genome.fa.s372.2.7.7.80.10.50.1000.4.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: Scaffold372
Parameters: 2 7 7 80 10 50 1000
Length:  1060101

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1049 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)
465167--465219	22	2.4	22	72	12	54	43	3	0	52	1.19
465198--465261	16	4.1	16	78	9	51	45	3	1	50	1.27
465212--465247	16	2.2	16	90	0	54	44	2	0	52	1.15
465482--465536	10	5.7	10	72	8	51	65	0	1	32	1.03
465489--465544	28	1.9	30	86	13	82	57	0	3	39	1.16
465488--465551	28	2.2	29	82	17	80	57	0	3	39	1.14
467861--467893	2	17.0	2	87	6	50	48	0	3	48	1.17
471887--471921	17	2.1	17	94	0	61	60	2	11	25	1.45
476351--476384	2	17.0	2	100	0	68	50	0	0	50	1.00
476604--476652	19	2.4	21	80	10	57	44	0	0	55	0.99
476619--476661	21	2.0	21	86	8	61	41	0	0	58	0.98
482372--482406	2	17.5	2	100	0	70	51	0	0	48	1.00
491789--491851	11	5.5	11	74	20	58	66	0	1	31	1.01
491776--491875	43	2.3	44	83	11	118	62	0	1	37	1.02
491789--491855	35	1.9	35	84	6	91	67	0	1	31	1.00
491776--491889	46	2.5	47	76	15	121	62	0	0	36	1.02
491858--491896	16	2.5	15	84	15	53	58	0	0	41	0.98
492929--493038	55	1.9	57	83	8	145	43	0	0	55	1.06
493359--493466	48	2.3	47	80	12	116	44	0	1	52	1.18
494057--494087	16	1.9	16	100	0	62	54	0	0	45	0.99
494061--494101	16	2.6	16	81	14	50	56	0	0	43	0.99
494134--494191	16	3.7	16	83	2	64	55	5	0	39	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494139--494182	22	2.0	22	82	8	54	54	4	0	40	1.21
494139--494190	15	3.3	15	84	7	68	55	3	0	40	1.18
494284--494354	31	2.2	32	82	9	83	56	5	1	36	1.32
495929--495984	15	3.9	14	75	17	53	30	0	1	67	1.01
495928--495985	28	2.1	28	84	12	75	29	0	1	68	0.99
495944--496026	18	4.3	20	71	15	52	36	0	1	62	1.03
495946--496055	7	13.9	8	69	20	63	37	0	0	61	1.02
495988--496026	20	2.0	20	89	0	60	41	0	2	56	1.13
495983--496046	24	2.9	20	70	20	56	42	0	1	56	1.09
495983--496056	25	3.1	25	72	16	77	39	0	1	59	1.06
496235--496341	33	3.3	32	78	15	89	60	0	0	39	0.97
496233--496390	47	3.2	51	75	15	138	58	0	0	40	1.02
496243--496345	31	3.3	30	78	14	95	59	0	0	40	0.98
496700--496760	30	2.0	31	84	9	81	52	1	0	45	1.10
496727--496756	16	1.9	15	93	6	51	53	0	0	46	1.00
496719--496818	34	3.0	33	77	12	91	55	0	0	45	0.99
496763--496825	16	3.9	15	75	22	56	52	0	0	47	1.00
496765--496825	17	3.6	17	75	14	56	50	0	0	49	1.00
496947--496980	10	3.4	10	83	0	50	52	0	0	47	1.00
497059--497092	4	8.5	4	100	0	68	76	0	0	23	0.79
497059--497110	24	2.2	24	85	0	68	67	0	0	32	0.91
497902--498137	131	1.8	130	80	4	287	35	5	5	53	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507073--507139	32	2.1	32	83	5	82	41	1	2	53	1.25
507292--507330	2	19.5	2	89	0	60	51	5	0	43	1.24
507818--507866	25	2.0	24	84	4	62	44	0	0	55	0.99
507867--507916	21	2.4	21	74	9	50	52	0	2	46	1.12
507899--507935	15	2.4	16	86	13	51	51	2	5	40	1.39
510137--510209	6	12.0	6	75	13	51	56	1	0	42	1.08
510303--510337	16	2.2	16	89	0	52	31	5	5	57	1.46
510481--510558	39	2.0	41	84	5	106	35	10	8	44	1.70
510520--510575	16	3.5	16	82	0	67	39	8	5	46	1.58
512257--512307	19	2.5	20	81	12	59	31	0	1	66	1.03
512484--512517	17	2.1	17	88	5	52	29	0	0	70	0.87
512598--512827	113	2.0	113	95	0	415	46	4	7	41	1.51
512624--512802	58	3.1	57	66	22	149	48	4	8	39	1.54
518050--518092	2	21.5	2	100	0	86	0	48	0	51	1.00
518092--518119	2	14.0	2	100	0	56	50	0	0	50	1.00
520432--520475	2	22.0	2	100	0	88	50	0	0	50	1.00
521914--521968	28	1.9	29	85	3	76	50	3	0	45	1.19
521912--521975	28	2.3	26	77	15	65	50	4	0	45	1.22
522600--522649	2	25.0	2	87	0	73	46	2	4	48	1.32
522872--522955	17	4.4	19	76	15	84	40	0	1	58	1.06
522882--522961	8	9.9	8	71	22	60	42	0	1	56	1.07
522895--522958	20	3.2	19	80	14	67	40	0	1	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522882--522958	19	4.1	18	78	17	77	42	0	1	55	1.07
522953--523033	35	2.3	35	82	4	101	51	1	1	45	1.16
523087--523132	16	2.9	16	87	12	60	54	0	0	45	0.99
523148--523191	2	22.5	2	95	4	81	50	0	0	50	1.00
523506--523556	17	3.1	16	80	5	57	49	0	0	50	1.00
523608--523670	17	3.8	16	82	14	74	33	0	0	66	0.92
523608--523676	35	1.9	36	85	2	95	33	0	0	66	0.92
523636--523685	14	3.4	14	81	10	55	28	0	0	72	0.86
523602--523682	12	6.7	12	74	16	60	33	0	0	66	0.92
523608--523693	35	2.7	31	82	15	88	34	0	0	65	0.93
529052--529099	19	2.5	19	80	6	53	31	2	2	64	1.16
529259--529364	25	4.3	25	69	25	82	56	0	0	42	1.05
529284--529369	6	15.2	6	70	15	51	60	1	0	38	1.04
529272--529335	29	2.2	28	83	2	83	57	1	0	40	1.08
529218--529382	33	4.9	34	75	11	144	57	1	0	41	1.06
529662--529703	16	2.7	16	88	3	59	59	0	0	40	0.97
529668--529720	16	3.2	17	80	17	51	58	0	0	41	0.98
531246--531331	31	2.7	32	81	13	90	51	0	0	48	1.00
531246--531326	32	2.5	32	79	18	89	49	0	0	50	1.00
534576--534614	2	19.5	2	100	0	78	0	48	0	51	1.00
534614--534643	2	15.0	2	100	0	60	50	0	0	50	1.00
535234--535270	2	19.0	2	88	5	58	0	45	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537774--537834	27	2.5	24	82	15	79	44	0	4	50	1.23
537943--538015	29	2.6	28	81	8	87	45	6	0	47	1.29
538650--538680	2	15.5	2	100	0	62	48	0	0	51	1.00
538977--539023	16	2.9	16	78	15	51	53	0	6	40	1.27
539225--539340	10	11.1	10	69	15	56	58	0	0	40	1.04
539637--539688	15	3.6	14	84	7	68	25	0	1	73	0.94
539782--539843	30	2.1	29	84	6	79	53	0	0	46	1.00
539775--539828	20	2.8	19	78	13	58	57	0	1	40	1.09
545260--545295	18	2.0	18	88	0	54	44	0	0	55	0.99
545306--545356	24	2.2	22	89	6	75	64	0	0	35	0.94
545637--545695	25	2.3	26	83	13	79	54	0	0	45	0.99
545660--545771	29	3.9	27	75	19	86	58	0	0	41	0.98
545731--545789	18	3.3	18	86	6	77	57	0	0	42	0.98
545705--545808	6	17.5	6	70	15	65	60	0	0	39	0.97
545681--545803	11	9.8	14	66	24	53	57	0	0	42	0.98
545731--545820	32	2.7	33	74	23	89	58	0	0	41	0.98
545780--545822	19	2.4	18	82	17	54	60	0	0	39	0.97
546142--546189	23	2.1	22	85	14	62	62	0	0	37	0.95
546610--546636	2	13.5	2	100	0	54	48	0	0	51	1.00
547488--547531	10	4.3	11	85	8	58	75	0	0	25	0.81
547495--547532	18	2.1	19	85	5	51	78	0	0	21	0.74
547713--547739	13	2.1	13	100	0	54	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547715--547750	18	2.0	18	94	0	63	69	0	0	30	0.89
547727--547794	27	2.6	27	80	2	75	54	0	2	42	1.15
551451--551482	16	2.0	16	100	0	64	43	0	6	50	1.27
552202--552248	25	2.0	23	84	15	62	55	0	0	44	0.99
552207--552269	21	3.0	22	82	13	64	55	0	0	44	0.99
552386--552433	19	2.5	19	80	6	53	31	0	2	66	1.03
552618--552656	15	2.4	16	83	16	53	61	0	0	38	0.96
552618--552718	33	3.2	32	71	21	86	58	0	0	40	1.05
552616--552773	75	2.1	74	85	7	223	58	0	0	40	1.02
552739--552785	19	2.3	20	79	20	53	65	0	0	34	0.93

Tables:   1   2   3   4   5   6   7   8   9