genome.fa.s8821.2.7.7.80.10.50.1000.3.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: VEPZ01008821.1 Hibiscus syriacus cultivar Beakdansim tig00111989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1271541

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 725 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)
313009--313122	46	2.4	48	82	7	135	30	19	7	42	1.80
318278--318312	6	5.8	6	96	0	61	17	34	28	20	1.95
322295--322342	13	3.5	13	78	15	60	27	0	0	72	0.84
322300--322363	16	4.1	16	75	4	58	31	3	0	65	1.08
322295--322364	31	2.3	29	87	4	95	28	2	0	68	1.04
326278--326357	28	2.9	28	90	1	117	18	11	30	40	1.86
326414--326467	9	6.3	9	76	20	62	53	1	0	44	1.11
326417--326469	11	4.8	11	78	13	56	52	1	0	45	1.11
326392--326467	33	2.4	33	82	8	86	53	1	1	43	1.17
326434--326488	15	3.9	14	76	9	58	47	3	0	49	1.19
326419--326485	28	2.3	29	87	12	93	50	2	0	46	1.16
326414--326648	42	5.7	43	76	10	190	46	5	2	45	1.40
326461--326591	41	3.3	39	81	10	131	45	6	4	43	1.49
326454--326608	84	1.9	83	86	1	220	45	6	4	43	1.50
326436--326608	43	4.1	41	80	7	170	45	6	4	44	1.48
326563--326615	24	2.2	24	89	0	79	41	7	3	47	1.50
326579--326655	38	2.1	37	81	16	88	44	3	2	49	1.34
335406--335434	2	15.0	2	92	7	51	48	0	0	51	1.00
336701--336784	23	3.7	23	91	0	141	16	23	27	32	1.96
338522--338581	23	2.6	23	79	10	68	20	21	26	31	1.98
343499--343557	30	2.0	29	83	3	73	37	6	22	33	1.80
343783--343844	23	2.7	23	82	0	79	17	24	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349316--349444	68	1.9	68	91	0	213	31	24	13	31	1.93
349662--350334	55	12.3	55	88	1	893	27	18	18	35	1.95
350751--350822	20	3.5	20	72	10	74	20	30	16	31	1.95
350729--350843	41	2.8	41	90	3	171	23	26	16	33	1.95
350770--350846	21	3.7	21	74	10	86	24	24	18	32	1.97
352142--352204	26	2.4	26	100	0	126	47	12	15	23	1.80
360023--360380	155	2.3	157	83	5	431	30	17	6	45	1.75
361324--361380	13	4.4	13	90	0	96	15	43	21	19	1.87
361303--361348	18	2.6	18	89	0	74	17	50	19	13	1.78
361303--361361	31	2.0	28	87	9	82	16	49	20	13	1.80
361372--361410	7	5.4	7	93	6	69	12	33	28	25	1.93
361372--361409	15	2.6	15	95	4	69	13	34	26	26	1.93
361369--361410	22	1.9	22	100	0	84	14	33	28	23	1.94
366121--366145	13	1.9	13	100	0	50	16	40	24	20	1.91
368639--368745	24	4.5	24	70	4	81	21	11	16	50	1.76
369585--369654	2	35.0	2	100	0	140	50	0	0	50	1.00
370333--370384	21	2.5	21	77	0	59	38	13	13	34	1.84
381954--382038	32	2.7	30	72	16	82	28	30	27	14	1.95
382812--382845	17	2.0	17	88	0	50	47	8	5	38	1.59
382863--382915	24	2.2	24	86	6	72	26	20	33	18	1.96
393406--393439	18	1.9	18	88	5	52	26	29	26	17	1.98
394150--394190	22	1.9	22	90	5	66	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397448--397567	45	2.7	45	82	0	159	30	20	10	39	1.85
397611--397666	21	2.7	21	91	0	85	23	28	10	37	1.88
397660--397787	27	5.3	27	66	24	113	19	24	13	42	1.87
397675--397760	20	3.9	21	69	20	68	17	25	13	43	1.86
397632--397820	47	4.0	47	92	0	297	21	23	12	42	1.86
397873--397897	2	12.5	2	100	0	50	52	48	0	0	1.00
398201--398405	95	2.2	92	82	11	236	27	25	17	29	1.97
398636--399265	312	2.0	313	97	0	1201	33	22	8	35	1.84
399604--399651	20	2.5	20	83	6	55	29	27	12	31	1.93
399605--399780	83	2.1	83	85	4	230	34	24	13	27	1.93
402180--402391	85	2.5	85	83	2	239	30	17	15	35	1.92
408443--408490	19	2.5	20	89	3	71	31	12	6	50	1.65
409736--409783	21	2.3	21	92	0	78	25	20	16	37	1.93
411275--411341	24	2.8	24	82	13	84	26	1	4	67	1.19
411321--411391	31	2.3	31	83	7	83	36	2	2	57	1.28
411647--411708	25	2.5	26	79	12	67	59	3	3	33	1.29
416726--416759	11	3.2	11	91	4	52	47	2	5	44	1.42
418949--418991	22	2.0	22	100	0	86	37	20	9	32	1.85
420624--420661	18	1.9	19	85	15	51	50	0	5	44	1.24
421997--422067	35	2.0	35	97	0	133	23	11	14	50	1.74
430335--430558	54	4.1	54	91	0	358	31	18	19	30	1.96
430539--430576	18	2.1	18	95	0	67	34	26	13	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434161--434230	22	3.2	22	87	0	104	35	31	20	12	1.90
437009--437039	11	2.7	12	90	10	55	22	41	9	25	1.84
440819--440871	22	2.4	22	96	0	97	26	30	28	15	1.96
445077--445321	108	2.3	108	87	4	316	31	18	18	30	1.95
445077--445286	54	3.9	54	89	1	332	32	19	18	30	1.95
453493--453523	13	2.4	13	94	0	53	19	19	0	61	1.35
453679--453722	14	2.9	16	83	16	51	11	22	0	65	1.24
453679--453714	7	4.9	8	86	13	51	8	25	0	66	1.19
458280--458354	20	3.8	20	80	8	82	50	10	21	17	1.76
460123--460391	142	1.9	142	85	3	371	40	13	14	31	1.85
465056--465090	2	17.5	2	87	0	52	42	0	5	51	1.25
471622--471666	18	2.5	18	92	0	72	24	28	11	35	1.90
472203--472235	4	8.8	4	87	12	52	78	0	0	21	0.75
472150--472231	14	6.1	14	72	20	68	76	0	7	15	0.99
473088--473192	37	2.8	37	88	0	156	29	15	15	40	1.88
473923--475403	106	14.0	106	89	1	2136	23	17	24	34	1.96
476229--476305	22	3.5	22	90	0	127	22	14	25	37	1.92
476900--476941	22	1.9	22	85	9	59	4	9	7	78	1.08
476931--476993	8	7.2	8	76	16	63	0	15	3	80	0.83
476931--476999	26	2.6	27	84	11	81	0	15	4	79	0.88
476923--476999	28	3.0	26	74	18	72	0	15	5	79	0.91
476923--476983	31	2.0	31	87	6	88	0	16	4	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481441--481519	12	6.3	12	72	16	63	75	0	7	16	1.01
481490--481516	4	6.8	4	100	0	54	77	0	0	22	0.76
481525--481559	2	17.5	2	100	0	70	51	0	0	48	1.00
481831--481869	2	19.5	2	100	0	78	48	0	0	51	1.00
483599--483633	18	1.9	18	100	0	70	40	17	8	34	1.80
491067--491099	15	2.2	15	94	0	57	33	0	18	48	1.48
491210--491265	23	2.4	23	82	5	60	21	21	26	30	1.98
491237--491304	24	2.9	24	80	6	77	20	23	25	30	1.98
494382--494438	22	2.6	21	83	8	71	31	22	21	24	1.98
494737--494771	18	1.9	18	94	0	61	20	8	5	65	1.40
502135--502180	22	2.1	22	100	0	92	32	13	13	41	1.82
503793--503922	52	2.5	52	86	2	172	26	29	16	28	1.97
510773--510815	21	2.0	21	86	0	59	23	16	20	39	1.92
520361--520410	12	4.2	12	81	0	64	2	26	6	66	1.26
520349--520410	24	2.6	24	86	0	79	3	27	6	62	1.35
522569--522640	31	2.3	32	80	7	85	34	23	12	29	1.92
525387--525424	20	1.9	20	88	0	58	36	31	10	21	1.87
527165--527209	20	2.4	19	85	7	56	55	4	11	28	1.54
528671--528742	20	3.4	20	71	14	72	41	18	8	31	1.80
528779--528819	21	1.9	22	90	5	66	41	14	19	24	1.89
542395--542449	28	2.0	27	82	6	67	45	9	18	27	1.79
542643--543092	245	1.8	242	97	2	857	31	24	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544978--545034	29	1.9	30	92	3	98	63	7	1	28	1.30
545402--545496	43	2.2	43	86	3	129	25	4	17	52	1.63
546195--546264	32	2.2	32	94	0	122	32	22	0	44	1.53
546643--546744	33	3.2	33	90	4	156	44	16	6	32	1.74
546739--546780	21	2.0	21	95	0	75	47	7	14	30	1.71
549290--549353	31	2.1	31	91	2	103	50	6	0	43	1.27
549431--549518	38	2.3	38	82	3	106	38	7	17	36	1.79
561326--561383	20	2.7	21	84	10	64	32	24	20	22	1.98
562189--562272	21	4.0	21	92	0	141	16	21	27	34	1.95
564168--564219	24	2.2	24	96	0	95	23	13	25	38	1.91

Tables:   1   2   3   4   5   6   7