genome.fa.s8342.2.7.7.80.10.50.1000.3.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: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1228932

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 636 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)
536703--536796	42	2.2	42	76	10	95	22	30	22	24	1.99
538411--538455	20	2.2	20	84	0	54	15	17	22	44	1.86
538700--538735	18	2.0	18	94	0	63	16	2	25	55	1.55
541986--542036	20	2.5	21	80	3	59	31	11	23	33	1.91
542025--542078	20	2.7	20	94	0	90	16	11	27	44	1.82
543922--543955	2	17.0	2	100	0	68	50	0	0	50	1.00
551184--551226	2	22.0	2	95	4	79	51	0	0	48	1.00
553931--554001	28	2.6	28	95	2	126	43	0	4	52	1.20
553954--554115	45	3.5	45	85	8	195	46	0	3	50	1.17
553954--554114	15	10.5	15	77	12	166	45	0	3	50	1.17
554094--554529	32	15.4	32	71	25	374	35	0	11	52	1.40
554117--554159	22	2.0	22	100	0	86	34	0	13	51	1.42
554094--554673	54	10.4	54	69	18	271	35	0	11	52	1.39
554171--554213	22	2.0	22	95	0	77	41	0	9	48	1.35
554094--554380	140	2.0	140	96	1	531	36	0	11	52	1.37
554257--554299	22	2.0	22	100	0	86	34	0	13	51	1.42
554311--554353	22	2.0	22	95	0	77	37	0	11	51	1.39
554144--554609	166	2.8	165	83	8	582	35	0	11	52	1.40
554423--554465	22	2.0	22	100	0	86	34	0	13	51	1.42
554557--554641	32	2.7	32	96	0	152	35	0	10	54	1.35
554139--554658	112	4.6	110	77	14	478	35	0	12	52	1.40
554688--554746	31	1.9	31	92	0	100	42	10	6	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555546--555586	16	2.6	16	88	3	57	29	17	12	41	1.85
562115--562210	13	7.4	13	74	16	67	62	0	1	36	1.02
562116--562200	3	28.7	3	72	23	56	62	0	1	36	1.03
562111--562522	16	24.6	16	65	20	89	58	0	2	38	1.14
562252--562349	22	4.2	23	75	11	85	64	0	1	34	1.01
562104--562509	155	2.6	154	86	8	595	59	0	1	38	1.13
562424--562512	3	29.3	3	71	22	53	61	1	0	37	1.03
562104--562578	166	3.0	161	86	10	619	58	0	2	38	1.16
562433--562553	30	4.0	30	70	8	84	60	0	1	37	1.13
565015--565059	19	2.4	18	82	10	54	31	13	11	44	1.78
565737--565762	13	2.0	13	100	0	52	46	23	7	23	1.78
570474--570520	17	2.8	17	100	0	94	38	10	23	27	1.88
572252--572365	35	3.2	35	86	5	140	41	20	0	37	1.58
573389--573501	35	3.2	33	82	9	136	35	0	21	42	1.59
587174--587236	32	2.0	33	90	6	103	47	0	14	38	1.44
588380--588410	2	15.5	2	100	0	62	51	0	0	48	1.00
591356--591388	11	3.1	11	91	4	50	18	9	27	45	1.79
596182--596311	53	2.6	49	84	9	156	32	10	10	46	1.72
598771--598807	13	2.9	13	88	11	51	16	5	0	78	0.93
598881--598913	2	16.5	2	100	0	66	51	0	0	48	1.00
604442--604481	5	8.2	5	86	13	57	62	0	0	37	0.95
604440--604479	14	2.8	14	88	11	55	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604448--604490	14	3.1	14	84	12	54	58	0	2	39	1.11
604440--604489	9	5.2	10	77	22	54	60	0	2	38	1.09
604442--604490	13	4.2	12	80	15	50	59	0	2	38	1.09
610844--610961	60	2.0	61	86	1	166	36	13	18	31	1.90
611193--611231	19	2.1	19	90	4	62	46	12	2	38	1.56
611430--611491	24	2.6	25	82	17	78	50	1	0	48	1.10
611506--611655	14	10.9	14	63	16	55	49	2	0	47	1.20
611682--611725	22	1.9	24	86	9	65	52	4	2	40	1.34
611733--611797	29	2.2	30	86	13	98	53	1	0	44	1.09
615446--615485	4	10.8	4	82	15	50	27	0	20	52	1.46
615437--615486	18	2.7	18	87	3	64	30	2	18	50	1.58
619937--619972	18	1.9	19	88	5	56	13	22	0	63	1.29
620483--620527	20	2.2	20	96	0	81	26	17	24	31	1.97
627058--627104	21	2.2	21	84	0	58	57	8	21	12	1.62
632236--632299	33	1.9	33	90	0	101	12	32	6	48	1.66
634733--634802	34	2.1	32	84	5	86	22	27	15	34	1.95
635084--635126	21	2.0	21	95	0	77	27	27	20	23	1.99
635164--635204	21	2.0	21	100	0	82	14	29	39	17	1.89
635406--635465	29	2.0	31	93	6	106	43	16	6	33	1.74
635624--635670	20	2.3	20	92	0	85	36	4	8	51	1.52
636743--636790	19	2.5	20	82	3	62	29	12	6	52	1.63
637627--637696	34	2.1	34	84	5	90	21	27	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637978--638020	21	2.0	21	95	0	77	27	27	20	23	1.99
638056--638099	21	2.1	21	100	0	88	13	27	45	13	1.81
638154--638183	15	2.0	15	100	0	60	13	26	33	26	1.93
638134--638204	35	2.0	35	88	2	106	15	28	33	22	1.95
638300--638359	29	2.0	29	90	6	93	43	15	6	35	1.72
641333--641398	33	2.0	33	90	0	105	12	31	7	48	1.68
644787--644965	81	2.2	80	93	2	297	29	14	20	36	1.92
650217--650262	13	3.5	13	82	5	56	45	0	6	47	1.28
650848--650880	14	2.3	15	89	5	50	69	0	12	18	1.18
673205--673250	2	24.0	2	79	16	53	2	50	0	47	1.13
673205--673250	9	4.9	9	84	10	65	2	50	0	47	1.13
673205--673250	20	2.3	20	92	0	74	2	50	0	47	1.13
675977--676006	9	3.4	9	95	4	53	70	0	0	30	0.88
675977--676015	21	1.9	21	89	5	62	71	0	0	28	0.86
678042--678095	26	2.0	27	85	3	74	46	11	7	35	1.67
686654--686723	2	35.0	2	82	0	77	40	0	58	1	1.07
686654--686721	28	2.4	28	90	0	100	39	0	58	1	1.07
688409--688446	16	2.2	18	90	9	62	55	0	0	44	0.99
692262--692299	19	2.0	19	94	0	67	28	10	23	36	1.88
694007--694070	31	2.1	31	93	0	110	51	12	9	26	1.70
705604--705663	19	3.2	19	85	0	75	45	10	18	26	1.81
705608--705681	19	3.9	19	83	0	67	44	9	16	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
709292--709353	29	2.1	30	84	3	81	45	6	17	30	1.74
712428--712926	166	3.0	166	99	0	991	26	18	19	36	1.94
714188--714241	24	2.3	23	78	6	63	53	5	0	40	1.24
718200--718240	8	5.2	8	82	5	57	34	0	29	36	1.58
718311--719194	128	6.9	128	98	0	1707	23	25	19	32	1.98
719594--719691	31	3.0	34	80	8	130	38	3	4	54	1.35
720215--720283	21	3.3	20	90	6	93	18	26	36	18	1.94
720287--720334	21	2.3	21	85	0	60	22	12	39	25	1.89
722049--722137	34	2.7	31	81	6	97	59	2	0	38	1.10
722052--722126	31	2.4	33	77	11	84	60	1	0	38	1.06
728167--728231	29	2.2	29	83	2	76	12	29	23	35	1.91
728206--728251	20	2.3	20	88	3	67	13	28	19	39	1.89
747556--747598	19	2.3	19	84	8	52	32	11	0	55	1.36
747876--747916	12	3.2	13	83	16	59	36	0	0	63	0.95
748949--749082	35	3.8	35	90	0	187	33	0	20	45	1.56
749942--750093	20	7.4	20	75	14	123	31	23	12	32	1.92
749983--750093	21	5.4	20	83	5	141	31	24	11	32	1.91
749983--750091	41	2.6	42	88	2	177	32	23	11	33	1.90
750066--750244	57	3.1	57	92	0	304	36	20	14	27	1.92
750224--750284	20	3.0	20	90	0	95	39	18	16	26	1.91
750167--750359	97	2.0	97	92	0	323	38	19	13	27	1.90
750322--750359	20	1.9	20	94	0	67	44	18	10	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750400--750509	20	5.4	20	77	6	114	21	18	19	40	1.91
750955--751130	60	2.9	59	80	12	175	30	23	6	39	1.79
752463--752495	15	2.3	14	94	5	57	24	6	6	63	1.40
754060--754116	27	2.1	28	86	3	80	35	0	15	49	1.45
754188--754218	15	2.1	15	100	0	62	41	6	19	32	1.77
754714--754761	17	2.8	17	70	0	51	37	0	2	60	1.09
756431--756510	35	2.3	35	80	4	90	30	18	10	41	1.83
757170--757279	36	3.1	36	63	21	97	13	22	41	21	1.88
757192--757301	36	3.1	36	63	21	97	14	23	40	20	1.90
757137--757370	33	6.9	33	62	19	97	14	22	39	22	1.91

Tables:   1   2   3   4   5   6