genome.fa.s7823.2.7.7.80.10.50.1000.19.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   31   32   
          33   

This is table  19  of  33  ( 3920 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)
3567969--3568018	19	2.6	19	90	0	82	26	12	24	38	1.90
3569497--3569548	20	2.7	20	82	8	63	32	26	13	26	1.94
3571761--3571859	52	1.9	52	93	0	171	28	29	8	34	1.86
3575701--3575743	14	3.4	14	75	24	58	46	0	0	53	1.00
3575692--3575744	24	2.2	24	100	0	106	43	0	0	56	0.99
3581339--3581382	2	22.0	2	100	0	88	50	0	0	50	1.00
3583381--3583419	20	2.0	20	94	0	69	43	15	15	25	1.86
3585545--3585693	7	21.7	7	72	19	59	40	2	6	50	1.43
3585586--3585783	23	8.2	24	74	17	146	41	2	3	53	1.28
3585598--3585762	2	90.5	2	70	23	116	43	2	2	51	1.28
3585745--3585777	10	3.7	9	88	12	50	33	0	0	66	0.92
3585586--3585783	25	8.2	24	73	18	123	41	2	3	53	1.28
3587880--3587925	6	7.8	6	80	4	58	19	2	2	76	1.00
3594973--3595006	14	2.4	14	90	0	50	47	0	5	47	1.26
3595133--3595248	21	5.6	21	69	10	60	32	27	18	21	1.96
3595255--3595428	20	8.6	20	82	7	120	34	27	18	19	1.95
3595274--3595426	40	3.8	40	88	0	216	33	26	18	21	1.96
3595236--3595428	60	3.2	60	83	5	237	35	26	18	19	1.95
3595804--3595871	32	2.1	33	91	2	111	10	23	17	48	1.78
3595949--3596021	21	3.5	21	78	9	87	46	17	20	15	1.84
3596006--3596070	14	4.3	14	73	17	58	46	21	23	9	1.80
3596002--3596081	33	2.4	33	93	0	133	47	22	20	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596077--3596205	19	7.1	19	70	18	87	10	24	18	45	1.81
3596099--3596156	14	3.7	14	73	22	53	8	24	22	44	1.80
3596082--3596205	33	3.5	33	86	12	158	10	24	18	46	1.80
3596106--3596203	20	5.2	20	70	20	93	11	24	17	46	1.80
3597623--3597842	92	2.4	91	96	3	406	22	14	18	44	1.86
3597957--3598013	14	3.7	14	72	20	51	45	24	21	8	1.80
3597943--3598062	33	3.6	33	90	1	150	49	26	15	8	1.73
3598004--3598062	19	3.4	19	75	22	74	49	30	13	6	1.68
3597988--3598051	14	4.3	14	76	19	67	50	28	15	6	1.68
3598058--3598229	19	9.6	19	77	11	150	10	20	23	45	1.82
3598080--3598135	14	3.7	14	78	17	58	10	23	23	42	1.85
3598063--3598154	32	2.8	33	91	3	159	10	21	21	45	1.82
3598683--3598742	20	3.0	20	70	4	57	25	36	18	20	1.94
3600141--3600175	14	2.6	14	90	4	54	31	0	22	45	1.53
3600266--3600352	19	4.8	19	79	17	114	47	16	22	13	1.82
3600266--3600371	52	2.0	52	96	3	196	45	16	24	13	1.83
3600361--3600621	19	14.7	19	77	17	285	14	22	17	45	1.85
3600362--3600654	72	4.2	69	76	12	260	14	22	18	45	1.85
3600367--3600635	104	2.6	103	88	4	380	13	22	17	46	1.83
3603091--3603137	24	2.0	24	87	8	69	38	21	14	25	1.92
3603818--3604003	20	9.5	19	83	6	178	21	17	25	35	1.95
3603818--3604042	40	5.7	40	78	10	196	20	17	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603823--3604003	59	3.1	60	84	5	192	22	17	25	34	1.96
3603992--3604042	20	2.6	20	87	3	68	11	19	27	41	1.86
3603855--3604042	39	4.8	38	77	9	155	19	18	26	35	1.95
3604010--3604107	21	4.8	20	75	10	81	21	19	21	37	1.94
3604010--3604108	42	2.4	43	77	11	100	21	19	22	37	1.94
3604254--3604487	7	32.1	7	73	18	162	41	1	2	53	1.24
3604261--3604484	5	42.6	5	71	21	124	41	1	3	53	1.25
3604254--3604475	12	18.2	12	73	18	151	41	1	3	53	1.25
3604363--3604488	3	42.3	3	70	19	86	39	0	2	57	1.11
3604261--3604484	27	8.1	28	71	19	127	41	1	3	53	1.25
3608562--3608793	96	2.4	95	82	7	274	36	26	9	27	1.87
3609842--3609913	36	2.0	36	100	0	144	30	27	11	30	1.91
3610375--3610444	29	2.4	29	85	2	88	27	38	21	12	1.90
3610686--3610729	20	2.3	19	80	7	54	61	0	36	2	1.09
3610845--3610884	21	1.9	21	100	0	80	27	0	15	57	1.38
3610900--3611000	43	2.4	42	81	9	107	37	0	10	50	1.44
3611039--3611118	39	2.2	37	84	13	103	43	0	10	46	1.37
3613679--3613787	24	4.5	25	76	8	93	49	15	12	22	1.78
3618520--3618607	24	3.7	24	78	3	88	47	15	12	23	1.80
3618513--3618621	48	2.3	47	84	6	130	48	15	12	22	1.79
3618513--3618619	24	4.4	25	71	11	80	48	15	12	23	1.79
3623355--3623442	24	3.7	24	78	3	88	47	15	12	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3623348--3623456	48	2.3	47	84	6	130	48	15	12	22	1.79
3623348--3623454	24	4.4	25	71	11	80	48	15	12	23	1.79
3625669--3625707	20	2.0	19	85	5	51	25	33	10	30	1.89
3627830--3627872	16	2.7	16	92	0	68	44	11	4	39	1.62
3627805--3627852	22	2.2	22	96	0	87	47	8	6	37	1.59
3627899--3627960	11	5.2	11	75	13	52	41	8	3	46	1.49
3627899--3628130	24	9.6	23	68	20	102	44	9	2	43	1.49
3627903--3628067	21	8.1	21	66	21	57	45	7	3	43	1.49
3627913--3628177	59	4.6	59	84	8	330	45	9	2	42	1.50
3628050--3628130	14	6.1	14	76	16	82	43	12	1	43	1.50
3628092--3628198	21	4.8	23	74	17	93	47	11	0	40	1.46
3628098--3628214	47	2.5	47	91	5	193	47	11	1	40	1.49
3641046--3641103	20	3.3	17	77	15	64	50	10	0	39	1.37
3641216--3641262	10	4.7	10	92	5	69	0	27	2	70	0.99
3641549--3641611	28	2.2	30	94	5	112	57	12	0	30	1.36
3641553--3641618	28	2.4	28	87	10	107	56	12	0	31	1.36
3641588--3641636	21	2.3	21	85	3	71	53	16	0	30	1.43
3641738--3641790	19	2.7	19	80	11	63	0	33	0	66	0.92
3651087--3651135	23	2.1	23	85	7	64	26	2	14	57	1.48
3657618--3657753	35	3.9	35	85	4	161	22	22	17	37	1.94
3658809--3658848	21	1.9	21	100	0	80	37	25	5	32	1.77
3660510--3660549	16	2.4	17	83	4	55	25	5	0	70	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3660472--3660549	28	2.8	28	79	14	74	28	5	1	65	1.22
3660510--3660560	21	2.3	23	80	12	63	29	3	0	66	1.09
3660617--3660679	29	2.2	29	86	11	85	25	6	0	68	1.13
3660699--3660738	2	20.0	2	94	0	71	47	0	0	52	1.00
3663027--3663093	3	22.0	3	81	3	71	61	1	0	37	1.05
3663028--3663102	12	6.2	12	76	6	53	64	1	1	33	1.11
3663250--3663300	25	2.0	26	85	11	70	21	5	5	66	1.35
3663388--3663421	14	2.5	14	90	4	52	8	17	0	73	1.08
3666681--3666721	7	6.0	7	82	5	57	24	0	2	73	0.96
3666681--3666720	20	2.0	20	90	0	62	25	0	2	72	0.97
3668546--3668590	21	2.1	21	87	0	63	37	20	17	24	1.93
3673888--3673940	10	5.4	10	86	4	63	86	1	11	0	0.64
3673888--3673940	14	3.8	14	85	7	63	86	1	11	0	0.64
3673893--3673945	12	3.9	14	81	16	51	83	1	13	1	0.82
3677099--3677141	2	21.5	2	100	0	86	48	0	0	51	1.00
3677137--3677174	16	2.4	16	86	8	51	26	2	0	71	1.00
3677145--3677232	18	5.0	16	70	24	54	18	5	1	75	1.07
3677145--3677177	8	4.2	8	96	3	59	21	0	0	78	0.75
3677455--3677505	25	2.0	26	85	11	70	21	5	5	66	1.35
3677579--3677610	14	2.3	14	100	0	64	12	0	0	87	0.54
3677574--3677633	26	2.3	26	82	0	75	11	10	0	78	0.97
3677607--3677633	14	1.9	14	100	0	54	7	18	0	74	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3684173--3684221	23	2.3	22	86	10	66	20	38	20	20	1.93
3684204--3684243	21	1.9	21	89	0	62	25	40	25	10	1.86
3691145--3691199	29	2.0	28	85	7	76	30	9	16	43	1.79
3691731--3691765	16	2.2	16	89	0	52	22	22	11	42	1.85
3691961--3691986	9	2.9	9	100	0	52	65	0	0	34	0.93
3692032--3692078	14	3.7	14	71	26	50	44	0	4	51	1.21
3692031--3692080	23	2.1	24	96	3	93	48	0	4	48	1.20
3692705--3692766	2	31.0	2	100	0	124	50	0	0	50	1.00
3693207--3693261	2	27.5	2	100	0	110	49	0	0	50	1.00
3693331--3693414	20	4.0	20	71	23	73	41	0	32	26	1.56

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   31   32   
          33