genome.fa.s9635.2.7.7.80.10.50.1000.3.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: VEPZ01009635.1 Hibiscus syriacus cultivar Beakdansim tig00117038_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1009897

Tables:   1   2   3   4   

This is table  3  of  4  ( 428 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)
527249--527351	13	7.1	14	70	19	61	42	6	3	46	1.48
527335--527370	18	2.1	18	94	5	65	50	0	5	44	1.25
527311--527396	19	5.1	18	68	27	55	44	2	2	51	1.27
530188--530292	34	2.9	36	85	7	160	28	16	12	42	1.84
530827--531587	105	7.3	105	88	4	1044	22	17	26	33	1.96
530826--531587	205	3.6	205	86	7	959	22	17	26	33	1.96
530827--531587	310	2.4	312	88	4	1160	22	17	26	33	1.96
532183--532576	65	5.8	65	74	9	268	39	11	20	28	1.87
532315--532596	36	8.0	36	80	10	323	40	14	19	25	1.89
532267--532577	138	2.3	137	87	1	444	40	12	19	27	1.88
532458--532630	36	4.8	36	85	4	172	39	16	20	23	1.91
533076--533111	18	2.0	18	88	0	54	41	30	8	19	1.81
533514--533568	22	2.5	22	100	0	110	23	12	27	36	1.91
534208--534273	34	2.0	32	82	11	80	0	10	9	80	0.91
534229--534276	15	3.1	15	85	11	62	0	10	8	81	0.88
535255--535391	67	2.1	67	97	2	260	18	18	23	39	1.92
538449--538478	2	15.5	2	93	6	53	50	0	0	50	1.00
538450--538475	13	2.0	13	100	0	52	46	0	0	53	1.00
538449--538477	15	1.9	15	100	0	58	48	0	0	51	1.00
538455--538568	59	1.9	60	87	5	167	58	1	4	35	1.28
538954--539053	36	2.9	36	82	13	136	28	13	13	46	1.79
540468--540638	89	1.9	89	92	2	290	30	12	29	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540859--540939	37	2.2	37	95	4	146	30	28	9	30	1.89
544543--544585	22	1.9	22	85	4	59	79	0	4	16	0.90
544501--544969	234	2.0	236	92	6	794	52	8	14	25	1.69
544763--544818	28	2.0	28	82	6	69	73	0	7	19	1.06
545704--545760	29	2.0	30	83	13	75	68	7	3	21	1.29
549658--549848	69	2.8	68	81	5	226	36	12	22	28	1.90
549805--549919	34	3.4	34	85	7	148	31	11	18	39	1.86
549959--550073	36	3.1	36	82	8	151	40	11	19	29	1.86
550087--550145	30	2.0	30	86	6	84	32	10	16	40	1.82
550138--550212	36	2.1	36	85	7	100	44	14	18	22	1.86
550100--550377	100	2.8	101	91	2	445	36	12	19	31	1.89
550164--550534	165	2.2	164	91	2	584	36	12	19	32	1.89
550264--550443	66	2.8	65	90	5	276	35	12	21	31	1.90
550327--550553	99	2.2	103	88	6	331	36	13	19	31	1.90
551759--552101	181	1.9	180	93	2	589	29	21	21	27	1.99
556198--556238	21	2.0	20	85	4	55	68	0	7	24	1.15
558676--558797	5	23.8	5	67	17	54	73	3	4	18	1.14
558676--558791	18	5.8	20	66	23	57	74	2	5	18	1.12
558741--558791	9	5.7	9	76	17	52	76	0	5	17	0.98
558724--558782	22	2.7	21	82	7	64	79	1	3	15	0.94
558723--558796	36	2.1	34	87	5	103	75	2	4	17	1.07
561836--561877	18	2.3	18	95	0	75	42	19	2	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564185--564227	18	2.4	18	96	0	77	72	0	4	23	1.04
576866--576921	22	2.5	22	97	0	103	30	10	19	39	1.86
578483--578642	44	3.6	45	87	2	225	31	21	8	38	1.83
578751--578904	40	3.8	40	90	1	238	33	24	19	22	1.97
578751--578904	80	1.9	80	93	2	265	33	24	19	22	1.97
582762--582876	6	17.8	6	69	20	56	6	13	3	76	1.11
582799--582876	13	5.9	13	69	23	56	3	11	5	79	1.02
582762--582875	19	5.9	18	73	17	70	7	13	3	76	1.12
582806--582878	15	5.4	14	78	17	57	4	10	5	79	1.03
582799--582878	19	4.1	18	80	13	88	3	11	5	80	1.01
582834--582877	14	3.5	13	81	12	56	0	11	4	84	0.77
585693--585877	52	3.9	46	79	11	151	35	19	6	38	1.78
585783--585872	26	3.5	26	100	0	180	35	16	6	41	1.75
586007--586128	40	3.0	40	96	0	217	34	26	15	23	1.95
587476--587825	59	6.0	58	71	12	218	36	10	24	29	1.88
587477--587738	117	2.2	117	88	0	389	37	9	23	29	1.87
588284--588349	21	3.1	21	82	4	87	31	21	21	25	1.98
594652--594995	59	5.8	60	74	11	225	36	9	22	31	1.87
594703--594916	117	1.8	117	87	0	311	39	10	20	29	1.86
597969--598014	14	3.1	14	87	6	65	17	15	15	52	1.76
598313--598362	20	2.5	20	96	0	91	16	14	14	56	1.69
598304--598363	10	6.0	10	78	0	66	13	13	16	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598689--598720	16	2.0	16	100	0	64	25	12	31	31	1.92
598690--598731	16	2.7	16	88	3	50	28	9	28	33	1.88
599690--599722	12	2.5	13	90	9	50	81	3	15	0	0.80
601130--601180	25	2.0	25	82	14	61	29	9	0	60	1.28
601132--601193	22	2.8	22	73	11	63	29	8	0	62	1.23
610259--610309	20	2.5	20	83	0	66	29	27	11	31	1.92
621826--621869	3	14.3	3	81	13	54	65	0	2	31	1.05
622036--623160	257	4.4	256	84	4	1393	34	16	16	32	1.91
637768--637809	22	2.0	22	90	4	68	16	23	21	38	1.93
639577--639625	24	2.0	24	96	0	89	53	4	26	16	1.61
648192--648239	11	4.1	12	82	12	55	2	14	2	81	0.88
657370--657691	162	2.0	160	98	1	626	25	20	11	42	1.86
661181--661220	20	2.0	20	100	0	80	45	10	10	35	1.71
662707--662756	3	16.7	3	100	0	100	34	0	0	66	0.92
665236--665294	24	2.4	24	82	5	64	38	5	5	50	1.46
675198--675271	29	2.5	31	76	8	82	32	17	8	41	1.79
676846--677017	46	3.8	45	93	2	274	30	23	7	37	1.83
681094--681139	20	2.3	20	85	7	58	4	17	0	78	0.91
681093--681142	21	2.4	21	81	12	59	4	18	0	78	0.91
683804--683929	46	2.8	45	89	3	182	30	21	8	39	1.83
688276--688322	13	3.2	15	80	20	55	72	0	2	25	0.96
688270--688313	13	3.2	13	83	6	52	70	0	4	25	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688526--688576	2	25.5	2	95	0	93	49	1	0	49	1.12
689056--689148	36	2.6	36	81	6	107	32	12	12	41	1.81
690248--691685	106	13.7	106	89	2	2134	23	17	24	34	1.96
690263--691685	526	2.7	525	89	2	2205	22	18	24	34	1.96
692611--692663	22	2.4	22	96	0	97	26	9	28	35	1.87
693278--693329	16	3.5	15	80	19	65	0	11	7	80	0.89
693279--693333	18	3.0	18	76	10	58	0	10	9	80	0.92
697078--697106	12	2.3	13	94	5	51	68	0	0	31	0.89
697385--697495	42	2.6	42	85	0	159	48	10	14	26	1.76
699972--700054	37	2.2	37	80	8	96	44	9	13	32	1.76
700239--700539	116	2.6	115	84	3	361	24	21	16	37	1.94
701397--701442	20	2.3	20	88	0	65	19	17	19	43	1.88
701985--702063	28	2.7	29	78	7	88	24	25	15	35	1.94
703628--703669	17	2.5	17	84	0	57	28	2	30	38	1.70
706054--706102	6	8.2	6	86	0	62	30	44	16	8	1.76
706054--706099	18	2.6	18	85	0	74	30	45	15	8	1.76
713635--713665	6	5.2	6	100	0	62	35	48	16	0	1.46
713663--713701	5	7.8	5	91	0	51	23	33	41	2	1.68
721540--721581	22	2.0	22	85	4	59	16	21	21	40	1.91
723340--723388	24	2.0	24	96	0	89	55	4	22	18	1.60
725692--725725	17	1.9	18	88	5	52	29	20	26	23	1.99
726322--726615	146	2.0	148	98	1	574	30	23	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731978--732008	16	1.9	16	93	0	53	41	3	9	45	1.53
735367--735406	21	1.9	21	84	0	53	62	5	17	15	1.49
743394--743432	21	1.9	20	84	5	51	35	20	15	28	1.93
749454--749662	104	2.0	103	97	2	393	20	14	17	47	1.82
752528--752558	13	2.4	13	100	0	62	32	29	0	38	1.57
757756--757802	23	2.0	25	83	8	62	44	0	25	29	1.54
781422--781460	17	2.3	17	95	0	69	2	15	41	41	1.61
783158--783198	21	2.0	21	85	0	55	24	14	21	39	1.91
792032--792072	21	2.0	21	95	0	73	26	14	19	39	1.90
798530--798667	36	3.9	35	87	2	195	34	21	26	18	1.96

Tables:   1   2   3   4