genome.fa.s409.2.7.7.80.10.50.1000.23.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  23  of  25  ( 2882 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)
3573133--3573187	28	2.0	28	96	0	101	36	25	10	27	1.89
3573737--3573797	16	3.6	16	80	12	61	81	0	14	3	0.80
3573730--3573794	11	6.2	11	75	13	57	80	0	16	3	0.85
3573730--3573796	26	2.6	26	83	6	82	80	0	16	2	0.83
3573738--3573805	26	2.7	26	78	15	79	79	0	16	4	0.89
3576199--3576251	20	2.7	19	86	11	72	33	15	16	33	1.90
3576280--3576332	20	2.7	20	88	5	72	33	13	18	33	1.90
3578108--3578172	32	2.0	33	90	6	105	29	12	15	43	1.83
3580638--3580673	13	2.8	13	95	0	63	33	16	16	33	1.92
3586277--3586302	13	2.0	13	100	0	52	30	15	15	38	1.88
3586256--3586320	32	2.0	33	93	6	114	27	12	15	44	1.82
3586256--3586320	19	3.6	19	73	26	70	27	12	15	44	1.82
3592729--3592857	52	2.5	52	94	0	231	29	18	17	34	1.94
3592933--3593030	19	5.8	18	70	28	81	36	18	12	32	1.88
3592928--3593028	32	3.1	32	95	1	175	35	18	11	33	1.88
3592952--3593008	13	3.9	13	76	24	60	33	17	14	35	1.90
3595445--3595471	13	2.1	13	100	0	54	29	14	14	40	1.86
3597955--3597979	13	1.9	13	100	0	50	36	16	16	32	1.90
3597968--3598019	20	2.7	20	84	3	70	32	15	17	34	1.91
3598049--3598086	20	1.9	20	94	0	67	31	10	18	39	1.85
3598069--3598116	13	4.2	13	70	29	54	31	12	18	37	1.88
3598048--3598116	33	2.1	33	89	10	106	31	11	18	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3599938--3599998	20	3.0	20	82	0	77	37	11	16	34	1.85
3601520--3601582	32	2.0	31	90	3	99	53	0	1	44	1.10
3601569--3601608	20	2.0	20	85	0	53	60	0	2	37	1.11
3601952--3601987	18	2.0	19	89	10	58	27	2	0	69	1.02
3602017--3602053	19	2.0	20	84	10	51	40	0	0	59	0.97
3602772--3602900	67	1.9	67	87	6	190	39	5	6	48	1.51
3603018--3603065	22	2.1	22	84	3	60	18	0	12	68	1.20
3604663--3605060	156	2.6	153	82	4	464	38	20	14	26	1.91
3604663--3605121	156	3.0	153	78	8	457	38	19	15	26	1.91
3605170--3605221	27	1.9	27	92	0	86	42	11	11	34	1.77
3605904--3605965	29	2.1	30	85	8	83	46	12	6	33	1.68
3605912--3605976	29	2.2	29	78	10	71	50	12	4	32	1.60
3611458--3611497	16	2.4	17	87	8	55	35	0	2	62	1.09
3617480--3617554	20	3.8	20	81	0	96	33	16	12	38	1.85
3621909--3622263	177	2.0	176	96	0	656	31	16	22	29	1.96
3626856--3626922	20	3.3	20	82	0	89	34	14	10	40	1.81
3626856--3626932	20	3.8	20	81	6	84	33	16	10	38	1.83
3630652--3630787	51	2.6	50	79	6	148	36	14	22	26	1.93
3630722--3631540	79	10.4	79	91	0	1305	31	14	26	27	1.95
3632753--3632971	35	6.3	35	94	2	390	19	30	5	44	1.74
3632753--3632971	103	2.1	104	94	2	388	19	30	5	44	1.74
3633742--3633882	40	3.4	42	83	6	155	36	13	27	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3633865--3634678	61	13.9	60	81	11	881	26	20	27	25	1.99
3633866--3634680	116	6.9	116	91	2	1179	26	20	27	25	1.99
3633865--3634972	177	6.5	172	80	11	1136	25	20	28	25	1.99
3633866--3634970	232	4.8	232	84	9	1316	25	20	27	26	1.99
3634625--3634801	94	1.9	96	92	4	306	25	18	29	26	1.98
3634722--3634972	55	4.5	55	83	8	308	23	20	28	27	1.99
3634723--3634945	116	1.9	115	90	4	351	23	20	28	27	1.99
3634989--3635122	54	2.5	55	83	4	164	23	18	29	29	1.98
3641194--3641329	51	2.6	50	82	6	166	35	13	23	27	1.93
3641261--3641766	79	6.4	79	90	0	805	32	14	25	27	1.95
3642981--3643200	35	6.3	35	96	1	408	19	31	6	42	1.76
3643110--3643167	14	3.7	14	72	24	53	18	36	6	37	1.78
3642981--3643200	104	2.1	104	96	1	406	19	31	6	42	1.76
3646585--3646617	14	2.3	15	89	5	50	87	9	3	0	0.63
3647524--3647577	20	2.7	20	85	5	74	31	9	18	40	1.82
3651378--3651944	182	3.1	179	83	5	685	26	26	19	28	1.99
3651378--3651946	61	9.4	61	85	3	684	26	26	19	28	1.99
3651955--3652106	43	3.6	42	74	10	123	19	23	12	45	1.84
3651959--3652117	40	3.9	38	71	18	115	20	23	14	41	1.89
3653681--3653735	21	2.6	21	82	8	67	45	14	7	32	1.72
3655317--3655375	19	3.0	20	85	9	77	32	15	16	35	1.90
3655317--3655370	21	2.7	20	88	5	74	29	14	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664411--3664467	21	2.8	20	87	7	80	35	12	17	35	1.87
3664495--3664562	33	2.1	33	88	5	102	35	11	16	36	1.85
3664529--3664583	20	2.8	20	85	0	74	38	9	18	34	1.82
3665571--3665597	13	2.1	13	100	0	54	14	7	44	33	1.73
3666514--3666870	158	2.3	157	81	4	407	29	24	13	33	1.93
3666512--3666870	79	4.5	79	79	4	348	28	23	13	33	1.92
3670290--3670360	24	3.1	23	78	17	67	9	19	5	64	1.43
3670299--3670349	22	2.5	20	79	17	59	7	17	3	70	1.27
3686055--3686149	20	4.8	20	79	10	104	42	14	11	31	1.82
3686055--3686149	40	2.4	40	89	3	138	42	14	11	31	1.82
3686164--3686193	13	2.3	13	94	0	51	40	10	16	33	1.82
3686115--3686272	62	2.5	62	90	2	255	42	15	15	27	1.86
3686164--3686270	33	3.4	33	70	15	116	40	13	17	28	1.87
3686226--3686255	13	2.3	13	94	0	51	40	10	16	33	1.82
3686859--3686958	41	2.4	41	85	6	123	44	11	27	18	1.83
3686978--3687072	42	2.2	43	88	1	138	45	12	24	17	1.83
3687125--3687413	56	5.1	56	84	7	377	27	20	25	26	1.99
3687119--3687413	117	2.6	116	87	7	408	28	20	25	26	1.99
3687359--3687546	100	1.9	101	82	5	238	28	18	27	25	1.98
3687460--3687855	122	3.2	123	81	1	463	28	18	26	25	1.98
3687460--3687855	62	6.4	62	82	2	458	28	18	26	25	1.98
3687934--3687971	16	2.4	16	100	0	76	26	5	42	26	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692025--3692049	13	1.9	13	100	0	50	36	16	16	32	1.90
3692005--3692073	32	2.1	33	94	2	122	34	11	17	36	1.86
3692089--3692240	52	2.9	50	90	5	232	33	19	17	29	1.95
3693094--3693143	21	2.4	21	96	0	91	20	16	16	48	1.82
3700116--3700185	33	2.1	33	94	0	122	40	14	17	28	1.88
3700096--3700202	53	2.0	53	83	7	137	41	14	15	28	1.86
3700135--3700165	13	2.4	13	94	0	53	41	16	12	29	1.85
3700096--3700202	20	5.7	19	73	18	91	41	14	15	28	1.86
3700222--3700247	13	2.0	13	100	0	52	38	15	15	30	1.88
3701714--3701768	19	2.9	19	97	0	101	34	10	14	40	1.81
3701808--3701833	13	2.0	13	100	0	52	30	15	15	38	1.88
3701788--3701854	33	2.0	33	88	0	98	25	14	16	43	1.86
3701871--3701956	20	3.8	20	71	28	73	33	13	12	39	1.83
3701841--3701956	51	2.3	51	98	0	223	32	14	13	38	1.86
3704237--3704360	51	2.4	50	84	5	158	33	23	10	33	1.89
3704344--3704420	28	2.8	28	86	7	95	24	35	18	22	1.96
3713704--3713737	17	2.0	17	94	0	59	23	26	17	32	1.97
3715812--3716364	141	3.9	141	85	6	693	43	10	11	35	1.74
3715812--3716481	141	4.6	140	83	6	691	42	10	11	34	1.76
3715822--3716483	291	2.3	287	80	8	723	43	10	11	34	1.75
3716523--3716563	18	2.3	17	87	8	55	21	2	0	75	0.92
3718569--3718976	198	2.1	197	93	0	699	34	16	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3718892--3718943	19	2.8	18	81	16	61	32	21	13	32	1.92
3719586--3719639	20	2.7	20	94	2	90	37	12	18	31	1.89
3719586--3719659	21	3.6	20	87	3	76	37	13	17	31	1.89
3725301--3725386	25	3.2	25	77	17	100	25	15	9	50	1.73
3725283--3725383	31	3.5	30	78	14	122	26	14	10	47	1.78
3729747--3729787	21	2.0	20	90	4	64	51	14	12	21	1.75
3731811--3732660	156	5.6	153	76	10	633	39	21	18	21	1.93
3732192--3732648	144	3.1	143	79	11	492	37	22	18	21	1.94
3732076--3732648	300	1.9	299	84	6	759	38	22	17	21	1.94
3732543--3732778	119	2.0	120	86	2	332	41	19	16	21	1.90

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