genome.fa.s9259.2.7.7.80.10.50.1000.3.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: VEPZ01009259.1 Hibiscus syriacus cultivar Beakdansim tig00112910_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1149570

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 662 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)
383795--383857	16	4.0	15	76	12	56	77	6	15	0	0.96
385242--386288	106	9.9	106	92	0	1655	33	25	18	22	1.96
387024--387127	37	2.8	37	86	0	136	41	13	13	31	1.83
387572--387602	2	15.5	2	93	0	53	45	0	3	51	1.17
387902--387951	14	3.5	14	83	8	57	36	0	0	64	0.94
387912--387963	22	2.3	22	83	12	61	32	1	0	65	1.04
387902--387951	12	3.8	13	84	7	57	36	0	0	64	0.94
389168--389297	45	2.9	45	92	0	206	33	10	20	36	1.86
389375--389448	23	3.2	23	88	0	103	18	27	21	32	1.97
400095--400160	30	2.2	30	86	8	89	24	34	13	27	1.93
404077--404157	41	2.0	41	92	2	137	30	9	22	37	1.87
405168--405235	20	3.4	20	89	4	93	45	13	17	23	1.84
405300--405796	197	2.5	197	79	10	557	42	12	15	28	1.85
406184--406257	3	24.7	3	89	10	116	64	0	1	33	1.02
406552--406742	83	2.3	83	83	0	247	23	20	32	23	1.98
406759--406975	67	3.3	65	80	7	215	42	12	16	28	1.84
406800--406975	67	2.7	65	81	6	219	43	13	15	27	1.85
406800--407001	67	3.0	63	77	12	192	41	13	15	29	1.85
406956--407014	30	2.0	30	93	0	100	37	11	13	37	1.82
407010--407090	36	2.2	36	86	0	108	38	9	19	32	1.85
407135--407213	37	2.2	36	81	6	88	34	18	18	27	1.95
408331--408393	15	4.2	15	74	20	60	1	12	9	76	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410222--410284	30	2.1	31	96	3	119	58	9	17	14	1.61
411520--411566	3	16.3	3	82	8	62	65	2	2	29	1.15
411518--411566	17	2.9	17	84	0	71	67	2	2	28	1.13
411524--411561	20	1.9	20	94	0	67	65	2	2	28	1.19
412848--412872	13	1.9	13	100	0	50	32	0	40	28	1.57
412897--412976	39	2.1	39	92	0	133	20	15	23	41	1.89
415511--415550	18	2.2	18	100	0	80	37	0	20	42	1.52
415517--415557	18	2.3	18	91	0	64	36	0	21	41	1.54
417128--417166	17	2.4	17	95	4	71	43	0	5	51	1.24
418909--419387	200	2.4	199	84	3	602	40	13	12	33	1.83
419684--419722	21	1.9	19	90	10	60	46	10	12	30	1.75
418909--419911	525	1.9	527	81	3	1216	38	13	13	34	1.84
419392--420010	198	3.1	199	82	4	748	37	12	14	35	1.84
419887--420233	130	2.7	129	80	3	315	41	12	13	33	1.81
422248--422294	19	2.5	19	76	13	53	36	2	0	61	1.08
422304--422350	2	24.0	2	78	4	51	46	4	0	48	1.21
422439--422466	3	9.3	3	100	0	56	32	0	0	67	0.91
423040--423094	16	3.4	16	87	0	83	38	23	21	16	1.93
425767--425817	17	3.2	16	76	13	52	15	0	5	78	0.93
426022--426060	20	2.0	20	89	0	60	53	17	10	17	1.71
426084--426149	20	3.3	20	86	0	96	15	16	18	50	1.79
426117--426160	20	2.2	20	83	0	52	13	15	20	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427803--427852	21	2.4	21	89	0	73	22	14	32	32	1.93
428092--428132	12	3.5	11	86	3	55	26	0	4	68	1.10
428277--428372	21	4.6	21	84	2	131	20	37	17	23	1.94
428277--428372	42	2.3	41	92	1	156	20	37	17	23	1.94
429309--429350	19	2.2	19	100	0	84	9	19	28	42	1.82
429784--429818	16	2.2	16	89	0	52	20	0	14	65	1.26
429909--429973	20	3.2	20	82	4	69	13	18	20	47	1.82
432513--432566	24	2.2	24	93	0	90	40	16	18	24	1.90
433481--433589	20	5.6	19	72	16	80	37	11	21	30	1.88
433502--433608	40	2.7	40	83	2	126	35	11	22	30	1.89
433581--433627	20	2.3	20	85	7	60	34	12	29	23	1.92
433634--433673	20	2.0	20	85	0	53	32	10	27	30	1.89
433661--433707	19	2.4	20	82	7	60	19	12	34	34	1.89
438371--438406	13	2.8	13	86	0	54	22	50	16	11	1.77
438352--438421	18	4.2	18	73	17	51	21	42	18	17	1.89
438351--438430	31	2.6	31	83	0	97	20	41	18	20	1.91
439627--439663	13	2.8	13	87	0	56	24	48	16	10	1.77
442157--442220	24	2.7	24	95	0	110	23	21	23	31	1.99
444543--444606	29	2.2	29	94	0	110	34	3	9	53	1.49
444554--444603	15	3.4	15	68	15	50	38	4	6	52	1.45
448348--448475	62	2.1	62	100	0	256	28	10	13	46	1.77
456136--456191	9	6.0	9	77	8	58	12	25	30	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456205--456242	17	2.2	17	95	0	67	21	44	23	10	1.83
470751--470784	2	17.0	2	100	0	68	50	0	0	50	1.00
472353--472378	13	2.0	13	100	0	52	38	7	0	53	1.30
472360--472397	20	1.9	20	88	0	58	44	2	0	52	1.14
472670--472707	2	19.0	2	100	0	76	50	0	0	50	1.00
473754--473781	4	7.0	4	100	0	56	75	0	0	25	0.81
476873--476916	2	22.0	2	100	0	88	50	0	0	50	1.00
477575--477651	31	2.5	31	82	14	88	48	6	5	40	1.51
478354--478401	2	24.0	2	100	0	96	50	0	0	50	1.00
478844--479059	41	5.3	39	78	7	155	29	17	15	37	1.91
478912--479060	41	3.7	41	85	0	183	28	18	16	36	1.92
482111--482139	13	2.2	13	100	0	58	6	62	31	0	1.22
482943--483739	229	3.5	228	96	1	1472	35	21	21	21	1.96
482943--483739	153	5.2	152	96	1	1472	35	21	21	21	1.96
482943--483739	76	10.5	76	96	1	1472	35	21	21	21	1.96
484414--484468	22	2.5	22	90	0	92	38	14	12	34	1.84
484832--484987	54	2.9	54	89	0	240	23	23	15	37	1.93
487179--487443	83	3.2	83	91	1	433	35	19	14	30	1.91
489685--489717	18	1.9	17	88	11	50	0	18	3	78	0.87
494295--494337	9	4.9	9	81	13	54	67	0	2	30	1.03
494300--494347	18	2.6	18	73	3	51	68	0	2	29	1.01
494332--494373	17	2.5	17	85	11	59	73	0	4	21	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495854--495882	13	2.2	13	100	0	58	6	62	31	0	1.22
496631--496700	3	23.0	3	84	8	88	61	0	1	37	1.05
496640--496706	34	2.0	34	88	5	100	59	0	1	38	1.06
498412--498602	85	2.2	84	84	5	233	25	25	17	30	1.97
498400--498622	43	5.2	43	75	6	193	23	25	19	31	1.98
505160--505232	29	2.5	31	85	10	102	64	2	0	32	1.08
505199--505232	17	1.9	18	88	5	52	64	5	0	29	1.17
505975--506013	19	2.0	20	85	5	53	2	10	15	71	1.23
509839--509893	17	3.2	17	86	0	74	38	10	10	40	1.76
509839--509904	34	1.9	34	81	6	80	39	12	10	37	1.77
511549--511589	22	1.9	22	90	5	66	14	7	19	58	1.59
513963--514032	34	2.1	34	84	10	90	40	11	8	40	1.72
513963--514032	17	4.1	17	83	7	81	40	11	8	40	1.72
518252--518304	7	7.7	7	78	21	51	75	0	15	9	1.04
518252--518311	18	3.4	18	93	2	95	75	0	15	10	1.05
518267--518310	11	3.7	12	82	17	56	79	0	15	4	0.89
518267--518310	6	7.3	6	80	19	56	79	0	15	4	0.89
518777--518819	21	2.0	23	81	9	54	25	27	6	39	1.81
520886--521141	119	2.2	119	81	5	295	37	14	20	27	1.92
529023--529147	44	2.8	44	74	2	117	32	16	19	31	1.94
531112--531154	18	2.3	18	84	4	50	23	4	4	67	1.28
532675--532757	33	2.6	32	86	7	123	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541742--541818	19	4.1	19	83	3	84	27	31	14	27	1.95
541755--541826	19	3.8	19	81	3	83	25	33	15	26	1.95
541826--541870	16	2.8	16	89	0	63	22	17	22	37	1.94
546153--546215	19	3.3	18	86	8	90	28	36	14	20	1.92
546216--546260	16	2.8	16	93	0	81	26	20	20	33	1.97
555855--555901	22	2.1	22	92	0	76	19	36	21	23	1.95
558012--558055	23	1.9	23	95	0	79	27	6	4	61	1.41
558014--558066	23	2.3	23	86	0	70	32	5	3	58	1.39
558254--558354	10	10.4	10	68	9	66	37	0	2	59	1.13
558524--558586	18	3.6	18	70	10	58	53	0	1	44	1.10

Tables:   1   2   3   4   5   6