genome.fa.s9124.2.7.7.80.10.50.1000.2.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: VEPZ01009124.1 Hibiscus syriacus cultivar Beakdansim tig00112614_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  858217

Tables:   1   2   3   4   

This is table  2  of  4  ( 385 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)
253068--253111	22	2.0	23	86	4	63	54	0	0	45	0.99
253025--253128	52	2.0	50	81	9	120	50	0	0	47	1.14
253297--253412	42	2.8	42	88	5	171	48	16	17	18	1.82
253725--253759	13	2.7	13	100	0	70	25	57	17	0	1.40
254163--254335	86	2.0	86	97	1	328	39	8	12	39	1.72
257694--257767	31	2.4	31	86	4	96	50	13	6	29	1.67
268152--268195	17	2.4	19	85	7	56	36	4	4	54	1.41
269459--269489	14	2.3	14	94	5	55	35	25	3	35	1.72
270004--270166	64	2.5	64	83	5	204	24	23	19	33	1.97
273013--273076	27	2.4	27	100	0	128	32	28	17	21	1.96
286302--286341	19	2.1	19	100	0	80	55	10	15	20	1.68
290215--290245	10	3.1	10	100	0	62	0	61	0	38	0.96
292142--292185	20	2.2	20	100	0	88	18	20	38	22	1.93
292495--292563	3	23.0	3	80	11	79	60	1	0	37	1.06
292484--292563	24	3.1	25	92	7	126	58	1	0	40	1.06
292728--292844	56	2.1	57	96	1	218	36	20	19	23	1.95
292784--293623	307	2.7	307	97	0	1578	34	21	21	22	1.97
292789--293623	231	3.6	228	95	2	1512	34	21	20	23	1.97
292789--293623	76	10.9	76	95	3	1496	34	21	20	23	1.97
294660--294771	54	2.1	54	89	0	170	22	23	16	38	1.93
295638--295807	74	2.3	76	84	3	220	30	20	15	34	1.93
296909--297225	114	2.8	114	94	0	528	33	21	14	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
297128--297405	93	3.0	93	91	3	431	37	19	13	29	1.90
299480--299529	6	8.5	6	78	12	50	4	12	2	82	0.90
299823--299850	2	14.0	2	100	0	56	50	0	0	50	1.00
302093--302131	14	2.8	14	85	11	53	58	7	17	15	1.59
306454--306519	3	22.0	3	79	11	73	60	1	0	37	1.06
306443--306519	24	3.0	25	92	7	120	58	1	0	40	1.06
306838--306914	11	6.8	11	73	15	59	61	0	0	38	0.96
306849--306914	3	22.0	3	79	11	73	63	0	0	36	0.95
306838--306910	25	2.9	26	84	13	107	60	0	0	39	0.97
306154--306940	395	2.0	395	98	0	1529	29	15	25	30	1.96
309377--309481	39	2.7	39	76	14	108	37	19	0	42	1.57
309531--309575	19	2.3	20	82	14	58	26	2	2	68	1.12
310066--310117	21	2.6	21	72	6	54	48	3	3	44	1.39
310078--310130	21	2.5	22	79	11	58	45	1	5	47	1.37
312470--312559	42	2.1	43	85	2	128	44	27	13	14	1.82
313018--313200	60	3.1	59	84	3	231	41	4	19	34	1.71
313262--313300	12	3.3	11	86	13	51	46	2	0	51	1.14
313703--313807	32	3.4	30	72	13	97	36	22	12	28	1.91
313719--313815	29	3.2	29	74	16	90	37	21	12	28	1.90
313717--313833	61	1.9	61	91	0	189	37	23	11	27	1.90
313742--313837	30	3.2	30	73	14	97	36	28	12	22	1.91
320619--320644	13	2.0	13	100	0	52	84	7	7	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324455--324567	42	2.7	43	80	4	131	30	9	17	41	1.82
324534--324688	80	1.9	81	90	1	249	27	19	9	44	1.80
326812--327199	41	9.5	41	74	10	267	29	19	19	31	1.97
331878--332158	85	3.3	86	82	6	249	26	23	20	29	1.98
331887--332201	42	7.5	41	78	9	278	26	23	20	29	1.99
331875--332217	168	2.0	170	81	5	401	25	23	21	28	1.99
332863--332894	16	1.9	17	93	6	57	59	25	3	12	1.48
337631--337714	35	2.6	31	71	23	73	48	1	4	45	1.31
344730--344770	16	2.6	16	88	3	57	29	17	12	41	1.85
345290--345387	45	2.1	47	83	5	128	35	1	5	58	1.27
350096--350130	2	17.5	2	87	0	52	48	2	0	48	1.16
349854--350106	129	2.0	127	82	9	309	45	7	8	38	1.62
350135--350219	22	3.9	22	78	21	81	64	1	3	30	1.17
350135--350220	23	3.9	22	77	22	67	65	1	3	30	1.17
350417--350462	15	2.9	15	80	6	56	65	6	15	13	1.46
351628--351704	39	2.0	39	92	0	127	16	18	42	22	1.89
351945--352166	113	2.0	113	92	0	372	27	18	16	37	1.92
352166--352359	37	5.3	36	70	5	165	34	11	20	33	1.88
352198--352406	36	5.7	37	71	7	176	38	10	20	31	1.85
352173--352405	73	3.2	73	93	0	394	36	11	21	31	1.88
352404--352725	166	1.9	165	90	4	506	38	12	13	35	1.83
353228--353305	22	3.7	20	71	11	66	38	14	11	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360493--360543	15	3.6	14	86	5	59	52	9	13	23	1.70
362129--362175	8	6.4	8	76	18	57	74	0	0	25	0.82
362126--362174	15	3.4	15	86	8	75	73	0	0	26	0.83
362160--362201	22	1.9	22	90	0	66	69	0	4	26	1.08
362923--362957	2	17.5	2	87	0	52	48	2	0	48	1.16
362691--362933	128	1.9	126	81	8	296	44	7	8	39	1.64
362965--363054	12	7.4	12	75	19	71	66	1	3	28	1.14
362962--363026	23	3.0	23	82	10	84	64	0	3	32	1.09
363241--363286	15	2.9	15	80	6	56	65	6	15	13	1.46
364452--364528	39	2.0	39	92	0	127	16	18	42	22	1.89
365044--365123	41	2.0	41	94	0	142	36	16	20	27	1.93
369075--369124	16	3.4	16	70	30	56	56	16	2	26	1.51
369074--369146	28	2.6	28	100	0	146	54	13	4	27	1.57
377896--377957	2	31.0	2	100	0	124	50	0	0	50	1.00
379847--379911	34	1.9	34	93	0	112	35	4	21	38	1.74
390927--390959	2	16.5	2	93	0	57	51	0	0	48	1.00
391812--391859	24	2.0	24	83	0	60	16	52	22	8	1.71
402720--402788	33	2.1	33	94	0	120	37	17	26	18	1.93
421294--421434	36	3.9	36	86	1	185	31	26	8	32	1.87
422290--422347	28	2.0	30	86	6	84	41	1	0	56	1.09
422273--422343	11	7.1	11	70	25	50	43	1	0	54	1.08
422779--422860	28	2.9	29	81	3	103	35	12	12	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422777--422882	30	3.6	30	82	6	119	35	13	12	38	1.82
422964--423023	12	4.9	13	81	6	65	36	18	3	41	1.67
422965--423023	24	2.5	24	88	0	82	37	16	3	42	1.66
424365--424529	64	2.6	64	84	1	206	31	19	19	29	1.96
424929--424958	15	1.9	16	93	6	53	40	6	16	36	1.75
426080--426266	101	1.8	102	85	5	263	28	27	20	22	1.99
428516--428566	26	2.0	26	96	0	93	60	9	1	27	1.39
435198--435235	14	2.7	14	91	0	58	47	26	13	13	1.79
442452--442485	16	2.2	15	89	5	50	55	8	2	32	1.45
445576--445641	33	2.0	33	90	0	105	34	18	19	27	1.95
450745--450784	21	1.9	21	89	0	62	10	25	40	25	1.86
450767--450827	20	2.9	21	87	7	79	18	26	34	21	1.96
455997--456028	17	1.9	17	93	6	57	12	12	12	62	1.55
456753--456800	3	16.0	3	100	0	96	66	0	0	33	0.92
457169--457292	42	3.0	42	98	1	241	53	2	1	42	1.23
465713--465758	21	2.2	21	88	7	67	26	15	21	36	1.93
465817--466168	186	1.9	189	94	2	631	46	9	3	40	1.54
475332--475410	30	2.6	30	86	7	108	20	24	36	18	1.95
475977--476093	50	2.4	50	92	1	182	58	13	2	25	1.49
475992--476093	50	2.0	50	98	0	195	57	14	1	25	1.48
476267--476338	30	2.4	30	97	0	135	18	41	20	19	1.90
477792--477830	3	13.0	3	100	0	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482856--483021	87	1.9	87	89	0	260	36	13	13	35	1.85
488093--488130	18	2.1	18	100	0	76	60	10	18	10	1.57
489458--489490	17	1.9	17	88	11	50	33	0	0	66	0.92
491031--491098	34	2.0	34	100	0	136	26	35	17	20	1.95
495647--495733	32	2.7	32	89	1	120	16	9	40	34	1.80
499627--499653	2	13.5	2	100	0	54	48	0	0	51	1.00
513572--513632	31	1.9	32	86	3	88	54	11	3	31	1.52
518365--518419	21	2.4	21	82	11	65	52	0	5	41	1.24
519662--519706	21	2.2	20	84	4	54	31	11	4	53	1.56
520374--520398	2	12.5	2	100	0	50	48	0	0	52	1.00

Tables:   1   2   3   4