genome.fa.s8497.2.7.7.80.10.50.1000.3.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: VEPZ01008497.1 Hibiscus syriacus cultivar Beakdansim tig00111342_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504768

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 719 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)
552957--552982	4	6.5	4	100	0	52	23	0	0	76	0.78
555871--555922	24	2.2	24	89	6	79	26	23	46	3	1.69
555933--556030	29	3.4	29	94	1	171	25	29	33	11	1.91
557305--557608	21	14.4	21	76	13	286	34	25	19	20	1.96
557305--557568	42	6.3	42	92	2	426	35	26	18	19	1.95
557514--557624	42	2.7	44	86	8	144	33	24	21	20	1.97
558333--558370	2	19.0	2	100	0	76	50	0	0	50	1.00
559347--559392	6	7.7	6	90	0	65	34	4	13	47	1.62
561773--561822	23	2.0	26	81	11	61	36	20	32	12	1.89
568647--568703	21	2.7	21	80	0	60	40	10	14	35	1.80
573610--573636	14	1.9	14	100	0	54	59	7	7	25	1.51
575513--576200	242	2.9	241	90	1	1065	34	5	22	37	1.77
576723--576747	6	4.2	6	100	0	50	20	0	32	48	1.50
582806--582900	43	2.2	43	96	0	172	36	36	9	16	1.82
583016--583110	24	4.0	24	91	0	154	40	20	12	27	1.88
585586--585621	13	2.8	13	100	0	72	22	16	47	13	1.82
587711--587848	43	3.2	43	98	0	267	36	36	10	15	1.83
587964--588058	24	4.0	24	91	0	145	40	20	13	26	1.89
587968--588081	48	2.4	48	82	4	133	43	18	12	25	1.85
593347--593440	24	3.9	24	80	0	116	39	18	14	27	1.90
595944--596001	13	4.1	13	72	20	53	18	17	44	18	1.87
595946--595986	18	2.3	18	91	0	64	12	19	48	19	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595940--595999	31	1.9	31	93	0	102	16	18	46	18	1.84
598511--598584	28	2.4	32	76	15	93	35	5	20	39	1.75
598863--598899	3	12.3	3	100	0	74	32	0	0	67	0.91
605067--605100	15	2.2	16	89	5	52	38	47	14	0	1.45
610212--610240	2	14.5	2	100	0	58	51	0	0	48	1.00
611728--611767	3	13.3	3	100	0	80	32	0	0	67	0.91
612756--612801	18	2.6	17	86	3	65	32	6	30	30	1.83
613374--613492	33	3.6	33	80	3	134	43	32	10	13	1.77
623226--623291	29	2.3	29	81	5	71	43	18	21	16	1.87
624982--625029	21	2.3	20	82	10	53	52	4	4	39	1.40
647222--647340	19	6.6	18	69	21	79	34	3	1	60	1.23
647253--647291	14	2.7	14	88	11	53	35	2	5	56	1.35
647222--647356	71	1.9	70	89	7	211	35	2	1	60	1.21
647320--647356	13	2.7	14	84	15	51	37	2	0	59	1.12
649624--649716	28	3.4	28	96	1	170	54	3	32	9	1.49
650401--650459	28	2.1	28	87	6	84	47	1	0	50	1.11
650401--650463	16	3.8	16	76	17	65	47	1	0	50	1.10
650483--650666	31	5.7	31	71	22	123	47	2	5	44	1.40
650441--650661	65	3.4	64	76	15	204	46	2	5	46	1.38
650573--650661	15	5.6	15	71	17	56	47	2	4	46	1.35
650561--650646	16	5.3	16	68	25	56	46	2	5	45	1.40
650677--650731	21	2.6	21	79	0	74	50	3	5	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650784--650835	24	2.2	24	82	6	61	44	5	9	40	1.61
650918--651021	18	6.1	18	67	20	62	41	5	6	46	1.54
650921--651024	51	2.0	51	92	0	172	40	6	6	46	1.57
650965--651057	33	2.8	33	88	3	123	40	8	8	41	1.66
651178--651219	22	1.9	22	85	0	57	42	4	4	47	1.45
651195--651266	27	2.7	27	86	2	101	47	5	6	40	1.54
651179--651253	27	3.2	22	75	17	53	45	5	6	42	1.53
651196--651295	20	4.9	20	72	11	80	47	4	8	41	1.52
651223--651301	40	2.0	40	82	5	97	44	3	8	43	1.53
651290--651324	18	1.9	18	100	0	70	40	8	11	40	1.72
651303--651380	38	2.1	38	95	0	138	43	11	6	38	1.67
651290--651363	18	4.0	18	75	19	62	41	9	8	40	1.67
651321--651380	20	3.1	20	69	26	65	45	11	5	38	1.63
651427--651506	20	3.8	20	80	15	97	53	1	6	38	1.34
651417--651493	23	3.4	23	79	16	106	55	1	6	36	1.34
651462--651530	29	2.4	29	80	11	79	53	0	7	39	1.29
651404--651504	45	2.2	45	94	0	175	52	3	6	36	1.47
651542--651598	22	2.6	22	88	5	71	50	5	0	43	1.24
651549--651598	22	2.2	22	89	7	73	52	4	0	44	1.20
651750--651863	2	55.5	2	71	14	72	45	5	2	46	1.39
651727--651777	20	2.6	20	84	3	68	41	5	9	43	1.62
651750--651863	44	2.7	43	82	6	151	45	5	2	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651887--652726	216	3.9	216	93	1	1388	29	12	8	50	1.69
653921--653979	21	2.9	21	92	2	93	32	30	16	20	1.95
653981--654037	19	2.7	22	78	15	75	31	5	28	35	1.79
653986--654052	19	3.2	19	76	17	62	34	5	28	31	1.81
660720--660771	2	26.5	2	96	3	97	50	0	0	50	1.00
662143--662187	16	2.6	18	75	13	58	37	0	2	60	1.09
662177--662203	2	13.5	2	100	0	54	48	0	0	51	1.00
662586--662682	4	25.0	4	68	14	51	20	8	3	68	1.30
662609--662633	10	2.5	10	100	0	50	12	8	0	80	0.92
663094--663133	2	20.0	2	100	0	80	50	0	0	50	1.00
663344--663401	29	2.0	29	89	0	89	13	36	27	22	1.92
663446--663485	14	2.9	14	92	0	71	22	37	30	10	1.87
663472--663524	10	5.4	10	79	20	67	24	35	30	9	1.87
663472--663524	20	2.7	20	97	2	99	24	35	30	9	1.87
663472--663557	10	8.4	10	70	10	57	25	31	32	10	1.90
663509--663583	33	2.3	33	90	0	114	28	24	36	12	1.91
663684--663769	29	3.0	29	93	3	138	20	30	34	13	1.92
667128--667161	17	1.9	18	88	5	52	64	14	11	8	1.49
674950--675029	3	26.3	3	77	7	81	62	1	1	35	1.11
683746--684662	460	2.0	460	98	0	1753	34	21	14	30	1.93
687295--687346	21	2.5	21	87	3	70	38	17	23	21	1.93
687295--687532	41	5.8	41	69	12	139	35	18	19	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687366--687428	20	3.0	21	79	4	74	22	20	17	39	1.92
687412--687550	20	6.8	20	81	9	115	39	18	19	22	1.92
687418--687532	20	5.6	21	82	7	130	40	17	20	20	1.91
687760--687812	27	1.9	27	84	3	70	39	32	7	20	1.81
688105--688148	19	2.3	19	84	0	52	43	25	18	13	1.86
688148--688213	33	2.0	34	87	3	98	12	25	21	40	1.88
688145--688238	20	5.1	19	71	17	81	12	24	19	43	1.85
689724--689756	16	2.1	16	100	0	66	57	24	12	6	1.57
689827--689887	16	3.8	16	95	0	113	55	22	13	8	1.64
690632--690687	14	4.3	14	80	17	66	53	25	12	8	1.67
690612--690686	24	3.1	24	88	3	98	56	21	10	12	1.66
691127--691310	92	2.0	89	89	7	280	22	11	18	47	1.81
691532--691650	42	2.8	42	76	12	102	23	33	17	25	1.96
693006--693037	14	2.3	14	94	0	55	31	0	25	43	1.55
693196--693346	19	8.7	19	63	21	71	15	22	19	42	1.89
693200--693326	33	3.9	32	86	8	184	14	22	18	43	1.87
693193--693325	66	2.0	66	95	0	239	16	22	18	42	1.89
696663--696736	20	3.7	20	75	10	69	36	22	18	21	1.95
696660--696751	41	2.3	40	84	1	121	40	21	16	21	1.91
696683--696750	20	3.3	20	77	2	73	41	22	16	20	1.90
696948--697025	20	3.9	20	69	12	61	42	20	17	19	1.90
697049--697102	14	3.5	14	77	22	63	11	20	20	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
697031--697101	33	2.2	33	84	0	88	19	19	21	39	1.93
699115--699181	20	3.4	20	83	2	82	34	25	25	14	1.94
699229--699286	14	3.9	14	72	16	53	8	17	24	50	1.74
699212--699302	32	2.8	33	86	3	130	10	16	21	50	1.76
699296--699341	20	2.3	20	92	0	74	15	19	26	39	1.91
699858--699905	18	2.7	18	90	0	78	14	14	45	25	1.83
700651--700717	20	3.3	20	87	0	98	28	13	29	28	1.94
700733--700779	20	2.3	20	85	3	58	21	21	17	40	1.91
701419--701457	16	2.3	16	86	8	51	58	2	0	38	1.12
701515--701567	26	2.0	26	82	7	63	26	1	9	62	1.36

Tables:   1   2   3   4   5   6