genome.fa.s8031.2.7.7.80.10.50.1000.3.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: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1788856

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1016 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)
412466--413114	316	2.1	314	88	2	951	30	17	18	33	1.94
412781--413859	233	4.6	233	87	2	1486	32	16	17	33	1.93
414548--414577	3	10.0	3	100	0	60	33	0	0	66	0.92
419278--419336	21	2.9	21	84	2	84	30	22	18	28	1.97
423027--423079	13	4.1	13	76	13	56	81	0	11	7	0.88
423983--424315	132	2.5	132	84	0	416	31	19	19	29	1.97
427790--427840	21	2.5	19	96	0	57	54	7	7	29	1.57
429525--429572	22	2.2	22	100	0	96	47	8	16	27	1.75
429596--429646	21	2.5	20	90	3	75	19	15	19	45	1.86
439180--439251	21	3.4	21	84	5	92	37	19	38	4	1.71
439161--439259	42	2.3	41	76	6	108	43	16	35	5	1.70
439738--440013	43	6.4	42	71	12	139	34	22	17	25	1.95
439822--440010	86	2.2	86	82	3	220	33	24	17	24	1.96
439769--440020	43	5.9	43	75	4	177	34	23	16	25	1.95
445387--445430	2	22.0	2	100	0	88	50	0	0	50	1.00
446033--446124	44	2.1	44	83	4	114	33	19	15	31	1.93
449987--450018	2	16.0	2	100	0	64	50	0	0	50	1.00
451998--452039	7	6.0	7	94	0	75	42	40	0	16	1.48
452674--452716	2	21.5	2	95	0	77	48	0	2	48	1.14
462761--462798	19	2.0	20	89	5	60	36	10	7	44	1.68
464276--464394	30	3.8	30	72	16	107	17	8	17	56	1.65
464372--464452	24	3.3	24	73	15	76	20	12	20	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464388--464529	59	2.4	59	81	0	176	26	11	18	42	1.85
476327--476361	16	2.1	17	94	5	63	42	22	0	34	1.54
477879--477908	16	1.9	16	93	6	53	43	6	3	46	1.46
478661--478705	21	2.0	24	87	12	69	44	0	0	55	0.99
483916--483949	16	2.1	16	88	0	50	52	2	0	44	1.16
487645--487722	26	3.0	26	88	3	86	21	32	14	32	1.93
487707--487775	20	3.5	20	71	15	54	34	26	5	33	1.80
490781--490819	18	2.2	18	90	0	60	15	20	28	35	1.93
494363--494424	18	3.7	17	79	12	67	45	29	0	25	1.54
509212--509318	42	2.6	41	80	2	124	28	21	20	29	1.98
508863--510123	257	5.1	252	83	7	1364	32	15	18	33	1.93
509219--509924	238	3.0	235	85	6	957	31	16	18	33	1.93
510122--510186	26	2.6	24	78	9	76	78	0	9	12	0.96
511782--511818	16	2.2	17	90	4	58	18	0	13	67	1.23
511767--511818	15	3.2	16	86	5	61	17	0	19	63	1.31
515209--515276	29	2.3	29	94	0	118	22	14	29	33	1.94
519056--519120	11	6.1	11	70	22	50	35	26	24	13	1.93
519058--519211	42	4.0	42	73	22	183	33	24	29	12	1.92
519080--519222	70	2.0	70	98	0	277	34	20	32	11	1.89
519221--519320	29	3.4	29	93	2	157	17	30	30	23	1.96
519375--519427	27	2.0	27	100	0	106	30	22	20	26	1.98
519538--519583	23	2.0	23	100	0	92	47	4	39	8	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519538--519598	23	2.6	23	86	5	59	50	6	36	6	1.54
519588--519640	21	2.5	21	96	0	97	62	0	35	1	1.06
519586--519617	17	1.9	16	93	6	55	62	0	37	0	0.95
519747--519786	21	2.0	21	90	5	64	25	0	25	50	1.50
519771--519859	41	2.2	41	78	8	92	42	1	10	46	1.45
519840--519931	46	2.0	48	87	8	136	41	0	11	46	1.41
519972--520048	34	2.3	33	81	14	88	40	0	12	46	1.42
520261--520319	26	2.3	24	78	16	64	40	3	8	47	1.51
521051--521204	50	3.3	46	88	8	167	49	8	1	40	1.41
521083--521204	50	2.5	50	97	1	228	50	9	1	38	1.44
521208--521256	21	2.3	21	85	3	71	53	16	0	30	1.43
521177--521257	25	3.1	25	82	8	74	54	13	0	32	1.40
521710--521789	25	3.4	25	64	29	66	21	36	22	20	1.95
521713--521801	45	2.0	45	97	0	169	22	35	21	20	1.96
521888--521951	28	2.2	29	88	2	94	15	28	35	20	1.93
524084--524212	59	2.2	60	80	1	143	34	11	14	38	1.83
535801--535854	29	1.9	29	88	7	85	64	14	3	16	1.42
539811--539851	2	20.0	2	95	5	73	48	2	0	48	1.14
542972--543053	41	2.0	41	92	0	137	59	10	20	8	1.57
543570--543603	15	2.3	15	89	0	50	2	14	2	79	0.97
544564--544598	15	2.3	15	90	0	52	54	8	17	20	1.68
547500--547529	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548466--548736	33	8.3	33	71	11	153	29	14	26	29	1.95
548464--548722	66	4.0	64	75	12	213	29	15	27	27	1.96
548470--548722	130	1.9	131	81	7	300	30	15	27	27	1.96
554141--554212	3	24.7	3	78	10	78	62	1	2	33	1.18
554140--554213	29	2.6	29	85	4	98	60	2	4	32	1.29
554488--554938	137	3.3	136	78	6	432	27	14	28	29	1.95
554952--555021	21	3.7	20	69	23	60	44	14	20	21	1.86
554937--555098	36	4.6	36	89	1	229	43	11	20	23	1.85
567302--567385	35	2.4	36	80	4	91	30	2	35	30	1.71
567726--567776	19	2.6	20	87	3	68	45	5	15	33	1.71
593051--593105	12	4.7	12	80	8	53	60	1	0	38	1.08
593337--593578	89	2.7	89	87	6	357	32	21	19	26	1.97
593587--593851	43	6.3	42	82	7	272	32	30	11	26	1.91
593581--593831	124	2.0	127	85	4	348	32	30	11	25	1.91
593903--594348	79	5.7	80	89	4	669	42	10	15	31	1.81
593903--594348	40	11.4	40	87	4	660	42	10	15	31	1.81
594104--594172	23	3.3	22	65	23	58	42	13	14	30	1.84
593903--594346	116	3.8	116	87	5	639	43	10	15	31	1.81
594377--594553	74	2.4	74	82	8	191	40	12	15	32	1.84
595767--595941	88	2.0	85	89	7	264	25	19	18	36	1.94
601918--601968	19	2.7	20	81	6	52	43	5	1	49	1.38
603627--603666	20	2.0	20	90	0	62	7	12	42	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603919--603983	3	22.7	3	80	14	75	61	0	0	38	0.96
608682--609133	42	10.6	42	76	5	347	34	18	22	24	1.96
608682--609133	85	5.3	85	79	4	437	34	18	22	24	1.96
609231--609266	19	1.9	19	88	5	56	58	13	0	27	1.36
612814--613126	83	3.8	82	83	2	367	34	17	21	27	1.95
612799--613116	124	2.6	124	85	2	415	32	17	22	27	1.96
612799--613140	41	8.3	41	83	2	373	31	16	22	28	1.96
613380--613436	21	2.7	21	88	2	87	31	17	17	33	1.93
617307--617374	30	2.4	28	88	11	111	42	23	0	33	1.54
619518--619576	20	3.0	20	79	0	73	23	13	8	54	1.66
620922--620954	2	16.5	2	100	0	66	48	0	0	51	1.00
628128--628178	8	6.4	8	97	0	93	49	9	0	41	1.36
630740--630768	14	2.0	15	93	6	51	44	0	13	41	1.44
635164--635232	31	2.3	31	92	2	113	31	4	2	60	1.31
635160--635220	31	2.0	31	100	0	122	27	3	3	65	1.24
635899--635937	17	2.4	17	87	12	55	46	0	0	53	1.00
639090--639142	21	2.6	21	90	3	90	67	3	3	24	1.23
639187--639235	10	4.9	10	80	7	55	65	2	4	28	1.22
640557--640601	18	2.4	19	81	3	56	42	8	4	44	1.56
640577--640672	22	4.4	21	77	10	86	46	1	1	51	1.14
640591--640686	20	4.5	20	76	13	77	52	1	0	46	1.07
640618--640673	2	29.0	2	85	7	71	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)
641653--641839	64	2.9	64	81	4	164	31	22	16	29	1.96
641681--641840	64	2.5	64	86	2	205	30	23	16	29	1.96
641681--641860	64	2.8	63	81	9	202	30	23	17	28	1.97
647551--647631	24	3.5	25	69	19	77	24	27	22	25	2.00
649156--649199	21	2.1	21	82	0	52	9	43	15	31	1.79
649879--649909	15	2.1	15	100	0	62	38	0	12	48	1.42
650254--650413	64	2.5	64	87	2	214	30	23	16	29	1.97
650254--650433	64	2.8	63	81	9	211	29	23	17	29	1.97
654262--654307	14	3.3	14	84	0	56	50	10	8	30	1.68
654668--654721	21	2.5	20	77	16	56	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9