genome.fa.s914.2.7.7.80.10.50.1000.3.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: VEPZ01000914.1 Hibiscus syriacus cultivar Beakdansim tig00001825_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1342319

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 706 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)
356641--356748	54	2.0	54	98	0	207	30	6	20	42	1.77
358602--358631	15	2.0	15	100	0	60	26	26	13	33	1.93
368039--368086	3	17.0	3	83	12	66	0	33	0	66	0.92
374348--374377	7	4.3	7	91	0	51	43	36	0	20	1.52
380403--380452	25	2.0	24	85	11	66	38	2	10	50	1.48
381159--381192	12	2.8	12	81	0	50	73	0	2	23	0.97
382756--382797	3	14.0	3	80	9	50	61	0	2	35	1.09
382756--382796	22	2.0	20	90	9	64	60	0	2	36	1.10
384551--384591	21	1.9	22	85	5	57	7	58	4	29	1.46
389065--389115	2	25.5	2	100	0	102	50	0	0	49	1.00
389170--389481	85	3.7	85	90	1	430	33	16	20	29	1.95
391043--391081	20	2.0	20	84	0	51	35	2	5	56	1.35
398385--398433	21	2.3	21	86	6	64	30	14	8	46	1.73
398398--398439	21	2.0	21	100	0	84	23	19	9	47	1.78
417891--417920	15	2.0	15	100	0	60	46	20	13	20	1.83
419758--419786	6	4.8	6	100	0	58	0	68	13	17	1.20
426512--426572	30	2.0	32	83	6	81	45	1	3	49	1.28
435175--435209	17	2.0	18	88	5	54	68	0	0	31	0.90
436068--436123	24	2.3	25	78	9	62	48	1	0	50	1.11
448877--449188	36	8.7	36	91	0	471	18	27	23	30	1.98
458226--458297	30	2.5	27	80	15	65	51	4	5	38	1.45
469721--469790	31	2.3	29	80	11	79	38	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471518--471565	21	2.3	21	85	0	60	25	39	12	22	1.89
471569--471641	21	3.5	21	85	7	103	19	34	26	20	1.96
472149--472245	33	2.9	34	85	3	124	56	4	2	37	1.30
472147--472252	34	3.2	32	82	8	122	55	4	1	37	1.32
472642--473296	128	5.1	128	93	1	1156	32	19	24	23	1.98
477326--477404	3	26.3	3	87	5	70	43	1	0	55	1.07
478612--478638	12	2.2	12	100	0	54	37	0	0	62	0.95
478908--478952	22	2.0	22	86	8	63	42	0	0	57	0.98
478769--479011	118	2.0	125	79	8	268	41	7	8	43	1.62
479002--479049	22	2.0	25	84	11	66	47	2	0	50	1.12
484677--484733	3	18.0	3	78	10	60	61	1	3	33	1.23
484677--484732	13	4.0	14	73	15	53	60	1	3	33	1.24
484680--484731	10	4.9	11	77	17	56	59	1	3	34	1.27
484863--485428	76	7.4	76	95	0	997	34	20	21	22	1.97
486105--486159	22	2.5	22	93	0	101	40	14	10	34	1.81
488776--489330	115	4.8	115	97	0	1013	31	21	14	32	1.93
491320--491362	12	3.9	11	82	8	52	0	4	6	88	0.63
496792--496839	19	2.6	18	86	6	60	43	0	0	56	0.99
498293--498349	3	18.0	3	78	10	60	61	1	3	33	1.23
498293--498348	13	4.0	14	73	15	53	60	1	3	33	1.24
498296--498347	10	4.9	11	77	17	56	59	1	3	34	1.27
498633--498664	15	2.1	15	94	0	55	28	18	6	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502778--502823	19	2.5	18	83	13	58	82	0	17	0	0.67
502795--502823	14	2.1	14	100	0	58	86	0	13	0	0.58
504199--504487	94	3.1	93	89	3	433	30	16	19	33	1.94
505274--506173	113	8.0	112	85	5	1086	37	14	18	29	1.90
505274--506173	229	4.0	226	90	3	1232	37	14	18	29	1.90
505274--506173	342	2.7	336	85	5	1206	37	14	18	29	1.90
506390--506465	3	25.3	3	81	5	82	40	1	0	57	1.07
506390--506467	15	5.4	15	80	9	99	42	1	0	56	1.07
506415--506492	36	2.2	36	81	4	86	51	1	0	47	1.09
507672--507698	12	2.2	12	100	0	54	37	0	0	62	0.95
507953--507996	22	2.0	22	81	0	52	50	0	0	50	1.00
507968--508012	22	2.0	22	86	8	63	42	0	0	57	0.98
507834--508069	115	2.0	124	80	9	274	39	8	8	43	1.65
508060--508109	23	2.0	26	85	11	70	46	2	0	52	1.12
527842--527904	23	2.7	23	75	0	72	17	28	22	31	1.96
528936--529162	9	23.9	9	67	21	83	70	1	7	20	1.19
528921--529012	29	3.0	29	80	13	80	70	1	10	17	1.21
528961--528986	4	6.5	4	100	0	52	76	0	0	23	0.78
529102--529161	10	5.4	11	75	20	54	75	1	0	23	0.90
529104--529181	33	2.3	34	82	10	99	75	3	1	19	1.02
529129--529203	39	1.9	39	83	5	98	74	4	8	13	1.18
529332--529358	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529924--529956	15	2.2	15	94	0	57	24	15	45	15	1.84
531398--531431	9	3.8	9	84	0	50	70	2	14	11	1.27
536595--536669	33	2.3	34	90	4	127	48	16	6	29	1.71
537245--537292	18	2.7	18	87	3	71	35	8	27	29	1.86
537873--537979	28	3.4	33	83	11	118	40	33	10	15	1.82
542124--542170	21	2.3	21	88	3	69	46	14	0	38	1.45
542793--542866	33	2.2	33	87	0	103	25	16	41	16	1.88
548909--548950	21	2.0	21	95	0	75	30	14	7	47	1.71
548939--549015	33	2.4	32	84	4	109	33	9	12	44	1.75
549057--549089	15	2.2	15	100	0	66	27	6	6	60	1.44
553243--553321	33	2.4	34	83	8	101	60	1	0	37	1.05
558154--558178	5	5.0	5	100	0	50	0	80	0	20	0.72
563344--563392	3	15.7	3	87	8	71	34	2	0	63	1.06
563344--563392	16	3.1	15	83	11	71	34	2	0	63	1.06
576394--576427	17	1.9	18	88	5	52	76	0	14	8	1.01
577353--577801	141	3.3	134	77	7	437	27	28	16	27	1.97
577994--578058	3	20.7	3	87	9	94	35	1	0	63	1.04
577994--578058	10	6.9	9	92	3	94	35	1	0	63	1.04
585969--586424	182	2.5	182	93	0	752	26	15	14	43	1.85
595933--595992	21	2.9	21	97	0	111	28	20	23	28	1.99
596028--596182	64	2.4	64	76	10	156	35	19	18	26	1.95
596701--596734	15	2.3	15	94	0	59	14	20	32	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603471--603550	29	2.8	29	92	1	135	45	16	21	17	1.86
605835--605914	32	2.7	30	80	19	89	53	2	0	43	1.14
605835--605914	28	2.7	28	81	16	90	53	2	0	43	1.14
606103--606155	14	3.8	14	92	0	88	37	11	20	30	1.88
606787--606840	22	2.5	21	81	6	56	70	3	0	25	1.04
607005--607043	18	2.2	18	86	9	53	71	5	10	12	1.28
609338--609425	23	3.8	23	89	0	131	27	22	26	23	2.00
615579--615737	46	3.4	46	89	1	237	39	5	20	33	1.76
620296--620351	23	2.4	23	93	0	94	32	25	25	17	1.97
645733--645804	20	3.5	20	79	3	90	38	18	22	20	1.93
645998--646063	22	3.0	22	82	8	89	24	37	16	21	1.93
646353--646436	20	4.6	19	77	15	79	10	16	23	48	1.77
648315--648471	20	8.5	20	77	18	144	41	22	19	17	1.90
648338--648490	34	4.4	34	75	11	146	41	21	20	15	1.89
648521--648581	20	3.0	20	92	0	95	24	21	18	36	1.95
648497--648655	34	4.5	34	73	10	133	18	19	18	44	1.88
648486--648654	53	3.2	53	70	12	139	17	19	18	44	1.87
649150--649230	42	1.9	42	82	5	101	23	38	17	20	1.93
650589--650624	14	2.6	14	90	0	54	30	0	22	47	1.52
650718--650796	33	2.4	33	89	2	113	39	21	25	13	1.90
650822--650955	20	6.7	20	91	1	182	19	20	23	35	1.95
650822--650955	60	2.2	60	87	10	202	19	20	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654249--654315	20	3.3	20	89	4	82	20	19	26	32	1.97
654282--654455	20	8.6	20	89	2	251	20	21	21	37	1.95
656436--656487	26	2.0	26	100	0	104	34	15	19	30	1.93
658014--658114	33	3.1	33	88	0	157	25	18	28	26	1.98
673801--673839	19	2.1	19	95	0	69	46	5	12	35	1.65
675346--675425	21	3.7	22	82	8	85	22	35	26	16	1.95
675344--675405	23	2.9	21	85	7	81	20	35	25	17	1.95
677639--677666	13	2.2	13	100	0	56	21	0	28	50	1.49
680037--680090	16	3.2	17	78	7	56	51	1	5	40	1.36
683461--683512	18	2.8	19	74	8	54	67	1	5	25	1.23

Tables:   1   2   3   4   5   6