genome.fa.s333.2.7.7.80.10.50.1000.4.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: Scaffold333
Parameters: 2 7 7 80 10 50 1000
Length:  853475

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 617 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)
479901--479982	19	4.6	18	74	23	57	36	14	15	32	1.89
479919--479981	19	3.7	18	76	24	73	33	12	17	36	1.88
479938--479962	13	1.9	13	100	0	50	36	16	16	32	1.90
479919--479988	32	2.2	32	97	0	131	32	12	17	37	1.87
480010--480049	21	1.9	21	100	0	80	40	17	10	32	1.83
485477--485551	20	3.8	20	78	0	87	34	13	12	40	1.81
485477--485554	40	2.0	39	87	2	111	34	12	12	39	1.82
488123--488499	186	2.0	185	99	0	745	27	18	17	36	1.93
499729--499789	20	3.3	19	80	11	81	88	8	3	0	0.61
499729--499804	10	7.2	10	81	11	53	84	7	5	2	0.86
499729--499789	1	61.0	1	76	0	59	88	8	3	0	0.61
501017--501921	28	31.6	28	87	3	1184	28	32	17	21	1.96
501017--501921	313	2.9	312	88	4	1309	28	32	17	21	1.96
502531--502605	20	3.8	20	78	0	87	34	13	12	40	1.81
502531--502608	40	2.0	39	87	2	111	34	12	12	39	1.82
503518--503570	20	2.6	20	93	3	88	22	11	7	58	1.57
514577--514661	15	5.4	15	80	10	91	85	12	1	0	0.65
514579--514661	34	2.5	34	88	5	116	85	13	1	0	0.66
514577--514661	30	2.8	30	84	12	102	85	12	1	0	0.65
514577--514648	1	72.0	1	74	0	63	87	11	1	0	0.61
516042--516207	28	5.7	29	80	7	185	31	31	18	17	1.94
516028--516213	58	3.2	57	87	3	264	29	31	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516042--516207	87	1.9	86	85	3	226	31	31	18	17	1.94
516188--516277	32	2.8	32	91	1	135	20	33	14	32	1.92
516316--516427	35	3.2	35	90	0	161	16	28	11	43	1.82
516311--516442	35	3.9	34	87	4	151	18	29	12	40	1.86
516433--516502	30	2.4	29	88	4	97	37	31	15	15	1.89
516517--516895	49	8.0	49	78	8	374	26	24	16	32	1.96
516617--516788	87	2.0	85	86	4	238	29	25	17	27	1.97
516702--516985	101	2.8	101	82	2	306	25	25	16	33	1.96
517731--517755	13	1.9	13	100	0	50	36	16	16	32	1.90
517827--517854	13	2.2	13	100	0	56	28	14	17	39	1.89
522017--522218	111	1.8	112	90	3	327	42	3	1	52	1.29
522117--522371	127	2.0	124	81	11	295	42	2	2	52	1.28
523897--523957	29	2.1	29	84	6	79	34	14	19	31	1.92
525068--525098	14	2.2	14	100	0	62	29	12	6	51	1.65
528422--528471	19	2.5	20	96	3	93	30	20	10	40	1.85
529519--529571	20	2.6	21	85	8	74	28	13	16	41	1.86
529519--529577	20	3.0	19	85	7	73	25	11	20	42	1.86
532128--532166	13	3.0	13	96	0	69	35	15	17	30	1.91
538308--538333	13	2.0	13	100	0	52	30	15	15	38	1.88
538288--538352	33	2.0	33	87	6	96	27	13	16	41	1.87
541184--541248	19	3.8	18	71	24	68	32	10	16	40	1.84
541186--541256	32	2.2	32	94	0	124	32	11	18	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548465--548489	13	1.9	13	100	0	50	52	0	0	48	1.00
548431--548489	29	2.0	29	83	0	73	59	0	1	38	1.08
548819--548852	2	17.5	2	87	6	52	47	0	2	50	1.16
550051--550135	16	5.1	16	70	29	63	55	3	1	40	1.25
550194--550233	15	2.4	17	84	16	57	2	30	0	67	1.04
550796--550830	18	1.9	18	88	11	54	71	2	0	25	1.00
551344--551397	20	2.7	20	85	2	72	40	9	14	35	1.78
553538--554076	273	2.0	273	97	0	1008	29	19	13	36	1.91
554282--554348	26	2.6	26	88	4	100	31	35	8	23	1.86
555413--555444	17	1.9	17	93	6	57	43	6	0	50	1.27
556277--556332	20	2.8	20	81	15	71	48	0	7	44	1.30
556284--556327	18	2.4	18	96	0	79	47	0	9	43	1.35
558512--558564	12	4.2	13	83	14	58	73	1	0	24	0.93
558554--558611	29	2.1	27	81	12	64	70	3	0	25	1.03
558593--558631	16	2.4	15	87	12	51	58	0	0	41	0.98
558691--558728	8	4.8	8	84	12	51	2	23	0	73	0.95
558692--558728	15	2.3	17	86	9	51	2	24	0	72	0.97
558874--558898	12	2.1	12	100	0	50	28	16	16	40	1.89
558923--558968	22	2.1	21	92	4	74	41	13	6	39	1.70
559114--559153	21	1.9	21	90	10	64	22	0	0	77	0.77
560101--560195	26	3.7	26	77	14	90	45	1	0	53	1.07
560373--560413	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564043--564173	68	1.9	70	87	3	194	25	12	16	45	1.82
567400--567449	23	2.1	24	92	7	84	58	16	6	20	1.59
569950--569990	21	1.9	21	85	5	55	43	17	9	29	1.80
572827--572868	16	2.6	16	80	0	57	47	7	9	35	1.64
574382--574421	21	1.9	21	85	10	55	35	0	2	62	1.09
575241--575281	21	2.0	20	86	9	57	58	0	0	41	0.98
575318--575357	20	2.0	20	90	9	64	62	0	0	37	0.95
575322--575382	20	3.1	19	79	9	59	52	0	0	47	1.00
579972--580015	22	2.0	23	90	4	72	45	2	9	43	1.48
594683--594749	33	2.0	33	88	0	98	34	11	13	40	1.81
594703--594727	13	1.9	13	100	0	50	36	16	16	32	1.90
594803--594947	52	2.8	50	86	6	200	34	18	17	29	1.94
601248--601527	88	3.2	88	76	2	233	32	8	27	31	1.87
605153--605444	106	2.8	105	81	6	304	24	14	30	31	1.94
604784--605412	279	2.2	281	88	3	915	26	13	28	31	1.93
612720--612792	20	3.6	20	81	3	101	35	13	19	31	1.91
612738--612813	21	3.7	21	80	3	100	42	11	17	28	1.84
612720--612813	41	2.3	41	98	0	179	39	12	18	29	1.88
612852--612877	13	2.0	13	100	0	52	38	15	15	30	1.88
617655--617742	3	29.3	3	92	0	113	34	6	0	59	1.24
618221--619436	620	2.0	601	86	4	1679	35	12	12	40	1.80
620706--620732	13	2.1	13	100	0	54	29	14	14	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620782--620806	13	1.9	13	100	0	50	36	16	16	32	1.90
620765--620826	33	1.9	32	93	3	106	35	12	17	33	1.88
628881--628936	22	2.6	21	86	5	76	35	7	19	37	1.79
629525--629549	13	1.9	13	100	0	50	36	16	16	32	1.90
629503--629568	33	2.0	32	85	8	89	33	15	13	37	1.86
629534--629590	19	3.0	20	84	7	82	33	15	17	33	1.92
629635--629664	13	2.3	13	94	0	51	36	16	13	33	1.88
629620--629684	33	2.0	33	87	6	96	33	12	18	35	1.88
632959--633097	20	6.8	20	71	19	119	25	16	16	41	1.89
632977--633026	13	4.3	13	72	27	58	28	16	14	42	1.86
633079--633108	13	2.3	13	100	0	60	30	16	13	40	1.87
633095--633148	21	2.7	20	88	2	72	33	18	12	35	1.89
633041--633148	20	5.7	19	74	20	84	30	17	13	37	1.89
635447--635768	130	2.5	129	88	3	457	30	23	13	32	1.93
635658--635825	51	3.3	50	84	6	221	30	26	12	29	1.93
635808--635882	28	2.7	28	87	0	96	22	25	20	32	1.98
635871--635969	51	1.9	51	81	4	119	29	28	10	32	1.89
635939--636138	79	2.5	79	79	4	208	27	24	14	34	1.93
652167--652246	1	80.0	1	72	0	61	86	10	2	1	0.73
652167--652235	10	7.0	10	85	3	95	86	10	1	1	0.69
652167--652246	20	4.1	18	84	15	97	86	10	2	1	0.73
652167--652246	39	2.0	40	90	2	126	86	10	2	1	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652167--652246	10	8.3	9	78	12	79	86	10	2	1	0.73
652167--652246	25	3.2	25	84	10	94	86	10	2	1	0.73
653215--653772	62	9.0	62	87	2	784	24	26	20	28	1.99
653215--653772	122	4.5	124	88	1	775	24	26	20	28	1.99
653215--653772	184	3.0	184	89	1	839	24	26	20	28	1.99
653535--653635	34	3.1	34	64	25	92	26	27	17	27	1.98
654514--654581	33	2.1	33	86	8	95	33	14	16	35	1.89
657118--657155	13	2.9	13	96	0	67	34	18	15	31	1.92
663408--663432	13	1.9	13	100	0	50	36	16	16	32	1.90
664442--664536	20	4.7	20	80	5	93	29	15	11	43	1.82

Tables:   1   2   3   4   5   6