genome.fa.s8024.2.7.7.80.10.50.1000.2.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: VEPZ01008024.1 Hibiscus syriacus cultivar Beakdansim tig00110499_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1023309

Tables:   1   2   3   4   

This is table  2  of  4  ( 383 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)
408494--408572	8	10.2	8	75	15	69	83	0	11	5	0.79
408509--408578	1	70.0	1	73	0	50	85	0	11	2	0.69
409501--409804	105	2.9	104	85	4	385	40	15	19	25	1.90
409750--409813	17	3.3	19	67	20	51	43	12	20	23	1.85
414121--414294	90	2.0	89	87	4	255	44	5	10	39	1.63
432840--432886	20	2.3	20	96	0	85	21	12	27	38	1.90
437042--437081	17	2.4	16	84	8	53	57	2	12	27	1.48
439337--439388	20	2.5	21	73	14	54	51	25	11	11	1.71
442423--442464	22	2.0	21	90	4	66	45	14	21	19	1.85
443157--443418	53	4.9	54	81	1	303	33	17	17	30	1.94
443157--443418	107	2.4	107	82	1	310	33	17	17	30	1.94
449673--449919	54	4.6	54	87	0	323	34	17	16	31	1.92
453091--453162	33	2.2	33	82	7	85	59	8	1	30	1.35
454567--454602	18	2.0	18	100	0	72	22	5	44	27	1.75
454570--454609	18	2.2	18	90	0	62	22	10	45	22	1.82
463625--463799	90	2.0	89	91	3	289	37	11	6	45	1.66
469654--469831	90	2.0	90	95	2	322	35	12	6	44	1.68
482508--482541	15	2.3	15	94	0	59	11	11	17	58	1.62
487006--487102	32	3.0	32	81	0	86	31	13	20	34	1.91
491733--491843	32	3.5	32	87	0	159	25	23	27	23	2.00
491814--491856	20	2.2	20	87	8	61	23	30	20	25	1.99
507926--508753	168	5.0	166	92	2	1380	31	18	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507926--508753	335	2.5	331	93	3	1389	31	18	11	37	1.87
511521--511604	32	2.6	31	79	5	96	22	27	27	22	1.99
511585--511631	20	2.3	20	88	0	67	25	21	31	21	1.98
518543--518648	32	3.3	32	76	5	108	37	16	16	28	1.91
522807--522844	3	12.7	3	100	0	76	31	0	0	68	0.90
523067--523097	14	2.1	15	94	5	55	41	0	6	51	1.27
524137--524180	22	2.0	23	86	4	63	50	0	0	50	1.00
525222--525261	3	13.3	3	100	0	80	35	0	0	65	0.93
526096--526145	7	7.7	6	86	8	55	76	4	4	16	1.10
526088--526146	19	3.0	18	75	18	55	74	3	5	16	1.13
526887--526951	33	2.0	33	84	6	87	24	16	6	52	1.67
528035--528068	16	2.1	16	89	10	52	44	2	2	50	1.32
533497--533567	21	3.4	21	82	3	90	45	16	38	0	1.48
533497--533578	42	2.0	42	82	0	101	46	17	34	2	1.61
533967--534124	44	3.6	44	85	2	201	29	23	15	31	1.95
538186--538334	77	1.9	78	81	9	180	43	5	8	42	1.58
539737--539861	46	2.8	44	80	9	135	29	18	20	32	1.96
540953--540997	21	2.1	21	83	0	54	33	15	40	11	1.83
546900--547315	59	7.1	59	89	1	595	37	10	24	28	1.88
546934--547026	27	3.3	27	65	19	71	38	9	27	23	1.86
546900--547315	117	3.6	118	86	2	581	37	10	24	28	1.88
553827--554299	59	8.0	59	89	0	687	38	10	22	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553827--554299	235	2.0	236	89	0	732	38	10	22	27	1.88
555456--555608	39	3.9	39	85	5	184	31	24	26	16	1.97
561262--561296	13	2.8	12	91	8	52	40	5	11	42	1.65
561742--561820	20	3.8	20	73	17	63	34	18	16	30	1.94
561829--561861	14	2.4	14	94	0	57	36	15	21	27	1.93
570497--570521	11	2.3	11	100	0	50	76	0	0	24	0.80
576967--577026	30	2.0	29	84	12	77	31	30	6	31	1.83
583352--583394	18	2.4	18	88	0	68	37	4	27	30	1.77
587344--587520	44	4.0	44	91	2	257	30	21	8	39	1.83
587366--587520	44	3.5	44	93	0	265	29	21	9	38	1.86
587625--587702	40	2.0	39	97	2	147	33	24	17	24	1.97
597328--597352	10	2.5	10	100	0	50	20	8	12	60	1.57
604940--605011	24	3.0	24	83	0	90	19	11	18	51	1.75
608556--608641	24	3.6	24	77	3	84	25	11	15	47	1.79
608556--608647	48	1.9	48	86	4	132	26	11	14	47	1.78
612193--612278	24	3.6	24	77	3	84	25	11	15	47	1.79
612193--612284	48	1.9	48	86	4	132	26	11	14	47	1.78
619076--619126	22	2.3	22	80	6	59	21	25	29	23	1.99
623931--624062	66	2.0	66	83	5	169	25	13	33	27	1.94
627733--627775	22	2.0	22	86	9	61	48	27	4	18	1.68
630131--630166	18	2.0	18	100	0	72	50	16	11	22	1.77
630617--630671	23	2.4	23	84	6	67	40	9	7	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631352--631413	26	2.4	26	88	0	88	20	27	3	48	1.65
631386--631520	46	2.9	46	91	0	216	21	23	9	45	1.81
631417--631614	20	8.6	25	69	20	78	21	23	12	42	1.87
631443--631588	66	2.2	66	91	0	238	21	24	12	41	1.87
631398--631634	112	2.1	112	89	3	370	21	24	12	41	1.87
631509--631646	46	3.0	46	89	4	206	21	23	13	42	1.88
636914--636969	21	2.7	21	91	0	85	48	8	37	5	1.58
637118--637147	14	2.1	14	100	0	60	20	13	13	53	1.72
640453--640489	18	2.1	18	100	0	74	35	10	5	48	1.61
643288--643327	21	1.9	21	84	0	53	47	12	5	35	1.63
654019--654052	4	8.2	4	93	6	59	76	0	0	23	0.79
655381--655491	3	37.0	3	88	0	168	66	0	0	32	0.98
655802--655884	42	2.0	42	87	0	121	26	22	22	27	1.99
655668--656133	218	2.1	217	90	1	727	30	21	17	30	1.96
656019--656104	42	2.0	42	86	0	118	31	19	22	26	1.98
655973--656232	130	2.0	132	90	2	418	33	20	18	26	1.96
656148--656235	43	2.0	43	86	0	122	30	21	21	26	1.98
664364--664495	66	2.0	66	88	5	196	24	13	34	27	1.93
666919--666974	23	2.4	23	85	5	69	39	7	5	48	1.54
668399--668456	27	2.1	27	81	12	66	18	8	12	60	1.57
669325--669376	26	2.0	26	96	0	95	26	25	3	44	1.71
669331--669393	26	2.4	26	89	0	90	22	28	6	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669366--669502	46	3.0	46	86	0	184	22	24	11	41	1.87
669470--669519	20	2.5	20	90	0	73	24	28	8	40	1.83
669481--669522	20	2.1	20	95	0	75	21	28	11	38	1.89
669490--669627	46	3.0	46	84	4	188	22	21	11	44	1.84
669377--669614	112	2.1	112	85	1	325	22	23	12	41	1.87
669423--669558	66	2.1	66	94	0	236	25	24	10	40	1.86
674783--674830	21	2.3	21	88	0	69	45	10	39	4	1.58
678294--678330	18	2.1	18	100	0	74	35	10	5	48	1.61
681060--681113	21	2.6	21	82	2	65	46	14	3	35	1.63
682583--682626	22	2.0	22	95	0	79	4	20	29	45	1.71
687391--687420	4	7.2	4	92	7	51	76	0	0	23	0.78
688650--688766	3	39.0	3	81	3	137	63	1	0	34	1.11
689076--689161	42	2.0	42	86	0	118	30	19	22	27	1.98
688943--689408	218	2.1	217	89	1	711	30	19	18	31	1.95
689294--689636	43	8.0	42	75	10	185	30	20	20	28	1.98
689423--689617	43	4.5	43	90	0	309	28	20	22	29	1.98
689270--689510	129	1.8	131	90	2	387	31	18	19	30	1.96
689456--689639	86	2.1	86	89	0	278	30	19	21	28	1.97
690980--691155	75	2.4	75	88	0	246	31	24	13	30	1.94
691357--691447	41	2.2	40	78	9	94	28	25	15	30	1.96
697914--697967	26	2.1	26	86	6	74	70	1	1	25	1.07
699064--699109	23	2.0	22	84	12	58	4	23	36	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699129--699206	3	26.0	3	85	0	102	58	0	1	39	1.06
701907--701947	21	2.0	21	90	0	64	34	14	14	36	1.87
711477--711514	20	1.9	20	89	10	60	18	15	0	65	1.27
711473--711521	20	2.5	19	78	12	55	18	18	0	63	1.32
714523--714564	21	2.0	21	85	0	57	28	2	14	54	1.52
714702--715141	220	2.0	219	95	3	805	30	16	22	30	1.96
715106--715224	59	2.0	60	98	1	231	29	15	21	33	1.94
716049--716143	45	2.0	47	94	6	167	32	15	30	21	1.94
717540--717580	20	2.1	20	82	13	50	29	14	14	41	1.86
724666--724702	13	2.8	13	91	0	56	40	16	24	18	1.90

Tables:   1   2   3   4