genome.fa.s7937.2.7.7.80.10.50.1000.2.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: VEPZ01007937.1 Hibiscus syriacus cultivar Beakdansim tig00110347_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820613

Tables:   1   2   3   4   

This is table  2  of  4  ( 421 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)
189867--189935	35	2.0	35	85	5	95	24	21	14	39	1.91
196911--196967	15	3.8	15	83	0	60	33	1	21	43	1.63
196911--196986	30	2.5	30	82	0	89	34	3	21	40	1.71
196920--196983	15	4.3	15	79	0	65	34	3	20	42	1.68
196959--196992	15	2.3	15	89	0	50	38	8	23	29	1.85
197126--197200	25	3.0	25	82	7	91	22	21	22	33	1.97
197129--197204	24	3.1	24	88	1	98	25	21	22	31	1.98
197143--197240	24	4.0	24	77	7	83	26	21	21	30	1.98
211221--211274	22	2.5	22	96	0	99	14	27	31	25	1.95
215302--215386	27	3.1	27	65	24	70	32	21	16	29	1.95
215286--215533	54	4.6	54	86	2	336	33	21	14	30	1.94
215286--215532	108	2.3	108	89	1	370	33	21	14	30	1.94
219610--219655	23	1.9	23	82	8	56	32	0	6	60	1.22
222239--222293	27	2.0	27	83	13	69	34	0	38	27	1.57
224128--224158	6	5.2	6	100	0	62	16	51	16	16	1.77
225454--225496	18	2.4	18	80	0	50	60	2	0	37	1.10
235175--235208	16	2.1	16	94	0	59	38	5	8	47	1.59
242940--243004	31	2.1	31	94	0	112	32	3	12	52	1.54
249496--249574	37	2.1	37	100	0	158	18	8	27	44	1.80
256629--256681	18	3.1	18	72	5	56	28	1	0	69	0.99
257052--257094	19	2.3	19	100	0	86	34	9	37	18	1.83
259705--260071	55	6.7	55	86	4	451	29	22	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
260071--260191	37	3.3	37	87	2	163	21	19	16	42	1.88
261478--261521	7	6.4	7	97	2	81	0	27	0	72	0.85
261446--261536	15	6.1	14	68	14	56	5	14	0	80	0.89
261445--261542	14	7.5	13	82	10	67	6	15	0	78	0.93
261447--261588	28	5.0	28	73	16	98	7	16	0	76	0.99
261533--261589	22	2.6	24	79	20	72	8	19	0	71	1.11
261533--261566	11	3.1	11	84	16	52	8	17	0	73	1.08
261530--261582	8	6.9	8	78	20	51	11	18	0	69	1.17
261512--261589	30	2.7	30	79	15	92	7	16	0	75	1.02
286621--286725	50	2.1	51	92	1	176	39	2	18	40	1.65
287705--287745	2	20.5	2	100	0	82	51	0	0	48	1.00
293839--293894	22	2.5	22	82	8	60	30	8	16	44	1.78
293855--293898	23	1.9	24	86	9	65	29	11	18	40	1.85
293902--293953	24	2.2	24	89	0	77	26	25	19	28	1.98
299658--299692	17	2.1	17	94	0	61	8	31	0	60	1.27
300483--300528	24	1.9	24	81	0	56	39	10	8	41	1.71
300854--300919	24	2.8	24	86	2	89	21	25	24	28	1.99
301459--301506	22	2.3	22	85	7	64	25	27	20	27	1.99
301501--301543	18	2.4	18	96	0	77	39	6	13	39	1.72
302723--302783	27	2.2	29	72	24	69	37	3	1	57	1.25
305212--305261	25	2.0	25	100	0	100	44	4	4	48	1.40
308776--308929	83	1.8	84	90	1	247	24	10	25	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310967--311044	24	3.3	24	84	10	99	26	17	34	20	1.95
311002--311066	24	2.7	24	88	4	96	20	20	38	21	1.94
314225--314308	32	2.7	31	77	14	91	29	29	26	14	1.95
315131--315192	22	2.8	22	90	2	97	25	19	35	19	1.95
315131--315205	23	3.3	23	86	5	107	25	18	36	20	1.95
319306--319348	21	2.0	21	81	0	50	30	30	25	13	1.94
320960--321020	23	2.7	23	94	0	104	18	22	27	31	1.97
324133--324273	70	2.0	70	98	0	273	45	8	25	20	1.79
348044--348130	23	3.7	23	87	3	129	41	14	16	27	1.87
348032--348110	12	6.7	12	70	2	61	39	15	16	29	1.89
348044--348138	47	2.0	46	87	2	136	43	13	14	28	1.84
348132--348243	30	3.7	30	77	9	120	57	16	8	16	1.64
356766--356820	27	2.1	26	89	3	83	60	3	10	25	1.47
357226--357271	14	3.4	14	72	22	53	56	4	6	32	1.45
357221--357277	26	2.2	26	100	0	114	59	3	7	29	1.40
357232--357277	16	3.2	16	66	33	50	58	4	8	28	1.47
357525--357657	68	1.9	70	86	6	191	37	19	12	30	1.89
365899--365974	31	2.5	31	86	0	89	14	26	28	30	1.95
365915--366001	31	2.8	31	84	3	104	14	25	31	28	1.95
366132--366159	14	2.0	14	100	0	56	50	0	21	28	1.49
366882--366934	18	2.9	18	77	11	54	20	3	26	49	1.66
376097--376127	15	2.1	15	100	0	62	19	41	19	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376308--376357	21	2.4	21	83	9	59	30	0	14	56	1.39
391416--391461	19	2.4	19	96	0	83	52	8	8	30	1.62
391708--391762	24	2.3	24	90	0	83	47	7	16	29	1.73
391881--392166	83	3.5	83	89	1	423	44	10	4	41	1.57
396932--396994	3	20.0	3	77	9	63	31	1	1	65	1.12
396959--396994	13	2.8	13	91	0	54	36	2	0	61	1.11
396935--396994	16	3.8	16	78	8	68	31	1	1	65	1.13
398212--398237	13	2.0	13	100	0	52	30	15	0	53	1.42
398317--398361	17	2.7	16	86	6	54	28	0	0	71	0.87
398417--398638	113	2.0	112	80	9	247	38	8	7	46	1.61
399156--399226	26	2.7	26	79	16	76	28	1	2	67	1.13
406571--406790	114	1.9	114	85	0	305	34	14	20	31	1.92
408857--409011	54	2.9	54	92	0	247	36	15	23	25	1.94
409367--409446	22	3.6	22	74	0	70	33	12	13	40	1.83
409956--410262	157	1.9	158	96	1	562	34	13	12	40	1.81
410265--411099	76	11.0	76	96	0	1555	22	22	22	32	1.98
411258--411320	3	20.0	3	77	9	63	31	1	1	65	1.12
411285--411320	13	2.8	13	91	0	54	36	2	0	61	1.11
411261--411320	16	3.8	16	78	8	68	31	1	1	65	1.13
412540--412589	18	2.7	18	82	14	66	34	8	0	58	1.28
412639--412730	12	8.4	11	77	17	75	29	1	2	67	1.09
412661--412730	3	24.0	3	82	16	85	28	0	1	70	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412644--412730	32	2.7	32	82	12	106	29	1	2	66	1.11
412898--412939	20	2.2	19	86	4	57	33	0	2	64	1.07
412803--413024	112	2.0	111	79	7	243	37	8	8	45	1.64
413074--413103	7	4.3	7	100	0	60	30	0	0	70	0.88
418264--418341	32	2.6	30	82	9	95	43	20	10	25	1.83
423829--423914	19	4.2	19	76	16	82	36	5	26	31	1.80
424324--424388	20	3.2	20	72	12	60	23	18	24	33	1.96
424418--424454	19	1.9	19	88	0	56	21	13	29	35	1.92
430438--430490	19	3.1	18	78	13	58	43	1	0	54	1.11
430434--430480	19	2.4	19	92	3	76	42	2	0	55	1.12
430613--430685	30	2.4	30	100	0	146	30	20	23	26	1.99
431789--431822	17	2.0	17	88	11	52	55	0	2	41	1.15
433940--434023	30	2.8	30	96	0	159	41	11	4	41	1.63
435124--435162	17	2.3	17	95	0	69	33	7	15	43	1.75
435438--435586	65	2.3	65	83	3	185	30	23	18	27	1.98
443681--443724	21	2.1	21	86	0	61	9	40	15	34	1.79
444760--444969	65	3.3	63	80	11	221	31	23	18	26	1.97
445234--446142	453	2.0	453	88	4	1368	28	17	17	37	1.92
454151--454182	14	2.3	14	94	0	55	34	0	0	65	0.93
454228--454277	21	2.5	20	78	12	57	70	0	2	28	0.99
455114--455139	2	13.0	2	100	0	52	50	0	0	50	1.00
468350--468403	23	2.3	23	90	0	90	44	5	7	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472439--472474	3	12.0	3	93	0	63	36	0	0	63	0.94
474473--474510	15	2.6	14	88	8	58	47	0	0	52	1.00
477861--477892	15	2.1	15	94	0	55	28	18	6	46	1.73
485209--485307	13	7.7	13	75	15	82	80	0	19	0	0.71
485209--485305	6	15.0	7	76	15	68	80	0	19	0	0.71
485216--485307	20	4.6	19	82	11	105	81	0	18	0	0.69
485216--485307	7	13.7	7	76	17	97	81	0	18	0	0.69
486614--486829	94	2.3	92	88	3	308	31	15	21	31	1.94
487676--487720	24	1.9	23	82	13	56	51	6	24	17	1.70
487510--488521	113	8.8	114	92	2	1396	37	14	17	30	1.90

Tables:   1   2   3   4