genome.fa.s8935.2.7.7.80.10.50.1000.3.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: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775090

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1015 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)
530419--530781	123	2.9	126	86	2	509	37	20	8	33	1.83
538302--538355	23	2.5	22	79	8	65	27	20	14	37	1.92
540279--540313	12	2.8	13	86	8	54	45	8	5	40	1.58
540587--540652	25	2.7	25	97	2	125	48	12	16	22	1.79
543087--543136	18	2.8	18	87	0	64	36	6	22	36	1.79
546478--546553	31	2.5	28	80	14	89	35	9	17	38	1.81
546556--546624	36	1.9	36	88	5	104	43	14	17	24	1.86
546831--547625	107	7.4	107	92	0	1306	23	19	23	33	1.97
548077--548151	32	2.3	32	86	0	96	33	21	17	28	1.96
548094--548163	32	2.2	32	89	0	104	34	20	17	28	1.95
549226--549284	15	3.9	15	75	16	59	1	15	3	79	0.94
550511--550558	7	6.7	7	95	4	87	56	14	14	14	1.68
559022--559111	42	2.1	42	91	0	144	40	35	7	16	1.78
560307--560337	11	2.8	11	95	0	53	67	6	9	16	1.39
564107--564151	20	2.2	20	84	7	56	64	0	22	13	1.28
575598--575805	85	2.4	86	89	1	312	48	7	21	22	1.76
575598--575821	43	5.3	43	88	3	312	48	7	21	22	1.75
575722--575789	21	3.2	21	62	17	50	44	8	22	25	1.81
578149--578222	3	26.0	3	79	15	68	36	0	1	62	1.04
578148--578222	19	3.8	19	79	6	78	36	0	1	62	1.04
578139--578201	22	2.8	22	85	2	81	28	0	3	68	1.05
579528--579576	12	4.2	11	79	10	53	28	4	2	65	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579762--579803	20	2.2	19	86	4	57	33	0	2	64	1.07
588242--588387	76	1.9	75	83	1	184	29	14	22	33	1.94
589681--589736	23	2.5	23	82	2	69	37	14	12	35	1.84
590172--590912	113	6.6	113	90	3	1110	36	14	21	27	1.92
590143--590912	225	3.5	223	89	3	1126	36	14	20	27	1.92
591180--591236	19	3.0	20	82	5	64	33	0	1	64	1.04
591171--591236	22	3.0	22	81	2	78	30	0	3	66	1.06
591185--591233	25	2.0	25	83	0	62	34	0	2	63	1.06
591181--591236	3	20.0	3	78	14	57	33	0	1	64	1.04
592782--592838	20	2.9	19	82	10	62	35	0	1	63	1.05
597791--597841	20	2.5	20	90	0	75	33	25	23	17	1.96
598737--598787	20	2.5	20	80	0	66	29	17	21	31	1.96
605374--605407	16	2.1	16	100	0	68	11	23	17	47	1.81
608139--608188	17	2.9	17	69	0	55	26	12	6	56	1.58
608460--608516	19	2.8	21	71	17	57	40	15	15	28	1.88
610781--610816	18	2.0	18	89	10	56	16	11	16	55	1.68
611661--611737	21	3.7	20	80	16	93	38	28	11	20	1.88
621284--621327	19	2.2	20	92	4	72	31	18	20	29	1.96
624704--624777	36	2.1	36	97	0	139	35	21	24	18	1.96
624924--624959	18	2.0	18	94	0	63	33	13	22	30	1.93
627321--627538	116	1.9	116	97	0	409	35	22	19	22	1.96
633363--633407	21	2.1	21	95	0	81	26	53	15	4	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634424--634466	17	2.6	16	78	10	50	23	6	9	60	1.51
634512--634578	28	2.3	29	82	2	73	25	11	5	56	1.57
639164--639208	22	2.0	22	100	0	90	26	22	13	37	1.91
641059--641118	9	6.3	9	79	11	66	16	26	28	28	1.97
641058--641112	19	2.8	19	91	2	83	18	23	29	29	1.98
648339--648398	9	6.3	9	79	11	66	15	26	30	28	1.96
648338--648396	19	3.1	19	87	2	82	16	23	30	28	1.97
648386--648432	14	3.4	14	96	0	85	14	48	23	12	1.78
648428--648465	17	2.2	17	90	0	58	21	44	21	13	1.85
649348--649471	63	2.0	63	82	6	153	17	27	29	25	1.98
653447--653487	2	20.5	2	100	0	82	48	0	0	51	1.00
660444--660522	31	2.5	32	91	2	133	26	13	8	50	1.71
669258--669336	23	3.7	21	83	8	97	29	18	17	34	1.95
674435--674459	9	2.8	9	100	0	50	48	0	0	52	1.00
674562--674639	24	3.0	26	73	16	90	51	5	2	41	1.38
676308--676361	21	2.7	19	82	8	63	27	12	31	27	1.93
677601--677672	31	2.3	31	82	0	90	34	15	15	34	1.89
680732--680761	14	2.1	14	93	0	51	40	10	0	50	1.36
681486--681532	2	23.5	2	100	0	94	48	0	0	51	1.00
681538--681608	31	2.4	29	80	13	83	38	19	5	36	1.76
681549--681612	31	2.1	31	93	0	110	32	20	4	42	1.73
681681--681739	22	2.7	22	92	2	93	40	15	8	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684118--684156	18	2.1	19	90	4	62	28	0	0	71	0.86
684135--684168	13	2.8	12	91	8	59	29	0	0	70	0.87
684138--684174	13	2.8	13	87	0	56	29	0	0	70	0.88
695335--695392	28	2.1	27	81	9	64	55	12	5	27	1.58
696366--696434	22	3.1	22	91	0	102	28	18	26	26	1.98
703191--703243	22	2.3	23	75	12	56	32	15	22	30	1.94
709536--709628	48	1.9	49	93	2	161	39	4	5	50	1.45
709536--709614	24	3.3	24	71	25	76	40	3	6	49	1.46
709720--709775	18	3.2	18	70	14	53	41	7	3	48	1.48
709722--709824	36	2.9	35	81	8	127	37	8	6	46	1.61
709722--709852	35	3.7	35	82	9	142	37	8	8	45	1.65
710809--710850	22	2.0	20	86	9	57	59	0	11	28	1.33
710809--710850	21	2.0	21	82	17	52	59	0	11	28	1.33
714681--714708	12	2.3	12	100	0	56	60	0	10	28	1.30
716711--716750	18	2.2	18	90	0	62	32	10	10	47	1.70
716722--716777	18	3.1	18	81	2	67	26	12	14	46	1.80
722271--722310	21	1.9	21	84	0	53	37	15	5	42	1.68
722413--722454	22	1.9	22	85	0	57	57	0	4	38	1.20
723262--723301	21	1.9	21	84	0	53	52	12	2	32	1.52
723204--723353	75	2.0	74	80	6	169	54	9	3	33	1.49
723320--723348	12	2.5	12	94	5	51	62	3	0	34	1.12
730042--730088	18	2.6	18	96	0	85	25	21	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
735032--735108	29	2.6	29	72	13	68	58	7	11	22	1.58
735309--735682	146	2.6	144	82	4	437	20	24	21	33	1.97
736008--736083	3	24.7	3	76	10	73	57	2	3	35	1.31
736231--736585	131	2.7	131	82	3	412	26	17	30	25	1.97
736621--736835	36	6.0	36	79	3	220	43	13	17	25	1.85
736633--736830	71	2.8	71	87	0	270	44	13	16	25	1.84
739570--739598	6	4.8	6	100	0	58	0	0	13	86	0.58
742045--742121	30	2.6	29	80	10	84	58	9	10	22	1.59
752851--752933	14	6.2	14	71	10	57	59	16	12	12	1.62
756615--756665	12	4.2	12	74	18	52	31	3	1	62	1.24
757158--757183	4	6.5	4	100	0	52	26	0	0	73	0.84
768437--769183	98	7.4	98	89	6	1056	33	24	19	22	1.97
768838--768993	43	3.4	43	68	13	132	35	25	17	21	1.95
769668--769705	17	2.2	18	85	4	51	26	2	0	71	1.00
771282--771308	2	13.5	2	100	0	54	48	0	0	51	1.00
775128--775155	2	14.0	2	100	0	56	50	0	0	50	1.00
776526--776566	21	2.1	20	86	13	59	46	2	2	48	1.28
777778--778387	82	7.3	82	84	5	760	35	10	18	35	1.84
777778--778387	167	3.7	167	89	1	906	35	10	18	35	1.84
777778--778387	249	2.4	247	86	4	807	35	10	18	35	1.84
781525--781584	24	2.5	24	97	0	111	8	31	0	60	1.27
784825--785205	190	2.0	190	100	0	762	23	31	27	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
786891--786946	25	2.2	25	100	0	112	7	28	7	57	1.52
788049--788098	19	2.6	19	96	0	91	56	8	28	8	1.57
788560--788600	19	2.2	18	91	4	64	39	7	0	53	1.29
788944--788977	17	1.9	17	88	5	50	38	0	0	61	0.96
788951--788998	18	2.6	18	87	9	62	29	0	2	68	1.01
788952--789009	15	3.9	15	78	17	59	27	0	3	68	1.05
789085--789217	59	2.3	59	78	5	151	45	5	9	39	1.60
790011--790077	15	4.5	15	88	0	89	8	65	14	10	1.46
791380--791462	41	2.0	41	90	0	130	36	13	9	40	1.77
791490--791554	27	2.4	25	78	14	67	18	7	3	70	1.24

Tables:   1   2   3   4   5   6   7   8   9