genome.fa.s7923.2.7.7.80.10.50.1000.21.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   34   35   36   37   38   39   40   

This is table  21  of  40  ( 4704 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)
4166988--4167054	19	3.5	19	83	2	89	8	16	23	50	1.73
4167571--4167623	20	2.7	20	93	0	88	26	20	28	24	1.99
4167632--4167685	20	2.7	20	97	0	99	25	18	24	31	1.97
4167572--4167688	61	1.9	61	85	0	162	23	17	24	33	1.97
4167572--4167706	61	2.2	61	81	2	155	22	20	24	32	1.98
4167756--4167796	21	2.0	21	85	0	55	34	31	17	17	1.93
4169718--4169758	18	2.1	21	86	13	61	34	0	2	63	1.08
4173264--4173304	15	2.7	15	88	0	55	36	31	0	31	1.58
4174902--4174941	5	8.0	5	86	8	55	57	0	0	42	0.98
4174906--4174950	21	2.1	22	95	4	83	51	0	0	48	1.00
4175011--4175044	10	3.4	10	95	0	59	29	0	35	35	1.58
4180854--4180932	39	2.0	39	97	0	149	29	12	27	30	1.93
4182106--4182227	58	2.1	58	95	3	219	42	15	17	24	1.88
4186835--4186876	17	2.5	17	96	3	77	28	23	0	47	1.52
4203017--4203053	18	2.1	18	100	0	74	16	5	16	62	1.51
4206677--4206809	66	2.0	66	94	2	232	24	11	18	45	1.83
4209234--4209304	19	3.7	19	74	12	74	29	26	19	23	1.98
4217320--4217364	21	2.1	21	83	0	54	31	28	22	17	1.97
4218783--4218851	23	3.0	23	78	0	84	20	26	23	30	1.98
4219304--4219350	15	3.1	15	87	0	76	40	6	19	34	1.77
4219482--4219557	38	2.0	41	84	10	106	42	2	1	53	1.23
4219507--4219557	21	2.6	19	82	14	59	37	0	1	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4219629--4219691	23	2.7	23	77	5	63	47	1	1	49	1.20
4219667--4219704	11	3.5	11	82	10	51	52	0	0	47	1.00
4219668--4219719	22	2.6	20	77	16	54	53	1	0	44	1.11
4219679--4219740	28	2.2	28	80	11	72	48	1	0	50	1.10
4219764--4219843	31	2.5	33	78	17	89	50	0	1	48	1.08
4219793--4219836	22	2.0	23	86	4	63	54	0	0	45	0.99
4219747--4219853	52	2.0	52	82	10	128	51	0	0	46	1.13
4219946--4219980	17	2.1	17	94	0	61	57	11	14	17	1.66
4220049--4220164	42	2.8	42	91	0	178	47	16	18	18	1.83
4225507--4225595	26	3.4	26	80	10	83	68	2	19	10	1.29
4228245--4228325	24	3.5	24	70	20	75	22	24	23	29	1.99
4231057--4231144	45	1.9	46	86	2	124	28	25	17	29	1.97
4231985--4232026	21	2.0	21	90	0	66	11	9	42	35	1.74
4238225--4238293	22	3.5	19	79	16	70	30	28	18	21	1.97
4238217--4238293	38	2.0	40	84	5	104	29	29	18	22	1.97
4244087--4244180	18	4.8	19	73	12	84	30	28	20	20	1.97
4244377--4244434	24	2.5	21	75	25	55	32	20	5	41	1.75
4252158--4252822	333	2.0	334	97	0	1260	38	11	7	42	1.68
4252879--4252941	23	2.7	23	92	0	99	38	20	4	36	1.74
4253343--4253425	39	2.1	39	93	0	139	16	14	21	46	1.83
4253687--4253723	18	2.1	18	89	0	56	51	10	5	32	1.60
4253991--4254698	183	3.9	183	97	0	1301	33	16	14	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4253991--4254698	365	1.9	366	96	0	1301	33	16	14	35	1.89
4256165--4256245	3	27.0	3	75	0	72	23	34	6	35	1.80
4256169--4256257	12	7.4	12	84	0	88	21	34	7	35	1.82
4256169--4256260	18	5.1	18	77	0	76	20	34	7	36	1.81
4256181--4256257	36	2.1	36	90	0	118	20	35	9	35	1.85
4256169--4256260	6	15.3	6	79	0	67	20	34	7	36	1.81
4257406--4257434	15	1.9	15	100	0	58	34	6	37	20	1.80
4257714--4259073	197	6.9	198	97	1	2522	31	16	15	36	1.90
4257714--4259073	395	3.4	395	97	1	2518	31	16	15	36	1.90
4259192--4259240	19	2.6	19	93	0	80	57	10	2	30	1.43
4261032--4261092	32	1.9	32	89	0	95	22	47	0	29	1.52
4263424--4263470	20	2.4	19	79	10	58	19	14	10	55	1.68
4263592--4263637	20	2.3	20	89	10	76	17	17	10	54	1.70
4272321--4272391	37	1.9	37	82	5	90	45	1	1	52	1.18
4272342--4272480	73	1.9	71	86	2	197	45	5	7	42	1.53
4284895--4284993	31	3.2	29	73	12	90	32	11	7	49	1.65
4287372--4287472	30	3.4	29	79	6	121	40	8	1	48	1.46
4287498--4287523	12	2.2	12	100	0	52	42	0	0	57	0.98
4287506--4287577	30	2.4	30	80	0	90	52	0	5	41	1.24
4287641--4287708	30	2.3	30	89	5	102	47	0	11	41	1.40
4287522--4287738	119	1.8	119	80	2	265	52	2	8	36	1.45
4287689--4287744	29	1.9	30	89	7	89	62	3	3	30	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4290168--4290205	20	1.9	20	84	10	51	42	15	0	42	1.47
4290367--4290430	23	2.8	23	78	0	83	32	25	26	15	1.95
4295595--4295663	23	3.0	23	79	8	86	33	26	23	17	1.96
4297916--4297994	33	2.4	34	83	12	85	45	2	1	50	1.23
4299124--4299159	15	2.5	15	90	4	56	5	16	69	8	1.33
4299959--4300003	23	2.0	23	81	0	54	62	0	4	33	1.15
4300992--4301031	21	1.9	21	84	0	53	40	17	12	30	1.86
4301661--4301984	163	2.0	164	96	0	605	27	19	17	35	1.95
4303052--4303094	21	2.2	20	88	12	63	46	2	0	51	1.13
4305026--4305070	23	2.0	23	86	0	63	40	6	15	37	1.74
4304986--4305148	87	1.9	87	93	0	281	40	11	14	34	1.81
4308381--4308815	230	1.9	231	86	4	619	31	16	14	37	1.90
4312496--4312535	21	1.9	21	94	0	71	7	25	40	27	1.82
4312516--4312579	21	3.0	21	79	4	65	14	25	35	25	1.93
4316382--4316421	21	1.9	21	85	10	55	35	10	2	52	1.48
4319749--4319794	12	3.8	12	94	0	74	19	30	6	43	1.76
4321261--4322220	201	4.7	201	87	5	1359	31	17	14	36	1.90
4321795--4321847	21	2.5	21	100	0	106	32	16	13	37	1.88
4321594--4322220	222	2.9	222	91	5	994	31	17	14	36	1.90
4324291--4324357	33	2.0	33	88	0	98	23	44	0	31	1.54
4324386--4324429	21	2.1	21	86	0	61	15	29	11	43	1.82
4331325--4331367	21	2.0	21	82	8	52	32	4	13	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4332917--4332963	20	2.4	19	82	10	67	19	17	10	53	1.72
4338286--4338346	20	2.9	21	87	7	79	18	26	34	21	1.96
4344086--4344124	20	2.0	20	94	0	69	12	25	41	20	1.88
4344692--4345118	225	1.9	223	86	3	617	33	13	13	39	1.84
4352013--4352057	23	2.0	23	90	0	72	60	22	11	6	1.54
4361585--4361614	10	3.0	10	95	0	51	30	23	6	40	1.80
4361623--4361678	26	2.2	25	77	3	67	50	0	7	42	1.30
4361664--4361706	15	2.9	15	92	0	77	55	0	0	44	0.99
4361714--4361749	14	2.5	14	95	4	63	41	0	0	58	0.98
4361662--4361749	15	5.5	15	75	18	70	46	0	3	50	1.18
4361729--4361881	32	5.4	32	71	27	164	39	0	7	52	1.31
4361752--4361794	22	2.0	22	95	0	77	41	0	9	48	1.35
4361729--4361898	54	3.1	54	94	1	295	39	0	7	52	1.30
4361829--4361978	80	1.9	80	92	2	257	37	0	9	53	1.33
4361941--4361983	22	2.0	22	100	0	86	39	0	9	51	1.34
4362008--4362066	31	1.9	31	89	6	93	42	8	6	42	1.61
4363580--4363631	14	3.7	14	71	0	50	46	9	9	34	1.69
4363549--4363650	29	3.5	29	86	4	125	41	9	9	39	1.71
4363578--4363650	28	2.6	28	88	2	110	43	9	9	36	1.70
4363983--4364076	11	8.1	12	71	18	58	46	2	1	50	1.20
4364091--4364134	17	2.4	18	81	11	54	54	0	0	45	0.99
4364311--4364345	18	1.9	18	94	0	61	51	8	14	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4364552--4364609	30	2.0	27	83	9	71	43	1	1	53	1.21
4364666--4364723	29	2.0	29	86	6	82	44	1	0	53	1.10
4364704--4364751	21	2.3	22	79	13	57	50	0	2	47	1.12
4364759--4364826	26	2.5	27	81	11	68	44	1	1	52	1.19
4365009--4365048	19	2.2	18	86	4	53	42	0	0	57	0.98
4367932--4367966	17	2.0	17	88	5	52	42	5	2	48	1.41
4369602--4369645	22	2.0	21	91	4	70	31	6	22	38	1.81
4370198--4370251	18	2.9	19	81	10	51	31	0	7	61	1.24
4370973--4371001	2	15.0	2	92	7	51	48	0	0	51	1.00
4371083--4371157	30	2.5	30	86	2	107	21	34	9	34	1.85

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   34   35   36   37   38   39   40