genome.fa.s2755.2.7.7.80.10.50.1000.3.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: VEPZ01002755.1 Hibiscus syriacus cultivar Beakdansim tig00005678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  722678

Tables:   1   2   3   4   

This is table  3  of  4  ( 450 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)
441848--441902	28	2.0	28	86	13	80	61	0	3	34	1.13
443803--443837	18	1.9	18	94	0	61	0	14	20	65	1.26
444298--444397	3	33.3	3	76	4	67	59	1	0	40	1.04
444330--444390	9	6.8	9	90	0	95	55	1	0	42	1.09
447711--447744	17	2.0	17	94	0	59	44	0	2	52	1.16
447727--447848	22	5.5	22	70	18	99	40	2	3	54	1.30
447728--447849	44	2.7	44	93	2	199	40	2	3	54	1.30
456308--456452	16	9.1	16	92	0	245	57	22	11	8	1.62
456656--456721	24	2.8	24	86	2	80	27	24	24	24	2.00
457571--457632	24	2.6	25	87	5	76	53	19	12	14	1.73
457584--457631	10	4.4	10	78	19	51	54	22	12	10	1.68
457591--457621	14	2.2	14	94	0	53	54	25	12	6	1.62
458332--458565	112	2.1	112	98	0	450	33	17	17	30	1.94
459280--459310	6	5.3	6	92	7	55	83	0	16	0	0.64
460522--460586	33	1.9	34	82	14	82	70	3	3	23	1.15
460577--460795	35	6.1	34	81	10	91	51	6	0	41	1.34
460616--461005	35	10.5	37	80	13	274	46	7	2	43	1.44
460618--460967	38	9.4	38	78	16	265	47	6	2	43	1.43
460777--460846	31	2.3	31	90	9	108	48	7	4	40	1.50
460618--460923	107	2.8	105	83	10	311	47	6	2	42	1.44
460822--460934	39	2.9	38	92	2	190	48	5	4	41	1.46
460618--460883	69	3.7	68	78	15	202	47	6	2	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460889--460913	11	2.3	11	100	0	50	44	8	8	40	1.63
461000--461036	19	1.9	19	94	0	65	56	2	0	40	1.13
462264--462322	2	30.0	2	80	16	70	50	1	1	45	1.21
466596--466682	20	4.6	19	79	16	94	40	1	1	57	1.14
466597--466682	3	29.7	3	77	11	81	39	1	1	58	1.13
475055--475171	7	16.4	7	79	19	111	83	0	15	0	0.69
475055--475171	24	4.7	24	82	15	141	83	0	15	0	0.69
475056--475169	36	3.2	36	78	14	121	84	0	14	0	0.68
475065--475169	41	2.7	38	84	10	131	85	0	14	0	0.59
475065--475169	1	105.0	1	73	0	75	85	0	14	0	0.59
476440--477365	54	17.1	54	85	1	1154	34	20	23	21	1.97
477527--477589	14	5.0	13	75	25	64	44	1	0	53	1.10
477535--477598	23	2.9	23	84	11	73	42	1	0	56	1.09
477527--477603	35	2.3	32	86	6	100	44	2	0	53	1.14
480154--480206	21	2.5	21	84	0	70	20	26	18	33	1.96
480196--480348	20	7.7	20	93	4	222	36	20	20	22	1.95
481202--481255	24	2.2	24	93	0	90	20	18	20	40	1.91
483688--483756	20	3.4	21	90	7	108	34	26	21	17	1.95
483669--483825	34	4.5	34	79	12	122	40	22	21	15	1.90
483739--483823	33	2.5	33	90	1	125	44	18	22	14	1.85
483844--483921	33	2.4	33	84	0	102	16	20	16	46	1.85
484034--484070	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485419--485530	42	2.7	42	79	5	111	23	17	37	21	1.94
486000--486066	20	3.3	20	89	0	98	46	20	16	16	1.84
485999--486189	40	5.3	36	75	16	146	43	20	18	16	1.87
486107--486175	20	3.5	20	91	0	102	36	23	20	20	1.95
485997--486189	107	1.8	107	91	0	323	44	20	18	16	1.87
486223--486376	20	8.4	20	71	18	102	19	18	19	42	1.89
486168--486376	107	2.0	107	78	3	224	21	18	19	40	1.91
488232--488269	20	1.9	20	100	0	76	57	21	10	10	1.61
488253--488326	33	2.2	34	88	7	107	45	25	17	10	1.81
488651--488715	22	3.0	22	86	0	94	20	15	40	24	1.91
488913--489006	20	4.7	20	77	2	107	22	19	20	38	1.94
489003--489048	21	2.2	21	88	0	65	36	17	28	17	1.92
491982--492043	23	2.6	24	78	12	65	58	0	1	40	1.08
492021--492086	20	3.2	20	76	2	69	53	1	1	43	1.19
494034--494088	15	3.5	16	70	12	51	54	1	3	40	1.28
500738--500772	3	11.7	3	87	0	52	5	34	25	34	1.80
500728--500772	12	3.8	12	87	0	63	11	33	22	33	1.89
502774--502821	17	2.8	18	84	6	64	64	4	4	27	1.30
502774--502814	18	2.4	17	87	4	55	65	2	4	26	1.25
502953--503100	51	2.9	50	76	8	149	26	24	30	18	1.98
504591--504661	21	3.5	20	69	15	56	28	5	0	66	1.14
504625--504663	14	2.7	14	84	15	53	33	2	0	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504570--504677	19	5.6	19	73	16	80	33	4	0	62	1.16
504779--504830	27	1.9	27	84	7	70	26	3	0	69	1.06
504789--504849	31	1.9	32	86	3	88	22	3	0	73	0.97
504950--504994	18	2.6	17	83	13	56	15	13	0	71	1.15
504948--504994	17	2.7	17	81	12	60	14	12	0	72	1.13
505041--505077	18	2.0	19	89	5	58	21	2	2	72	1.09
508196--508238	14	3.1	14	80	12	61	81	0	16	2	0.79
508197--508248	13	4.0	13	80	14	54	76	1	17	3	1.02
508194--508261	30	2.4	27	78	11	73	75	1	19	4	1.06
508188--508264	9	8.0	10	71	15	56	75	1	19	3	1.03
509902--510075	37	4.9	37	67	14	116	31	18	12	37	1.89
509908--510280	102	3.7	101	87	3	480	30	18	13	37	1.89
510091--510316	36	6.4	36	78	10	234	26	19	13	39	1.89
509908--510278	203	1.8	204	84	2	505	29	18	13	38	1.89
510111--510370	138	1.9	138	89	0	403	26	20	13	40	1.89
510274--510447	65	2.6	65	87	5	242	33	21	8	36	1.84
510274--510446	67	2.6	67	88	3	235	32	21	8	36	1.84
511155--511421	110	2.5	108	85	7	366	33	24	18	23	1.97
512769--512813	16	2.7	17	83	13	58	28	2	0	68	1.01
512741--512822	18	4.3	20	71	21	61	31	1	0	67	0.99
512740--512824	37	2.2	41	81	12	108	31	2	0	65	1.05
512753--512831	25	3.3	24	76	16	67	30	2	0	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512753--512811	21	2.8	21	80	14	77	27	1	0	71	0.96
512741--512831	14	6.3	16	72	19	60	31	2	0	65	1.04
512743--512850	21	4.7	23	71	11	55	34	2	0	62	1.09
512801--512850	25	1.9	25	88	8	73	40	4	0	56	1.18
513107--513152	19	2.5	18	83	13	58	17	2	0	80	0.81
513225--513273	19	2.6	19	83	3	55	12	2	8	77	1.07
518220--518313	39	2.4	40	82	7	111	36	15	1	46	1.54
519282--519314	14	2.2	16	89	10	52	39	0	0	60	0.97
519443--519489	19	2.6	18	78	15	60	34	0	4	61	1.15
519448--519487	19	2.0	20	90	4	64	32	0	5	62	1.17
519516--519540	9	2.8	9	100	0	50	52	0	0	48	1.00
520607--520647	18	2.2	19	95	4	75	21	4	12	60	1.50
524433--524806	15	25.6	14	64	21	69	48	4	4	41	1.44
524528--524628	11	9.2	11	70	20	68	41	1	7	48	1.43
524581--524661	9	9.7	9	76	20	61	46	2	4	45	1.37
524590--524692	11	9.5	11	76	15	81	49	4	2	42	1.39
524658--524869	9	22.7	9	64	21	55	51	7	2	38	1.44
524539--524699	20	7.7	20	76	16	148	46	4	4	44	1.43
524708--524820	11	10.7	11	67	16	69	53	7	2	36	1.45
524547--524849	20	14.2	20	70	18	141	50	5	3	40	1.44
524430--524724	2	144.0	2	65	21	98	47	4	5	43	1.44
524717--524806	43	2.1	44	87	2	128	52	6	2	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525624--525700	32	2.4	32	95	0	145	28	33	25	11	1.91
525614--525760	32	4.7	32	81	7	140	27	34	26	12	1.92
539388--539447	22	2.7	23	82	5	70	23	38	30	8	1.84
539395--539421	13	2.1	13	100	0	54	25	37	29	7	1.83
544531--544642	9	11.8	9	76	18	79	24	38	32	5	1.78
544530--544645	22	5.3	22	90	4	164	23	38	31	6	1.79
544534--544645	13	8.8	13	76	13	85	23	40	31	5	1.77
555797--555848	25	2.0	25	81	7	59	38	9	17	34	1.82
555981--556022	22	1.9	22	85	0	57	26	21	23	28	1.99
557916--557993	6	13.0	6	95	0	138	48	16	2	32	1.60

Tables:   1   2   3   4