genome.fa.s8660.2.7.7.80.10.50.1000.3.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: VEPZ01008660.1 Hibiscus syriacus cultivar Beakdansim tig00111657_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1057077

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 490 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)
547973--548013	21	2.0	22	90	9	68	9	12	36	41	1.76
548040--548082	21	2.0	21	95	0	77	27	27	20	23	1.99
548118--548160	21	2.0	21	100	0	86	13	27	44	13	1.83
548194--548273	21	4.0	21	76	20	91	12	27	37	22	1.90
548217--548246	15	2.0	15	100	0	60	13	26	33	26	1.93
548195--548267	37	2.0	37	91	2	121	13	27	35	23	1.92
548363--548422	29	2.0	31	93	6	106	43	16	6	33	1.74
551114--551181	34	2.1	34	86	10	99	19	32	16	32	1.93
551397--551436	21	1.9	22	90	10	66	12	10	40	37	1.77
551464--551506	21	2.0	21	90	0	68	27	25	20	25	1.99
551597--551676	21	4.1	21	76	18	91	12	26	37	23	1.90
551620--551649	15	2.0	15	100	0	60	13	26	33	26	1.93
551599--551670	36	2.0	36	91	0	117	13	26	34	25	1.93
551766--551825	30	2.0	31	93	6	106	43	13	6	36	1.70
554324--554374	19	2.6	20	87	3	68	45	5	15	33	1.71
556631--556666	19	1.9	18	88	5	54	38	13	5	41	1.68
556631--556683	22	2.6	20	85	8	63	39	13	5	41	1.68
559322--559364	19	2.2	20	87	4	61	48	6	9	34	1.62
561136--561166	13	2.5	13	94	5	55	0	16	6	77	0.97
561465--561580	35	3.3	35	86	1	169	34	3	35	26	1.74
562929--562958	13	2.3	13	100	0	60	16	46	23	13	1.82
563800--563910	35	3.2	35	87	2	152	31	2	36	29	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570369--570440	20	3.6	20	94	3	119	34	12	5	47	1.65
572688--572747	30	2.0	31	83	3	77	26	8	8	56	1.57
575331--575362	16	2.0	16	100	0	64	31	18	6	43	1.75
576786--576847	9	7.4	8	74	16	54	79	3	16	1	0.95
576786--576860	35	2.2	33	86	11	98	76	4	16	4	1.10
576786--576841	18	3.2	18	75	10	62	78	3	16	1	0.97
576786--576846	16	3.6	16	71	25	54	78	3	16	1	0.96
576786--576847	24	2.4	25	76	12	65	79	3	16	1	0.95
581352--581395	8	5.5	8	86	8	63	77	0	20	2	0.88
584262--584307	23	2.0	23	83	8	58	36	6	8	47	1.60
586037--586468	216	2.0	213	96	2	803	24	25	13	36	1.92
586439--586479	18	2.2	19	91	4	66	26	9	0	63	1.25
587661--587705	16	2.6	16	82	10	54	75	2	20	2	1.01
587675--587702	8	3.5	8	100	0	56	78	0	21	0	0.75
590666--590709	23	2.0	23	86	8	65	38	4	9	47	1.56
592582--592633	19	2.6	20	90	6	79	44	5	13	36	1.68
594201--594254	27	2.0	27	100	0	108	51	11	11	25	1.70
595913--595957	18	2.4	19	85	10	58	6	13	4	75	1.15
596693--596743	19	2.6	20	90	3	77	43	5	15	35	1.71
600825--600956	36	3.7	36	89	0	210	28	36	4	30	1.77
600828--600931	23	4.4	24	71	21	85	29	35	3	30	1.75
601404--601450	14	3.1	15	75	12	51	72	6	19	2	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604889--604992	25	4.4	24	69	21	76	28	35	4	30	1.78
604886--605027	36	3.9	36	90	1	223	28	35	4	30	1.78
608876--608902	12	2.2	12	100	0	54	33	25	0	40	1.56
614079--614138	24	2.5	24	91	0	93	25	18	15	41	1.89
614379--614438	21	3.0	20	85	7	68	8	31	23	36	1.84
614850--614903	23	2.2	25	90	6	85	11	18	12	57	1.64
623378--623456	35	2.2	35	88	4	113	29	3	35	31	1.75
628645--628683	17	2.2	18	86	13	55	0	15	7	76	0.99
629067--629147	35	2.2	37	89	4	121	25	3	39	30	1.73
633837--633891	11	4.9	11	73	18	51	78	1	18	1	0.94
633838--633903	34	2.0	34	88	8	100	75	3	16	4	1.09
638096--638135	19	2.0	20	85	4	55	22	12	0	65	1.26
641429--641466	16	2.3	17	81	9	51	23	15	0	60	1.35
641721--641758	17	2.2	17	86	9	51	78	2	18	0	0.86
641719--641759	18	2.3	18	76	16	50	78	4	17	0	0.93
642971--643016	23	2.0	23	83	8	58	36	6	8	47	1.60
644630--644681	8	6.5	8	88	6	79	76	1	21	0	0.87
667708--668046	168	2.0	168	97	2	646	25	25	15	33	1.95
674029--674075	21	2.3	20	85	3	58	8	0	12	78	0.95
674049--674096	10	4.8	10	82	5	53	0	8	10	81	0.88
674048--674103	10	5.6	10	77	8	51	1	7	8	82	0.92
674058--674096	11	3.6	11	86	6	53	0	10	10	79	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674048--674103	19	2.8	19	82	10	67	1	7	8	82	0.92
676889--678027	426	2.7	426	99	0	2239	31	16	19	32	1.94
679294--679397	33	3.1	33	82	9	95	30	36	1	30	1.69
683762--683865	33	3.1	33	82	9	95	30	36	1	30	1.69
684835--684887	5	10.8	5	81	18	67	0	15	1	83	0.74
684817--684882	12	5.7	12	81	15	68	1	15	3	80	0.91
684828--684888	21	3.0	21	80	17	76	0	14	1	83	0.72
684817--684888	17	4.1	17	78	21	78	1	15	2	80	0.89
685831--685876	22	2.1	22	87	0	65	10	10	13	65	1.48
686526--686576	19	2.6	20	87	3	68	45	5	13	35	1.68
690178--690233	27	2.1	28	83	6	71	8	17	14	58	1.61
698118--698184	32	2.1	33	83	8	84	67	0	17	14	1.24
698285--698310	6	4.3	6	100	0	52	0	15	0	84	0.62
699979--700020	22	1.9	22	85	9	59	40	19	0	40	1.51
702764--702830	27	2.4	28	78	14	75	11	16	11	59	1.60
705000--705042	13	3.7	12	82	14	54	79	9	11	0	0.95
704993--705042	11	4.4	11	85	7	55	82	8	10	0	0.86
710601--710663	21	3.2	19	79	18	67	50	1	28	19	1.56
711832--711903	17	4.2	16	81	12	81	38	13	8	38	1.75
715655--715711	21	2.9	19	79	18	64	50	1	28	19	1.57
715666--715706	21	2.0	21	90	9	66	46	2	26	24	1.65
716885--716956	17	4.2	17	76	15	76	38	11	9	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720780--720843	27	2.4	28	76	7	78	3	18	3	75	1.08
722399--722447	21	2.3	22	82	3	64	46	8	6	38	1.58
735182--735240	26	2.3	26	83	16	70	8	15	6	69	1.34
740568--740627	30	2.0	31	86	3	86	28	8	10	53	1.63
741512--741557	19	2.3	21	88	7	69	36	13	6	43	1.69
741512--741563	21	2.6	19	87	6	68	36	13	5	44	1.68
744735--744794	30	2.0	31	86	3	86	28	8	10	53	1.63
745648--745697	21	2.5	19	90	6	73	34	12	6	48	1.65
746632--746661	11	2.7	11	100	0	60	10	10	53	26	1.66
750058--750108	27	1.9	26	92	4	84	3	17	1	76	1.03
765426--765485	26	2.3	27	83	13	72	10	13	5	71	1.28
771556--771601	19	2.3	21	88	7	69	36	13	6	43	1.69
771556--771607	21	2.6	19	87	6	68	36	13	5	44	1.68
774749--774808	30	2.0	31	86	3	86	28	8	10	53	1.63
775697--775746	21	2.5	19	90	6	73	34	12	6	48	1.65
779130--779165	6	5.8	6	90	6	54	83	2	13	0	0.76
779411--779443	17	1.9	17	93	0	57	30	30	0	39	1.57
782099--782139	15	2.6	17	75	25	54	12	14	2	70	1.26
782153--782242	26	3.5	26	92	0	153	27	34	0	37	1.57
786257--786367	35	3.2	35	77	7	118	27	36	3	32	1.74
788225--788306	40	2.0	40	100	0	164	25	30	12	31	1.92
794262--794315	11	4.8	11	78	13	56	1	12	7	77	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
808928--809018	47	1.9	47	93	0	155	25	13	27	34	1.93
812232--812294	27	2.3	28	82	15	78	61	9	15	12	1.55
812284--812313	5	6.2	5	92	7	53	80	0	20	0	0.72
813957--814041	11	7.2	11	72	22	57	30	37	4	27	1.77
813954--814058	36	2.9	35	91	4	165	29	37	5	27	1.80
815537--815565	14	2.0	15	93	6	51	24	20	34	20	1.97
822956--822993	20	1.9	20	89	10	60	18	15	0	65	1.27
822952--822999	20	2.5	19	77	12	53	18	16	0	64	1.29
828698--828744	20	2.4	19	82	13	51	6	12	2	78	1.02
828746--828777	13	2.5	13	89	0	55	65	0	0	34	0.93

Tables:   1   2   3   4   5