genome.fa.s4.2.7.7.80.10.50.1000.21.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  21  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)
7162180--7162237	27	2.1	29	87	6	84	37	25	13	22	1.91
7162482--7162522	21	1.9	22	90	5	66	51	7	24	17	1.70
7162482--7162526	20	2.2	21	84	11	58	55	6	22	15	1.63
7162480--7162527	21	2.3	20	79	10	60	56	6	22	14	1.61
7165929--7165974	23	2.0	23	95	0	83	21	21	28	28	1.99
7176446--7176548	54	1.9	54	93	0	179	25	39	16	18	1.91
7181297--7181566	29	9.3	29	77	4	276	38	13	10	37	1.79
7181336--7181566	86	2.7	86	84	0	282	37	14	10	37	1.81
7184932--7185014	43	1.9	43	97	0	157	20	18	37	24	1.94
7191330--7191394	31	2.1	32	91	2	105	15	20	23	41	1.89
7195065--7195103	16	2.4	16	82	0	51	51	5	23	20	1.67
7195310--7195415	15	6.9	14	75	16	77	65	1	33	0	1.04
7195311--7195416	16	6.8	16	75	19	98	65	1	33	0	1.04
7196791--7196904	38	3.0	38	92	0	174	28	32	9	29	1.89
7206613--7206659	5	9.4	5	82	13	53	21	2	0	76	0.89
7206615--7206652	16	2.5	15	87	8	58	18	2	0	78	0.86
7206621--7206669	25	2.0	24	84	11	64	20	2	2	75	1.00
7207869--7207916	18	2.8	18	81	15	57	70	4	4	20	1.21
7207888--7207938	20	2.3	23	77	12	63	74	3	3	17	1.12
7212909--7213176	68	3.9	68	78	2	241	35	9	19	35	1.85
7213000--7213176	69	2.6	68	80	1	183	35	9	20	33	1.86
7230971--7231073	42	2.5	42	85	0	134	27	22	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7241301--7241346	22	2.1	22	95	0	83	47	21	2	28	1.62
7244819--7244862	21	2.1	21	83	8	54	47	13	6	31	1.69
7260276--7260383	35	3.1	35	95	0	189	30	34	12	23	1.91
7261610--7261656	20	2.4	19	79	10	51	57	12	0	29	1.36
7269060--7269107	20	2.5	19	80	12	53	43	6	35	14	1.71
7269945--7270028	43	2.0	43	88	4	125	21	34	17	26	1.96
7273545--7273702	73	2.2	73	79	6	169	38	18	21	21	1.93
7274114--7274184	35	2.0	35	83	0	88	30	9	26	32	1.89
7278923--7279021	19	5.1	19	66	9	74	20	17	41	21	1.90
7278919--7279021	38	2.6	40	87	6	149	19	16	41	22	1.90
7281522--7281676	54	2.9	54	93	0	274	24	42	12	20	1.87
7281571--7281656	25	3.3	25	64	12	64	24	43	10	22	1.84
7283319--7283663	163	2.1	163	87	3	489	38	14	17	28	1.89
7287008--7287053	19	2.4	20	71	10	51	13	6	10	69	1.35
7287486--7287529	20	2.2	20	87	0	61	43	20	2	34	1.64
7287496--7287540	20	2.2	20	88	0	63	44	20	4	31	1.71
7296114--7296257	54	2.7	54	90	0	207	27	38	13	21	1.90
7302823--7302862	20	2.0	21	90	5	64	62	12	0	25	1.30
7304797--7304987	57	3.3	57	80	9	208	37	11	12	38	1.80
7304797--7304964	29	5.8	30	82	3	186	38	11	11	38	1.78
7304797--7304987	87	2.2	86	83	0	238	37	11	12	38	1.80
7319201--7319263	20	3.2	19	88	2	90	28	41	4	25	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7319262--7319380	43	2.8	43	89	2	168	19	37	21	21	1.94
7326481--7326543	20	3.2	20	90	2	101	30	41	3	25	1.71
7326542--7326660	43	2.8	43	88	2	159	21	37	19	21	1.94
7337653--7337714	28	2.1	29	85	5	81	41	20	6	30	1.78
7341298--7341344	19	2.5	20	75	10	62	46	8	31	12	1.72
7343578--7343718	61	2.3	60	83	1	174	36	23	16	23	1.94
7344019--7344062	22	2.0	23	95	4	81	31	45	0	22	1.53
7349793--7349840	21	2.3	20	79	10	60	14	22	6	56	1.61
7349798--7349838	21	1.9	22	90	5	66	17	24	7	51	1.70
7353759--7353926	61	2.8	61	92	0	273	23	19	32	25	1.97
7355015--7355054	2	20.0	2	89	0	62	45	2	2	50	1.28
7355096--7355240	42	3.5	42	84	3	175	22	33	20	23	1.97
7355117--7355248	42	3.1	42	84	4	176	22	32	21	22	1.98
7368418--7368461	19	2.1	22	88	12	67	63	15	0	20	1.31
7369743--7369788	20	2.3	21	88	7	69	65	10	0	23	1.24
7369628--7369808	91	2.0	91	92	2	301	51	14	2	30	1.56
7373417--7373458	21	2.1	20	86	8	59	28	0	4	66	1.12
7374570--7374611	19	2.2	19	95	0	75	16	33	9	40	1.81
7388024--7388105	37	2.2	37	91	4	130	26	35	10	26	1.90
7388014--7388105	37	2.5	38	87	7	120	27	34	9	28	1.88
7388686--7388724	20	2.0	20	89	0	60	41	10	33	15	1.81
7393528--7393652	43	2.9	43	76	14	141	28	18	31	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7393914--7393999	22	3.9	22	85	0	118	30	19	23	26	1.98
7394857--7395006	75	2.0	74	88	1	219	17	20	30	30	1.95
7397705--7397850	37	3.9	37	90	1	213	25	34	9	30	1.88
7399225--7399358	46	3.0	45	78	7	139	23	32	15	27	1.95
7399231--7399357	43	2.8	45	77	5	123	24	33	15	26	1.95
7402592--7402644	25	2.2	24	82	3	61	13	24	13	49	1.77
7402829--7402903	35	2.1	35	82	4	89	38	29	6	25	1.81
7402957--7403147	69	2.7	70	84	2	231	31	28	13	26	1.94
7404354--7404523	69	2.5	69	83	0	196	28	31	10	29	1.90
7404400--7404517	35	3.4	35	75	6	114	27	32	10	29	1.90
7406175--7406254	35	2.3	35	91	0	124	32	6	28	32	1.82
7409554--7409599	21	2.2	21	84	7	58	41	26	8	23	1.83
7421163--7421368	54	3.8	54	86	0	277	28	37	11	22	1.89
7422670--7422765	11	8.7	11	71	0	84	42	0	1	56	1.06
7422670--7422780	22	5.2	22	73	3	84	42	0	0	56	1.05
7422663--7422773	33	3.4	33	97	0	213	46	0	0	52	1.06
7422682--7422780	19	5.7	19	66	22	83	43	0	1	55	1.06
7425805--7425847	17	2.5	17	85	10	61	32	23	4	39	1.75
7427701--7427805	54	1.9	54	90	3	167	27	40	12	20	1.88
7431055--7431138	42	2.0	42	90	0	132	22	22	34	20	1.97
7436583--7436628	21	2.2	20	84	7	56	15	21	6	56	1.61
7436588--7436628	21	1.9	22	90	5	66	17	24	7	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7442433--7442457	13	1.9	13	100	0	50	48	8	0	44	1.32
7443724--7443761	19	2.0	19	94	0	67	42	28	0	28	1.56
7445801--7445845	15	3.0	15	81	12	56	53	20	2	24	1.57
7448431--7448468	19	2.0	19	94	0	67	42	28	0	28	1.56
7461963--7461995	17	1.9	17	88	11	50	39	3	15	42	1.62
7463049--7463114	34	1.9	34	87	6	98	46	6	4	42	1.48
7463346--7463381	19	1.9	18	94	5	63	50	0	0	50	1.00
7471240--7471283	22	2.0	22	86	0	61	31	6	18	43	1.76
7483918--7483970	20	2.7	20	97	2	99	56	0	0	43	0.99
7484458--7484649	93	2.1	92	87	2	269	23	10	28	37	1.88
7484474--7484688	91	2.3	92	82	2	270	22	10	28	38	1.88
7484474--7484722	91	2.7	90	78	4	257	23	10	28	37	1.87
7484890--7484957	25	2.8	24	84	4	91	47	16	26	10	1.78
7486035--7486194	63	2.5	62	90	2	239	25	18	31	25	1.97
7489372--7489404	17	1.9	17	88	11	50	39	3	15	42	1.62
7489518--7489898	191	2.0	190	96	1	701	36	14	16	33	1.88
7493998--7494129	43	3.1	43	86	2	176	21	18	38	21	1.93
7494115--7494177	20	3.2	20	90	2	101	25	3	41	30	1.71
7505995--7506113	43	2.8	43	89	2	177	21	21	37	19	1.94
7506005--7506126	43	2.8	43	88	2	174	22	18	39	18	1.92
7506112--7506174	20	3.2	20	90	2	101	25	3	41	30	1.71
7525449--7525489	21	1.9	22	95	5	75	26	19	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7539177--7539218	19	2.2	19	91	0	66	16	35	9	38	1.81
7555774--7555837	22	2.9	22	90	0	110	42	23	7	26	1.81
7578656--7578782	43	3.0	43	86	6	168	25	17	33	23	1.96
7581093--7581165	35	2.1	35	82	5	85	26	9	32	31	1.88
7581194--7581256	2	31.5	2	100	0	126	49	0	0	50	1.00
7582416--7582639	124	1.8	122	88	1	340	23	5	14	56	1.59
7583988--7584022	2	17.5	2	100	0	70	51	0	0	48	1.00
7584298--7584354	2	29.5	2	92	7	100	49	0	0	50	1.00
7585091--7585132	20	2.1	20	90	0	66	45	9	30	14	1.77
7585599--7585855	27	9.4	27	79	2	253	38	18	12	30	1.87

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