genome.fa.s8442.2.7.7.80.10.50.1000.4.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: VEPZ01008442.1 Hibiscus syriacus cultivar Beakdansim tig00111244_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  816021

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 531 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)
517486--518258	113	6.8	113	88	0	1134	38	13	19	28	1.89
517483--518258	226	3.4	226	97	0	1421	38	13	19	28	1.89
518197--518275	40	2.0	40	97	0	149	49	10	22	17	1.77
518264--518293	13	2.3	13	100	0	60	60	0	40	0	0.97
518111--518428	166	1.9	166	92	0	528	41	12	20	25	1.87
518673--518761	3	29.7	3	88	0	133	34	3	0	61	1.12
518672--518783	9	11.7	10	75	16	53	38	2	0	58	1.12
522003--522065	31	2.2	28	84	15	85	20	23	26	28	1.99
526779--526881	36	2.9	36	89	0	161	40	14	16	28	1.88
530632--530770	36	3.9	36	90	0	215	25	16	14	43	1.85
533861--533889	12	2.4	12	100	0	58	55	6	10	27	1.59
539418--539556	36	3.9	36	91	3	217	41	14	17	27	1.88
540169--540216	23	2.1	22	85	11	62	47	16	2	33	1.58
544057--544195	36	3.9	36	95	0	224	42	13	16	27	1.86
551439--551587	23	6.7	22	74	17	114	30	24	20	24	1.99
551437--551587	67	2.3	67	90	0	248	29	24	20	25	1.99
551486--551608	21	5.7	22	75	16	82	31	25	18	24	1.98
551740--551791	21	2.5	21	87	0	68	26	19	13	40	1.88
552187--552313	53	2.4	54	89	5	186	30	22	18	29	1.97
552298--552379	20	4.0	20	73	16	69	31	30	9	28	1.89
553444--553494	25	2.0	25	100	0	102	33	19	31	15	1.93
553894--554011	16	7.7	15	71	19	75	76	5	16	2	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553905--554032	19	6.8	19	71	14	72	75	5	16	2	1.09
553938--554004	8	8.4	8	73	12	57	80	1	16	1	0.86
553900--554034	47	3.0	45	83	8	143	74	5	17	2	1.10
553952--554033	21	3.8	22	79	11	89	76	4	18	0	0.95
555123--555194	32	2.2	32	90	0	108	27	16	23	31	1.96
555264--555483	65	3.4	63	75	7	203	29	16	12	41	1.86
555265--555497	128	1.8	127	79	7	274	28	17	12	41	1.86
555445--555513	35	2.0	35	97	2	131	31	26	8	33	1.87
555602--555940	134	2.6	129	82	7	369	25	31	16	25	1.96
556115--556155	3	13.7	3	100	0	82	31	0	0	68	0.90
557541--557642	30	3.4	30	84	0	132	22	15	5	55	1.61
559232--559365	60	2.3	60	82	7	150	31	14	17	37	1.89
562554--562598	20	2.2	20	84	7	56	17	20	20	42	1.90
567174--567315	64	2.2	64	98	0	275	25	22	20	31	1.98
570966--571488	265	2.0	267	85	3	725	36	13	9	40	1.78
572891--572927	20	1.9	20	88	5	58	45	0	0	54	1.00
572906--572982	29	2.6	29	84	14	86	46	0	3	49	1.20
573027--573077	23	2.2	23	82	0	57	45	1	1	50	1.24
573065--573144	19	4.3	19	74	12	69	47	1	1	50	1.17
573217--573267	21	2.3	23	86	10	70	49	0	0	50	1.00
573201--573301	22	4.3	23	68	23	68	49	0	0	49	1.07
574137--574183	20	2.3	20	85	0	67	25	23	6	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575088--575146	30	2.0	30	90	6	93	42	16	8	32	1.79
575312--575341	15	1.9	16	93	6	53	46	0	0	53	1.00
590822--591002	64	2.8	63	83	3	218	27	17	26	29	1.97
590950--591000	19	2.7	19	85	8	70	25	15	35	23	1.94
590843--591002	65	2.5	65	86	3	216	27	16	26	30	1.97
590844--591051	65	3.2	64	79	14	196	27	16	25	30	1.97
591219--591258	20	2.0	21	85	14	57	45	7	5	42	1.54
592026--592070	21	2.1	21	91	0	72	40	15	37	6	1.74
592889--592933	21	2.1	21	87	0	63	28	4	46	20	1.69
597508--597547	21	1.9	21	85	10	55	35	10	2	52	1.48
598827--599008	64	2.8	63	82	3	211	26	17	25	30	1.97
598955--599005	19	2.7	19	79	8	61	25	15	33	25	1.95
598848--599008	65	2.5	65	85	3	209	27	16	25	31	1.96
599224--599263	20	2.0	21	85	14	57	45	7	5	42	1.54
599764--599809	22	2.1	22	84	11	60	36	2	26	34	1.69
601809--601862	20	2.6	20	77	16	65	40	0	0	59	0.98
601957--602001	23	2.0	23	90	0	72	44	0	2	53	1.13
601958--602026	23	3.0	23	82	6	68	46	0	1	52	1.09
601995--602132	54	2.5	54	78	15	140	45	1	2	50	1.22
602186--602232	22	2.1	23	88	4	69	55	0	2	42	1.12
602169--602238	32	2.2	32	82	10	81	52	0	2	44	1.15
602194--602237	22	2.0	22	82	8	54	56	0	2	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623473--623497	11	2.3	11	100	0	50	72	0	28	0	0.86
624394--625081	341	2.0	341	92	1	1130	34	24	7	34	1.83
628101--628179	42	1.9	41	86	2	113	22	20	24	32	1.97
628161--628214	20	2.7	20	91	0	81	25	27	24	22	2.00
628193--629185	256	3.9	254	85	4	1282	32	15	17	34	1.91
628193--629185	259	3.9	256	86	3	1334	32	15	17	34	1.91
629145--629231	42	2.1	42	84	4	113	27	14	20	36	1.92
629375--629417	10	4.2	10	80	13	52	25	0	0	74	0.82
633824--633853	13	2.2	14	94	5	53	16	23	0	60	1.36
639078--639116	21	1.9	20	84	5	51	46	43	0	10	1.37
639090--639293	60	3.3	61	80	3	212	47	28	4	19	1.70
642161--642189	12	2.5	12	94	5	51	37	0	24	37	1.56
642922--643115	65	2.8	68	89	5	286	36	13	10	39	1.80
644874--644911	20	1.9	19	89	5	58	50	0	2	47	1.15
648116--649538	135	10.6	134	84	3	1589	31	18	19	30	1.96
650197--650344	45	3.3	45	84	7	201	40	20	16	22	1.91
650187--650363	90	2.0	90	86	0	246	39	19	16	24	1.91
650197--650366	45	3.8	45	83	6	182	40	19	15	24	1.91
650186--650394	90	2.3	90	81	5	244	40	19	15	24	1.90
650242--650501	135	1.9	135	80	4	301	40	16	16	26	1.89
650354--650501	45	3.3	43	76	11	136	41	14	17	26	1.88
658692--658731	18	2.1	18	86	9	53	10	22	10	57	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665262--665306	22	2.0	22	86	0	63	31	31	11	26	1.91
675071--675123	21	2.5	21	100	0	106	13	16	33	35	1.88
677139--677177	21	1.9	20	84	5	51	46	2	0	51	1.14
677150--677219	32	2.2	32	82	10	81	44	4	0	51	1.21
677192--677268	23	3.5	22	76	16	72	54	1	1	42	1.16
678519--678578	27	2.4	25	81	10	77	43	6	3	46	1.46
678751--678860	24	4.7	23	76	17	102	45	5	0	48	1.32
678845--678876	16	2.0	16	93	0	55	46	18	0	34	1.49
679359--679427	23	3.2	23	72	16	74	37	4	5	52	1.46
679341--679438	42	2.3	43	87	8	148	37	4	5	53	1.42
679512--679725	14	15.9	14	64	24	77	44	12	2	41	1.54
679549--679611	33	1.9	33	87	6	92	42	17	0	39	1.49
679604--679725	22	4.8	25	80	13	124	45	9	3	40	1.53
679507--679745	36	6.8	36	72	14	155	45	12	2	40	1.53
679700--679745	22	2.1	22	91	0	74	47	8	4	39	1.54
679850--679887	2	19.0	2	100	0	76	50	0	0	50	1.00
684659--685026	131	2.8	131	81	1	380	40	16	11	31	1.84
687039--687129	3	30.3	3	97	0	173	65	0	1	32	1.00
687356--687513	77	2.0	78	82	3	194	37	5	8	48	1.55
688087--688130	18	2.5	17	85	10	61	65	6	2	25	1.28
689073--689191	59	2.0	59	90	3	186	32	12	10	44	1.76
689956--690010	28	2.0	27	89	3	83	20	29	0	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693724--693769	24	1.9	24	95	0	83	45	36	10	6	1.65
697780--697831	24	2.1	26	89	7	81	15	13	17	53	1.72
698085--698134	10	4.8	10	81	15	57	6	8	22	64	1.43
698086--698151	23	2.8	23	86	2	87	9	9	21	60	1.54
698105--698148	14	3.2	14	87	9	56	9	11	22	56	1.62
703010--703389	186	2.0	186	99	0	751	25	14	19	41	1.89
706324--706422	33	3.1	33	85	2	130	39	21	14	25	1.90
711061--711147	33	2.8	30	77	8	93	41	24	12	21	1.88
711084--711159	33	2.3	34	88	4	111	40	22	11	25	1.88
712584--712629	22	2.1	22	95	0	83	26	23	21	28	1.99

Tables:   1   2   3   4   5