genome.fa.s7748.2.7.7.80.10.50.1000.23.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  23  of  24  ( 2778 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)
4372325--4372390	33	2.0	33	90	0	105	22	48	0	28	1.51
4372422--4372465	21	2.1	21	91	0	70	15	31	11	40	1.83
4374497--4374545	24	2.0	24	84	7	64	26	6	16	51	1.68
4374674--4375075	182	2.2	181	88	1	590	26	16	14	42	1.86
4375144--4375624	227	2.1	228	96	1	885	39	7	7	45	1.61
4377445--4377488	20	2.4	18	88	11	63	27	31	6	34	1.83
4379265--4379344	31	2.6	31	72	16	78	31	12	10	46	1.75
4381515--4381562	18	2.6	18	80	3	51	47	16	0	35	1.47
4381672--4381714	23	1.9	23	86	13	63	37	4	0	58	1.19
4381696--4381810	27	4.3	26	73	16	101	57	1	0	40	1.15
4381699--4381778	24	3.2	23	73	21	72	58	1	0	40	1.06
4381729--4381802	27	2.6	28	89	6	114	58	2	1	37	1.21
4381730--4381825	32	3.2	30	79	17	85	56	2	2	39	1.23
4381716--4381829	27	4.0	28	81	12	106	57	1	1	38	1.19
4381827--4381909	30	2.8	30	76	7	87	49	1	12	37	1.48
4381896--4381963	31	2.2	29	80	12	82	61	0	7	30	1.23
4381908--4382248	29	11.9	29	77	7	196	54	0	7	37	1.35
4381928--4382248	58	5.6	57	74	11	264	52	0	7	38	1.36
4381908--4382293	197	1.9	199	90	3	609	53	0	7	37	1.35
4382119--4382276	58	2.8	57	80	6	142	55	0	5	38	1.29
4383394--4383463	24	3.0	23	79	8	79	32	25	22	18	1.97
4384561--4384608	21	2.3	21	92	0	78	25	31	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4385302--4385350	21	2.3	22	92	3	82	28	30	4	36	1.76
4385761--4385815	17	3.2	17	92	0	83	45	0	52	1	1.11
4386052--4386113	20	3.0	20	73	19	65	50	0	1	48	1.10
4387036--4387063	2	14.0	2	100	0	56	50	0	0	50	1.00
4394726--4394760	17	2.1	17	94	0	61	34	11	25	28	1.91
4395772--4395841	30	2.3	30	100	0	140	34	17	10	38	1.83
4397083--4397151	34	2.1	33	83	2	84	34	15	24	24	1.95
4399788--4399844	21	3.1	17	75	24	53	31	10	8	49	1.68
4399805--4399845	21	2.0	21	95	0	73	29	12	7	51	1.66
4401368--4401428	22	2.8	22	85	11	74	55	0	1	42	1.09
4401560--4401632	35	2.1	34	85	7	94	56	1	4	38	1.27
4401576--4401644	17	4.0	17	70	10	59	59	1	2	36	1.21
4401661--4401694	10	3.2	10	91	8	50	64	0	0	35	0.94
4412726--4412838	59	1.9	60	81	5	140	38	7	11	42	1.68
4422554--4422596	14	2.9	15	82	6	61	60	4	0	34	1.17
4422628--4422697	34	2.1	32	84	5	86	60	0	7	32	1.24
4423428--4423472	2	22.5	2	100	0	90	48	0	0	51	1.00
4424972--4425026	18	3.1	18	76	7	58	29	18	14	38	1.90
4424981--4425030	18	2.8	18	90	0	73	32	18	16	34	1.92
4434548--4434603	22	2.5	21	80	13	51	62	3	5	28	1.34
4438567--4438649	19	4.4	19	79	10	82	13	16	21	48	1.81
4438696--4439044	175	2.0	174	94	4	616	32	12	12	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440599--4440647	20	2.5	20	89	0	71	34	26	20	18	1.95
4440639--4440714	33	2.3	34	88	2	109	44	19	22	13	1.85
4440681--4440718	20	1.9	20	88	0	58	47	18	23	10	1.79
4440723--4440759	19	1.9	19	88	0	56	8	16	24	51	1.71
4440789--4440836	20	2.4	20	100	0	96	14	18	27	39	1.90
4440803--4440865	20	3.2	20	88	0	81	14	14	23	47	1.80
4441350--4441461	42	2.7	42	83	2	118	22	36	18	22	1.95
4441347--4441461	21	5.5	21	71	4	88	21	36	19	22	1.95
4442974--4443012	12	3.2	12	85	0	51	17	0	25	56	1.41
4442977--4443011	18	1.9	18	94	0	61	20	0	22	57	1.41
4445031--4445067	14	2.6	14	91	4	56	5	21	21	51	1.68
4446108--4446172	20	3.2	20	75	12	69	23	16	29	30	1.96
4446233--4446755	262	2.0	262	95	2	955	33	13	18	34	1.90
4448182--4448219	19	2.0	19	89	0	58	39	15	10	34	1.82
4453370--4453410	8	5.2	8	82	5	57	34	0	29	36	1.58
4453481--4454222	124	5.9	127	88	6	1070	23	24	19	32	1.98
4453480--4454222	256	3.0	254	87	7	1076	23	24	19	32	1.97
4453481--4454222	380	2.0	377	93	4	1280	23	24	19	32	1.98
4454614--4454710	32	3.0	31	76	11	97	37	2	4	56	1.30
4455218--4455309	20	4.5	21	85	9	118	18	28	35	17	1.93
4455218--4455309	41	2.2	41	88	3	132	18	28	35	17	1.93
4455311--4455361	21	2.4	21	83	0	66	25	11	37	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4459288--4459344	21	2.6	22	81	8	73	24	22	14	38	1.91
4459350--4459504	20	7.7	20	84	4	159	30	25	18	24	1.98
4459347--4459463	61	1.9	61	91	0	189	34	26	17	21	1.96
4460050--4460125	20	3.8	20	96	0	125	40	25	19	14	1.89
4460031--4460137	40	3.0	34	75	15	106	39	24	22	14	1.91
4460152--4460197	19	2.4	19	100	0	92	15	19	17	47	1.82
4462178--4462226	21	2.3	21	79	6	64	22	24	18	34	1.96
4462253--4462384	41	3.2	41	77	6	142	35	23	15	25	1.94
4462300--4462370	20	3.5	20	92	0	115	28	26	19	25	1.99
4462838--4462896	20	3.0	20	87	0	73	15	18	22	44	1.87
4464181--4464213	17	1.9	17	100	0	66	24	48	12	15	1.78
4464392--4464717	161	2.0	163	95	4	599	25	17	28	29	1.97
4464929--4464973	20	2.3	20	80	3	56	42	20	20	17	1.90
4464985--4465040	20	2.8	19	82	15	69	14	23	23	39	1.91
4465427--4465479	21	2.5	21	75	6	63	22	26	16	33	1.96
4465488--4465642	20	7.7	20	85	1	157	29	27	18	25	1.98
4466356--4466409	24	2.2	24	90	0	81	22	16	20	40	1.91
4468885--4468939	20	2.8	20	80	2	58	40	20	20	20	1.92
4468930--4469016	14	5.6	14	71	21	66	44	19	24	11	1.83
4468912--4469037	33	3.8	33	92	2	209	45	18	23	12	1.84
4468912--4469037	65	1.9	66	91	1	209	45	18	23	12	1.84
4469037--4469101	19	3.4	19	89	0	103	15	13	24	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4469071--4469164	33	2.8	33	85	3	127	11	19	22	46	1.81
4469271--4469307	14	2.6	14	91	0	65	45	21	0	32	1.52
4470683--4470762	42	1.9	42	84	0	106	22	16	38	22	1.92
4471163--4471252	19	4.9	19	75	15	82	46	20	21	12	1.82
4471219--4471258	19	2.1	19	90	0	62	50	25	17	7	1.72
4471254--4471280	12	2.2	12	100	0	54	74	18	7	0	1.05
4471356--4471715	94	4.0	94	83	11	484	47	18	12	21	1.82
4471468--4471641	83	2.1	82	95	1	312	45	18	13	22	1.84
4471374--4471715	177	2.0	173	90	4	535	46	17	12	22	1.82
4473397--4473529	52	2.5	53	85	2	178	43	20	21	14	1.87
4473389--4473529	19	7.8	19	71	17	104	44	19	21	13	1.85
4474140--4474253	20	5.7	20	84	2	156	21	20	18	40	1.92
4474142--4474268	41	3.1	40	80	7	157	23	19	18	38	1.93
4474243--4474352	41	2.6	42	84	4	143	43	19	18	19	1.88
4474243--4474357	21	5.5	21	75	6	108	42	19	19	19	1.89
4474250--4474355	42	2.6	41	87	1	149	44	18	18	17	1.87
4475925--4475982	20	2.9	20	89	0	89	37	6	27	27	1.82
4478200--4478248	24	2.0	24	84	7	64	34	38	10	16	1.82
4479801--4479855	19	2.8	20	72	10	60	41	3	0	54	1.18
4480901--4480928	2	14.0	2	100	0	56	50	0	0	50	1.00
4482516--4482543	3	9.3	3	100	0	56	64	0	0	35	0.94
4483132--4483256	36	3.7	36	67	14	102	37	15	17	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4483133--4483463	67	5.0	66	88	2	407	39	11	15	33	1.83
4483349--4483457	36	3.2	36	65	17	95	43	11	14	30	1.82
4483410--4483602	104	1.9	102	80	8	230	40	9	13	35	1.78
4492788--4492826	18	2.2	18	85	0	51	43	25	28	2	1.68
4495047--4495095	23	2.1	23	100	0	98	34	12	26	26	1.92
4496616--4496666	23	2.3	22	82	3	66	58	1	1	37	1.20
4496585--4496677	20	4.6	20	69	16	66	55	1	2	40	1.19
4508440--4508475	2	18.0	2	100	0	72	50	0	0	50	1.00
4510985--4511028	24	1.9	24	86	9	65	36	6	2	54	1.40
4513237--4513265	14	2.0	15	93	6	51	13	27	31	27	1.94

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