genome.fa.s74.2.7.7.80.10.50.1000.18.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  18  of  24  ( 2862 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)
3553186--3553237	14	3.8	14	79	2	61	40	0	11	48	1.40
3553655--3553685	11	2.9	11	95	4	55	64	0	0	35	0.94
3553657--3553695	17	2.3	17	86	0	51	66	0	0	33	0.92
3553713--3553758	18	2.4	19	79	17	51	54	2	0	43	1.12
3554358--3554392	17	2.1	17	94	5	63	51	0	5	42	1.25
3555611--3555635	2	12.5	2	100	0	50	48	0	0	52	1.00
3559414--3559450	18	2.0	20	84	10	51	67	2	0	29	1.04
3560047--3560079	17	1.9	17	93	0	57	27	36	6	30	1.81
3562811--3562859	23	2.1	23	85	7	64	36	2	4	57	1.30
3564224--3564287	14	4.6	14	75	7	58	60	1	1	35	1.15
3564245--3564286	21	2.1	19	86	8	57	66	0	0	33	0.92
3571027--3571068	17	2.4	18	81	18	54	23	2	0	73	0.94
3573443--3573882	221	2.0	221	100	0	880	29	11	18	40	1.86
3574828--3575002	94	1.9	94	90	0	278	29	14	12	44	1.82
3581250--3581502	129	2.0	122	85	9	341	32	11	20	35	1.88
3587148--3587177	2	15.0	2	100	0	60	50	0	0	50	1.00
3587177--3587227	2	25.5	2	100	0	102	50	0	49	0	1.00
3595388--3595416	2	14.5	2	100	0	58	48	0	0	51	1.00
3596140--3596197	24	2.2	27	85	14	77	53	0	5	41	1.23
3596204--3596281	28	2.9	27	79	9	70	53	2	1	42	1.22
3598140--3598169	10	3.0	10	95	0	51	56	0	43	0	0.99
3602002--3602028	2	13.5	2	100	0	54	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3607365--3607439	22	3.2	22	69	20	71	45	6	2	45	1.43
3607372--3607448	24	3.2	24	67	26	72	44	7	2	45	1.46
3607344--3607456	48	2.3	49	93	1	192	46	6	2	45	1.42
3607427--3607468	22	2.0	22	82	17	54	50	2	0	47	1.14
3607344--3607488	48	3.0	49	85	5	170	47	4	2	45	1.35
3607711--3607762	2	26.0	2	88	0	77	46	1	0	51	1.12
3610704--3610738	18	1.9	18	94	0	61	60	0	0	40	0.97
3610772--3610842	17	4.2	16	75	13	63	46	1	7	45	1.39
3611385--3611437	22	2.4	21	75	12	52	58	0	3	37	1.16
3611998--3612049	24	2.2	26	74	25	60	65	0	0	34	0.93
3612012--3612112	24	4.2	26	66	15	74	54	0	2	42	1.15
3612222--3612275	24	2.2	24	81	15	67	40	1	0	57	1.09
3612234--3612404	29	5.9	29	75	10	136	41	3	0	54	1.17
3612378--3612426	16	3.0	16	77	13	55	55	2	0	42	1.11
3612392--3612452	19	3.1	20	81	13	65	59	1	0	39	1.08
3612418--3612480	27	2.3	29	81	10	78	65	0	0	34	0.93
3613304--3613333	2	15.0	2	100	0	60	50	0	0	50	1.00
3613481--3613540	27	2.2	28	82	8	70	45	0	1	53	1.10
3614000--3614037	16	2.4	16	91	8	60	68	5	0	26	1.11
3614295--3614321	2	13.5	2	100	0	54	51	0	0	48	1.00
3615204--3615290	20	4.5	19	75	16	81	39	4	1	55	1.28
3617428--3617764	167	2.0	170	95	1	617	38	11	8	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3618347--3618380	15	2.3	15	94	0	59	44	0	2	52	1.16
3619813--3619853	3	13.7	3	100	0	82	65	0	0	34	0.93
3625278--3625306	3	9.7	3	100	0	58	68	0	0	31	0.89
3626265--3626337	26	2.6	29	73	18	73	41	0	0	58	0.98
3626309--3626348	21	1.9	21	85	10	55	40	0	0	60	0.97
3626316--3626411	41	2.1	42	81	16	113	48	2	0	48	1.13
3626664--3626697	15	2.2	16	89	5	52	55	0	0	44	0.99
3627096--3627155	23	2.7	23	82	7	61	63	1	0	35	1.05
3627488--3627525	2	19.0	2	100	0	76	50	0	0	50	1.00
3632923--3632952	2	15.0	2	100	0	60	50	0	0	50	1.00
3633439--3633494	19	3.0	18	75	15	60	35	0	1	62	1.06
3633632--3633680	11	4.4	11	76	2	53	63	0	2	34	1.06
3636344--3636397	21	2.5	22	81	6	65	48	0	0	51	1.00
3637444--3637485	15	3.0	14	80	10	50	45	2	0	52	1.13
3637455--3637505	21	2.3	22	83	6	59	47	1	0	50	1.12
3637781--3637814	17	2.1	17	88	5	52	20	2	0	76	0.92
3638714--3638790	6	11.6	7	68	23	51	42	0	0	57	0.99
3638717--3638803	12	7.5	12	72	19	51	40	0	0	59	0.97
3638747--3638795	12	4.1	12	79	7	55	36	0	0	63	0.95
3638739--3638802	30	2.2	29	86	8	85	35	0	0	64	0.94
3639247--3639286	16	2.4	17	83	8	55	37	2	7	52	1.43
3640363--3640419	21	2.8	20	73	19	55	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3640350--3640431	17	4.4	18	69	20	53	60	0	0	39	0.96
3643586--3643618	14	2.3	15	89	5	50	21	6	0	72	1.05
3643794--3643828	4	8.8	4	87	0	52	45	2	0	51	1.16
3649634--3649739	27	4.0	26	76	15	101	45	0	0	54	0.99
3649661--3649737	24	3.2	22	71	26	66	46	0	0	53	1.00
3649671--3649717	22	2.1	22	92	4	76	46	0	0	53	1.00
3649638--3649750	51	2.3	51	86	8	162	45	0	0	54	0.99
3650717--3650778	29	2.3	27	78	15	65	48	0	0	51	1.00
3651045--3651069	2	12.5	2	100	0	50	48	0	0	52	1.00
3658229--3658290	32	2.0	31	93	3	106	45	1	0	53	1.10
3666904--3666960	19	3.1	19	76	14	57	50	0	1	47	1.11
3667888--3667936	21	2.5	19	78	12	53	55	0	0	44	0.99
3667901--3667948	21	2.2	22	85	14	64	43	0	0	56	0.99
3667888--3667945	19	2.9	19	78	14	64	51	0	0	48	1.00
3667901--3667945	19	2.2	21	88	7	67	46	0	0	53	1.00
3669978--3670111	67	2.0	67	91	1	216	40	9	11	38	1.74
3670758--3670817	33	1.9	31	86	10	86	46	5	3	45	1.41
3672795--3672840	24	2.0	24	91	4	76	76	0	23	0	0.79
3672797--3672854	23	2.6	23	78	10	66	79	0	20	0	0.74
3673357--3673391	10	3.4	10	84	7	52	22	0	2	74	0.95
3674019--3674066	18	2.7	18	84	9	55	31	0	0	68	0.90
3674111--3674156	16	2.9	15	81	9	56	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3674283--3674350	20	3.2	21	84	12	77	79	2	10	7	1.03
3674366--3674445	21	3.5	22	70	21	67	33	1	1	63	1.10
3674365--3674435	32	2.2	31	79	16	74	33	1	1	63	1.12
3674510--3674568	19	3.1	19	80	9	66	35	1	1	61	1.16
3674535--3674576	9	4.6	9	77	16	50	28	0	0	71	0.86
3674536--3674584	21	2.5	19	80	6	53	26	0	2	71	0.97
3674525--3674578	19	2.8	18	81	15	56	33	0	0	66	0.92
3675880--3675928	14	3.4	15	78	21	52	75	0	22	2	0.90
3675903--3675932	9	3.2	9	95	4	51	86	0	13	0	0.57
3676294--3676328	2	17.5	2	87	0	52	42	0	5	51	1.25
3676294--3676328	16	2.2	16	100	0	70	42	0	5	51	1.25
3679808--3679879	13	5.2	14	73	20	62	58	0	0	41	0.98
3679797--3679879	28	3.0	28	76	16	84	55	1	0	43	1.07
3679797--3679870	14	5.5	13	76	9	60	54	1	0	44	1.08
3679884--3679963	24	3.2	24	81	12	74	66	1	2	30	1.13
3679895--3679963	27	2.7	24	86	13	86	66	1	2	28	1.14
3680845--3680907	17	3.5	17	81	14	74	63	0	3	33	1.10
3680846--3680928	34	2.4	35	75	16	84	61	1	2	34	1.17
3681228--3681275	22	2.2	22	82	10	55	62	0	0	37	0.95
3685619--3685658	6	6.7	6	100	0	80	50	15	0	35	1.44
3689819--3689860	21	2.0	21	86	13	61	40	0	0	59	0.97
3692437--3692574	52	2.6	51	81	10	163	52	5	1	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692437--3692611	52	3.4	51	75	14	153	52	5	2	40	1.39
3692555--3692646	43	2.1	44	82	4	107	51	2	4	42	1.34
3692555--3692648	42	2.2	42	79	9	100	51	2	4	42	1.33
3693251--3693304	22	2.5	22	75	6	56	33	5	12	48	1.65
3693605--3693661	22	2.6	22	85	0	78	49	7	0	43	1.29
3695682--3695715	2	17.0	2	87	0	50	0	50	0	50	1.00
3695718--3695742	2	12.5	2	100	0	50	48	0	0	52	1.00
3696006--3696038	9	3.7	9	95	0	57	45	18	33	3	1.65
3698052--3698096	22	2.0	23	82	4	56	48	15	17	17	1.81
3698873--3698903	2	15.5	2	93	0	53	45	0	3	51	1.17

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