456	48	10	6	34	1.63
7547352--7547445	45	2.0	46	95	4	172	32	14	19	32	1.92
7560983--7561048	32	2.0	34	88	5	100	31	43	9	15	1.77
7567254--7567393	73	1.9	73	85	0	190	37	10	7	44	1.67
7573450--7573584	34	3.6	37	80	11	127	45	8	5	40	1.58
7573450--7573584	39	3.6	37	79	8	141	45	8	5	40	1.58
7575838--7575889	20	2.5	21	87	3	70	19	17	28	34	1.94
7575876--7576132	26	10.7	26	71	15	178	26	13	24	35	1.92
7575857--7576058	95	2.1	93	79	8	221	25	14	24	35	1.94
7576171--7576309	22	6.4	22	82	9	169	38	26	15	19	1.91
7576165--7576309	43	3.3	43	84	9	179	40	26	14	19	1.90
7576163--7576309	65	2.3	65	92	0	258	40	25	14	19	1.90
7577182--7577231	20	2.5	20	83	6	57	8	12	4	76	1.15
7585701--7585727	2	13.5	2	100	0	54	51	0	0	48	1.00
7585821--7585857	18	2.1	18	89	0	56	35	10	21	32	1.88
7587543--7587580	16	2.4	16	90	0	58	15	0	2	81	0.80
7587769--7587802	15	2.3	15	84	0	50	52	0	0	47	1.00
7587608--7588438	428	2.0	419	97	1	1563	42	8	9	38	1.69
7588466--7588542	40	1.9	40	94	0	136	41	11	27	19	1.86
7592410--7592464	17	3.4	17	65	14	53	60	10	7	21	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7595054--7595108	20	2.8	20	100	0	110	21	27	12	38	1.90
7595515--7595584	33	2.1	33	86	5	97	30	20	27	22	1.98
7605440--7605482	2	21.5	2	100	0	86	51	0	0	48	1.00
7618017--7618154	67	2.1	66	94	1	240	23	12	20	43	1.86
7618120--7618270	76	2.0	75	88	6	225	27	17	25	29	1.97
7618672--7618715	21	2.1	21	100	0	88	38	9	15	36	1.80
7627109--7627159	2	26.0	2	88	4	77	50	1	0	47	1.12
7627177--7627201	2	12.5	2	100	0	50	52	0	48	0	1.00
7627201--7627240	2	20.0	2	100	0	80	50	0	0	50	1.00
7627993--7628020	6	4.7	6	100	0	56	14	0	17	67	1.22
7634129--7634170	21	2.0	20	86	4	57	7	16	11	64	1.48
7636265--7636336	33	2.1	34	85	7	94	31	9	4	54	1.52
7637129--7637169	16	2.6	16	96	0	73	29	26	4	39	1.77
7639841--7639896	13	4.3	13	78	14	62	25	5	0	69	1.09
7640892--7640939	12	3.8	12	81	15	53	14	12	0	72	1.11
7640890--7640947	15	3.9	15	81	18	68	15	10	0	74	1.08
7640907--7640940	6	5.7	6	86	13	52	14	14	0	70	1.17
7643179--7643271	26	3.6	26	74	11	91	29	20	10	39	1.86
7644749--7644802	13	4.2	12	79	11	54	1	29	0	68	1.00
7646512--7646561	19	2.8	18	88	8	68	50	0	2	48	1.12
7675971--7676031	8	7.6	8	86	0	59	32	0	16	50	1.45
7675983--7676017	4	8.8	4	100	0	70	25	0	22	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7675968--7676031	12	5.3	12	88	0	74	34	0	15	50	1.45
7679537--7679579	2	21.5	2	95	0	77	48	0	2	48	1.14
7682883--7682908	2	13.0	2	100	0	52	50	0	0	50	1.00
7704375--7704419	20	2.2	20	84	7	56	33	2	11	53	1.49
7705645--7705699	25	2.4	21	73	21	65	34	18	21	25	1.96
7713886--7713927	20	2.1	20	100	0	84	30	14	23	30	1.94
7723758--7723821	25	2.6	25	87	0	83	40	9	18	31	1.83
7728460--7728522	33	1.9	33	100	0	126	22	9	17	50	1.74
7740910--7740954	18	2.6	18	80	16	58	31	2	2	64	1.18
7743486--7743655	90	1.9	90	93	0	295	27	10	10	52	1.66

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