genome.fa.s51.2.7.7.80.10.50.1000.22.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: Scaffold51
Parameters: 2 7 7 80 10 50 1000
Length:  3712191

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  22  of  23  ( 2647 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)
3526313--3526579	133	2.0	133	88	1	401	26	13	17	41	1.88
3526450--3526794	156	2.2	155	84	8	434	28	12	18	41	1.86
3526735--3527063	134	2.4	135	80	6	364	28	12	18	40	1.87
3529868--3529940	36	2.0	36	97	0	137	30	19	12	38	1.88
3539030--3539084	20	2.8	20	100	0	110	27	10	21	40	1.87
3539071--3539096	13	2.0	13	100	0	52	30	15	15	38	1.88
3539051--3539114	33	2.0	32	90	3	101	28	12	20	39	1.89
3539156--3539208	20	2.6	21	82	8	65	28	16	16	37	1.91
3541183--3541225	20	2.0	22	91	8	72	9	32	41	16	1.80
3541668--3541706	13	3.0	13	96	0	69	33	15	15	35	1.89
3543524--3543549	13	2.0	13	100	0	52	38	15	15	30	1.88
3543506--3543570	34	2.0	33	90	6	105	43	15	13	27	1.85
3545726--3545764	20	2.0	21	85	10	55	61	0	15	23	1.33
3547619--3547649	15	2.1	15	93	0	53	48	16	22	12	1.80
3549854--3549899	21	2.2	20	81	11	58	32	19	4	43	1.71
3552283--3552308	13	2.0	13	100	0	52	38	15	15	30	1.88
3552265--3552329	34	2.0	33	90	6	105	43	15	13	27	1.85
3557792--3557817	13	2.0	13	100	0	52	30	15	15	38	1.88
3557772--3557835	33	2.0	32	87	3	92	29	12	18	39	1.88
3557877--3557902	13	2.0	13	100	0	52	30	15	15	38	1.88
3559236--3559269	17	2.0	17	88	11	52	61	0	2	35	1.11
3559621--3559684	34	1.9	33	84	15	87	67	0	1	31	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559812--3559843	15	2.0	17	88	11	50	50	3	0	46	1.17
3560260--3560328	28	2.4	28	78	2	84	36	0	1	62	1.04
3560296--3560332	19	2.0	20	84	10	51	27	0	2	70	1.01
3561110--3561158	24	2.0	25	88	4	73	42	0	0	57	0.99
3562385--3562418	16	2.1	17	88	5	52	70	0	0	29	0.87
3562458--3562492	11	3.0	11	84	15	52	37	2	0	60	1.12
3562452--3562492	19	2.2	19	86	8	57	39	2	0	58	1.11
3562464--3562496	13	2.5	13	95	0	57	39	3	0	57	1.14
3562926--3562969	22	2.0	21	82	4	52	31	6	2	59	1.36
3571367--3571406	2	20.5	2	94	5	73	0	0	52	47	1.00
3572334--3572360	3	9.0	3	100	0	54	33	0	0	66	0.92
3572348--3572390	23	1.9	22	81	13	52	23	0	13	62	1.31
3573674--3573699	13	2.0	13	100	0	52	30	15	15	38	1.88
3573653--3573717	32	2.0	33	93	6	114	27	12	15	44	1.82
3573653--3573717	19	3.6	19	73	26	70	27	12	15	44	1.82
3576248--3576285	13	2.9	13	92	0	58	34	15	15	34	1.90
3578359--3578389	15	2.1	15	93	0	53	12	22	16	48	1.80
3582456--3582513	13	4.0	13	76	23	62	29	13	15	41	1.86
3582435--3582531	32	3.0	32	96	3	176	27	12	15	44	1.82
3582435--3582531	19	5.6	19	71	28	92	27	12	15	44	1.82
3583974--3584022	20	2.5	19	75	12	55	32	14	18	34	1.91
3586548--3586586	13	3.0	13	92	0	69	33	15	15	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3586595--3586634	20	2.0	21	90	5	64	30	20	12	37	1.89
3588872--3588906	17	2.1	17	100	0	70	20	34	0	45	1.51
3591050--3591087	20	1.9	20	94	0	67	34	10	13	42	1.78
3591142--3591167	13	2.0	13	100	0	52	30	15	15	38	1.88
3591122--3591185	32	2.0	33	93	3	112	28	12	15	43	1.83
3591122--3591185	19	3.6	19	72	25	68	28	12	15	43	1.83
3592996--3593033	13	2.9	13	96	0	67	31	15	18	34	1.92
3599155--3599180	13	2.0	13	100	0	52	30	15	15	38	1.88
3599135--3599198	32	2.0	33	93	3	112	28	12	15	43	1.83
3599135--3599198	19	3.6	19	72	25	68	28	12	15	43	1.83
3599250--3599305	20	2.8	20	89	5	78	28	17	16	37	1.91
3601951--3601975	13	1.9	13	100	0	50	32	16	16	36	1.90
3602024--3602079	19	2.9	19	78	5	67	37	14	14	33	1.86
3602065--3602091	13	2.1	13	100	0	54	40	14	14	29	1.86
3602048--3602110	33	1.9	32	84	9	83	41	15	15	26	1.88
3610074--3610138	33	2.0	33	90	6	105	33	13	13	38	1.85
3617689--3617735	23	2.0	23	87	0	67	19	17	34	29	1.94
3617855--3617930	28	2.7	28	89	0	125	21	18	27	32	1.96
3620696--3620737	16	2.7	16	81	3	50	40	28	14	16	1.88
3620739--3620803	32	2.0	33	81	3	78	49	21	7	21	1.74
3623666--3623784	52	2.3	52	89	0	184	30	15	12	41	1.85
3626550--3626607	21	2.8	21	100	0	116	39	18	10	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3626643--3626710	19	3.9	19	78	21	85	35	11	14	38	1.83
3626664--3626688	13	1.9	13	100	0	50	36	16	16	32	1.90
3626645--3626707	32	2.0	32	96	0	117	34	12	15	36	1.86
3626750--3626775	13	2.0	13	100	0	52	30	15	15	38	1.88
3626730--3626796	33	2.0	33	88	0	98	25	14	16	43	1.86
3629138--3629418	52	5.4	52	75	9	268	31	23	11	33	1.90
3629132--3629418	105	2.7	103	77	8	276	31	24	10	33	1.90
3629402--3629478	28	2.8	28	83	0	82	23	31	19	25	1.98
3641761--3641826	1	66.0	1	72	0	51	86	13	0	0	0.57
3641760--3641825	14	4.7	15	83	10	86	84	15	0	0	0.61
3641761--3641823	9	7.8	8	81	15	60	85	14	0	0	0.59
3641761--3641826	29	2.3	29	87	7	91	86	13	0	0	0.57
3642815--3643834	59	17.5	59	90	3	1425	25	28	20	25	1.99
3644589--3644656	19	3.9	19	78	21	85	35	11	14	38	1.83
3644610--3644634	13	1.9	13	100	0	50	36	16	16	32	1.90
3644591--3644653	32	2.0	32	96	0	117	34	12	15	36	1.86
3644696--3644721	13	2.0	13	100	0	52	30	15	15	38	1.88
3644676--3644741	33	2.0	33	87	0	96	27	15	15	42	1.86
3644708--3644761	20	2.7	20	97	0	99	27	14	16	40	1.88
3647096--3647226	51	2.5	53	81	8	169	31	25	10	32	1.90
3647237--3647410	52	3.3	52	76	10	160	29	27	12	31	1.92
3647099--3647440	184	1.9	184	88	3	519	29	26	11	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3647393--3647464	28	2.6	28	84	0	81	25	29	19	26	1.99
3648607--3648632	13	2.0	13	100	0	52	46	15	7	30	1.74
3648589--3648652	33	2.0	32	84	3	83	45	17	10	26	1.81
3649827--3649891	31	2.1	31	97	0	121	27	27	18	26	1.98
3654850--3654888	13	3.0	13	88	0	60	33	17	12	35	1.88
3654783--3654888	46	2.3	46	79	6	117	31	14	14	40	1.85
3655010--3655056	22	2.3	20	78	10	51	34	19	4	42	1.70
3656734--3656774	20	2.0	22	90	9	68	36	2	26	34	1.70
3657291--3657346	20	2.8	19	89	5	76	39	14	16	30	1.88
3657416--3657441	13	2.0	13	100	0	52	38	15	15	30	1.88
3657398--3657460	32	2.0	32	90	6	101	41	17	14	26	1.88
3658296--3658414	50	2.4	51	78	4	134	26	28	10	35	1.89
3659807--3659861	19	2.8	20	83	10	78	40	14	16	29	1.88
3659831--3659892	33	1.9	33	90	3	99	41	17	14	25	1.88
3670866--3671247	159	2.4	156	83	3	462	38	20	15	25	1.92
3670866--3671319	156	2.9	154	80	4	480	38	19	15	25	1.92
3673078--3673404	153	2.1	153	80	4	374	40	21	14	23	1.89
3673653--3673696	16	2.7	17	79	6	56	31	0	0	68	0.90
3673656--3673696	21	2.0	21	85	0	55	29	0	0	70	0.87
3677724--3678241	79	6.6	78	81	2	482	38	11	21	29	1.88
3677684--3678225	158	3.5	158	79	3	564	36	12	21	28	1.90
3677716--3678306	79	7.5	79	79	4	473	38	11	21	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3678943--3678983	20	2.1	19	86	4	55	46	0	2	51	1.14
3681974--3682342	163	2.2	164	81	8	421	50	8	10	30	1.66
3681947--3682646	165	4.2	162	73	13	447	49	9	11	29	1.70
3692413--3692464	19	2.7	20	87	6	79	28	13	15	42	1.85
3693515--3693541	2	13.5	2	100	0	54	48	0	0	51	1.00
3695140--3695306	58	2.9	58	80	5	167	26	8	15	48	1.75
3695232--3695488	117	2.2	115	80	4	277	23	8	18	49	1.76
3695231--3695565	57	5.8	58	78	4	277	24	8	18	48	1.76
3697092--3697136	20	2.2	20	92	0	72	42	8	13	35	1.75
3697146--3697440	32	9.2	32	79	7	253	30	32	17	18	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23