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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  9  of  85  ( 10117 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)
3017951--3017997	2	23.5	2	95	0	85	46	0	2	51	1.13
3026892--3026975	18	4.8	18	73	15	86	44	11	11	32	1.78
3026901--3026976	35	2.1	37	83	11	95	40	10	11	36	1.76
3027468--3027518	10	4.9	10	76	23	52	0	15	0	84	0.63
3027463--3027518	21	2.8	20	82	15	78	0	17	0	82	0.68
3027468--3027516	16	3.1	15	85	5	62	0	16	0	83	0.64
3027460--3027507	25	1.9	25	87	8	71	0	22	0	77	0.78
3027812--3027905	7	14.8	6	75	18	68	0	26	0	73	0.84
3027813--3027913	31	3.3	31	74	12	100	0	26	0	73	0.84
3027812--3027922	24	4.5	25	80	14	117	0	27	0	72	0.84
3027999--3028038	15	2.7	16	85	11	50	0	20	2	77	0.88
3028005--3028059	22	2.5	21	85	8	74	0	16	7	76	1.00
3028349--3028432	29	3.0	28	77	5	98	41	3	21	33	1.70
3028767--3029636	82	10.7	82	97	1	1589	38	20	15	25	1.93
3028631--3029636	246	4.2	246	94	3	1675	37	20	16	25	1.93
3030509--3030561	18	2.9	18	86	13	65	0	5	11	83	0.81
3030906--3030982	29	2.7	29	77	0	91	37	3	23	35	1.73
3031188--3031273	27	3.2	25	73	22	77	25	2	1	70	1.06
3031251--3031305	10	5.5	10	73	16	51	34	0	1	63	1.05
3031190--3031313	18	6.7	19	70	22	70	27	1	2	68	1.11
3031203--3031293	46	2.0	43	81	6	101	28	2	2	67	1.15
3031188--3031312	9	13.7	9	70	20	57	28	1	2	68	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3032371--3032523	46	3.4	46	94	2	267	26	24	15	33	1.94
3039155--3039865	381	1.9	378	82	5	907	38	8	17	35	1.80
3040895--3041033	46	3.0	46	92	0	224	35	10	25	28	1.89
3043545--3043622	21	3.7	21	75	0	66	12	20	20	46	1.83
3043484--3043628	42	3.5	42	81	1	148	15	20	19	44	1.86
3043971--3044048	21	3.7	21	75	0	66	12	20	20	46	1.83
3043910--3044054	42	3.5	42	81	1	148	15	20	19	44	1.86
3043298--3044164	426	2.0	426	99	0	1707	25	14	19	39	1.91
3045717--3045778	18	3.5	17	79	12	54	70	9	6	12	1.31
3046708--3046736	7	4.1	7	100	0	58	72	0	0	27	0.85
3046774--3047002	114	2.0	115	99	0	451	31	8	8	51	1.63
3049158--3049186	2	15.0	2	92	7	51	48	0	0	51	1.00
3049368--3049419	26	2.0	26	88	7	79	53	7	0	38	1.30
3060386--3060420	17	2.1	17	94	0	61	51	8	17	22	1.72
3068843--3068880	19	2.0	20	94	5	69	23	2	5	68	1.23
3086668--3086711	20	2.2	20	84	11	56	65	2	6	25	1.28
3095742--3095790	21	2.4	21	90	10	75	38	8	32	20	1.82
3101514--3101633	41	2.9	41	87	0	168	26	17	22	33	1.96
3103359--3103551	42	4.6	42	81	3	201	44	17	22	16	1.86
3103359--3103547	21	9.0	21	67	4	103	43	17	22	16	1.87
3112657--3112685	15	2.0	15	93	6	51	24	0	6	68	1.13
3113615--3113667	9	6.2	8	77	18	54	67	1	3	26	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113615--3113663	25	2.0	25	84	8	64	69	2	4	24	1.17
3113679--3113863	91	2.0	92	98	1	363	41	8	15	34	1.77
3113905--3113974	23	2.8	24	81	14	72	65	2	4	27	1.25
3113905--3113961	27	2.2	25	82	17	73	68	3	3	24	1.21
3114741--3114775	3	11.7	3	100	0	70	68	0	0	31	0.90
3119247--3119300	11	4.8	12	76	19	62	27	29	1	40	1.67
3119246--3119300	22	2.5	22	80	19	69	27	29	1	41	1.66
3119262--3119359	51	1.9	51	83	4	126	26	24	3	45	1.67
3120946--3121464	124	4.2	124	89	1	768	30	22	16	30	1.96
3120946--3121464	251	2.1	248	90	1	804	30	22	16	30	1.96
3128448--3128559	42	2.7	42	85	0	134	33	20	14	32	1.92
3128490--3128576	42	2.1	42	86	0	120	31	21	17	29	1.96
3128893--3128963	21	3.4	21	84	0	88	4	47	16	30	1.66
3129196--3130227	112	9.2	112	97	0	1897	26	27	16	29	1.97
3130174--3130347	40	4.3	40	94	0	285	20	31	16	32	1.94
3131606--3131642	11	3.4	11	88	0	56	54	0	0	45	1.00
3131611--3131678	24	2.9	23	78	8	91	55	0	1	42	1.08
3133515--3133565	23	2.2	24	82	6	61	49	0	7	43	1.32
3134882--3134935	25	2.2	25	93	3	92	59	1	3	35	1.26
3144537--3144565	10	2.9	10	100	0	58	6	31	62	0	1.22
3144676--3144709	18	2.0	16	88	11	50	2	32	58	5	1.37
3148534--3148619	26	3.1	26	76	12	82	51	8	17	23	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153944--3153990	5	9.2	5	90	4	76	40	17	2	40	1.61
3156080--3156293	106	2.0	107	99	0	421	42	8	6	42	1.61
3157542--3157582	19	2.1	20	90	4	66	63	0	0	36	0.95
3158648--3158672	2	12.5	2	100	0	50	48	0	0	52	1.00
3158729--3158753	2	12.5	2	100	0	50	48	0	0	52	1.00
3158633--3158795	81	2.0	82	98	1	319	34	3	17	44	1.66
3160827--3160859	2	16.5	2	100	0	66	0	48	0	51	1.00
3164277--3164456	45	4.0	45	100	0	360	42	15	13	28	1.85
3165956--3166007	13	4.0	13	76	13	54	50	0	1	48	1.12
3167217--3167257	21	2.0	20	85	4	55	4	14	7	73	1.22
3167589--3168140	275	2.0	275	100	0	1104	25	11	11	51	1.71
3170059--3170097	1	39.0	1	100	0	78	0	0	0	100	0.00
3178981--3179011	2	15.5	2	100	0	62	51	0	0	48	1.00
3183625--3183690	30	2.2	30	86	0	96	24	16	7	51	1.70
3186108--3186601	84	5.9	83	82	3	487	35	31	14	18	1.91
3188398--3188462	28	2.2	30	86	5	89	33	9	10	46	1.71
3188429--3188579	75	2.0	76	98	1	295	37	10	5	46	1.61
3195305--3195340	11	3.2	11	96	4	63	19	36	0	44	1.51
3198723--3198768	11	4.1	11	91	2	74	17	32	0	50	1.47
3198734--3198780	22	2.1	22	84	7	60	21	34	0	44	1.52
3198756--3198868	51	2.2	51	88	3	165	30	27	0	40	1.62
3205070--3205196	48	2.7	48	86	1	157	26	22	28	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207935--3208000	9	7.4	9	82	3	89	37	25	12	24	1.90
3207935--3208000	18	3.7	18	93	2	116	37	25	12	24	1.90
3208261--3208433	85	2.0	86	97	2	330	35	21	15	27	1.93
3210946--3211012	31	2.2	31	81	10	75	47	10	2	38	1.53
3212935--3212997	30	2.1	31	82	8	76	47	11	4	36	1.60
3213278--3213346	31	2.2	31	81	0	84	49	11	7	31	1.66
3225303--3225345	21	2.0	21	86	8	61	37	0	0	62	0.95
3225857--3225897	20	2.0	20	100	0	82	24	41	14	19	1.89
3230521--3230629	30	3.3	30	68	20	83	56	3	32	7	1.44
3230652--3230682	3	10.3	3	92	0	53	64	0	35	0	0.94
3230667--3230817	81	1.9	81	94	2	268	57	1	33	7	1.36
3230585--3231097	183	2.7	187	84	12	667	55	2	33	7	1.42
3230659--3230826	81	2.1	81	88	4	252	57	1	33	8	1.36
3230835--3230877	6	7.2	6	97	0	68	55	0	44	0	0.99
3230745--3230967	114	2.0	114	92	1	376	54	3	34	7	1.45
3230859--3231097	90	2.6	90	88	4	338	57	2	32	7	1.41
3231051--3231105	27	2.0	27	89	0	83	61	3	32	1	1.24
3230661--3231105	204	2.2	202	84	8	505	56	2	33	7	1.42
3231583--3231607	2	12.5	2	100	0	50	52	48	0	0	1.00
3232849--3232889	2	20.5	2	89	0	64	46	0	4	48	1.23
3234536--3234610	39	2.0	38	87	10	109	54	10	2	32	1.49
3235435--3235460	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3240296--3241284	503	2.0	503	97	0	1879	27	17	28	26	1.97
3242392--3242421	11	2.6	11	94	5	51	20	3	0	76	0.92
3243137--3243224	45	2.0	45	86	0	122	39	20	18	21	1.92
3247960--3247999	17	2.4	17	91	0	62	10	50	22	17	1.76
3248385--3248642	87	3.0	87	87	2	358	27	22	23	26	1.99
3248644--3249431	175	4.5	175	96	0	1387	31	19	20	28	1.97
3249276--3249854	129	4.5	129	92	0	906	31	18	21	29	1.97
3250388--3250425	17	2.2	17	90	0	58	10	50	21	18	1.76
3256718--3256742	6	4.2	6	100	0	50	0	16	0	84	0.63
3257275--3257471	39	5.2	39	88	4	303	14	56	18	9	1.65

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