genome.fa.s4.2.7.7.80.10.50.1000.9.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:  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  9  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)
2928513--2928611	23	4.3	23	75	8	76	22	37	14	26	1.92
2928262--2929287	104	9.9	104	77	6	838	23	33	14	28	1.94
2928247--2929269	208	5.0	208	85	3	1182	23	33	14	28	1.94
2928848--2928904	23	2.5	23	82	0	69	22	31	15	29	1.95
2928924--2929004	23	3.5	23	77	3	65	20	35	14	28	1.93
2929159--2929230	22	3.1	22	76	6	63	23	33	15	27	1.95
2930022--2930063	22	1.9	22	85	0	57	19	11	21	47	1.81
2931394--2931529	68	2.0	68	95	0	245	38	20	16	23	1.92
2934052--2934092	20	2.1	20	86	4	57	60	7	7	24	1.48
2935173--2935210	20	1.9	19	89	5	58	52	2	2	42	1.29
2936113--2936137	13	1.9	13	100	0	50	48	0	0	52	1.00
2937291--2937357	28	2.3	30	87	10	95	46	17	5	29	1.72
2938936--2939136	23	8.7	23	73	0	132	33	24	13	28	1.93
2939427--2939497	26	2.7	26	86	2	97	53	5	14	26	1.62
2940583--2940840	132	2.0	132	81	1	311	26	14	35	23	1.93
2941878--2942565	86	8.0	86	88	3	990	39	7	7	45	1.60
2948888--2948912	13	1.9	13	100	0	50	44	0	8	48	1.32
2959175--2959310	67	2.0	67	91	2	220	24	13	27	34	1.93
2959199--2959317	35	3.5	35	71	6	109	29	13	26	30	1.94
2965169--2965623	228	2.0	227	99	0	892	25	20	14	39	1.90
2970797--2970933	72	1.9	73	89	1	213	41	14	19	24	1.89
2972230--2972254	13	1.9	13	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974078--2974183	35	3.1	35	68	8	110	29	11	26	33	1.91
2974085--2974197	35	3.3	35	69	7	106	27	10	27	34	1.90
2974871--2974921	21	2.4	23	75	24	58	43	3	1	50	1.31
2980158--2980212	20	2.7	21	80	5	69	74	0	0	25	0.82
2989679--2989752	30	2.5	30	80	12	82	37	2	0	59	1.12
2989730--2989757	14	2.0	14	100	0	56	42	0	0	57	0.99
3000940--3001012	37	2.0	37	94	0	128	41	9	5	43	1.60
3000852--3001132	116	2.3	116	85	8	377	43	8	9	38	1.67
3002975--3003004	16	1.9	15	93	6	51	46	6	20	26	1.75
3004734--3004773	18	2.2	18	90	0	62	52	17	7	22	1.69
3005706--3005749	6	7.3	6	81	0	52	2	45	4	47	1.35
3006490--3006570	39	2.0	39	81	9	92	59	3	7	29	1.42
3014065--3014132	33	2.1	33	97	0	127	41	17	16	25	1.89
3014381--3014437	26	2.2	26	83	3	69	5	52	10	31	1.58
3015024--3015086	33	1.9	33	83	6	83	42	12	9	34	1.76
3019787--3019913	63	2.0	64	92	4	213	16	32	16	34	1.92
3026733--3026757	3	8.3	3	100	0	50	0	36	0	64	0.94
3028721--3028768	2	24.5	2	91	4	80	47	2	0	50	1.12
3040596--3040669	32	2.3	32	85	2	94	29	0	14	55	1.40
3040922--3041063	74	1.9	74	89	2	223	38	6	10	44	1.64
3041145--3041225	35	2.3	35	82	4	101	41	0	3	54	1.18
3041784--3041821	17	2.4	17	87	12	55	76	7	15	0	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3042184--3042232	25	2.0	25	84	8	64	42	2	0	55	1.11
3042706--3042733	12	2.3	12	100	0	56	42	7	7	42	1.59
3042695--3042735	14	3.1	14	79	13	50	43	9	7	39	1.65
3052159--3052197	14	2.9	14	85	11	55	28	0	5	66	1.12
3060117--3060205	44	2.0	43	80	8	99	47	5	0	47	1.26
3063307--3063360	27	2.0	26	89	3	81	31	0	1	66	1.02
3063353--3063394	18	2.4	19	80	15	54	45	0	0	54	0.99
3063499--3063548	26	1.9	25	84	15	66	56	4	12	28	1.54
3068292--3068333	2	21.5	2	95	4	77	50	0	50	0	1.00
3084838--3084862	2	12.5	2	100	0	50	0	0	48	52	1.00
3091137--3091212	37	2.1	35	82	4	89	64	2	0	32	1.07
3091139--3091200	27	2.3	27	77	5	72	62	3	0	33	1.11
3093826--3093907	43	1.9	43	92	0	137	32	25	19	21	1.97
3102990--3103048	30	2.0	30	93	6	102	38	3	0	57	1.15
3103287--3103363	22	3.6	21	77	5	64	50	0	1	48	1.09
3106931--3106971	20	2.0	20	90	0	64	41	14	2	41	1.59
3112861--3112913	28	1.9	27	88	3	79	28	22	18	30	1.98
3114023--3114047	6	4.2	6	100	0	50	20	0	0	80	0.72
3115624--3115675	13	3.8	13	77	10	50	71	0	1	26	0.97
3117229--3117266	19	2.0	19	90	10	60	57	0	23	18	1.40
3118613--3118652	21	1.9	21	89	0	62	42	5	0	52	1.23
3119547--3119619	22	3.1	22	67	14	65	21	12	26	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3119515--3119628	48	2.4	48	93	0	201	24	10	23	41	1.86
3119611--3119643	15	2.2	15	94	0	57	33	9	18	39	1.82
3119563--3119682	63	1.9	63	91	0	195	21	12	27	38	1.90
3124333--3124382	22	2.3	22	86	6	66	16	12	26	46	1.81
3124159--3124455	119	2.5	119	89	2	429	16	11	26	45	1.81
3128919--3128957	2	19.0	2	89	5	60	46	2	0	51	1.14
3148026--3148070	21	2.2	20	88	4	63	15	2	13	68	1.30
3152038--3152130	26	3.6	26	83	0	114	35	11	25	26	1.91
3157575--3157610	16	2.3	16	90	4	56	58	11	2	27	1.46
3158667--3158697	2	15.5	2	93	0	53	54	0	0	45	0.99
3158785--3158814	2	15.0	2	100	0	60	50	0	0	50	1.00
3160901--3160938	2	19.0	2	100	0	76	50	0	0	50	1.00
3162461--3162510	21	2.4	22	80	10	59	64	4	4	28	1.30
3163406--3163481	40	1.9	40	88	0	116	64	2	7	25	1.34
3163354--3163935	150	3.8	148	77	11	538	58	7	9	23	1.55
3163358--3163935	307	1.9	301	85	6	799	58	7	9	24	1.56
3163998--3164122	22	5.5	22	71	19	87	64	8	2	24	1.34
3164058--3164130	26	3.1	24	78	14	73	67	9	1	21	1.28
3164035--3164130	23	4.1	24	83	11	119	66	10	1	21	1.28
3164154--3164212	21	2.8	21	78	2	64	67	5	1	25	1.20
3165379--3165493	36	3.2	36	80	8	101	31	11	22	34	1.89
3166439--3166478	21	1.9	21	84	0	53	72	7	2	17	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3166491--3166541	16	3.1	16	75	10	57	70	1	0	27	0.98
3168068--3168151	41	2.0	41	97	0	159	41	7	17	33	1.77
3168776--3168800	7	3.6	7	100	0	50	88	0	12	0	0.53
3173037--3173093	29	2.0	27	86	6	78	26	5	3	64	1.30
3173582--3173815	55	4.3	54	81	3	200	34	7	17	41	1.78
3173579--3173750	82	2.1	82	86	0	236	33	6	16	42	1.75
3173699--3173745	15	3.3	15	70	11	53	25	8	23	42	1.82
3173579--3173831	27	9.3	27	81	6	213	34	8	16	40	1.79
3173605--3173831	82	2.8	82	82	2	260	34	8	17	39	1.80
3173608--3173833	55	4.1	55	81	4	231	35	8	16	39	1.79
3175582--3175646	33	2.0	33	81	0	76	40	12	7	40	1.71
3175947--3176004	17	3.4	17	77	17	66	0	24	0	75	0.80
3176218--3176326	51	2.1	51	93	0	182	37	1	6	54	1.37
3178922--3178964	15	2.7	16	86	13	54	55	4	0	39	1.20
3179981--3180043	2	32.0	2	88	3	65	0	58	0	39	0.98
3188078--3188110	15	2.2	15	94	0	57	27	27	0	45	1.54
3188198--3188262	31	2.1	31	94	0	112	43	21	12	23	1.86
3188808--3188877	24	2.8	24	80	10	70	37	2	4	55	1.34
3188831--3188893	27	2.3	27	81	8	74	34	3	9	52	1.50
3189843--3189875	15	2.1	16	94	5	59	36	6	18	39	1.75
3191315--3191356	17	2.5	17	96	3	77	30	0	4	64	1.14
3191315--3191357	8	5.1	8	80	8	50	32	0	4	62	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196973--3197050	35	2.2	35	97	0	147	16	10	32	41	1.82
3197781--3197869	37	2.4	37	84	1	99	20	23	20	35	1.95
3198661--3198726	33	2.0	33	90	0	105	27	7	1	63	1.30
3209337--3209362	3	8.7	3	100	0	52	0	34	0	65	0.93
3218192--3218232	2	20.5	2	90	9	66	48	0	2	48	1.14
3218192--3218232	11	3.4	12	90	10	66	48	0	2	48	1.14
3230496--3230532	6	6.2	6	93	0	56	10	86	0	0	0.53
3241255--3241308	20	2.8	19	80	8	56	57	12	0	29	1.36
3243763--3243836	33	2.2	32	81	6	85	54	9	8	28	1.61
3244382--3244446	22	3.0	21	75	4	58	49	0	4	46	1.22

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