genome.fa.s7902.2.7.7.80.10.50.1000.2.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: VEPZ01007902.1 Hibiscus syriacus cultivar Beakdansim tig00110293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  611524

Tables:   1   2   3   

This is table  2  of  3  ( 300 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)
289363--289422	24	2.4	25	94	5	113	53	3	15	28	1.57
289912--289946	2	17.5	2	87	0	52	54	0	0	45	0.99
295453--295496	24	1.9	24	86	9	65	36	13	13	36	1.85
295550--295588	19	2.1	19	90	0	60	48	0	0	51	1.00
295529--295622	48	1.9	50	82	4	120	52	0	1	46	1.07
295559--295628	23	3.0	23	81	6	70	52	0	1	45	1.09
295565--295656	31	2.9	31	76	12	82	50	0	1	48	1.08
295534--295734	53	3.9	51	71	18	150	49	0	1	48	1.17
303307--303361	23	2.4	23	100	0	110	27	21	38	12	1.90
304423--304482	2	30.0	2	100	0	120	50	0	0	50	1.00
304608--304637	2	15.0	2	100	0	60	50	0	0	50	1.00
305106--305182	36	2.1	37	85	7	104	46	2	2	48	1.29
305114--305218	20	5.5	19	68	11	54	44	3	3	47	1.39
309096--309131	18	2.0	18	94	0	63	22	0	2	75	0.94
309639--309678	16	2.5	16	88	8	55	37	10	0	52	1.35
329732--330062	166	2.0	167	90	1	531	36	9	18	35	1.82
333443--333512	33	2.1	33	86	5	97	21	27	21	30	1.98
342280--342352	35	2.0	37	82	10	89	47	4	1	46	1.30
348863--349023	81	2.0	82	88	2	243	17	30	21	30	1.96
349139--349383	109	2.2	110	82	5	291	25	25	21	27	1.99
349302--349433	54	2.4	54	82	2	147	28	27	17	27	1.98
350795--350882	15	5.5	15	76	18	88	45	0	3	51	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350847--350914	14	4.5	14	74	15	64	38	0	2	58	1.13
350862--350937	32	2.4	32	93	4	127	36	0	6	56	1.25
350964--351506	32	17.7	32	70	23	332	36	0	11	51	1.38
350997--351039	22	2.0	22	90	0	68	39	0	11	48	1.40
350974--351333	54	6.8	54	77	13	345	37	0	10	51	1.37
351019--351237	80	2.9	78	83	10	283	38	0	11	49	1.40
351084--351140	18	3.4	18	69	18	59	33	0	12	54	1.38
350846--351603	208	3.5	210	85	9	924	36	0	11	52	1.39
351345--351387	22	2.0	22	100	0	86	34	0	13	51	1.42
351313--351618	54	5.6	54	81	9	359	34	0	11	52	1.41
351371--351603	80	2.8	82	88	5	328	34	0	12	52	1.42
351633--351691	31	1.9	31	92	0	100	42	10	6	40	1.65
358433--358470	3	12.7	3	100	0	76	34	0	0	65	0.93
361160--361232	29	2.4	31	81	4	87	32	9	16	41	1.81
370205--370651	223	2.0	224	96	3	823	47	23	9	19	1.78
371978--372022	19	2.2	21	84	7	58	64	2	0	33	1.06
372332--372417	30	2.8	31	77	6	88	36	6	13	43	1.72
374265--374329	30	2.3	29	84	7	80	75	3	7	13	1.14
374386--374427	3	14.3	3	90	5	68	64	0	0	35	0.94
374491--374518	14	2.0	14	100	0	56	42	0	7	50	1.30
374690--374736	16	2.9	17	78	15	55	70	2	0	27	0.99
375117--375227	37	3.0	37	92	1	179	34	11	12	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375885--376907	84	12.3	84	80	5	1094	25	18	24	30	1.98
375885--376907	165	6.2	165	82	5	1166	25	18	24	30	1.98
375885--376907	249	4.1	248	86	2	1232	25	18	24	30	1.98
378108--378303	95	2.1	94	82	3	241	32	17	15	34	1.92
387847--387880	13	2.7	13	95	4	61	50	5	11	32	1.63
388404--388515	37	3.0	37	85	0	152	33	9	10	45	1.72
390984--391114	64	2.0	64	95	0	235	30	20	6	42	1.76
401389--401431	23	1.9	22	85	4	59	46	2	6	44	1.43
402572--402657	35	2.5	35	83	7	106	32	8	11	47	1.69
403995--404083	37	2.4	36	85	3	115	31	16	2	49	1.58
410354--410440	35	2.5	34	78	12	88	55	10	6	27	1.59
411186--411255	20	3.5	20	75	11	79	28	30	18	22	1.98
413251--413318	21	3.3	21	74	12	77	19	16	26	38	1.92
413251--413339	41	2.2	41	84	8	110	22	15	24	37	1.93
413344--413380	19	1.9	19	88	0	56	21	13	29	35	1.92
419025--419106	41	2.0	41	100	0	164	36	7	29	26	1.83
419129--419161	15	2.3	15	89	5	50	48	0	12	39	1.40
420317--420429	48	2.4	48	95	0	199	47	7	6	38	1.58
420775--420817	18	2.5	17	84	3	59	65	0	2	32	1.06
421135--421183	17	2.8	17	81	3	53	53	4	0	42	1.20
428998--429022	12	2.1	12	100	0	50	44	0	0	56	0.99
435604--435647	14	3.1	14	78	12	54	25	9	25	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435633--435691	21	2.7	21	75	15	57	27	1	32	38	1.67
435685--435736	21	2.5	21	84	3	61	30	3	32	32	1.76
442192--442224	2	16.5	2	93	0	57	48	3	0	48	1.17
442705--442822	20	5.9	19	70	12	76	41	22	17	17	1.90
442768--442833	22	3.1	22	72	16	75	34	25	18	21	1.96
442882--442947	6	11.0	6	100	0	132	33	50	16	0	1.46
443422--443478	6	9.5	6	100	0	114	0	15	50	33	1.44
443475--443505	6	5.2	6	100	0	62	32	0	32	35	1.58
443629--443989	20	17.9	20	76	11	328	18	19	24	37	1.93
443626--443932	40	7.6	40	88	5	390	18	19	25	36	1.94
446573--446674	21	4.5	21	79	15	105	29	28	22	19	1.98
446598--446654	28	2.0	28	96	0	105	33	26	22	17	1.96
446577--446674	49	2.0	49	97	0	187	30	27	22	19	1.98
446683--446939	21	12.6	22	70	17	180	21	19	24	34	1.96
446708--446964	40	6.3	40	96	0	442	21	19	24	35	1.96
446729--446973	19	12.1	20	69	17	150	22	19	22	35	1.96
447627--447803	42	4.3	42	93	1	304	36	24	19	20	1.95
447624--447809	21	8.9	20	70	14	119	35	23	19	20	1.96
447627--447828	42	4.9	41	87	6	284	36	23	19	20	1.95
451196--451221	2	13.0	2	100	0	52	50	0	0	50	1.00
453840--453865	2	13.0	2	100	0	52	50	0	0	50	1.00
455480--455527	24	2.1	23	92	7	80	54	10	18	16	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458877--458944	28	2.4	28	82	4	75	29	8	22	39	1.84
459322--459377	25	2.3	24	81	6	69	42	0	1	55	1.10
465216--465401	60	3.1	57	73	15	146	32	20	6	40	1.78
465907--465978	36	2.0	36	100	0	144	16	8	5	69	1.33
470453--470500	24	2.0	25	84	12	64	22	20	8	47	1.77
471637--471684	19	2.6	18	90	6	78	77	8	10	4	1.12
472286--472362	22	3.5	22	84	7	111	41	24	10	23	1.85
472747--472800	19	3.1	19	70	22	55	20	11	33	35	1.88
473092--473229	37	3.8	36	83	6	154	26	19	14	39	1.90
473230--474292	106	10.0	106	90	0	1599	33	25	18	22	1.96
475193--475236	21	2.0	22	82	4	54	56	22	18	2	1.52
475542--475574	2	16.5	2	100	0	66	48	0	0	51	1.00
487217--487298	29	2.8	29	94	1	137	32	14	9	42	1.79
489371--489413	22	1.9	23	90	4	70	39	11	13	34	1.82
490089--490122	2	17.5	2	93	6	61	47	0	0	52	1.00
494704--494817	31	3.8	31	75	17	89	47	0	0	50	1.13
494712--494755	22	2.0	23	86	4	63	45	0	0	54	0.99
494721--494823	54	1.9	52	84	11	138	48	0	0	49	1.14
494718--494843	29	4.8	26	68	22	68	46	0	0	52	1.11
494831--494883	20	2.7	19	73	18	54	49	0	1	49	1.12
494878--494922	23	2.0	23	86	0	63	53	2	2	42	1.25
495029--495099	20	3.4	21	75	13	58	43	0	2	53	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495269--495320	15	3.5	15	79	10	61	38	15	3	42	1.65
495254--495324	30	2.4	30	90	2	108	33	15	4	46	1.65
497005--497056	19	2.7	19	81	0	68	36	5	0	57	1.23
497531--497556	11	2.4	11	100	0	52	61	0	0	38	0.96
506337--506375	2	19.5	2	100	0	78	51	0	0	48	1.00
508939--509010	36	2.0	36	86	8	101	44	0	0	55	0.99
511721--511861	69	2.0	70	89	4	214	21	13	26	38	1.90
513116--513198	2	41.5	2	92	4	141	51	0	1	46	1.08
515217--515250	2	17.0	2	100	0	68	50	0	0	50	1.00
516746--516801	23	2.4	24	84	6	78	62	3	0	33	1.12

Tables:   1   2   3