genome.fa.s8282.2.7.7.80.10.50.1000.3.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: VEPZ01008282.1 Hibiscus syriacus cultivar Beakdansim tig00110944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1335609

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 878 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)
392612--392744	62	2.1	62	98	0	257	21	18	20	39	1.92
392751--392803	21	2.5	22	81	6	74	33	18	26	20	1.96
393342--393375	14	2.4	14	85	0	50	26	5	29	38	1.80
394024--394112	29	3.1	29	98	0	169	14	31	35	17	1.91
394158--394336	15	11.1	15	73	16	144	21	7	53	17	1.69
394145--394271	65	1.9	66	95	3	229	23	9	50	16	1.74
394150--394363	50	4.3	48	82	12	220	21	8	52	17	1.71
394148--394340	65	3.0	64	82	11	214	22	8	52	17	1.71
394160--394335	82	2.2	82	83	5	223	21	7	52	17	1.70
394223--394363	50	2.8	51	93	5	245	20	7	53	18	1.69
394820--394863	21	2.1	21	91	0	70	29	0	15	54	1.42
394840--394902	28	2.2	30	91	5	103	31	0	11	57	1.34
398568--398616	22	2.4	19	80	12	53	44	2	4	48	1.33
398643--398739	26	4.2	22	83	11	83	46	3	7	43	1.47
398778--399043	98	2.7	98	97	1	489	42	2	10	43	1.52
398575--399167	124	4.8	123	93	4	752	43	2	10	43	1.52
398655--399366	222	3.2	222	98	0	1356	42	2	10	43	1.52
398876--399374	124	4.0	122	85	10	531	42	2	10	44	1.53
398902--399265	98	3.7	98	88	6	474	42	2	10	43	1.54
399574--399606	17	1.9	17	93	0	57	36	6	12	45	1.66
399520--399599	24	3.3	23	71	21	67	38	3	8	48	1.52
401840--401917	33	2.5	33	84	10	94	48	15	0	35	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401958--402045	42	2.0	42	84	10	113	44	12	0	43	1.42
402242--402307	4	16.5	4	75	9	55	3	33	0	63	1.10
402232--402307	25	2.9	25	90	5	107	3	35	0	60	1.15
402369--402420	25	2.1	25	92	0	86	28	32	9	28	1.89
402541--402587	23	2.0	23	95	0	85	19	8	46	25	1.77
402602--402698	29	3.3	29	92	2	151	22	29	31	15	1.95
402693--402780	43	2.0	43	97	0	167	21	35	22	20	1.96
402764--402819	26	2.2	26	100	0	112	17	25	37	19	1.94
402806--402893	35	2.5	35	100	0	176	18	20	34	27	1.96
402927--403005	35	2.3	35	100	0	158	18	20	34	26	1.96
403249--403334	33	2.6	33	100	0	172	12	22	33	31	1.91
406026--406059	16	2.2	16	89	5	52	76	5	5	11	1.14
406013--406082	24	2.8	25	77	12	65	75	2	5	15	1.11
406702--406858	36	4.3	35	78	13	158	56	4	14	25	1.57
406713--406880	76	2.2	76	91	2	275	51	4	16	27	1.63
406988--407014	14	1.9	14	100	0	54	81	0	0	18	0.69
406916--407231	119	2.6	120	86	6	424	47	15	14	23	1.81
407254--407316	29	2.2	29	80	5	74	53	3	12	30	1.54
408370--408668	122	2.5	122	83	3	352	27	13	24	35	1.92
408494--409628	220	5.2	220	87	1	1547	25	15	26	32	1.95
409559--409649	43	2.2	41	78	5	94	19	18	27	34	1.96
409539--409816	140	2.0	139	82	3	335	23	16	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413293--413330	16	2.4	16	95	0	67	2	18	2	76	1.02
413261--413323	20	3.0	20	72	11	56	3	23	3	69	1.17
413312--413369	23	2.5	23	76	20	75	3	15	5	75	1.11
413321--413364	11	3.9	11	77	16	54	0	13	6	79	0.92
413293--413370	16	4.7	15	73	14	57	2	16	6	74	1.14
417512--417575	16	3.9	16	83	10	67	76	3	1	18	1.00
417961--417992	15	2.1	15	94	0	55	53	25	6	15	1.65
418190--418313	40	3.2	40	76	13	134	51	4	14	29	1.60
418190--418354	74	2.2	75	90	1	251	52	3	14	30	1.57
418729--418785	29	2.0	29	92	0	96	47	1	19	31	1.60
418731--418794	29	2.2	29	86	5	85	46	3	17	32	1.63
418741--418803	29	2.2	29	82	5	74	52	3	12	31	1.55
432546--432584	16	2.4	16	87	12	53	33	7	0	58	1.26
462342--462381	16	2.5	16	100	0	80	22	10	22	45	1.82
464754--464780	4	6.8	4	100	0	54	25	0	0	74	0.83
466156--466210	22	2.5	21	77	13	58	30	1	1	65	1.13
467147--467185	16	2.4	16	87	12	53	33	7	0	58	1.26
485010--485038	14	2.1	14	93	6	51	13	31	10	44	1.78
496222--496259	8	4.9	8	87	6	60	60	13	15	10	1.59
503640--503698	23	2.6	24	78	10	70	61	0	0	38	0.96
504750--504783	16	2.1	16	100	0	68	32	5	50	11	1.63
504750--504799	16	2.9	16	88	8	55	34	6	50	10	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514286--514337	27	1.9	27	84	7	70	65	7	0	26	1.20
515082--515119	3	12.7	3	88	0	58	68	26	0	5	1.11
515082--515119	12	3.2	12	96	0	67	68	26	0	5	1.11
516456--516533	40	2.0	39	82	9	97	20	17	3	57	1.55
516973--517574	309	1.9	313	98	1	1176	28	15	21	35	1.94
521661--521714	23	2.4	25	76	20	64	68	0	12	18	1.21
521711--521743	14	2.4	14	90	10	50	72	6	0	21	1.05
522138--522174	2	19.5	2	89	10	60	45	0	0	54	1.00
522218--522242	2	12.5	2	100	0	50	48	0	0	52	1.00
522270--522333	16	4.0	17	72	27	68	34	1	1	62	1.14
522336--522368	16	2.1	16	94	0	57	12	9	0	78	0.95
522257--522438	14	11.6	15	67	19	52	24	4	2	67	1.24
533177--533201	11	2.3	11	100	0	50	92	0	8	0	0.40
534086--534455	105	3.5	105	91	2	564	36	24	17	21	1.94
535802--535834	12	2.8	12	95	0	57	9	30	39	21	1.84
536074--536126	27	2.1	26	83	13	67	26	1	1	69	1.09
536015--536134	23	5.3	22	70	21	70	25	3	2	69	1.16
536080--536134	11	4.9	11	75	20	60	25	0	1	72	0.94
536080--536149	24	3.0	24	80	10	67	21	4	2	71	1.16
536253--536307	23	2.3	24	81	9	67	32	5	1	60	1.30
536547--536582	15	2.5	15	90	4	56	25	0	2	72	0.98
538786--538927	41	3.5	40	70	15	119	29	19	16	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538766--538962	82	2.4	82	86	0	252	29	16	18	35	1.93
539001--539193	41	4.7	42	80	5	202	30	19	17	33	1.94
542818--543251	43	10.2	42	75	11	319	26	20	17	36	1.94
542818--543240	85	5.0	86	74	10	253	26	20	17	36	1.94
543753--544135	55	6.9	55	87	0	505	34	16	17	31	1.92
547120--547244	65	1.9	64	84	10	166	72	3	3	20	1.12
547171--547260	27	3.4	27	75	13	82	70	3	1	25	1.10
547709--547735	2	13.5	2	100	0	54	51	0	0	48	1.00
547744--547790	11	4.2	11	86	5	58	68	4	6	21	1.30
548665--548723	20	2.9	21	87	7	86	20	27	22	30	1.98
548665--548732	10	7.0	9	76	15	64	19	26	23	30	1.98
548685--548759	29	2.6	29	91	2	114	18	28	26	26	1.98
548674--548731	20	2.9	20	89	5	82	18	27	24	29	1.98
548666--548759	9	9.6	10	75	19	65	18	27	25	28	1.98
554702--555324	307	2.0	307	99	0	1228	29	14	24	30	1.95
556225--556301	10	8.1	10	67	24	51	15	25	29	28	1.96
556225--556299	19	3.9	19	84	5	98	16	24	30	29	1.96
558456--558560	37	2.8	37	88	0	156	30	15	14	40	1.87
559290--561287	106	18.9	106	89	1	2855	23	18	23	34	1.96
561998--562072	22	3.5	22	83	3	100	22	14	26	36	1.93
562664--562737	15	4.9	14	71	27	55	1	13	6	78	1.01
562666--562704	20	1.9	20	89	5	60	2	10	7	79	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562666--562738	22	3.3	21	73	19	60	1	12	8	78	1.03
562672--562731	26	2.3	26	83	11	70	1	15	5	78	1.00
562675--562739	22	2.8	23	75	15	64	1	13	7	76	1.06
566109--566146	19	2.0	20	89	5	60	68	0	23	7	1.16
567246--567339	27	3.3	28	69	19	79	71	3	9	15	1.25
567386--567438	23	2.3	23	86	0	70	66	0	0	33	0.92
567490--567522	2	16.5	2	100	0	66	51	0	0	48	1.00
567726--567791	11	6.1	11	75	10	55	74	0	6	19	1.03
567919--567948	12	2.6	11	94	5	51	63	6	6	23	1.43
567960--568014	25	2.2	26	87	12	80	69	0	0	30	0.89

Tables:   1   2   3   4   5   6   7   8