genome.fa.s9597.2.7.7.80.10.50.1000.3.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: VEPZ01009597.1 Hibiscus syriacus cultivar Beakdansim tig00116976_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1557931

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 803 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)
420893--420985	41	2.3	41	94	0	159	40	17	24	17	1.90
420912--421046	41	3.3	41	79	6	105	39	20	21	19	1.93
420974--421088	20	5.7	20	82	2	113	32	25	18	24	1.97
420971--421102	41	3.2	41	78	2	140	35	24	16	23	1.95
421276--421319	22	2.0	22	95	0	79	20	45	15	18	1.85
421598--421640	20	2.2	20	95	0	77	9	18	18	53	1.70
422960--422995	18	2.0	18	88	0	54	25	47	13	13	1.80
423393--423458	20	3.3	20	82	2	80	40	24	21	13	1.89
423447--423504	14	3.9	14	79	16	71	48	24	17	10	1.78
423431--423521	32	2.8	33	91	3	157	47	21	18	12	1.81
423552--423674	19	6.4	19	86	3	131	14	21	24	39	1.91
423552--423674	39	3.2	38	82	4	158	14	21	24	39	1.91
425524--425559	14	2.6	14	90	0	54	30	0	22	47	1.52
425666--425738	19	4.4	16	78	21	64	49	19	19	12	1.79
425676--425724	19	2.6	19	96	0	89	51	16	18	14	1.77
425676--425731	19	2.9	18	84	5	67	51	16	19	12	1.75
425770--425819	20	2.5	20	90	0	82	16	20	26	38	1.92
426876--426929	24	2.2	24	90	0	81	24	16	20	38	1.92
429418--429544	33	3.8	33	89	4	202	42	19	22	15	1.89
429419--429551	66	2.0	66	95	0	239	41	19	21	17	1.90
429544--429586	20	2.2	20	87	4	61	13	18	25	41	1.88
429572--429605	14	2.4	14	85	0	50	8	23	20	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429727--429763	14	2.6	14	91	0	65	45	24	0	29	1.53
431161--431244	42	2.0	42	85	0	114	22	16	39	21	1.92
433246--433419	20	9.6	19	73	15	109	44	21	21	12	1.84
433271--433369	33	3.0	33	89	1	144	39	26	23	11	1.88
433246--433419	19	9.6	19	75	15	154	44	21	21	12	1.84
433341--433418	39	2.0	38	97	2	147	50	21	17	10	1.76
433426--433492	19	3.5	19	83	2	89	8	16	23	50	1.73
434008--434060	20	2.7	20	93	0	88	26	20	28	24	1.99
434069--434122	20	2.7	20	91	0	90	25	16	24	33	1.96
434009--434125	61	1.9	61	83	0	153	23	17	24	34	1.96
434009--434143	61	2.2	61	80	2	146	22	19	24	33	1.97
434193--434233	21	2.0	21	85	0	55	34	31	17	17	1.93
434792--434816	13	1.9	13	100	0	50	0	12	0	88	0.53
434837--434872	2	18.0	2	100	0	72	50	0	0	50	1.00
435816--435857	2	21.5	2	95	4	77	50	0	0	50	1.00
439139--439237	42	2.4	42	85	0	135	26	33	19	21	1.97
439765--439836	21	3.4	21	84	0	99	20	34	16	27	1.95
439826--439889	21	3.0	21	88	0	92	21	45	12	20	1.84
447587--447625	8	4.8	8	84	6	51	12	5	0	82	0.83
448728--448830	45	2.3	45	100	0	206	50	7	8	33	1.62
448755--448830	27	3.1	27	60	36	64	52	6	9	31	1.59
459838--460173	169	2.0	169	98	1	647	28	14	14	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463017--463070	26	2.0	27	89	3	83	66	5	1	25	1.23
464598--464632	12	2.8	13	86	8	54	20	48	20	11	1.79
464642--464774	28	4.6	28	72	9	106	31	5	18	45	1.71
465674--465750	31	2.5	31	78	2	82	14	25	32	27	1.94
465814--465866	25	2.1	25	89	0	79	28	7	16	47	1.74
466695--466736	3	14.3	3	95	5	77	30	0	0	69	0.89
470755--471222	110	4.3	110	90	1	712	34	21	18	25	1.96
471342--471629	84	3.5	84	78	4	332	29	26	19	24	1.99
472322--472388	33	2.0	33	94	0	116	43	17	10	28	1.82
472780--472819	14	2.9	14	84	0	62	32	0	0	67	0.91
476826--476937	35	3.2	35	88	0	170	41	23	0	34	1.61
477996--478107	35	3.2	35	85	0	152	35	1	20	41	1.63
483114--483172	29	2.0	29	96	0	109	30	10	28	30	1.90
486242--486461	83	2.6	84	82	5	257	35	20	17	25	1.95
486957--488131	197	6.1	198	86	5	1489	31	26	15	26	1.95
487521--488131	196	3.1	197	91	1	949	31	26	15	26	1.96
488757--488800	20	2.1	21	87	8	63	50	9	11	29	1.69
489732--489759	14	2.0	14	100	0	56	21	0	0	78	0.75
489751--489817	29	2.2	31	80	15	70	20	17	4	56	1.58
489778--489850	31	2.4	30	75	11	78	19	21	5	53	1.65
493022--493066	12	3.8	12	80	13	58	42	0	0	57	0.98
493939--493984	22	2.1	22	88	4	67	58	2	10	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493975--494121	69	2.1	69	80	15	162	70	2	7	19	1.24
494000--494065	28	2.3	29	82	17	93	72	1	9	16	1.17
494009--494123	28	4.0	28	74	14	92	69	0	9	20	1.21
495255--495305	3	17.7	3	76	15	54	72	0	1	25	0.95
495271--495310	14	2.7	15	88	7	55	72	2	2	22	1.09
495250--495312	19	3.2	19	80	10	72	73	1	1	23	1.01
495330--495383	16	3.7	15	83	9	67	51	5	1	40	1.36
495334--495389	14	3.7	15	81	13	53	53	5	1	39	1.34
495330--495389	30	2.0	30	84	12	79	50	6	1	41	1.39
495374--495616	36	6.6	37	81	10	250	45	6	4	43	1.49
495507--495557	26	2.0	26	92	0	84	49	7	3	39	1.51
495610--495667	29	1.9	31	82	6	75	44	12	5	37	1.64
495933--495968	15	2.4	15	90	0	54	58	2	0	38	1.13
496573--496607	2	17.5	2	87	0	52	57	0	0	42	0.99
498538--498604	15	4.4	15	73	7	55	55	1	0	43	1.09
498556--498619	23	2.8	23	83	2	67	57	1	1	39	1.17
499171--499235	27	2.4	27	81	0	76	16	32	10	40	1.84
501906--501959	29	1.9	27	85	14	74	18	12	14	53	1.72
512855--512905	2	25.0	2	90	4	75	45	3	0	50	1.20
513346--513429	23	3.7	23	88	0	114	29	28	26	15	1.96
515667--515701	2	17.5	2	100	0	70	51	48	0	0	1.00
515701--515751	2	25.5	2	100	0	102	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518453--518480	13	2.2	13	100	0	56	92	7	0	0	0.37
525741--525779	5	7.8	5	88	0	51	15	35	41	7	1.76
537666--537748	18	4.6	18	80	5	87	78	0	7	14	0.95
537678--537749	9	8.0	9	80	0	90	80	0	5	13	0.88
537678--537748	27	2.6	27	97	0	133	80	0	5	14	0.89
538922--539513	85	7.0	85	81	3	642	25	20	24	29	1.99
538919--539513	169	3.5	169	84	2	703	25	20	24	29	1.99
538983--539463	253	1.9	252	87	1	712	24	20	24	29	1.99
539626--540098	110	4.3	110	91	1	713	23	17	22	35	1.95
543845--543924	16	4.7	16	75	17	72	77	1	5	16	1.01
543813--543925	37	3.1	37	74	16	101	74	1	6	17	1.11
543858--543925	8	8.0	8	74	11	55	79	1	2	16	0.93
543846--543947	51	2.0	53	84	7	138	73	1	4	19	1.11
543972--544021	13	3.8	13	91	2	73	62	2	6	30	1.31
546265--546302	20	1.9	20	100	0	76	21	26	21	31	1.98
552100--552134	14	2.5	14	90	0	52	45	0	0	54	0.99
552064--552163	43	2.3	44	81	10	109	48	5	0	47	1.24
552574--552623	18	2.9	16	80	16	55	54	6	0	40	1.25
553620--554387	384	2.0	384	99	0	1518	37	13	11	36	1.81
557931--558012	6	13.0	6	74	14	67	43	1	2	52	1.22
557921--557999	29	2.6	30	78	9	72	40	1	2	55	1.21
557982--558020	20	2.0	19	85	5	51	46	0	7	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558397--558464	20	3.4	20	95	0	118	25	30	19	25	1.98
559317--559371	24	2.3	23	75	6	65	27	18	16	38	1.92
560130--560298	23	7.4	23	93	0	279	28	26	21	23	1.99
560284--560312	14	2.1	14	100	0	58	31	20	27	20	1.98
563358--563426	24	2.9	24	72	8	68	44	18	10	26	1.81
564135--564216	29	2.8	29	96	0	155	43	28	9	18	1.81
564224--564266	12	3.3	12	84	12	50	18	25	39	16	1.91
564216--564246	7	4.4	7	100	0	62	25	29	32	12	1.93
564244--564294	18	2.9	17	91	5	84	15	19	47	17	1.83
564309--564360	9	5.3	10	84	11	72	36	30	19	13	1.90

Tables:   1   2   3   4   5   6   7