genome.fa.s29.2.7.7.80.10.50.1000.25.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   

This is table  25  of  34  ( 4030 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)
3829226--3829259	14	2.4	14	90	0	50	44	0	0	55	0.99
3829622--3829710	44	2.0	44	100	0	178	15	15	21	47	1.83
3834277--3834354	20	3.8	20	83	6	102	38	12	11	37	1.80
3838376--3838413	20	1.9	20	88	0	58	28	7	23	39	1.83
3838679--3838732	28	1.9	28	84	0	72	37	11	18	33	1.86
3841885--3842032	79	1.9	79	81	2	181	29	25	13	32	1.94
3841966--3842082	51	2.3	52	81	1	137	29	27	11	31	1.91
3841886--3842161	130	2.1	129	81	4	322	30	25	11	33	1.91
3842017--3842372	158	2.3	157	79	6	398	27	25	13	33	1.93
3842017--3842390	79	4.7	79	76	8	318	27	24	13	33	1.93
3846767--3846793	13	2.1	13	100	0	54	29	14	14	40	1.86
3851783--3851849	37	1.9	35	88	11	102	29	25	11	32	1.92
3852307--3852332	13	2.0	13	100	0	52	30	15	15	38	1.88
3852371--3852446	21	3.7	21	82	3	109	28	18	11	40	1.86
3852391--3852464	20	3.7	20	81	3	103	31	20	13	35	1.91
3852371--3852464	41	2.3	41	100	0	188	29	19	12	38	1.89
3853083--3853129	23	2.0	23	100	0	94	51	12	4	31	1.59
3854281--3854305	13	1.9	13	100	0	50	32	16	16	36	1.90
3854860--3854906	23	2.0	24	84	12	62	61	19	4	14	1.49
3857455--3857521	37	1.9	35	88	11	102	29	25	11	32	1.92
3857979--3858004	13	2.0	13	100	0	52	30	15	15	38	1.88
3858043--3858118	21	3.7	21	82	3	109	28	18	11	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3858063--3858136	20	3.7	20	81	3	103	31	20	13	35	1.91
3858043--3858136	41	2.3	41	100	0	188	29	19	12	38	1.89
3867856--3867932	28	2.7	28	82	11	95	25	18	32	23	1.97
3867916--3868252	52	6.4	51	72	12	243	31	12	26	29	1.93
3867848--3868254	212	1.9	212	89	3	640	31	13	27	28	1.94
3868068--3868143	27	2.8	27	90	6	109	22	21	32	23	1.98
3867802--3868194	107	3.7	105	72	10	323	30	13	27	27	1.95
3870710--3870734	13	1.9	13	100	0	50	32	16	16	36	1.90
3870691--3870753	32	2.0	32	93	0	108	36	14	12	36	1.84
3870688--3870755	19	3.9	19	76	21	76	38	13	11	36	1.81
3871926--3871972	14	3.4	14	75	18	53	82	14	2	0	0.75
3871927--3871961	18	1.9	18	88	0	52	82	14	2	0	0.77
3871927--3871973	16	3.0	15	79	14	51	80	14	4	0	0.85
3873406--3874585	28	41.8	27	79	12	980	31	30	18	20	1.96
3873400--3874631	57	21.8	55	81	9	1209	31	30	18	20	1.96
3873400--3874631	169	7.3	166	86	6	1407	31	30	18	20	1.96
3874687--3875187	52	9.9	50	77	7	404	25	24	16	33	1.96
3874687--3875076	150	2.6	152	87	2	534	24	24	17	33	1.96
3874687--3875128	101	4.4	101	79	5	428	24	24	16	33	1.96
3875891--3875945	20	2.8	20	88	5	76	32	14	12	40	1.84
3876845--3876890	21	2.2	20	82	14	58	26	17	15	41	1.88
3878209--3878278	27	2.6	27	93	0	122	24	38	21	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3884379--3884433	20	2.8	19	88	5	74	41	16	12	29	1.85
3884493--3884518	13	2.0	13	100	0	52	38	15	15	30	1.88
3884475--3884538	32	2.0	33	90	3	103	39	18	14	28	1.90
3886715--3886764	21	2.3	21	80	10	57	56	4	18	22	1.58
3888544--3888574	15	2.1	15	93	0	53	48	16	22	12	1.80
3890641--3890679	13	3.0	13	100	0	78	30	15	15	38	1.88
3892462--3892573	55	2.0	55	100	0	224	31	5	25	38	1.78
3893283--3893308	13	2.0	13	100	0	52	38	15	15	30	1.88
3893265--3893328	32	2.0	33	90	3	103	39	18	14	28	1.90
3897890--3897929	9	4.6	9	84	6	55	87	10	2	0	0.63
3897890--3897929	17	2.3	18	91	4	64	87	10	2	0	0.63
3899041--3899930	61	14.9	60	84	7	1091	26	27	19	26	1.99
3899041--3899930	182	5.0	180	89	3	1205	26	27	19	26	1.99
3903063--3903271	79	2.7	78	79	5	208	29	22	11	35	1.90
3902916--3903366	209	2.2	209	87	1	645	29	24	11	34	1.91
3903125--3903360	131	1.8	130	81	8	300	28	24	12	34	1.92
3903125--3903397	131	2.1	131	80	8	299	29	23	12	34	1.92
3902916--3903441	209	2.5	208	83	6	627	28	23	12	34	1.91
3903256--3903472	79	2.7	79	75	6	208	29	24	12	33	1.92
3905210--3905280	20	3.5	20	81	11	83	30	14	15	39	1.87
3909905--3909930	13	2.0	13	100	0	52	38	15	15	30	1.88
3909917--3909957	20	2.0	20	100	0	82	36	9	19	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3909975--3910028	21	2.7	20	75	8	56	37	12	12	37	1.83
3910667--3910703	12	3.0	12	84	7	56	86	5	0	8	0.70
3910668--3910714	19	2.4	19	89	3	67	82	6	0	10	0.82
3911125--3911243	45	2.7	45	88	6	163	54	15	23	6	1.64
3911208--3911243	17	2.1	18	89	5	56	52	11	27	8	1.65
3911353--3911476	40	3.1	40	88	0	185	28	44	16	10	1.81
3911353--3911417	22	3.1	22	72	17	75	21	47	20	10	1.80
3911520--3911580	31	2.0	30	87	3	86	29	42	11	16	1.83
3913001--3913059	28	2.0	30	90	9	95	33	15	23	27	1.95
3912963--3913189	80	2.9	80	81	5	239	32	12	26	28	1.93
3913045--3913282	130	1.8	131	83	4	320	31	13	27	27	1.93
3913123--3913241	50	2.3	52	85	2	152	30	12	29	27	1.93
3916242--3916355	56	2.0	56	88	6	169	30	6	24	38	1.80
3917170--3917211	20	2.0	21	86	13	61	42	16	9	30	1.80
3923030--3923876	60	13.9	61	73	16	516	25	28	19	26	1.99
3935561--3935623	24	2.7	24	83	11	69	0	0	44	55	0.99
3935740--3935768	12	2.4	12	100	0	58	0	0	82	17	0.66
3935970--3936058	40	2.2	40	86	4	117	25	43	19	11	1.84
3939070--3939108	13	3.0	13	100	0	78	30	15	15	38	1.88
3940891--3940997	54	2.0	54	100	0	214	30	5	24	39	1.78
3941709--3941734	13	2.0	13	100	0	52	38	15	15	30	1.88
3941691--3941754	32	2.0	33	90	3	103	39	18	14	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3946317--3946356	9	4.6	9	84	6	55	87	10	2	0	0.63
3946317--3946356	17	2.3	18	91	4	64	87	10	2	0	0.63
3947468--3948358	61	14.9	60	84	7	1075	26	27	19	26	1.99
3951493--3951701	79	2.7	78	79	5	208	29	22	11	35	1.90
3951346--3951796	209	2.2	209	87	1	645	29	24	11	34	1.91
3951555--3951790	131	1.8	130	81	8	300	28	24	12	34	1.92
3951555--3951827	131	2.1	131	80	8	299	29	23	12	34	1.92
3951686--3951903	79	2.7	79	75	8	210	29	24	12	33	1.92
3951346--3951903	209	2.7	209	82	6	562	29	23	12	34	1.91
3953657--3953728	20	3.5	20	80	12	85	30	13	15	40	1.86
3958342--3958367	13	2.0	13	100	0	52	38	15	15	30	1.88
3958354--3958394	20	2.0	20	100	0	82	36	9	19	34	1.85
3958412--3958465	21	2.7	20	75	8	56	37	12	12	37	1.83
3959566--3959687	45	2.7	45	89	5	176	54	15	22	6	1.64
3959650--3959686	17	2.1	18	90	5	58	54	10	27	8	1.63
3959794--3959922	40	3.2	40	87	0	186	28	43	17	10	1.82
3959794--3959863	22	3.4	22	73	15	76	22	45	20	11	1.82
3959966--3960026	31	2.0	30	87	3	86	29	42	11	16	1.83
3961453--3961511	28	2.0	30	90	9	95	33	15	23	27	1.95
3961415--3961641	80	2.9	80	81	5	239	32	12	26	28	1.93
3961497--3961735	131	1.8	131	84	3	329	31	12	27	28	1.93
3961575--3961694	51	2.3	52	86	1	161	30	12	29	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967027--3967062	17	2.1	17	89	0	54	36	11	11	41	1.76
3975473--3975511	18	2.2	18	85	0	51	12	41	0	46	1.42
3975468--3975586	42	2.8	42	80	7	143	11	42	1	43	1.51
3975543--3975577	12	2.9	12	84	16	54	11	48	0	40	1.39
3977581--3977624	17	2.6	17	79	13	54	38	0	6	54	1.27
3978106--3978133	2	14.0	2	100	0	56	50	0	0	50	1.00
3979030--3979068	20	2.0	20	100	0	78	25	0	43	30	1.55
3980859--3980896	19	2.0	19	94	0	67	44	18	10	26	1.82
3981556--3981597	22	2.0	21	90	9	68	38	19	19	23	1.93
3997766--3999145	693	2.0	689	96	1	2550	34	22	15	27	1.94

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