genome.fa.s9630.2.7.7.80.10.50.1000.3.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: VEPZ01009630.1 Hibiscus syriacus cultivar Beakdansim tig00117026_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1249403

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 671 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)
305750--305868	42	2.8	41	83	5	148	23	21	34	21	1.97
308051--308105	20	2.8	20	91	0	92	12	10	23	52	1.71
308449--308495	22	2.1	22	92	0	76	21	17	42	19	1.89
308657--308699	20	2.2	20	95	0	77	18	13	25	41	1.88
309882--309925	3	13.3	3	82	17	52	63	0	31	4	1.14
309888--309925	13	2.8	13	96	4	67	63	0	31	5	1.17
313266--313338	21	3.5	21	94	0	128	9	35	2	52	1.49
317480--317555	33	2.3	34	93	6	129	40	27	11	19	1.87
320279--320317	17	2.4	17	91	4	62	56	0	0	43	0.99
332360--332411	23	2.3	23	86	3	70	32	26	21	19	1.97
332397--332454	21	2.8	21	89	5	73	37	27	17	17	1.92
332979--333029	19	2.5	20	81	9	59	25	31	15	27	1.96
336948--336985	17	2.4	17	86	8	53	71	15	5	7	1.28
338664--338688	12	2.1	12	100	0	50	40	16	8	36	1.77
345179--345289	24	4.6	24	76	6	118	48	16	13	21	1.80
345183--345251	12	5.8	12	74	6	59	50	18	13	17	1.77
345181--345289	48	2.3	47	85	6	139	48	16	13	21	1.80
350673--350709	19	1.9	19	89	10	58	40	0	2	56	1.13
351220--351295	39	2.0	37	82	7	91	47	3	1	47	1.29
351987--352062	36	2.1	36	85	7	100	47	1	3	47	1.29
352903--353001	21	4.8	20	73	13	74	38	22	18	21	1.93
352968--353122	40	3.8	40	82	4	186	37	26	18	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352968--353121	20	7.7	20	80	7	168	37	26	18	18	1.93
353504--353574	33	2.2	33	92	0	115	11	22	18	47	1.80
353653--353730	41	1.9	41	97	0	147	44	16	25	12	1.83
353654--353729	21	3.7	21	83	3	109	46	17	25	11	1.82
353714--353770	14	3.7	14	70	20	51	43	22	22	10	1.84
353706--353784	33	2.4	33	93	0	131	46	21	21	10	1.80
353787--353879	19	5.4	19	69	23	89	10	21	21	46	1.81
353804--353893	14	5.7	14	68	23	54	11	22	22	44	1.84
353787--353900	33	3.5	33	97	1	212	11	21	20	46	1.82
355596--355966	93	4.0	93	98	0	710	21	12	18	46	1.83
356014--356142	19	7.3	19	75	17	125	45	28	17	8	1.77
356050--356142	33	2.8	32	91	4	150	46	27	18	7	1.76
356014--356142	52	2.5	52	74	14	140	45	28	17	8	1.77
356138--356258	19	6.6	19	80	10	135	11	19	23	45	1.83
358315--358431	19	6.4	19	87	10	181	46	17	22	14	1.84
358315--358431	33	3.2	36	84	13	159	46	17	22	14	1.84
358333--358450	53	2.2	53	96	1	220	44	17	24	13	1.85
358440--358627	19	10.7	19	78	17	201	15	20	18	45	1.85
358440--358641	51	3.9	51	84	8	257	14	21	18	45	1.85
358496--358641	33	4.2	33	80	13	186	13	20	18	47	1.82
361060--361106	24	2.0	24	87	8	69	38	21	14	25	1.92
361789--362058	20	13.5	20	87	1	290	20	17	25	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362045--362127	21	4.0	21	73	6	78	25	16	24	33	1.96
362025--362123	42	2.4	43	77	11	100	21	18	23	37	1.94
376451--376972	6	88.2	6	97	2	995	32	0	16	50	1.46
390197--390259	24	2.6	25	85	10	85	30	22	1	46	1.61
390217--390256	12	3.3	12	100	0	80	32	15	0	52	1.43
393420--393483	33	2.0	33	81	9	78	48	9	7	34	1.64
395008--395110	51	2.0	52	84	7	138	31	4	19	44	1.71
395081--395144	34	1.9	32	90	6	101	35	7	23	32	1.84
399092--399160	26	2.7	26	97	0	129	23	24	21	30	1.99
408659--408720	23	2.9	21	85	9	72	22	33	25	17	1.96
408703--408742	21	1.9	21	89	0	62	25	40	25	10	1.86
409185--409223	2	19.5	2	100	0	78	48	0	0	51	1.00
411773--411809	18	2.1	18	100	0	74	29	16	10	43	1.82
412723--412801	15	5.2	15	73	13	63	64	0	0	35	0.94
413159--413218	25	2.4	25	82	0	75	38	10	11	40	1.75
413172--413227	25	2.2	25	77	0	58	41	10	8	39	1.71
413311--413364	25	2.2	25	86	6	74	48	9	7	35	1.63
415474--415542	23	3.0	23	84	0	102	30	26	26	17	1.97
416945--416989	21	2.1	21	87	0	63	15	24	28	31	1.96
419048--419100	2	26.5	2	100	0	106	49	0	0	50	1.00
427631--428080	229	2.0	228	94	1	785	45	8	6	39	1.60
428146--428191	19	2.4	19	88	3	74	54	10	17	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430657--430722	33	2.0	33	87	0	96	28	1	45	24	1.62
432518--432579	19	3.4	19	91	6	101	32	3	9	54	1.49
432662--434674	200	10.1	198	96	1	3640	36	14	15	33	1.88
432662--434674	397	5.1	398	98	0	3763	36	14	15	33	1.88
436139--436200	18	3.4	18	88	0	88	38	6	33	20	1.79
436139--436200	6	10.3	6	83	0	61	38	6	33	20	1.79
436154--436204	3	17.0	3	83	0	66	37	3	33	25	1.74
436142--436204	12	5.2	12	90	0	81	36	6	33	23	1.80
439405--439467	23	2.7	23	90	0	90	36	6	19	38	1.77
439405--439477	23	3.2	23	86	3	85	35	5	19	39	1.75
451493--451526	12	2.9	11	87	12	50	44	8	35	11	1.72
454343--454711	184	2.0	183	97	0	702	41	21	17	19	1.90
462047--462077	6	5.2	6	92	0	53	80	3	16	0	0.83
466522--466579	25	2.3	25	93	0	98	27	6	20	44	1.77
466844--466876	3	10.7	3	93	6	57	66	0	0	33	0.92
468049--468110	23	2.7	23	84	0	88	17	27	25	29	1.98
468355--468391	18	2.0	19	89	5	58	59	0	10	29	1.31
479411--479445	2	17.5	2	100	0	70	51	0	0	48	1.00
484765--484812	20	2.5	20	86	3	62	35	6	2	56	1.36
486913--486970	31	1.9	31	86	10	84	27	5	8	58	1.49
487751--487841	23	4.0	23	83	0	119	29	25	26	18	1.98
489309--489353	2	22.5	2	100	0	90	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489681--489752	21	3.3	21	71	21	58	20	15	29	34	1.93
492032--492080	23	2.1	23	88	0	71	12	20	18	48	1.79
494432--494510	40	2.0	40	100	0	158	25	27	13	32	1.94
494746--494825	40	2.0	40	82	2	97	32	3	17	46	1.66
499230--499255	2	13.0	2	100	0	52	50	0	0	50	1.00
499988--500017	13	2.4	12	89	10	51	53	3	0	43	1.17
510833--510884	24	2.1	24	82	10	61	59	17	17	5	1.56
512696--512731	10	3.6	10	88	0	54	41	5	2	50	1.40
514485--514563	22	3.6	22	91	0	131	31	24	17	26	1.97
514478--514563	44	2.0	44	97	0	163	30	24	19	25	1.98
514585--514639	19	2.9	19	91	0	83	34	18	20	27	1.95
516416--516473	24	2.4	24	97	0	107	24	12	27	36	1.91
516551--516612	19	3.4	18	84	8	72	43	6	17	32	1.75
516553--516644	36	2.4	36	82	10	96	44	6	19	29	1.76
516564--516651	19	4.8	18	78	9	88	44	5	20	29	1.74
516669--516786	6	18.7	6	76	11	76	54	0	23	22	1.45
516648--516782	25	5.2	25	91	4	198	52	1	22	22	1.55
517275--517332	25	2.3	25	93	0	98	55	17	15	12	1.70
522096--522141	24	1.9	24	100	0	92	34	19	6	39	1.78
521951--522261	165	1.9	165	93	3	545	41	21	10	26	1.85
524207--524231	12	2.1	12	100	0	50	44	0	32	24	1.54
524271--524313	22	2.0	22	81	4	52	34	20	2	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526404--526455	2	26.0	2	100	0	104	50	0	0	50	1.00
526876--526925	2	25.5	2	89	4	66	52	0	0	48	1.00
526974--527023	19	2.5	20	72	21	52	40	0	4	56	1.18
541230--541360	60	2.2	60	80	4	149	33	19	5	41	1.74
541564--541703	59	2.3	60	80	6	142	38	7	25	29	1.82
542822--542849	2	14.0	2	100	0	56	50	0	0	50	1.00
547103--547164	28	2.2	28	97	0	115	20	33	19	25	1.96
554905--554952	16	3.0	16	87	0	69	47	16	2	33	1.58
555059--555093	12	2.9	12	91	0	52	37	25	11	25	1.90
555057--555094	16	2.4	16	100	0	76	39	23	10	26	1.87

Tables:   1   2   3   4   5   6