genome.fa.s4.2.7.7.80.10.50.1000.80.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  80  of  82  ( 9773 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)
30292357--30292387	13	2.4	13	94	0	53	48	3	0	48	1.17
30303026--30303054	2	14.5	2	100	0	58	51	0	0	48	1.00
30303948--30303981	16	2.1	16	94	0	59	11	32	5	50	1.63
30305991--30306039	2	24.5	2	100	0	98	48	0	0	51	1.00
30310668--30310693	13	2.0	13	100	0	52	0	46	0	53	1.00
30323192--30323252	30	2.0	30	93	0	104	60	1	0	37	1.07
30323197--30323279	30	2.8	30	85	8	100	61	1	1	36	1.12
30324947--30324995	21	2.4	20	80	10	55	32	0	4	63	1.13
30335849--30335888	20	2.0	20	85	9	55	27	12	15	45	1.82
30338677--30338718	19	2.3	18	84	8	50	16	2	14	66	1.35
30339406--30339438	16	2.1	16	88	11	50	36	0	12	51	1.39
30339969--30339993	2	12.5	2	100	0	50	48	0	0	52	1.00
30353746--30353789	21	2.0	22	86	4	63	77	0	22	0	0.77
30354561--30354594	14	2.4	14	90	0	50	32	0	5	61	1.20
30363391--30363415	2	12.5	2	100	0	50	48	0	0	52	1.00
30379454--30379545	45	2.0	45	91	0	148	45	6	8	39	1.61
30388124--30388162	2	19.5	2	94	0	69	46	0	51	2	1.14
30396906--30396949	6	7.3	6	94	0	70	0	50	0	50	1.00
30422334--30422381	18	2.5	19	80	19	55	54	0	4	41	1.20
30422357--30422412	25	2.2	25	81	6	60	57	0	3	39	1.16
30422423--30422511	37	2.4	36	83	12	103	59	6	1	32	1.31
30422498--30422541	22	2.0	23	90	4	72	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30422449--30422706	42	6.4	41	71	17	150	53	3	3	40	1.34
30422485--30422594	26	4.1	27	73	11	84	57	0	0	40	1.11
30422372--30422744	162	2.3	161	82	8	419	55	3	2	38	1.31
30422588--30422676	40	2.2	42	82	8	103	47	2	6	43	1.42
30422676--30422729	27	2.0	27	88	0	81	46	7	1	44	1.42
30422658--30422872	22	10.0	21	64	19	68	53	4	0	40	1.26
30447496--30447611	57	2.0	58	89	1	180	20	26	20	31	1.98
30456173--30456201	15	1.9	15	100	0	58	65	6	6	20	1.40
30460401--30460448	24	2.0	24	84	8	62	6	27	14	52	1.66
30462394--30462464	17	4.2	18	73	21	64	56	2	0	40	1.14
30462423--30462469	17	2.7	17	87	9	60	51	0	0	48	1.00
30469252--30469297	19	2.4	19	82	13	51	63	0	2	34	1.07
30469851--30469946	49	2.0	47	86	8	131	33	9	9	47	1.68
30495840--30495877	19	2.0	20	84	5	51	63	23	0	13	1.30
30505860--30505891	16	2.0	16	93	0	55	53	18	0	28	1.45
30505855--30505901	16	2.7	18	77	12	53	55	14	0	29	1.40
30511628--30511767	45	3.1	45	86	2	201	30	17	17	34	1.93
30511841--30511936	29	3.3	29	82	5	88	39	12	10	37	1.77
30511861--30511936	29	2.7	29	85	4	93	44	11	7	35	1.70
30512972--30513022	23	2.1	25	85	7	70	41	1	0	56	1.10
30514637--30514677	16	2.5	17	84	11	59	73	0	0	26	0.84
30514637--30514682	15	2.9	16	83	6	58	73	0	2	23	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30514637--30514684	16	2.9	16	81	9	53	72	0	2	25	0.95
30517191--30517253	22	2.9	21	75	11	56	7	3	9	79	1.04
30517207--30517242	18	1.9	19	88	5	56	5	2	13	77	1.05
30519348--30519393	23	1.9	24	82	8	58	23	17	4	54	1.61
30531910--30532107	72	2.7	73	98	1	380	22	16	25	35	1.95
30539007--30539050	22	2.0	22	100	0	88	18	13	22	45	1.84
30545021--30545049	6	4.8	6	100	0	58	82	17	0	0	0.66
30545823--30545847	6	4.2	6	100	0	50	0	48	0	52	1.00
30549592--30549619	6	4.7	6	100	0	56	0	0	67	32	0.91
30554573--30554618	17	2.6	18	83	13	51	67	0	30	2	1.03
30556922--30556982	2	31.5	2	80	12	74	47	3	47	1	1.28
30565777--30565819	21	2.0	21	100	0	86	44	13	13	27	1.83
30570148--30570174	4	6.8	4	100	0	54	0	22	0	77	0.76
30575760--30575791	2	16.5	2	93	6	57	53	0	0	46	1.00
30575874--30575904	2	16.0	2	93	6	55	51	0	0	48	1.00
30592024--30592058	16	2.2	16	89	0	52	34	22	25	17	1.96
30600056--30600167	58	1.9	58	96	0	206	28	15	21	34	1.94
30622171--30622200	14	2.1	14	93	0	51	0	10	0	90	0.47
30631065--30631203	73	1.9	73	83	2	181	25	11	12	51	1.73
30631094--30631231	73	1.9	73	81	0	168	26	11	8	53	1.65
30631724--30631797	30	2.5	30	95	0	139	32	28	9	29	1.88
30631891--30631961	37	1.9	37	91	5	117	61	4	28	5	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30634272--30634967	347	2.0	348	88	1	1038	30	20	22	26	1.98
30635055--30635310	135	1.9	136	89	2	399	30	21	12	34	1.91
30651265--30651300	18	2.0	18	94	0	63	36	0	0	63	0.94
30651290--30651444	78	2.0	77	97	2	285	37	9	10	42	1.71
30653973--30654016	2	22.0	2	100	0	88	50	0	0	50	1.00
30654109--30654147	2	19.5	2	100	0	78	48	0	0	51	1.00
30663207--30663268	27	2.2	27	85	5	79	64	1	0	33	1.03
30666044--30666073	3	10.0	3	100	0	60	66	0	0	33	0.92
30684360--30684397	12	3.1	12	88	7	58	26	15	7	50	1.72
30711392--30711452	2	30.5	2	83	6	79	49	1	0	49	1.10
30711392--30711460	28	2.6	26	84	10	95	49	1	0	49	1.09
30713384--30713423	15	2.5	16	88	8	55	65	2	7	25	1.32
30723850--30723897	3	16.0	3	95	0	78	62	0	0	37	0.95
30725692--30725728	2	18.5	2	100	0	74	51	0	48	0	1.00
30732615--30732682	33	2.0	34	94	2	120	36	4	14	44	1.66
30740537--30740583	9	5.2	9	81	0	58	44	8	40	6	1.60
30742730--30742765	7	5.1	7	90	10	56	0	16	0	83	0.65
30742730--30742765	13	2.6	13	91	8	54	0	16	0	83	0.65
30743598--30743636	18	2.1	19	85	4	53	58	5	0	35	1.20
30748881--30748947	32	2.1	32	91	5	109	20	4	46	28	1.70
30752954--30753005	2	26.0	2	100	0	104	50	0	50	0	1.00
30758351--30758383	15	2.2	15	94	0	57	57	6	0	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30782312--30782452	73	1.9	74	88	4	214	45	9	6	38	1.63
30795202--30795250	16	3.2	16	66	16	50	26	6	6	61	1.43
30795201--30795258	29	2.0	29	100	0	116	24	6	6	62	1.45
30795210--30795258	16	3.2	16	66	16	50	24	6	8	61	1.47
30795329--30795729	209	1.9	213	81	11	491	42	8	4	44	1.55
30795825--30795870	20	2.3	20	85	7	58	69	2	0	28	1.00
30812727--30812823	31	3.1	31	80	16	135	40	8	5	46	1.56
30813192--30813328	66	2.1	64	83	5	168	35	8	10	45	1.69
30815900--30815969	34	2.1	34	94	0	122	51	14	4	30	1.61
30830033--30830068	2	17.5	2	88	5	54	47	0	2	50	1.15
30830161--30830214	28	2.0	28	88	3	83	42	7	1	48	1.42
30840180--30840365	99	1.9	99	86	6	270	45	11	12	30	1.78
30843616--30843654	13	2.9	14	84	7	53	48	0	0	51	1.00
30843734--30843775	3	14.3	3	80	5	50	33	0	0	66	0.92
30843737--30843775	14	2.9	14	85	11	55	33	0	0	66	0.92
30849448--30849545	49	2.0	49	93	0	169	25	11	22	40	1.87
30850082--30850121	18	2.2	18	86	8	55	52	0	5	42	1.23
30864137--30864214	40	2.0	40	100	0	156	29	7	23	39	1.82
30898015--30898064	2	25.0	2	100	0	100	50	0	0	50	1.00
30902005--30902102	29	3.4	29	97	0	178	53	1	15	30	1.49
30903740--30903845	53	2.0	53	94	0	185	34	14	16	33	1.89
30907804--30907836	6	5.5	6	100	0	66	48	0	33	18	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30907796--30907836	18	2.3	19	87	12	68	48	0	34	17	1.47
30938231--30938274	23	1.9	23	90	0	70	6	15	0	77	0.97
30951729--30951778	24	2.1	24	92	0	82	48	12	14	26	1.78
30956851--30956877	2	13.5	2	100	0	54	0	48	0	51	1.00
30964346--30964427	41	2.0	41	90	0	128	29	35	10	24	1.90
30970390--30970414	5	5.0	5	100	0	50	0	20	0	80	0.72
30974978--30975010	4	8.5	4	86	6	50	78	0	18	3	0.87
30997168--30997192	3	8.3	3	100	0	50	0	68	0	32	0.90
30997550--30997588	19	2.1	19	100	0	78	46	25	5	23	1.73
31007394--31007420	8	3.4	8	100	0	54	88	0	0	11	0.50

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