genome.fa.s8032.2.7.7.80.10.50.1000.3.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: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1200719

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 598 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)
558363--558679	131	2.4	132	79	6	329	25	14	32	27	1.94
558678--558863	36	5.5	35	68	21	137	41	13	17	27	1.87
558683--558878	66	3.0	65	83	8	254	40	14	16	28	1.88
559016--559104	36	2.4	36	84	1	106	40	12	16	30	1.86
562679--562751	32	2.3	32	97	0	137	31	17	9	41	1.82
566022--566056	3	11.7	3	100	0	70	68	0	0	31	0.90
567884--567927	2	22.0	2	100	0	88	50	0	0	50	1.00
569610--569648	21	2.0	20	90	10	62	17	23	35	23	1.95
573226--573338	23	5.1	21	78	7	109	34	30	21	14	1.93
573288--573338	21	2.3	21	86	6	66	35	27	23	13	1.93
573226--573338	44	2.6	42	73	9	109	34	30	21	14	1.93
577792--577961	60	2.8	59	79	7	164	42	4	17	35	1.70
577862--577975	60	1.9	60	83	3	149	46	5	14	33	1.68
578198--578237	17	2.4	17	82	0	53	42	10	0	47	1.37
586452--586485	18	1.9	18	94	5	61	38	8	5	47	1.59
586697--586746	18	2.8	18	100	0	100	26	28	18	28	1.98
586851--586905	24	2.5	22	81	16	69	30	18	16	34	1.93
595042--595080	18	2.2	18	90	9	62	38	5	5	51	1.46
603137--603191	24	2.2	26	77	6	60	16	27	5	50	1.66
613253--613325	30	2.4	30	95	0	128	30	24	20	24	1.99
613311--613436	31	4.1	31	86	2	137	32	20	18	28	1.96
614092--614122	2	15.5	2	93	0	53	45	0	3	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614612--614772	64	2.5	62	84	8	189	26	21	18	34	1.96
616059--616128	29	2.4	29	97	0	131	37	2	14	45	1.59
618829--618888	30	2.0	31	86	3	86	35	1	5	58	1.30
619359--619391	2	16.5	2	100	0	66	51	0	0	48	1.00
620301--620479	75	2.4	74	86	3	243	34	11	18	34	1.88
631089--631202	52	2.2	52	100	0	228	28	21	18	30	1.97
631767--631852	33	2.7	32	77	13	90	44	0	0	55	0.99
631823--631871	23	2.1	24	85	11	66	42	2	0	55	1.11
636144--636170	10	2.7	10	100	0	54	51	0	0	48	1.00
636932--636978	22	2.1	22	100	0	94	21	21	25	31	1.98
648105--648372	129	2.0	133	95	3	490	34	11	23	30	1.90
648858--648899	21	2.0	21	100	0	84	42	0	19	38	1.51
649805--649938	14	9.8	13	69	14	74	74	0	17	7	1.04
649858--649942	30	2.8	31	78	16	97	76	0	15	8	1.01
649798--649938	76	1.9	76	82	5	178	75	0	17	7	1.03
650972--651004	17	1.9	17	88	11	50	39	3	27	30	1.72
651230--651373	36	3.9	36	91	1	207	39	19	20	20	1.93
651371--651691	55	5.9	55	84	6	320	29	15	22	32	1.95
651386--651691	110	2.8	109	85	3	391	29	16	22	31	1.96
656899--656939	3	14.7	3	90	10	61	68	0	0	31	0.90
657845--657927	42	2.0	41	85	2	112	32	22	19	25	1.97
659065--659131	18	4.0	18	77	18	90	17	49	19	13	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659066--659146	31	2.5	31	86	4	117	17	45	20	16	1.85
659084--659120	13	2.8	13	83	0	56	18	48	18	13	1.80
661598--661704	24	4.5	24	71	4	81	22	14	15	47	1.81
665092--665133	17	2.4	18	84	11	61	0	21	0	78	0.75
665589--665629	10	4.1	10	87	12	57	4	12	0	82	0.81
665591--665635	19	2.2	20	84	15	65	2	15	0	82	0.77
665591--665640	11	4.5	11	80	16	50	4	16	0	80	0.87
667580--667619	14	2.9	14	81	3	55	50	5	22	22	1.68
667603--667678	19	4.0	20	69	16	63	59	7	14	18	1.59
670649--670677	14	2.0	15	93	6	51	62	0	0	37	0.96
670706--670736	2	16.0	2	93	6	55	51	0	0	48	1.00
671309--671345	17	2.2	17	100	0	74	5	18	48	27	1.70
672130--672182	3	19.0	3	83	11	60	64	0	0	35	0.94
672124--672157	17	2.1	16	94	5	59	50	0	0	50	1.00
672130--672183	20	2.8	21	81	13	62	62	0	0	37	0.95
672571--672683	42	2.7	42	81	8	115	32	17	23	26	1.97
672572--673209	265	2.4	264	87	3	948	32	20	18	29	1.96
673108--673201	42	2.3	41	86	1	125	31	22	22	23	1.98
675838--675872	17	2.1	17	100	0	70	28	17	11	42	1.83
676044--676082	16	2.5	16	88	12	55	0	15	2	82	0.79
676548--676585	19	2.0	20	89	5	60	2	18	0	78	0.86
676536--676585	19	2.4	21	83	12	59	4	18	2	76	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681604--681648	21	2.3	21	85	11	60	60	0	0	40	0.97
691936--692031	20	4.5	21	68	17	63	23	23	8	43	1.81
692270--692554	55	5.2	55	87	0	390	28	18	17	34	1.94
696519--696632	45	2.5	45	88	0	174	21	22	8	46	1.79
696963--696993	15	2.1	15	93	0	53	32	22	6	38	1.80
696909--697044	70	2.0	69	83	4	175	27	23	15	33	1.95
696977--697406	55	7.8	55	89	1	630	27	18	18	34	1.95
702216--702303	43	2.0	43	91	0	140	42	4	11	42	1.61
702284--702322	15	2.6	15	95	0	69	46	0	2	51	1.14
702391--702423	15	2.1	16	88	5	50	39	12	9	39	1.74
704762--704865	34	3.1	34	63	18	92	32	9	13	44	1.76
704759--704890	65	2.0	65	100	0	264	33	9	13	43	1.76
705297--705379	42	2.0	40	90	6	132	24	6	9	60	1.50
706056--706347	117	2.5	117	90	2	453	31	32	16	19	1.94
707276--707424	29	5.2	29	82	6	144	40	21	5	32	1.76
713557--713848	117	2.5	117	91	2	462	30	33	16	19	1.94
713974--714629	329	2.0	327	96	2	1210	38	17	15	28	1.91
715121--715272	29	5.2	28	84	6	162	38	23	5	32	1.77
715121--715272	58	2.6	57	82	6	180	38	23	5	32	1.77
717079--717128	10	5.0	10	80	7	57	76	6	2	16	1.08
717072--717132	21	3.0	21	78	9	72	73	4	4	16	1.18
720575--720918	170	2.0	176	92	5	583	28	18	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
721791--721847	24	2.3	25	84	6	71	24	12	28	35	1.91
722703--722804	42	2.5	41	80	3	132	30	22	23	23	1.99
722464--723605	214	5.3	214	92	0	1804	32	19	15	32	1.93
723342--723447	42	2.6	41	81	3	122	29	23	22	24	1.99
724409--724710	125	2.4	125	86	0	415	22	26	16	34	1.96
733700--733786	24	3.5	24	77	9	102	26	17	24	32	1.97
733701--733803	51	2.0	50	88	1	152	26	17	26	30	1.97
733691--733797	24	4.3	24	77	12	83	26	14	24	34	1.94
734971--735011	20	2.0	20	85	0	55	14	9	2	73	1.19
742517--742566	22	2.3	20	78	18	55	74	2	20	4	1.08
742499--742588	32	2.9	31	81	18	107	73	2	20	4	1.11
742532--742577	22	2.1	22	84	4	58	78	2	17	2	0.96
743622--744070	55	8.4	55	87	7	658	29	13	25	30	1.94
743706--743791	43	2.0	43	88	0	127	29	9	30	31	1.88
743750--744079	109	3.0	109	91	2	520	31	14	24	29	1.94
743622--744070	164	2.8	159	87	5	644	29	13	25	30	1.94
743993--744533	111	4.9	110	79	6	472	32	18	24	24	1.97
743829--744532	55	12.8	55	83	6	396	32	17	25	25	1.97
744711--744793	3	28.0	3	85	7	116	37	1	0	61	1.04
747533--747603	22	3.2	22	88	6	108	47	4	4	43	1.42
747948--748030	2	41.5	2	100	0	166	50	0	0	49	1.00
748872--748916	20	2.2	20	100	0	90	22	24	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
749687--749751	3	21.7	3	90	6	105	63	0	1	35	1.04
749930--750099	74	2.3	74	90	0	259	31	20	20	28	1.97
749999--750215	116	1.9	116	91	1	355	29	20	20	29	1.98
750874--750951	22	3.5	22	89	5	104	38	14	11	35	1.82
750892--750958	22	3.0	22	91	4	100	35	13	13	37	1.84
760254--760691	157	2.8	154	75	13	433	42	7	8	40	1.64
760411--760443	2	16.5	2	100	0	66	51	0	0	48	1.00
760707--760748	2	21.0	2	95	0	75	47	0	0	52	1.00
762100--762134	3	11.7	3	100	0	70	65	0	0	34	0.93
762630--762662	3	11.3	3	93	6	59	30	0	0	69	0.88

Tables:   1   2   3   4   5