genome.fa.s7782.2.7.7.80.10.50.1000.3.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2174 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)
405485--405538	26	2.1	26	85	0	72	29	9	20	40	1.83
424714--424777	23	2.8	23	82	0	92	29	25	26	18	1.98
429634--429687	23	2.3	23	80	0	72	31	25	25	16	1.97
435937--435971	18	1.9	18	94	0	61	42	5	2	48	1.41
446284--446362	39	2.0	39	90	4	124	26	10	25	37	1.87
451972--452047	37	2.1	37	94	0	134	25	3	18	52	1.62
451975--452038	20	3.4	19	69	20	53	25	3	18	53	1.59
451993--452064	19	3.8	19	75	15	78	25	4	19	51	1.64
452055--452084	14	2.1	14	100	0	60	20	20	20	40	1.92
456549--456627	39	2.0	39	90	4	124	26	10	25	37	1.87
462244--462319	37	2.1	37	94	0	134	25	3	18	52	1.62
462247--462310	20	3.4	19	69	20	53	25	3	18	53	1.59
462265--462350	19	4.7	18	75	13	77	24	6	18	50	1.72
467108--467490	194	2.0	194	86	1	543	42	14	13	30	1.83
467109--467539	194	2.2	194	83	4	494	41	14	12	31	1.83
467800--468259	229	2.0	225	85	5	613	36	8	20	35	1.82
469827--469870	21	2.1	21	91	0	70	47	0	47	4	1.22
471472--471895	212	2.0	212	99	0	839	36	10	20	32	1.87
472332--472391	2	30.0	2	100	0	120	50	0	0	50	1.00
472649--472685	6	6.7	6	88	11	53	18	10	0	70	1.16
475062--475113	21	2.5	21	90	0	77	34	9	28	26	1.88
475076--475121	21	2.2	21	88	7	67	36	4	30	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476240--476269	15	2.0	15	93	0	51	30	6	13	50	1.67
476519--476631	30	3.8	30	87	0	127	31	7	5	55	1.49
476515--476629	36	3.2	36	86	0	122	31	7	5	55	1.50
476515--476632	6	19.7	6	80	3	94	30	8	5	55	1.51
478450--478495	21	2.2	20	85	7	65	23	13	15	47	1.80
478087--479130	448	2.3	448	87	2	1497	43	14	13	28	1.82
481165--481230	2	33.0	2	100	0	132	50	0	0	50	1.00
481353--482027	225	3.1	220	78	12	802	31	16	15	36	1.90
481544--481954	202	2.0	202	87	3	596	32	16	14	36	1.89
483095--483148	22	2.6	20	75	16	56	27	9	5	57	1.52
488197--488312	29	3.5	35	71	19	111	30	20	13	35	1.92
488314--488488	76	2.4	77	79	8	184	30	13	14	41	1.85
488370--488408	21	1.9	20	84	5	51	30	12	12	43	1.81
488460--488840	39	10.0	39	84	5	483	28	19	16	35	1.93
488718--488777	30	2.0	30	96	0	111	28	23	15	33	1.94
488679--488816	69	2.0	69	88	0	204	28	20	14	36	1.92
488808--489014	36	5.9	36	82	8	239	23	20	14	41	1.90
488830--488892	21	3.3	20	68	25	55	20	20	11	47	1.80
488871--488927	29	2.0	29	89	0	87	26	19	19	35	1.95
488808--489002	101	1.9	102	90	1	311	23	19	15	42	1.89
488835--488963	65	2.0	65	89	3	197	24	19	15	41	1.90
488907--489017	37	3.0	37	90	1	161	26	21	14	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489406--489598	41	4.6	41	72	11	147	29	21	22	25	1.99
489447--489789	44	7.5	44	70	11	138	30	21	21	25	1.98
489345--490447	129	8.2	129	75	11	829	29	20	20	29	1.98
489494--489731	85	2.6	88	75	8	223	31	21	22	24	1.98
489659--489779	51	2.4	51	94	2	208	33	23	20	21	1.97
489788--489886	51	1.9	51	89	0	153	29	16	19	35	1.93
489345--490447	267	4.1	266	77	8	1097	29	20	20	29	1.98
495964--495998	18	1.9	18	88	0	52	45	0	20	34	1.51
496043--496078	18	2.0	18	94	0	63	33	25	0	41	1.55
501883--501907	6	4.2	6	100	0	50	16	0	0	84	0.63
507136--507199	27	2.4	27	92	2	103	25	18	23	32	1.97
512152--512190	2	19.5	2	100	0	78	48	0	0	51	1.00
512313--512369	30	1.9	30	88	0	87	52	12	14	21	1.73
512652--512695	3	14.7	3	100	0	88	65	0	0	34	0.93
514329--514416	35	2.5	34	85	10	115	60	1	14	23	1.41
514453--514496	20	2.2	19	80	19	54	29	11	0	59	1.32
514459--514496	18	2.0	19	90	10	60	31	10	0	57	1.32
515424--515448	13	1.9	13	100	0	50	48	0	20	32	1.50
515490--515557	35	2.0	35	91	2	111	38	13	11	36	1.81
520466--520692	113	2.0	113	96	0	418	49	7	16	25	1.73
521221--521266	21	2.2	21	96	0	83	45	21	6	26	1.76
532975--533045	3	23.7	3	100	0	142	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535306--535381	20	3.9	19	78	10	73	51	1	1	46	1.17
535354--535482	2	69.0	2	73	21	93	51	5	0	43	1.25
535345--535482	36	3.9	37	73	20	125	51	5	0	42	1.26
535363--535475	23	4.8	25	74	14	89	52	6	0	41	1.26
535353--535481	32	4.0	32	85	6	136	51	5	0	42	1.24
535440--535483	7	5.7	7	85	15	52	45	2	0	52	1.13
535500--535540	18	2.3	18	91	0	64	43	4	2	48	1.37
536556--536600	19	2.4	19	76	0	54	28	6	2	62	1.33
542274--542328	16	3.4	16	76	2	65	56	38	0	5	1.23
542746--542793	2	24.0	2	100	0	96	50	0	0	50	1.00
544949--544990	19	2.2	19	86	0	57	40	4	4	50	1.45
546263--546333	20	3.5	20	75	17	65	14	22	14	49	1.78
546269--546331	14	4.5	14	74	18	51	14	23	14	47	1.80
547647--547733	37	2.3	38	80	3	97	74	1	16	8	1.10
549648--549848	54	3.7	54	82	8	255	31	9	19	39	1.84
549649--549907	58	4.7	55	77	12	196	32	8	19	39	1.82
549903--550031	42	3.1	41	78	5	134	25	20	23	30	1.99
550196--550293	42	2.4	42	84	1	135	27	20	20	31	1.97
550957--551165	96	2.2	96	92	0	337	31	16	21	31	1.95
551053--551390	134	2.5	135	85	0	462	32	19	21	26	1.97
551563--551613	18	2.9	18	74	14	52	52	39	1	5	1.37
554731--554857	5	25.2	5	72	17	70	53	3	0	43	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554745--554858	19	6.9	16	69	25	60	51	3	0	44	1.18
554743--554959	2	114.0	2	75	16	167	48	3	0	47	1.24
554742--554833	21	4.4	21	79	12	68	53	2	0	44	1.12
573344--573382	17	2.4	17	95	4	71	51	5	0	43	1.24
575255--575300	20	2.4	21	79	17	55	26	28	17	28	1.98
584261--584293	18	1.9	17	88	11	50	48	3	0	48	1.17
585335--585781	219	2.0	224	96	3	825	53	5	16	24	1.64
587367--587425	31	1.9	31	89	0	91	47	3	5	44	1.42
587449--587989	22	24.6	22	89	3	804	48	11	0	40	1.39
587976--588015	12	3.6	12	77	16	50	52	0	2	45	1.14
588956--588999	19	2.2	20	84	12	54	40	2	2	54	1.25
589626--589708	2	44.5	2	78	17	90	51	1	1	45	1.16
590214--590274	2	31.5	2	93	6	108	49	0	0	50	1.00
590336--590372	18	2.1	18	100	0	74	32	21	10	35	1.88
593256--593291	2	18.0	2	100	0	72	50	0	0	50	1.00
594086--594145	30	2.0	30	90	6	95	35	6	15	43	1.72
594225--594282	21	2.8	21	100	0	116	20	41	18	18	1.91
594336--594409	20	3.7	20	78	7	78	22	24	22	29	1.99
594512--594551	20	1.9	22	90	10	66	37	40	10	12	1.77
595907--596206	144	2.1	142	93	6	507	36	20	16	26	1.93
596179--596234	28	2.0	28	100	0	112	39	21	17	21	1.93
596037--596370	170	2.0	172	94	4	588	37	21	15	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597008--597178	63	2.6	64	83	6	200	18	24	28	29	1.98
603102--603146	23	2.0	23	86	0	63	26	28	24	20	1.99
603125--603575	149	3.0	149	99	0	884	36	20	15	27	1.93
604090--604127	20	1.9	20	88	0	58	10	31	34	23	1.89
604091--604240	67	2.3	67	89	1	221	17	25	28	28	1.97
605354--605401	19	2.5	20	82	3	62	52	6	12	29	1.63
606624--606692	30	2.2	30	85	15	95	34	5	17	42	1.73
606633--606692	30	2.0	30	93	6	104	33	6	16	43	1.74
606772--606829	21	2.8	21	94	0	107	20	39	18	20	1.92
606883--606955	20	3.7	20	85	5	94	23	23	24	28	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19