genome.fa.s389.2.7.7.80.10.50.1000.5.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1688 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)
579091--579169	30	2.6	30	91	0	122	37	21	11	29	1.88
581083--581139	24	2.4	24	78	0	60	28	21	19	31	1.97
581039--581139	23	4.3	24	69	5	80	25	22	20	30	1.98
582653--582685	13	2.4	14	85	10	50	45	6	3	45	1.43
582662--582691	13	2.3	13	100	0	60	50	6	6	36	1.55
585001--585059	21	2.7	22	73	19	61	18	22	33	25	1.96
585001--585059	22	2.7	22	75	17	61	18	22	33	25	1.96
591740--591806	3	22.0	3	82	8	73	26	2	2	67	1.20
591740--591781	16	2.6	16	100	0	84	21	4	4	69	1.26
591772--591804	17	1.9	17	100	0	66	33	0	0	66	0.92
594246--594407	23	7.1	22	71	16	100	50	0	27	21	1.54
594247--594364	22	5.0	24	73	15	86	51	0	27	20	1.47
594246--594370	45	2.7	48	80	5	139	52	0	28	19	1.46
595360--595425	23	2.8	23	75	20	66	39	1	3	56	1.24
598999--599042	7	6.3	7	100	0	88	43	0	56	0	0.99
601225--601254	15	2.0	15	93	0	51	43	3	26	26	1.70
601475--601539	22	3.0	22	97	0	121	23	27	23	26	2.00
602668--603088	82	5.1	81	81	7	470	34	17	11	36	1.85
602670--603088	167	2.5	166	88	3	596	34	17	10	36	1.85
606958--606992	18	1.9	18	100	0	70	25	34	22	17	1.96
607654--608191	269	2.0	269	98	0	1040	32	24	8	34	1.86
610092--610127	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615639--615778	66	2.1	66	95	1	253	44	5	4	46	1.45
616636--616742	37	2.9	37	83	2	126	41	11	13	34	1.79
617166--617192	11	2.5	11	100	0	54	29	0	7	62	1.22
617193--617293	22	4.5	23	71	22	90	34	4	1	58	1.31
617584--617609	2	13.0	2	100	0	52	50	0	0	50	1.00
617615--617674	24	2.4	25	81	10	70	13	11	0	75	1.06
620891--620931	15	2.5	17	76	15	50	17	19	7	56	1.64
622077--622137	21	3.0	20	80	20	72	80	3	16	0	0.84
622074--622145	21	3.4	20	78	14	65	79	5	13	1	0.98
623720--624670	106	9.0	106	88	1	1308	34	24	18	23	1.96
623725--624622	423	2.1	424	90	1	1415	34	24	18	22	1.96
625378--625482	37	2.8	37	86	0	147	40	15	14	29	1.86
626201--626270	29	2.4	29	75	15	74	21	0	8	70	1.14
626346--626407	4	15.2	4	81	9	72	19	4	0	75	0.97
626352--626431	12	6.6	12	80	8	81	18	6	0	75	1.01
628004--628050	25	2.0	22	84	12	58	59	8	2	29	1.39
630931--630971	8	5.2	8	77	16	50	34	0	26	39	1.57
630931--630971	15	2.6	16	71	21	50	34	0	26	39	1.57
631052--631521	128	3.7	128	98	0	904	20	24	21	33	1.97
631927--632027	34	3.2	33	80	16	131	37	3	4	53	1.41
631958--632028	28	2.5	27	88	8	106	38	2	4	54	1.34
632547--632655	42	2.6	42	92	0	173	23	25	33	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632547--632661	21	5.5	21	82	0	131	22	26	33	17	1.96
632665--632712	21	2.3	21	88	0	69	22	12	39	25	1.89
634239--634292	17	3.2	17	78	2	56	59	3	0	37	1.15
634440--634525	32	2.6	34	77	9	95	58	1	0	40	1.06
636411--636488	31	2.5	31	89	4	113	57	3	3	34	1.35
636411--636488	13	5.2	13	72	26	57	57	3	3	34	1.35
636491--636530	16	2.4	16	87	8	53	52	2	0	45	1.14
636496--636530	16	2.1	17	89	5	54	54	2	0	42	1.15
637294--637340	2	23.5	2	100	0	94	48	0	0	51	1.00
638686--638729	20	2.2	20	87	0	61	31	29	34	4	1.78
640067--640124	30	2.0	29	90	10	91	44	17	5	32	1.70
640067--640126	29	2.0	30	93	6	104	43	16	6	33	1.74
643320--643391	29	2.5	29	100	0	144	38	11	11	38	1.76
643415--643471	30	1.9	30	92	0	96	40	3	24	31	1.72
643717--643784	24	2.8	24	70	18	68	23	23	25	27	2.00
644322--644373	7	7.4	7	84	0	68	23	26	5	44	1.76
644322--644373	14	3.7	14	89	0	77	23	26	5	44	1.76
644323--644373	21	2.4	21	86	0	75	23	27	5	43	1.77
648229--648341	55	2.1	55	81	3	129	43	11	22	23	1.85
648253--648359	55	1.9	55	83	3	135	44	15	20	18	1.86
649019--649169	72	2.1	72	94	0	266	36	13	27	23	1.92
653815--653928	37	3.1	37	82	7	135	35	21	14	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653823--653954	37	3.6	37	80	9	128	34	19	18	26	1.95
654315--654935	54	11.5	54	92	0	1017	36	19	25	19	1.95
654913--655332	55	7.8	55	86	7	469	29	15	24	30	1.95
659222--659289	20	3.3	20	77	4	82	29	23	26	20	1.99
659324--659366	22	1.9	23	90	4	70	20	20	32	25	1.97
659467--659526	30	2.0	30	90	6	95	43	15	6	35	1.72
661234--661280	14	3.7	13	77	13	53	76	4	17	2	1.04
661231--661286	13	4.4	13	76	14	55	78	3	14	3	1.02
661241--661310	30	2.3	31	81	13	83	75	4	15	4	1.11
661231--661311	13	5.8	14	74	11	51	76	3	16	3	1.07
663935--663987	26	2.0	26	92	0	88	33	16	20	28	1.95
663891--664024	71	1.9	71	87	6	200	33	14	21	29	1.94
672328--672363	11	3.4	11	96	3	65	8	25	8	58	1.55
672735--672792	20	2.9	20	97	0	107	18	15	34	31	1.93
673040--673518	36	13.5	36	75	14	390	26	18	12	41	1.87
673199--673283	42	2.0	42	93	0	143	23	17	11	47	1.81
673040--673518	214	2.3	209	89	4	710	26	18	12	41	1.87
673360--673515	37	4.3	35	77	8	150	24	17	13	44	1.85
673360--673516	73	2.2	73	86	3	210	24	17	13	43	1.85
673380--673518	37	3.8	37	84	3	183	23	19	14	42	1.88
673889--673959	3	22.7	3	88	8	74	28	0	0	71	0.86
673888--673921	4	8.5	4	87	12	52	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674599--674628	13	2.3	13	94	0	51	30	0	0	70	0.88
677816--677870	27	2.0	27	96	0	101	20	16	23	40	1.91
678225--678330	30	3.5	30	87	5	142	38	0	14	47	1.44
678272--678326	15	3.6	16	70	20	55	41	0	14	43	1.45
678384--678417	15	2.2	16	94	5	61	38	0	5	55	1.24
680553--680601	25	2.0	25	100	0	98	44	16	0	38	1.48
680554--680601	14	3.6	14	83	16	75	45	16	0	37	1.48
680569--680878	60	5.2	60	94	0	523	46	12	0	41	1.44
680627--680721	11	7.8	12	68	29	51	44	14	0	41	1.46
680553--680788	21	11.4	20	68	21	75	46	12	0	40	1.42
680751--680976	49	4.4	49	86	11	330	46	12	0	40	1.45
680911--681040	60	2.2	60	92	1	217	46	13	0	39	1.44
683899--683959	26	2.4	24	76	15	59	42	1	6	49	1.38
684754--684802	21	2.3	21	85	3	71	53	16	0	30	1.43
685307--685441	29	4.6	29	79	12	168	17	37	26	18	1.92
685370--685437	26	2.5	26	90	7	100	19	38	23	19	1.93
685391--685434	13	3.4	13	75	12	54	20	38	22	18	1.93
685674--685785	29	3.9	29	95	3	199	16	27	39	16	1.90
687796--687915	35	3.3	37	87	8	176	44	20	4	31	1.70
692417--692525	35	3.0	37	88	8	161	44	19	5	30	1.73
700829--700863	12	2.9	12	86	0	52	54	8	8	28	1.60
701031--701064	14	2.4	14	90	0	50	52	5	2	38	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704639--704899	36	7.2	36	74	14	216	45	4	6	43	1.50
704790--704919	28	4.4	28	68	20	86	49	5	2	43	1.38
704863--704909	25	2.0	24	87	8	69	51	2	2	44	1.25
704772--704899	66	2.0	66	86	4	181	48	4	3	43	1.39
704770--705060	159	1.8	157	82	10	367	47	4	4	44	1.41
704938--705006	30	2.3	31	82	10	88	46	5	4	43	1.47
706367--706427	13	4.6	13	80	15	63	18	3	3	75	1.08
706346--706422	23	3.3	22	70	17	59	16	5	3	74	1.16
707509--707542	17	1.9	18	88	5	52	5	11	8	73	1.24
711594--712729	84	13.8	82	76	6	882	30	25	19	24	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15