genome.fa.s5.2.7.7.80.10.50.1000.11.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  11  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)
3571160--3571671	253	2.0	254	96	0	936	26	17	15	40	1.90
3581960--3582069	57	2.0	54	91	5	175	40	9	7	43	1.64
3583254--3583316	32	2.0	32	87	6	92	19	19	14	47	1.82
3583368--3583622	140	1.8	135	79	11	293	35	6	9	48	1.63
3583604--3583648	24	1.9	23	86	4	63	48	6	11	33	1.65
3583872--3583943	36	2.0	35	81	7	83	40	1	5	52	1.33
3584050--3584086	10	3.7	10	89	10	58	27	0	8	64	1.21
3584048--3584086	21	1.9	20	89	5	60	28	0	7	64	1.21
3584312--3584349	20	2.0	20	89	5	60	65	5	2	26	1.27
3585077--3585126	25	2.0	25	96	0	91	44	24	6	26	1.76
3589925--3589977	27	1.9	28	84	3	72	33	1	1	62	1.17
3589964--3589992	14	2.0	15	93	6	51	24	6	0	68	1.13
3605524--3605722	102	2.0	99	87	3	281	30	18	31	19	1.96
3616008--3616035	13	2.2	13	100	0	56	32	21	14	32	1.93
3621951--3622190	122	2.0	122	100	0	480	30	16	9	44	1.78
3622673--3622711	6	6.5	6	96	0	60	0	61	0	38	0.96
3625216--3625292	14	5.0	15	71	20	52	42	15	9	32	1.78
3625232--3625271	20	2.0	20	90	0	62	50	12	10	27	1.72
3625220--3625286	34	1.9	35	90	3	109	46	13	8	31	1.74
3625255--3625294	14	2.9	14	84	0	53	42	17	7	32	1.77
3625739--3625763	11	2.3	11	100	0	50	40	0	28	32	1.57
3625748--3626114	125	3.0	125	93	0	621	29	14	22	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3628586--3628645	27	2.2	27	81	0	66	31	23	30	15	1.95
3628595--3628655	27	2.3	27	85	0	86	27	18	36	18	1.94
3632649--3632673	7	3.6	7	100	0	50	60	12	0	28	1.32
3632843--3632880	20	1.9	20	84	10	51	55	7	2	34	1.43
3633708--3633732	11	2.3	11	100	0	50	48	0	0	52	1.00
3634010--3634100	42	2.2	42	85	0	119	12	32	29	25	1.92
3638066--3638090	13	1.9	13	100	0	50	40	16	8	36	1.77
3638407--3638456	25	2.1	22	85	10	64	40	2	8	50	1.43
3638639--3638673	18	1.9	18	88	0	52	48	0	0	51	1.00
3641095--3641141	25	1.9	25	86	4	69	17	25	19	38	1.92
3641302--3641353	25	2.1	25	89	7	79	19	26	23	30	1.98
3642317--3642760	223	2.0	224	99	0	881	30	12	16	40	1.85
3643761--3643794	12	2.9	11	87	12	50	38	17	17	26	1.92
3648429--3648488	30	2.0	31	93	3	104	35	8	13	43	1.74
3650426--3650451	6	4.3	6	100	0	52	15	0	46	38	1.46
3650946--3650997	25	2.0	28	88	11	83	51	3	11	32	1.56
3652128--3652805	41	16.5	41	99	0	1320	26	21	27	24	1.99
3654855--3654888	14	2.5	14	90	4	52	52	17	2	26	1.58
3656107--3656131	7	3.6	7	100	0	50	56	16	0	28	1.41
3664450--3664496	24	1.9	25	86	4	69	70	4	6	19	1.26
3664604--3664671	29	2.3	31	87	5	95	52	7	5	33	1.53
3667713--3667737	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3667712--3668014	151	2.0	152	98	0	590	27	11	21	39	1.88
3669889--3670302	205	2.0	206	99	0	821	39	15	10	33	1.83
3677337--3677377	3	13.7	3	84	0	55	29	2	4	63	1.28
3677345--3677393	15	3.3	15	79	0	53	32	2	6	59	1.34
3677562--3677663	45	2.2	46	93	5	172	29	8	9	51	1.65
3696866--3697117	124	2.0	125	99	0	497	38	9	8	43	1.68
3698272--3698304	17	1.9	17	100	0	66	42	21	0	36	1.53
3698877--3698909	17	2.0	17	88	5	50	45	0	21	33	1.52
3700170--3700644	92	5.2	92	100	0	950	47	4	9	38	1.56
3700233--3700643	30	13.4	30	74	13	306	47	3	9	38	1.55
3702880--3702956	37	2.1	38	82	2	93	29	15	23	31	1.95
3703852--3703889	20	1.9	20	94	0	67	18	15	10	55	1.68
3706637--3706903	135	2.0	135	93	0	453	40	19	9	30	1.84
3709438--3709485	25	1.9	25	87	8	71	50	6	0	43	1.27
3710774--3710841	30	2.3	29	85	9	93	8	14	13	63	1.52
3716082--3716121	20	2.1	18	86	13	53	25	15	2	57	1.50
3716241--3716541	113	2.7	110	89	5	439	28	17	19	34	1.95
3719409--3719456	19	2.3	21	86	10	64	39	4	2	54	1.32
3719419--3719712	146	2.0	147	99	0	581	37	5	6	51	1.50
3721268--3721494	33	6.8	33	67	6	89	28	24	17	29	1.97
3721268--3721501	101	2.3	100	93	1	387	28	25	16	29	1.97
3725612--3725800	84	2.3	83	97	0	351	37	4	9	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3727475--3727543	32	2.4	27	76	19	68	59	2	4	33	1.32
3727497--3727543	16	2.9	17	71	9	53	63	2	6	27	1.30
3727528--3727584	20	2.8	20	89	2	78	66	5	0	28	1.13
3729391--3729446	28	2.0	28	82	6	69	53	0	3	42	1.18
3729494--3729572	6	12.7	6	70	11	52	72	6	20	1	1.14
3729542--3729575	17	2.0	17	100	0	68	76	0	23	0	0.79
3734775--3734812	20	1.9	20	84	10	51	31	15	2	50	1.58
3735595--3735643	26	1.9	25	84	12	64	18	10	0	71	1.13
3739002--3739047	24	2.0	23	91	8	76	36	0	0	63	0.95
3739139--3739166	9	3.1	9	100	0	56	57	10	0	32	1.33
3739109--3739318	68	3.1	68	96	1	379	45	9	5	40	1.58
3739207--3739234	9	3.1	9	100	0	56	57	10	0	32	1.33
3739307--3739348	16	2.6	16	92	0	66	42	7	2	47	1.43
3739322--3739377	23	2.5	23	82	2	69	44	1	1	51	1.22
3740292--3740340	18	2.6	19	83	6	64	77	2	2	18	0.96
3751121--3751216	24	3.9	26	80	14	107	70	0	29	0	0.87
3751122--3751234	30	3.4	34	80	14	137	71	0	28	0	0.86
3751293--3751346	28	2.0	28	88	3	83	42	5	9	42	1.60
3751589--3752195	286	2.1	286	94	0	1045	51	6	11	30	1.63
3751945--3752432	245	2.0	245	94	1	854	50	6	10	33	1.61
3753702--3753754	3	17.7	3	82	7	63	32	1	1	64	1.15
3753895--3753934	12	3.2	12	82	6	53	30	2	0	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3755738--3755903	88	1.9	88	89	0	260	35	13	13	37	1.84
3757307--3757342	16	2.2	17	90	5	56	72	0	2	25	0.98
3758113--3758391	138	2.0	139	97	1	524	41	9	4	44	1.57
3762909--3762948	12	3.2	12	82	6	53	30	2	0	67	1.04
3764752--3764917	88	1.9	88	89	0	260	35	13	13	37	1.84
3766321--3766356	16	2.2	17	90	5	56	72	0	2	25	0.98
3770862--3771321	44	10.6	43	74	10	341	26	20	22	30	1.98
3770862--3771321	85	5.3	84	76	8	381	26	20	22	30	1.98
3770772--3771366	130	4.6	130	90	0	834	27	20	21	31	1.98
3770772--3771366	259	2.3	260	87	0	843	27	20	21	31	1.98
3771377--3772194	100	8.2	99	87	2	978	24	22	22	30	1.99
3771603--3772183	51	11.6	51	71	4	410	23	21	23	31	1.99
3773605--3773644	12	3.5	11	83	12	53	0	10	2	87	0.63
3773604--3773633	15	2.0	15	93	0	51	0	16	0	83	0.65
3773599--3773641	22	1.9	23	85	4	61	0	16	2	81	0.79
3781566--3781603	2	19.0	2	94	0	67	52	0	0	47	1.00
3782591--3782645	3	18.3	3	100	0	110	65	0	0	34	0.93
3784137--3784801	44	15.0	44	78	2	486	28	24	16	30	1.97
3784139--3784778	89	7.2	88	85	2	651	27	24	16	31	1.97
3785899--3785931	16	2.1	16	94	0	57	36	30	12	21	1.90
3786066--3786163	48	2.0	48	88	7	146	12	25	16	45	1.82
3786074--3786175	48	2.1	48	82	7	118	11	26	15	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3786944--3786989	24	1.9	24	86	8	67	63	8	15	13	1.52
3790846--3790905	3	20.0	3	100	0	120	66	0	0	33	0.92
3794296--3794343	4	11.8	4	95	4	87	75	0	0	25	0.81
3803516--3803563	23	2.1	23	100	0	96	25	25	12	37	1.91
3806752--3806785	12	2.8	12	90	0	50	17	47	8	26	1.77
3816888--3816913	2	13.0	2	100	0	52	50	0	0	50	1.00
3821506--3821551	20	2.2	21	84	3	58	69	2	2	26	1.11
3821505--3821567	29	2.2	28	81	13	74	65	1	3	30	1.18
3824466--3824501	5	7.6	5	87	12	58	61	0	0	38	0.96
3824466--3824501	13	2.6	13	91	8	54	61	0	0	38	0.96

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