genome.fa.s10.2.7.7.80.10.50.1000.24.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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  24  of  25  ( 2970 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)
3607441--3607499	27	2.2	27	81	6	66	59	0	0	40	0.97
3607455--3607495	22	1.9	21	85	14	57	60	0	0	39	0.96
3609660--3609701	20	2.1	20	95	0	75	54	9	2	33	1.46
3609692--3609783	20	5.1	19	76	17	72	38	3	7	51	1.47
3609650--3609779	8	16.2	8	78	0	98	43	4	5	46	1.47
3610622--3610654	12	2.9	12	91	8	52	63	0	0	36	0.95
3612663--3612759	48	2.0	48	89	0	149	44	4	11	40	1.59
3613943--3614002	31	1.9	31	100	0	120	38	18	10	33	1.84
3620036--3620082	20	2.3	21	79	17	55	61	0	0	38	0.96
3620426--3620493	22	2.9	22	73	8	55	44	1	0	54	1.09
3620601--3620690	32	2.8	32	76	15	89	60	1	2	36	1.17
3621399--3621456	25	2.3	25	82	8	64	56	5	1	36	1.32
3624088--3624132	2	22.0	2	95	4	81	48	2	0	48	1.13
3625059--3625094	18	2.0	18	88	0	54	72	0	0	27	0.85
3626473--3626531	22	2.8	21	82	10	66	59	1	0	38	1.08
3626729--3626767	18	2.1	19	85	4	53	58	0	2	38	1.12
3626836--3626877	14	3.0	14	76	13	50	64	0	0	35	0.94
3627106--3627182	39	2.0	39	92	0	127	54	11	14	19	1.70
3627496--3627525	2	15.0	2	100	0	60	50	0	0	50	1.00
3627785--3627820	18	1.9	19	88	5	56	47	19	0	33	1.50
3629037--3629157	31	3.4	36	71	19	110	43	0	2	52	1.20
3629330--3629372	22	2.0	22	86	9	61	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3630721--3630750	14	2.1	14	93	0	51	36	6	0	56	1.26
3631517--3631558	20	2.2	19	83	12	50	50	0	0	50	1.00
3631523--3631574	20	2.7	20	85	8	63	53	0	0	46	1.00
3634840--3634884	24	1.9	24	95	4	83	24	4	0	71	1.05
3635126--3635170	21	2.2	20	84	7	56	68	0	0	31	0.89
3635306--3635351	19	2.5	18	86	13	67	58	0	0	41	0.98
3635478--3635520	15	2.9	15	76	13	52	58	2	0	39	1.11
3635459--3635537	27	2.8	26	75	17	77	55	3	1	39	1.26
3639502--3639543	2	21.5	2	95	4	77	50	0	0	50	1.00
3640402--3640446	23	2.0	24	86	8	67	28	0	0	71	0.87
3640512--3640536	12	2.1	12	100	0	50	56	0	0	44	0.99
3641052--3641115	29	2.2	30	88	2	94	40	0	1	57	1.08
3641110--3641174	19	3.4	18	75	23	62	58	0	3	38	1.14
3641289--3641329	22	1.9	22	85	5	57	39	0	0	60	0.96
3641303--3641342	21	2.0	20	85	5	53	32	0	0	67	0.91
3641333--3641393	29	2.1	30	84	3	79	55	1	3	39	1.26
3641990--3642041	17	3.2	17	79	20	74	53	0	0	46	1.00
3641990--3642037	16	3.1	15	72	21	53	54	0	0	45	0.99
3652679--3652720	2	21.0	2	100	0	84	0	50	0	50	1.00
3655469--3655508	18	2.1	18	86	9	53	27	2	2	67	1.16
3655480--3655516	18	2.1	18	90	5	58	27	0	0	72	0.84
3658107--3658143	2	18.5	2	100	0	74	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3661749--3661787	2	19.5	2	94	0	69	48	0	2	48	1.15
3665838--3665874	18	2.1	18	100	0	74	16	5	37	40	1.71
3669221--3669264	18	2.4	18	81	14	54	43	0	0	56	0.99
3669221--3669265	13	3.6	13	82	11	58	42	0	0	57	0.98
3669230--3669273	18	2.5	16	82	17	52	40	0	0	59	0.98
3669561--3669585	2	12.5	2	100	0	50	52	0	48	0	1.00
3672876--3672901	3	8.7	3	100	0	52	30	0	0	69	0.89
3675767--3675812	2	23.0	2	100	0	92	50	0	0	50	1.00
3678991--3679046	15	3.7	15	72	11	51	64	0	1	33	1.04
3679221--3679269	2	24.5	2	95	0	89	0	51	0	48	1.00
3680747--3680819	20	3.5	22	75	16	66	35	1	0	63	1.04
3681112--3681160	17	3.2	17	75	21	54	57	0	0	42	0.99
3681235--3681315	27	2.9	27	83	7	83	45	2	1	50	1.22
3682000--3682060	27	2.3	26	86	5	79	50	0	0	49	1.00
3682029--3682085	29	1.9	30	82	10	73	50	0	0	49	1.00
3682048--3682110	21	3.0	19	76	17	54	50	1	1	46	1.20
3682443--3682488	20	2.2	20	80	3	56	26	2	4	67	1.21
3686551--3686735	10	15.9	12	68	22	69	38	0	1	60	1.04
3686542--3686586	21	2.1	21	88	8	65	37	0	2	60	1.09
3686551--3686669	14	8.2	14	66	21	50	41	0	1	57	1.09
3686673--3686733	11	6.0	11	75	21	53	32	0	0	67	0.91
3686673--3686731	6	10.5	6	75	14	63	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3686624--3686745	39	3.1	39	79	14	110	37	0	1	60	1.07
3686665--3686740	27	2.9	27	79	14	79	34	0	0	65	0.93
3686665--3686740	25	2.9	25	79	11	80	34	0	0	65	0.93
3686686--3686735	22	2.3	23	86	10	70	34	0	0	66	0.92
3689997--3690026	3	10.0	3	100	0	60	66	0	0	33	0.92
3692857--3692886	2	15.5	2	93	6	53	50	0	0	50	1.00
3694780--3694866	8	10.2	8	71	26	56	56	0	0	43	0.99
3694781--3694834	2	28.5	2	76	10	51	53	0	0	46	1.00
3694825--3694869	14	3.0	16	75	24	53	57	0	0	42	0.98
3695702--3695772	17	4.2	17	75	19	69	59	0	0	40	0.98
3695957--3695991	2	17.5	2	93	0	61	48	0	2	48	1.16
3696423--3696454	11	2.9	11	90	0	55	28	0	0	71	0.86
3696418--3696452	11	3.1	11	87	4	52	34	0	0	65	0.93
3696906--3696945	17	2.4	16	91	4	62	60	0	0	40	0.97
3702295--3702346	26	2.1	24	82	13	61	46	1	0	51	1.12
3702319--3702366	19	2.5	20	86	10	73	47	0	0	52	1.00
3703948--3703975	14	2.0	14	100	0	56	35	0	0	64	0.94
3704082--3704153	19	4.1	17	76	13	65	38	0	0	61	0.96
3704082--3704115	17	2.1	16	94	5	59	41	0	0	58	0.98
3704561--3704630	24	2.8	24	77	14	70	45	22	10	21	1.81
3704563--3704659	27	3.7	27	80	4	101	45	23	9	21	1.81
3704647--3704704	26	2.3	25	94	5	100	25	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709158--3709227	24	2.8	24	77	14	70	45	22	10	21	1.81
3709160--3709256	27	3.7	27	80	4	101	45	23	9	21	1.81
3709244--3709301	26	2.3	25	94	5	100	25	15	24	34	1.95
3709527--3709573	23	2.0	25	83	8	62	38	0	2	59	1.09
3710750--3710876	8	15.2	8	67	22	57	39	0	0	59	1.09
3710729--3710858	27	4.7	29	73	16	105	43	2	0	53	1.18
3710797--3710852	14	3.9	14	77	9	58	46	0	0	53	1.00
3710748--3710862	22	5.1	22	67	23	62	41	0	0	56	1.11
3710797--3710876	30	2.7	30	84	3	99	40	0	0	60	0.97
3712001--3712053	28	2.0	27	85	7	72	60	0	5	33	1.20
3712159--3712197	18	2.3	18	86	8	55	20	2	0	76	0.90
3712515--3712577	11	5.6	11	79	7	65	61	0	0	38	0.96
3712533--3712575	2	22.5	2	81	9	54	55	0	0	44	0.99
3721688--3721722	3	11.7	3	100	0	70	68	0	0	31	0.90
3722336--3722379	3	14.7	3	100	0	88	68	0	0	31	0.90
3722905--3722952	19	2.5	19	75	0	51	35	2	4	58	1.29
3723256--3723288	14	2.4	14	90	5	50	42	3	0	54	1.15
3728689--3728720	2	16.0	2	100	0	64	50	0	0	50	1.00
3733678--3733713	2	18.0	2	100	0	72	0	50	0	50	1.00
3733843--3733887	24	2.0	22	86	8	63	44	0	0	55	0.99
3733835--3733887	20	2.5	21	79	14	56	41	0	0	58	0.98
3733905--3733943	19	2.0	20	90	5	62	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3733907--3733948	19	2.2	19	83	8	50	50	0	0	50	1.00
3734271--3734309	20	2.0	20	84	0	51	53	0	0	46	1.00
3734261--3734318	29	2.0	28	86	10	80	55	0	0	44	0.99
3734451--3734526	5	15.4	5	73	13	59	61	2	0	35	1.10
3734461--3734525	11	6.0	11	75	18	57	66	1	0	32	1.01
3734470--3734525	19	2.9	18	84	10	58	67	1	0	30	1.01
3734460--3734526	26	2.8	23	80	14	73	64	1	0	34	1.03
3734512--3734584	22	3.5	22	67	25	59	49	0	0	50	1.00
3738024--3738053	2	15.0	2	92	0	51	0	46	0	53	1.00
3747871--3747902	15	2.1	15	94	0	55	84	0	12	3	0.74

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