genome.fa.s8209.2.7.7.80.10.50.1000.26.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  26  of  30  ( 3569 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)
5701503--5701559	14	4.1	14	83	0	69	57	14	12	15	1.65
5707726--5707752	14	1.9	14	100	0	54	70	0	0	29	0.88
5707721--5707753	17	2.0	16	94	5	57	69	0	0	30	0.88
5711571--5711660	35	2.7	34	88	6	130	42	8	4	44	1.56
5711586--5711772	93	2.0	93	96	3	349	34	9	8	47	1.67
5712765--5713176	49	8.2	49	78	8	373	33	14	23	29	1.93
5712752--5713162	98	4.1	98	81	8	450	33	13	23	29	1.93
5712948--5713067	61	2.0	60	91	1	195	35	11	24	29	1.91
5712914--5713111	109	1.8	110	85	2	281	32	13	23	30	1.93
5712850--5713159	158	2.0	158	90	1	487	33	13	22	30	1.93
5713008--5713197	97	1.9	98	84	5	251	34	14	22	28	1.94
5717182--5717229	24	2.0	25	83	4	62	20	18	25	35	1.95
5723902--5724300	156	2.5	156	86	4	521	28	19	6	45	1.76
5725835--5725967	63	2.1	63	98	0	257	27	10	27	35	1.89
5732586--5732708	25	4.8	25	70	22	76	75	9	4	10	1.16
5732649--5732680	10	3.4	10	87	12	50	75	15	0	9	1.05
5732632--5732685	23	2.3	23	77	0	63	75	11	1	11	1.11
5733051--5733145	21	4.6	21	76	7	95	22	17	27	32	1.96
5733072--5733168	41	2.4	41	91	5	169	18	19	26	35	1.95
5733093--5733165	20	3.6	19	70	12	65	15	21	26	36	1.93
5733299--5733333	6	6.2	6	90	9	56	34	48	17	0	1.47
5733821--5733880	6	10.5	6	94	1	90	1	16	51	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5733958--5734056	22	4.5	22	70	10	78	37	24	19	19	1.94
5733997--5734076	41	1.9	42	92	5	135	38	21	23	16	1.92
5734048--5734165	20	5.8	20	84	2	110	38	23	21	16	1.93
5734014--5734159	61	2.4	62	86	5	190	36	23	21	17	1.94
5734088--5734141	21	2.6	21	96	0	99	27	29	18	24	1.98
5734014--5734159	41	3.6	40	73	9	134	36	23	21	17	1.94
5736154--5736557	121	3.3	120	82	3	506	24	16	25	33	1.96
5736154--5736604	240	1.9	242	83	5	599	24	17	24	33	1.96
5737459--5737489	11	2.7	11	95	5	53	0	12	6	80	0.89
5741456--5741527	3	24.3	3	97	2	137	33	0	0	66	0.92
5742680--5742707	2	14.0	2	100	0	56	50	0	0	50	1.00
5743595--5743626	16	2.1	15	94	5	55	21	0	0	78	0.76
5744626--5744681	22	2.5	22	81	16	62	23	5	8	62	1.45
5752632--5752750	40	2.9	39	70	17	109	38	27	13	20	1.90
5752651--5753501	137	6.2	137	91	1	1284	33	26	16	23	1.95
5752928--5753028	40	2.4	41	81	4	114	33	29	16	19	1.94
5753660--5753749	3	29.7	3	93	6	155	34	0	0	65	0.93
5761201--5761237	13	2.9	13	92	4	58	16	16	37	29	1.90
5761785--5761883	16	6.1	16	68	15	60	76	6	4	13	1.11
5761827--5761877	20	2.7	20	77	17	54	80	7	1	9	0.98
5761827--5761887	29	2.1	30	87	3	88	80	8	1	9	0.98
5761923--5761979	17	3.3	17	81	18	57	78	1	5	14	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5761938--5761969	10	3.2	10	90	0	55	87	0	3	9	0.64
5761936--5761984	17	2.8	18	82	17	59	79	2	4	14	0.97
5762054--5762087	2	17.0	2	93	0	59	47	0	0	52	1.00
5762103--5762140	10	3.9	10	89	6	51	73	0	2	23	0.95
5762101--5762143	15	2.8	15	85	3	59	74	0	2	23	0.93
5764876--5764955	21	3.8	21	91	0	124	21	41	30	7	1.80
5770255--5770299	20	2.2	20	88	4	63	15	11	20	53	1.72
5770264--5770308	20	2.2	20	88	0	63	17	8	20	53	1.70
5775989--5776022	18	1.9	17	88	5	50	23	0	2	73	0.97
5784413--5784482	23	3.1	22	79	6	77	44	17	24	14	1.85
5784421--5784487	23	2.9	23	82	4	82	43	17	23	14	1.87
5785815--5785870	21	2.6	22	83	8	62	46	1	0	51	1.11
5785829--5785904	31	2.4	32	78	17	86	47	1	0	51	1.09
5785868--5785917	23	2.2	23	89	3	75	50	4	2	44	1.32
5785995--5786063	19	3.6	18	71	21	52	49	1	1	47	1.19
5785958--5786043	27	3.1	27	71	18	70	47	1	2	48	1.22
5786058--5786102	23	2.0	23	81	0	54	55	2	2	40	1.24
5786208--5786295	24	3.3	27	70	22	71	46	0	4	48	1.22
5786238--5786279	22	1.9	22	85	9	59	52	0	2	45	1.13
5786215--5786281	25	2.7	26	77	15	79	50	0	2	46	1.16
5788314--5788805	246	2.0	246	88	3	740	37	14	16	31	1.89
5799057--5799100	21	2.1	21	83	8	54	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5803468--5803501	5	6.8	5	100	0	68	79	0	0	20	0.73
5805490--5805530	21	2.0	21	90	0	64	36	29	14	19	1.92
5814119--5814145	6	4.5	6	100	0	54	51	0	0	48	1.00
5814218--5814243	11	2.4	11	100	0	52	30	7	0	61	1.24
5815130--5815198	31	2.2	31	82	5	86	50	10	10	28	1.68
5815354--5815673	159	2.0	160	99	0	633	39	13	7	39	1.73
5818034--5818061	3	9.3	3	100	0	56	32	0	0	67	0.91
5827363--5827404	2	21.5	2	80	4	50	50	0	0	50	1.00
5827510--5827548	19	2.1	19	90	0	60	25	10	33	30	1.89
5835082--5835156	30	2.4	30	84	4	96	25	4	12	58	1.51
5835270--5835329	31	1.9	31	93	0	102	25	11	10	53	1.68
5837134--5837172	15	2.6	15	91	0	60	48	2	48	0	1.15
5839623--5839668	18	2.6	18	93	3	76	39	6	26	28	1.81
5840047--5840518	225	2.1	228	89	3	738	41	18	12	28	1.86
5840875--5840923	15	3.3	15	77	5	55	48	2	4	44	1.33
5840853--5840930	29	2.7	29	86	7	97	47	1	5	46	1.33
5840929--5840963	14	2.5	14	90	0	52	37	2	5	54	1.39
5841197--5841258	30	2.2	27	83	13	72	48	3	1	46	1.28
5841219--5841261	19	2.3	19	84	8	52	53	2	0	44	1.13
5841238--5841308	24	3.2	22	73	11	65	52	1	0	46	1.09
5849490--5849545	2	28.5	2	89	10	89	50	1	0	48	1.11
5850950--5850998	18	2.6	18	90	9	71	18	8	0	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5850934--5850994	31	1.9	33	83	12	83	21	9	0	68	1.18
5851005--5851047	22	1.9	23	85	4	61	16	13	16	53	1.73
5852113--5852162	21	2.4	21	96	0	91	46	4	12	38	1.60
5856993--5857031	16	2.4	16	100	0	78	33	35	12	17	1.88
5860077--5860268	56	3.4	55	84	3	249	39	16	16	27	1.90
5861346--5861545	56	3.6	56	86	2	276	39	16	18	26	1.91
5862625--5862807	56	3.3	56	87	0	269	40	15	15	28	1.88
5864113--5864150	19	2.0	20	84	5	51	60	5	2	31	1.33
5868802--5869921	106	11.1	105	86	9	1570	22	17	25	34	1.96
5869088--5869243	43	3.4	43	69	13	141	21	18	25	34	1.96
5869052--5869921	94	8.8	94	86	9	1182	22	17	25	34	1.96
5868946--5869921	200	4.9	200	97	0	1723	22	17	25	34	1.96
5869288--5869443	43	3.4	43	69	13	141	20	18	26	34	1.96
5869488--5869643	43	3.4	43	69	16	143	21	17	25	34	1.96
5868802--5869921	400	2.8	400	93	3	1826	22	17	25	34	1.96
5877056--5877086	16	1.9	16	100	0	62	6	12	22	58	1.58
5877309--5877333	2	12.5	2	100	0	50	52	0	0	48	1.00
5885119--5885149	15	2.0	16	93	6	55	51	25	9	12	1.70
5888015--5888055	21	1.9	22	85	5	57	43	9	2	43	1.50
5897278--5897366	19	4.6	20	83	9	94	31	17	12	38	1.87
5899469--5899542	19	3.6	19	66	22	51	21	2	20	55	1.56
5899437--5899565	43	3.0	42	87	4	177	20	3	22	53	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5901541--5901674	20	6.7	20	85	1	124	31	26	17	25	1.97
5901538--5901654	61	1.9	61	85	0	162	34	24	17	23	1.96
5902194--5902260	19	3.5	19	83	2	89	50	23	16	8	1.73
5902256--5902459	19	11.1	19	78	13	203	11	21	22	44	1.84
5902256--5902459	58	3.7	57	77	15	194	11	21	22	44	1.84
5902347--5902434	33	2.6	33	92	1	140	11	25	25	38	1.89
5902402--5902459	20	2.9	20	80	10	64	13	24	18	43	1.87
5904387--5904509	42	2.9	42	80	2	122	22	36	17	22	1.95
5904443--5904509	21	3.2	21	66	6	55	23	35	20	19	1.95
5905866--5905901	14	2.6	14	95	0	63	30	0	25	44	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30