genome.fa.s7824.2.7.7.80.10.50.1000.3.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: VEPZ01007824.1 Hibiscus syriacus cultivar Beakdansim tig00110162_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  895964

Tables:   1   2   3   4   

This is table  3  of  4  ( 464 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)
470927--471103	64	2.8	64	81	5	214	32	22	19	25	1.97
471512--471722	30	7.0	31	85	8	278	20	18	22	37	1.94
471514--471691	89	2.0	90	91	5	290	20	19	21	38	1.94
471514--471722	89	2.3	90	87	8	275	21	19	22	37	1.94
478511--478553	20	2.2	20	87	8	61	44	6	9	39	1.64
493369--493466	50	1.9	52	89	8	157	39	20	11	28	1.87
501355--501387	7	4.9	7	92	7	59	69	0	0	30	0.88
501475--501613	40	3.6	38	78	12	138	38	10	7	43	1.67
501429--501686	39	6.8	36	77	12	234	41	9	5	43	1.58
501682--501724	2	21.5	2	100	0	86	48	0	0	51	1.00
501547--501831	39	7.4	38	71	11	109	42	7	2	47	1.45
504309--504899	313	1.9	311	92	1	1004	38	18	17	26	1.92
510220--510311	46	2.0	46	97	0	175	51	13	9	26	1.71
512471--512523	26	2.1	25	86	10	72	47	1	0	50	1.12
519660--519697	2	19.0	2	100	0	76	50	0	0	50	1.00
520610--520658	21	2.2	21	85	7	62	59	16	10	14	1.61
521183--521224	22	1.9	22	100	0	84	35	7	9	47	1.64
528606--528644	3	12.7	3	89	5	60	38	0	0	61	0.96
528591--528641	19	2.5	20	78	15	52	37	3	0	58	1.16
528609--528649	9	4.6	9	88	8	57	41	0	0	58	0.98
530111--530135	4	6.2	4	100	0	50	24	0	0	76	0.80
530166--530202	18	2.1	17	90	10	56	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530536--530561	2	13.0	2	100	0	52	50	0	0	50	1.00
531056--531113	28	2.1	28	87	6	84	31	5	1	62	1.27
533522--533550	13	2.3	13	94	5	51	24	13	6	55	1.63
536786--536847	32	1.9	32	93	0	106	45	16	19	19	1.86
541363--542044	46	15.0	45	91	2	1060	24	22	18	34	1.96
541363--542044	183	3.7	183	93	1	1122	24	22	18	34	1.96
542251--542293	9	4.7	9	81	13	52	44	0	0	55	0.99
543561--543597	18	2.1	19	85	10	51	45	0	0	54	1.00
549200--549242	19	2.5	17	82	17	61	25	0	4	69	1.07
549197--549302	35	3.1	34	79	12	92	34	0	2	62	1.10
549240--549279	20	2.1	19	85	4	53	42	0	2	55	1.13
549208--549279	19	3.9	18	75	17	76	34	0	2	62	1.10
549209--549287	19	4.2	18	74	11	70	36	0	2	60	1.10
549220--549302	35	2.3	35	84	12	98	39	0	2	57	1.12
549488--549519	16	2.0	16	93	0	55	34	0	0	65	0.93
556199--556253	2	27.5	2	100	0	110	49	0	0	50	1.00
556605--556645	21	2.0	21	85	9	57	46	7	0	46	1.30
556799--556870	33	2.1	34	94	2	128	23	8	1	66	1.27
556954--557028	6	12.3	6	77	13	55	1	13	5	80	0.95
556954--557061	12	9.2	11	70	16	56	5	11	3	79	1.02
556954--557028	18	4.1	18	77	14	73	1	13	5	80	0.95
557019--557135	9	13.1	9	68	22	52	13	8	3	74	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556997--557061	19	3.5	19	78	17	57	9	9	1	80	0.98
556997--557065	23	3.0	23	79	14	70	10	8	1	79	0.99
557026--557066	19	2.2	19	90	0	64	14	4	0	80	0.87
560079--560134	13	4.4	12	80	12	67	78	5	14	1	1.00
560081--560128	12	3.7	13	88	8	71	77	4	16	2	1.03
561204--561290	32	2.7	32	85	3	104	33	12	19	34	1.90
561814--562214	110	3.6	110	90	0	631	35	23	17	23	1.95
562183--562339	55	2.7	58	76	6	158	38	22	13	26	1.91
562664--562733	21	3.6	21	67	21	62	31	20	10	38	1.85
562649--562851	36	5.8	36	72	13	172	29	19	11	38	1.88
562609--562749	72	1.9	73	82	4	178	31	19	11	36	1.88
562668--562953	102	2.8	102	87	2	378	30	18	11	39	1.87
562866--563024	73	2.2	73	88	1	230	25	20	13	40	1.89
562866--563024	37	4.4	36	84	3	212	25	20	13	40	1.89
562973--563120	67	2.2	66	86	3	208	29	18	12	39	1.88
565199--565244	10	4.6	10	84	7	58	23	4	2	69	1.17
565581--565673	12	7.2	12	76	13	51	24	4	0	70	1.04
565604--565679	3	24.7	3	82	15	93	30	1	0	68	0.98
565770--565835	1	66.0	1	72	0	51	10	3	0	86	0.68
565758--565873	20	5.7	20	76	15	105	12	2	3	81	0.93
565766--565849	26	3.3	26	83	12	104	11	2	2	83	0.84
565762--565879	45	2.6	45	85	11	143	12	3	3	80	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565766--565825	6	9.5	6	80	10	66	11	3	0	85	0.72
575479--575508	15	1.9	16	93	6	53	60	6	0	33	1.23
575662--575705	16	2.7	16	86	10	54	65	0	2	31	1.05
575677--575717	21	2.0	21	85	0	55	73	0	0	26	0.84
581025--581081	7	8.0	7	86	2	78	56	24	0	19	1.42
587068--587118	21	2.4	21	96	0	93	60	1	3	33	1.26
591642--591780	36	3.9	36	91	0	224	26	15	14	43	1.85
595098--595155	25	2.3	25	96	0	107	32	17	27	22	1.96
599155--599329	36	4.9	36	95	0	296	25	16	15	42	1.87
605937--605970	15	2.3	15	94	0	59	32	32	20	14	1.93
606057--606135	29	2.7	29	96	3	142	17	21	16	44	1.87
606512--606665	64	2.4	63	80	10	179	26	19	18	35	1.95
612876--612909	15	2.3	15	94	0	59	32	32	20	14	1.93
612994--613074	29	2.8	29	96	3	146	17	22	16	44	1.86
622574--622690	41	2.8	41	71	13	105	31	16	23	28	1.96
622517--622690	83	2.1	81	80	10	185	31	17	21	29	1.96
622557--622819	41	6.4	39	68	14	102	29	15	22	33	1.94
622566--622819	83	3.1	78	77	9	231	29	15	22	33	1.94
623126--623226	42	2.4	42	83	3	114	26	18	19	34	1.95
623295--623343	25	2.0	25	91	0	80	20	42	8	28	1.80
631664--631747	21	4.0	21	80	0	87	40	20	38	1	1.60
632159--632324	43	3.9	42	85	5	208	37	24	18	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632159--632324	85	1.9	86	86	1	235	37	24	18	19	1.94
632325--632481	43	3.7	43	90	1	226	29	22	17	29	1.97
636862--636902	15	2.6	16	81	14	50	41	0	4	53	1.22
638017--638212	79	2.5	79	91	1	313	32	22	15	29	1.95
638261--638321	21	3.2	21	65	29	64	31	4	21	42	1.74
638253--638353	35	2.8	36	92	6	168	30	5	18	44	1.74
642806--642837	14	2.3	14	100	0	64	18	6	25	50	1.70
642820--642925	35	3.0	35	89	5	151	28	3	21	46	1.69
651094--651853	113	6.6	113	76	12	618	39	14	7	38	1.75
651094--651438	114	3.0	111	77	11	342	39	13	7	38	1.74
651423--651449	13	2.1	13	100	0	54	55	7	0	37	1.28
651199--651809	240	2.6	239	81	10	640	40	13	7	38	1.73
663470--663539	29	2.4	29	95	0	122	40	15	27	17	1.90
671564--671644	33	2.5	33	81	0	99	25	58	2	13	1.48
674681--674725	21	2.1	21	84	8	56	42	0	2	55	1.12
677932--677982	21	2.5	22	71	12	54	45	5	7	41	1.57
678287--678311	7	3.6	7	100	0	50	88	0	0	12	0.53
680365--680433	35	1.9	36	91	2	113	46	20	0	33	1.51
680964--681037	35	2.1	35	87	5	105	32	0	22	44	1.53
690877--690916	2	20.0	2	100	0	80	50	0	50	0	1.00
691978--692094	57	2.1	57	98	0	225	37	16	19	26	1.93
692707--692813	34	3.1	33	78	14	85	34	0	3	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692740--692818	34	2.4	34	85	8	101	37	0	1	60	1.05
693608--693704	33	2.9	34	85	3	133	55	4	3	37	1.35
693606--693711	34	3.2	33	82	8	133	54	4	2	37	1.36
694090--694442	126	2.8	126	99	0	697	32	20	26	21	1.98
694510--694550	8	5.2	8	82	5	57	36	29	0	34	1.58
697539--697577	12	3.2	12	88	3	60	43	0	0	56	0.99
703186--704287	116	9.5	116	90	0	1682	28	19	20	31	1.97
704960--705005	22	2.1	22	91	0	74	39	15	13	32	1.85
705380--705535	54	2.9	54	90	1	233	28	21	13	36	1.91
708310--708350	8	4.9	8	82	11	55	0	17	0	82	0.66

Tables:   1   2   3   4