genome.fa.s1470.2.7.7.80.10.50.1000.3.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: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1178067

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 779 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)
405603--405696	33	2.8	32	87	3	116	12	17	22	47	1.81
405638--405696	19	3.4	19	71	22	65	15	18	18	47	1.83
405803--405839	14	2.6	14	91	0	65	45	21	0	32	1.52
407202--407298	42	2.3	42	79	12	108	23	19	34	22	1.97
409277--409368	20	4.9	20	70	22	74	46	17	23	11	1.81
409320--409375	14	3.6	14	74	21	58	42	23	25	8	1.82
409299--409392	33	2.8	33	93	1	152	43	20	23	12	1.86
409393--409500	20	5.5	19	85	3	72	11	16	21	50	1.75
409410--409500	20	4.6	20	86	4	121	12	16	20	50	1.77
410062--410233	20	8.5	20	75	13	156	19	18	25	37	1.93
410063--410233	40	4.2	41	90	1	256	19	18	24	38	1.93
410324--410377	20	2.7	19	75	8	63	16	18	31	33	1.93
418607--418665	24	2.3	26	91	8	95	54	3	0	42	1.17
421289--421323	18	1.9	18	94	0	61	25	11	42	20	1.85
422234--422270	15	2.5	15	95	0	65	8	70	16	5	1.30
432368--432405	18	2.2	18	90	4	60	71	0	18	10	1.14
432436--432475	14	2.9	14	81	3	55	75	2	17	5	1.10
432436--432489	14	3.9	15	79	11	53	75	1	16	5	1.07
433812--434250	55	8.0	55	88	4	577	27	15	25	31	1.96
440931--440970	17	2.4	16	84	12	53	57	7	0	35	1.27
441083--441175	37	2.8	32	78	15	114	50	10	3	35	1.53
441094--441174	37	2.2	37	95	0	144	49	9	2	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441474--441532	19	3.2	16	80	20	55	1	30	0	67	1.00
441484--441531	20	2.4	20	92	0	78	0	29	0	70	0.87
447945--448001	22	2.5	22	72	13	53	47	10	3	38	1.55
451263--451308	24	2.0	23	83	12	58	32	17	10	39	1.84
451334--451370	19	1.9	19	88	0	56	24	21	13	40	1.89
453140--453184	18	2.6	17	82	6	54	42	15	8	33	1.78
462319--462382	28	2.4	28	78	5	69	25	9	23	42	1.84
462386--462422	18	2.1	18	89	0	56	21	16	16	45	1.84
462747--462792	19	2.4	19	85	7	58	45	0	2	52	1.13
462753--462814	30	2.2	27	83	13	72	46	0	3	50	1.17
462748--462810	27	2.4	25	77	17	65	47	0	3	49	1.17
463077--463176	30	3.4	30	86	2	132	33	11	12	44	1.77
466816--466939	33	3.8	33	82	0	140	15	20	47	16	1.82
467149--467207	30	2.0	30	86	0	82	30	16	37	15	1.90
467107--467245	72	1.9	72	86	2	199	28	13	41	17	1.87
471797--471919	60	2.0	60	82	3	149	38	15	14	31	1.88
472261--472305	23	2.0	23	86	8	65	42	28	6	22	1.79
477073--477124	26	2.0	26	96	0	95	34	21	11	32	1.89
477826--477877	4	13.0	4	95	0	95	1	23	50	25	1.60
478313--478395	8	9.9	8	88	10	121	15	0	33	50	1.45
478311--478398	28	3.3	28	84	12	130	18	0	31	50	1.47
478309--478397	36	2.5	36	90	0	142	17	0	31	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481786--481816	16	1.9	16	93	0	53	38	3	0	58	1.15
484288--484321	3	11.0	3	93	6	59	35	0	0	64	0.94
489177--489301	38	3.3	38	90	0	187	31	19	21	28	1.97
489213--489242	15	2.0	15	93	0	51	23	16	26	33	1.96
489251--489279	15	1.9	15	100	0	58	24	20	20	34	1.97
496530--496629	38	2.6	38	98	0	191	33	8	25	34	1.85
504640--504694	28	2.0	26	86	6	74	52	5	0	41	1.24
505175--505220	20	2.3	20	80	0	56	17	36	34	10	1.85
505994--506050	3	20.0	3	87	10	84	63	1	0	35	1.05
506241--507307	124	8.8	124	92	3	1672	25	19	14	40	1.90
507122--507337	113	1.9	114	87	2	319	28	19	14	37	1.91
507740--507794	22	2.5	22	84	0	65	38	10	12	38	1.79
510097--510326	115	2.0	115	93	4	394	28	21	14	35	1.92
511021--511075	28	2.0	26	86	6	74	52	5	0	41	1.24
512379--512442	3	21.0	3	96	3	119	65	0	0	34	0.93
515592--515630	20	1.9	21	94	5	71	35	17	17	28	1.94
520441--520482	16	2.6	16	85	7	59	50	0	0	50	1.00
522380--522405	3	8.7	3	100	0	52	69	0	0	30	0.89
525934--525978	24	1.9	24	82	13	58	40	17	11	31	1.85
538365--538394	15	2.0	15	93	0	51	26	16	13	43	1.85
538818--538931	60	1.9	60	87	0	165	35	13	15	35	1.87
539736--539776	17	2.4	18	76	23	52	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541544--541591	20	2.3	20	82	3	60	47	0	6	45	1.27
543247--543272	3	8.7	3	100	0	52	65	0	0	34	0.93
551858--551905	24	2.0	23	88	11	71	4	43	0	52	1.20
551863--551913	24	2.1	24	82	13	61	3	47	0	49	1.20
554707--554810	3	34.7	3	86	0	145	63	0	2	33	1.09
555057--556187	114	9.9	114	94	2	1903	28	20	13	37	1.91
555057--556187	343	3.3	342	95	2	1930	28	20	13	37	1.91
555057--556187	457	2.5	455	94	2	1996	28	20	13	37	1.91
556743--557142	52	7.7	52	97	0	728	37	22	15	25	1.93
558287--558364	6	13.0	6	75	22	67	0	19	0	80	0.71
558302--558371	9	7.3	9	75	12	68	0	21	0	78	0.75
558289--558370	20	4.1	19	82	13	94	0	18	0	81	0.69
558288--558366	35	2.3	33	85	12	106	0	17	0	82	0.67
566207--566232	13	2.0	13	100	0	52	23	15	15	46	1.83
566077--566368	149	2.0	149	100	0	584	29	18	15	37	1.91
571290--571396	6	17.8	6	84	0	142	62	0	2	34	1.10
571290--571396	21	5.1	21	93	0	133	62	0	2	34	1.10
571290--571396	9	11.9	9	84	0	142	62	0	2	34	1.10
571291--571389	15	6.8	15	81	13	77	63	0	2	34	1.06
571775--571825	17	3.4	17	70	30	60	50	19	0	29	1.48
571768--571826	28	2.1	28	100	0	118	50	16	0	32	1.46
572033--572090	30	1.9	31	85	3	82	39	6	1	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572260--572292	16	2.0	17	88	5	50	42	6	0	51	1.26
574705--574733	7	4.1	7	100	0	58	68	13	0	17	1.20
576952--577050	39	2.6	38	82	9	137	36	16	0	47	1.47
579267--579361	3	31.7	3	89	0	145	34	3	0	62	1.11
579846--579876	14	2.2	14	94	0	53	67	6	25	0	1.14
579843--579877	12	2.9	12	86	0	52	71	5	22	0	1.07
584395--584420	13	2.0	13	100	0	52	46	15	15	23	1.83
584259--584550	149	2.0	149	100	0	584	37	15	18	29	1.91
592274--592355	5	15.6	5	72	18	60	80	0	17	2	0.82
592269--592338	12	6.2	12	82	15	87	81	0	15	2	0.81
592269--592355	31	2.8	32	87	7	124	80	0	17	2	0.81
592275--592355	20	3.9	20	76	19	85	80	0	17	2	0.82
593465--593825	83	4.4	83	92	3	586	28	13	22	35	1.92
594343--595569	113	10.8	113	90	1	1931	37	13	19	28	1.90
595820--595902	3	27.7	3	87	0	121	34	3	0	61	1.13
596387--596417	14	2.2	14	94	0	53	67	6	25	0	1.14
596384--596418	12	2.9	12	86	0	52	71	5	22	0	1.07
601744--601789	23	2.0	23	100	0	92	30	8	21	39	1.84
603078--603273	83	2.3	82	82	8	225	33	17	21	27	1.96
603078--603270	42	4.6	42	82	7	223	33	17	22	26	1.96
604330--604488	52	3.1	52	94	0	291	33	8	15	42	1.77
607893--607932	21	1.9	21	89	0	62	22	2	25	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608061--608150	44	2.0	44	80	4	101	30	17	22	30	1.97
608130--608287	43	3.7	43	86	0	199	28	21	22	27	1.99
608130--608330	43	4.6	43	82	3	161	26	22	20	29	1.99
608102--608312	86	2.5	86	77	2	201	29	21	19	28	1.98
610172--610208	19	1.9	19	88	0	56	32	27	16	24	1.96
610233--610306	21	3.6	19	75	10	58	31	21	20	27	1.98
610315--610359	20	2.2	20	92	0	72	24	28	20	26	1.99
610522--610594	22	3.3	22	90	0	119	24	43	10	20	1.84
611013--611080	20	3.4	20	83	0	73	17	16	22	44	1.87
611028--611083	20	2.8	20	86	0	76	12	16	19	51	1.75

Tables:   1   2   3   4   5   6   7