genome.fa.s9164.2.7.7.80.10.50.1000.2.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: VEPZ01009164.1 Hibiscus syriacus cultivar Beakdansim tig00112699_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  622707

Tables:   1   2   3   

This is table  2  of  3  ( 309 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)
194311--194342	14	2.3	14	94	0	55	59	0	0	40	0.97
208190--208333	45	3.1	45	86	6	182	29	12	20	38	1.89
217962--218005	9	5.0	8	82	17	52	79	0	15	4	0.89
217962--218005	18	2.5	17	89	10	70	79	0	15	4	0.89
219423--220085	55	12.3	55	86	6	753	26	16	26	29	1.97
219961--220101	55	2.6	55	85	2	185	30	16	24	29	1.96
225016--225110	18	4.7	21	77	16	103	18	20	31	29	1.96
225038--225112	18	3.9	18	85	13	105	18	21	32	28	1.97
225016--225112	40	2.4	40	96	0	176	19	20	30	28	1.97
225677--225723	22	2.1	22	88	0	67	21	19	31	27	1.97
230289--230380	31	3.0	31	80	6	116	25	16	21	36	1.94
230381--230460	22	3.6	22	86	3	108	28	20	25	26	1.99
239305--239366	22	2.7	23	80	9	74	41	9	1	46	1.46
239661--239704	20	2.2	20	83	0	52	38	4	2	54	1.33
248528--248592	26	2.5	26	87	2	94	43	1	6	49	1.37
251581--251610	15	1.9	16	93	6	53	3	23	0	73	0.98
253322--253412	24	3.9	23	82	12	105	40	8	3	47	1.51
253354--253425	21	3.2	21	86	7	90	40	9	5	44	1.61
253471--253501	16	1.9	16	100	0	62	58	3	0	38	1.15
263308--263369	12	5.2	12	75	14	65	12	12	17	56	1.67
263304--263370	24	2.8	23	84	6	89	14	11	17	55	1.69
266806--266843	13	3.1	13	81	11	53	63	2	21	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267585--267920	42	7.9	42	68	14	168	30	18	22	29	1.97
267710--267734	13	1.9	13	100	0	50	32	24	20	24	1.98
267730--267808	22	3.7	21	69	14	63	26	18	22	31	1.97
267587--267978	135	3.0	135	84	9	501	30	18	21	29	1.97
267853--267924	22	3.3	23	71	13	71	27	16	20	34	1.95
267846--267909	20	3.2	19	71	16	65	26	20	21	31	1.98
267722--267928	42	5.0	42	72	11	185	28	18	23	29	1.98
267723--268005	122	2.3	122	93	1	469	29	19	21	30	1.97
267889--268058	80	2.1	80	92	4	281	32	17	20	30	1.95
268047--268071	13	1.9	13	100	0	50	32	24	20	24	1.98
268059--268158	42	2.4	42	89	1	148	22	26	24	28	1.99
268188--268358	53	3.2	53	86	1	227	29	21	27	21	1.98
270776--270834	23	2.5	24	83	5	75	49	0	1	49	1.11
273878--273907	12	2.5	12	94	0	51	30	10	10	50	1.69
278750--278780	14	2.3	14	94	5	55	90	0	9	0	0.46
278750--278783	15	2.4	15	90	9	54	88	0	11	0	0.52
279877--279906	12	2.5	12	94	0	51	30	10	10	50	1.69
282068--282131	31	2.1	31	88	5	94	34	7	7	50	1.60
282076--282138	31	2.0	31	90	6	101	31	9	11	47	1.71
282294--282383	27	3.4	27	73	14	89	51	1	3	44	1.25
282311--282383	24	2.9	25	77	6	76	49	1	4	45	1.29
282400--282424	10	2.5	10	100	0	50	52	20	8	20	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
283784--283834	22	2.4	22	83	3	59	41	15	3	39	1.66
294800--294861	31	2.0	31	87	0	88	24	9	14	51	1.72
295076--295141	30	2.2	30	86	0	87	33	15	12	39	1.84
295240--295303	6	10.7	6	74	12	60	0	32	0	67	0.91
295244--295304	21	2.9	21	95	2	104	0	32	0	67	0.91
295240--295303	27	2.4	27	86	0	92	0	32	0	67	0.91
295588--295627	19	2.1	19	100	0	80	52	12	10	25	1.70
295831--295919	46	1.9	46	88	4	135	30	20	26	22	1.98
296298--296522	36	6.3	36	92	1	337	18	27	23	30	1.97
301373--301417	23	2.0	23	95	0	81	31	26	20	22	1.98
301373--301441	23	3.0	23	82	0	66	30	24	21	23	1.99
301460--301674	103	2.1	103	94	0	376	35	23	13	26	1.93
317862--317928	35	1.9	35	93	0	116	28	19	25	26	1.99
319948--319980	16	2.0	17	88	5	50	30	0	24	45	1.53
320747--320784	18	2.1	18	85	9	51	34	0	15	50	1.45
322716--322824	55	2.0	55	88	0	164	46	11	21	21	1.81
322794--322834	20	2.0	20	100	0	82	48	4	19	26	1.69
323527--323676	72	2.1	72	97	0	282	36	11	28	24	1.90
328328--328452	37	3.4	37	82	4	155	32	19	20	28	1.96
328320--328459	37	3.8	37	78	4	133	32	22	17	27	1.96
328320--328459	73	1.9	73	92	2	237	32	22	17	27	1.96
328752--328823	37	2.0	36	88	2	108	37	18	22	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328828--329092	51	5.1	51	84	6	246	30	16	23	29	1.97
328889--329137	55	4.6	54	84	4	254	29	18	23	28	1.98
328940--329167	55	4.1	55	80	2	208	28	19	21	30	1.97
328943--329167	110	2.0	110	80	3	247	29	19	21	30	1.97
334160--334427	43	6.3	43	92	1	407	23	14	30	30	1.94
334468--334572	42	2.5	42	84	9	135	24	20	23	31	1.98
334557--334992	89	4.9	90	74	9	410	26	16	21	36	1.94
334807--334908	42	2.5	42	85	4	136	23	18	21	36	1.95
334717--335096	174	2.2	174	96	0	697	25	18	20	35	1.96
334981--335077	42	2.3	42	87	1	133	25	17	20	36	1.94
338775--338799	12	2.1	12	100	0	50	68	0	0	32	0.90
348274--348302	2	14.5	2	100	0	58	48	0	0	51	1.00
348283--348460	89	2.0	88	98	1	347	56	7	3	32	1.45
356029--356099	31	2.3	30	80	7	79	49	15	7	28	1.70
358179--358227	21	2.3	22	82	7	64	26	6	10	57	1.55
361551--361618	23	3.0	23	88	0	91	19	27	27	25	1.98
369951--369979	4	7.2	4	100	0	58	24	0	0	75	0.80
370147--370216	35	2.0	35	100	0	140	42	14	14	28	1.84
390709--390822	23	5.0	23	100	0	228	21	26	25	26	2.00
391239--391278	13	3.0	13	82	7	53	27	0	5	67	1.11
393425--393512	45	2.0	45	93	0	149	28	27	17	27	1.97
398129--398991	241	3.6	240	88	2	1189	25	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398951--399374	110	3.9	110	90	1	649	24	18	22	34	1.96
398951--399372	221	1.9	216	89	2	646	24	18	22	34	1.96
403665--403745	33	2.5	33	87	4	110	29	13	18	38	1.89
403681--403746	33	2.0	33	93	0	114	28	10	19	40	1.85
403807--403849	3	15.3	3	86	13	65	67	0	0	32	0.91
403807--403849	8	5.1	9	91	8	65	67	0	0	32	0.91
410605--410728	63	2.0	62	84	6	160	41	5	8	44	1.57
413125--413180	27	2.1	27	83	6	69	42	3	1	51	1.29
413686--413748	31	2.1	30	84	3	81	41	11	9	38	1.73
413847--413937	31	3.0	28	77	14	92	39	16	7	36	1.77
413836--413941	30	3.5	30	79	2	122	38	16	9	35	1.81
421232--421331	35	2.7	35	86	6	119	38	15	16	31	1.89
421700--421742	21	2.0	23	86	9	63	25	0	9	65	1.22
421736--421781	2	23.5	2	91	4	76	47	2	0	50	1.13
421890--421924	16	2.1	18	89	10	56	25	8	0	65	1.21
425581--425625	8	5.8	8	87	10	58	77	0	22	0	0.76
425581--425650	31	2.2	31	82	10	79	77	4	18	0	0.93
426744--426779	18	2.0	18	94	0	63	16	8	33	41	1.78
427260--427632	36	10.6	36	74	15	255	26	20	13	39	1.89
427260--427632	175	2.1	175	84	2	480	26	20	13	39	1.89
427521--427632	39	3.1	36	82	8	145	22	20	16	41	1.90
428316--428824	109	4.8	108	80	8	487	32	25	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428404--428980	109	5.4	105	81	6	576	32	24	19	22	1.97
429441--429540	35	2.7	35	86	6	119	38	15	16	31	1.89
429953--429996	2	22.5	2	95	4	81	47	0	0	52	1.00
430108--430142	16	2.1	18	89	10	56	25	8	0	65	1.21
431756--431813	2	29.0	2	100	0	116	50	0	0	50	1.00
434392--434536	71	2.0	74	82	6	179	24	21	17	36	1.95
435688--435719	14	2.2	15	94	5	57	50	0	6	43	1.27
435840--435906	23	2.8	24	72	20	61	41	1	2	53	1.25
436054--436125	20	3.6	19	78	12	65	40	2	4	52	1.35
436927--437037	2	55.5	2	86	10	156	45	0	2	51	1.15

Tables:   1   2   3