genome.fa.s7921.2.7.7.80.10.50.1000.2.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: VEPZ01007921.1 Hibiscus syriacus cultivar Beakdansim tig00110325_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  892961

Tables:   1   2   3   

This is table  2  of  3  ( 345 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)
273546--273571	2	13.0	2	100	0	52	50	0	0	50	1.00
278389--278458	30	2.3	30	100	0	140	42	10	15	31	1.80
279212--279260	21	2.3	21	86	13	73	32	0	16	51	1.45
279237--279290	28	1.9	28	96	0	99	29	0	14	55	1.40
281510--281553	23	1.9	23	85	0	61	54	2	4	38	1.33
281714--281767	14	3.2	18	73	24	55	51	1	0	46	1.11
281738--281778	19	2.2	19	91	4	66	53	0	2	43	1.13
282867--282938	30	2.3	32	85	4	94	48	8	0	43	1.33
285047--285071	6	4.2	6	100	0	50	0	16	48	36	1.46
285152--285199	21	2.3	21	74	0	51	27	18	25	29	1.98
286367--286436	19	3.6	18	75	21	70	44	0	1	54	1.09
286365--286436	21	3.7	20	75	20	80	44	0	1	54	1.08
286384--286427	22	2.0	23	86	4	63	52	0	2	45	1.13
286427--286452	13	2.0	13	100	0	52	23	0	23	53	1.46
288347--288451	31	3.4	31	83	0	129	40	11	17	31	1.85
305855--305896	21	2.0	21	85	0	57	26	0	4	69	1.08
305873--305923	25	2.0	26	85	11	70	29	0	5	64	1.17
310565--310596	15	2.1	16	94	5	57	50	18	25	6	1.70
316166--316223	2	29.0	2	100	0	116	50	0	0	50	1.00
321351--321398	2	24.0	2	100	0	96	50	0	0	50	1.00
330596--330652	19	2.9	19	84	2	60	35	15	29	19	1.93
331030--331068	17	2.4	16	91	4	60	48	2	2	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338429--338564	69	2.0	69	100	0	272	24	22	32	21	1.98
342337--342406	35	2.0	35	100	0	140	37	20	14	28	1.91
342883--343269	196	2.0	196	83	5	496	39	20	14	26	1.90
348439--348491	21	2.5	21	84	0	79	28	26	22	22	1.99
348500--348636	21	6.6	21	75	12	131	20	19	25	34	1.96
348525--348661	42	3.3	42	97	2	260	20	18	24	35	1.95
348546--348657	21	5.4	21	70	17	92	20	18	23	37	1.94
349921--351584	294	5.6	294	84	6	1858	20	23	18	37	1.94
350820--350864	18	2.5	18	81	0	54	22	31	11	35	1.89
351100--351176	30	2.6	30	93	0	136	20	29	11	37	1.88
351114--351182	18	4.2	18	70	21	60	20	30	10	39	1.85
351435--351473	18	2.2	18	95	0	69	20	28	7	43	1.79
351349--351798	249	1.8	249	86	2	654	22	22	16	38	1.93
352029--352511	267	1.8	267	84	2	657	21	25	15	37	1.93
353632--353833	39	5.2	39	76	2	163	22	33	13	29	1.93
353634--353703	21	3.5	21	68	18	58	24	37	10	28	1.88
353632--353833	78	2.6	78	76	7	214	22	33	13	29	1.93
353857--354073	78	2.8	76	76	11	199	22	34	15	27	1.94
353891--353950	21	3.0	21	70	22	65	23	36	13	26	1.92
353542--354262	252	2.9	252	90	0	1093	23	33	14	28	1.94
353884--354085	39	5.2	39	83	2	235	21	33	15	28	1.95
354099--354277	39	4.6	39	82	1	171	23	32	13	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354109--354376	78	3.4	79	75	5	231	22	30	16	30	1.96
353885--354827	291	3.2	291	83	3	1001	23	32	15	28	1.95
353896--354298	213	1.9	213	82	3	506	22	33	15	27	1.94
354205--354303	39	2.5	39	85	3	128	23	35	16	25	1.95
354390--354616	39	5.9	37	74	12	147	22	33	14	29	1.94
354390--354605	78	2.8	75	79	6	186	23	32	14	29	1.94
354427--354624	39	5.1	39	82	4	238	22	32	16	28	1.95
354468--354798	174	1.9	174	82	3	416	22	32	15	29	1.94
354642--355662	39	26.4	39	70	10	271	22	31	15	29	1.95
354428--355018	291	2.0	291	90	1	934	23	32	15	29	1.95
354176--354856	252	2.7	251	87	2	925	23	31	15	29	1.95
355018--355662	78	8.3	78	72	4	386	21	31	16	29	1.95
355021--355662	117	5.5	116	71	6	377	21	31	16	29	1.95
355018--355671	156	4.2	156	76	5	534	21	32	16	29	1.95
355742--355840	39	2.5	39	81	3	110	20	30	17	32	1.95
355997--356130	39	3.4	40	81	5	157	22	26	17	33	1.96
356106--356180	39	1.9	39	83	0	96	20	36	13	30	1.91
355970--356193	78	2.9	78	75	9	215	21	29	16	32	1.95
377377--377413	19	1.9	19	88	0	56	40	0	0	59	0.97
377555--377610	29	1.9	29	89	7	87	48	0	5	46	1.25
399737--399790	22	2.4	22	81	9	65	68	7	3	20	1.30
400070--400112	22	1.9	23	85	4	61	60	9	4	25	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399458--400471	343	3.0	332	90	6	1548	43	15	9	30	1.80
400413--400455	22	1.9	23	85	4	61	60	9	4	25	1.47
401066--401091	3	8.7	3	100	0	52	65	0	0	34	0.93
409140--409168	12	2.4	12	100	0	58	51	17	0	31	1.45
409128--409168	18	2.3	18	87	8	57	48	21	0	29	1.50
411407--411453	14	3.4	14	75	16	53	23	0	25	51	1.49
412050--412099	2	26.0	2	76	8	50	48	0	0	52	1.00
412049--412098	17	3.1	17	77	16	52	50	0	0	50	1.00
412916--413003	4	22.0	4	95	0	158	48	23	0	27	1.51
414476--414533	27	2.1	28	93	3	100	48	24	5	22	1.71
414485--414541	27	2.2	26	84	9	71	50	21	3	24	1.64
433010--433049	21	1.9	21	89	0	62	30	30	5	35	1.79
442298--442328	15	2.1	15	100	0	62	29	25	0	45	1.54
451764--451817	2	27.0	2	100	0	108	50	0	0	50	1.00
454210--454252	21	2.0	21	81	0	50	30	30	25	13	1.94
454210--454381	67	2.6	67	87	3	231	27	27	26	17	1.98
454345--454382	20	1.9	20	88	0	58	23	34	31	10	1.89
454744--454802	30	2.0	30	93	0	100	38	3	23	33	1.72
455016--455061	23	2.0	23	95	4	85	19	26	28	26	1.99
455016--455069	23	2.4	23	90	3	74	20	24	25	29	1.99
461095--461137	21	2.0	21	81	0	50	30	30	25	13	1.94
461095--461267	67	2.6	67	86	4	215	27	27	27	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461634--461691	29	2.0	30	89	3	91	37	3	24	34	1.72
461644--461702	29	2.0	29	83	0	73	38	6	23	30	1.81
461903--461948	23	2.0	23	95	4	85	19	26	28	26	1.99
461903--461956	23	2.4	23	90	3	74	20	24	25	29	1.99
463588--463631	21	2.1	21	87	8	63	45	20	20	13	1.85
477815--478138	4	81.0	4	100	0	648	25	0	25	50	1.50
481439--481466	5	5.6	5	100	0	56	17	0	60	21	1.36
486400--486436	14	2.4	17	86	13	53	8	10	13	67	1.41
499496--499533	12	3.2	12	81	3	51	47	0	0	52	1.00
499478--499535	23	2.4	23	82	5	71	50	1	0	48	1.11
499524--499561	17	2.3	16	90	4	58	57	5	0	36	1.21
499545--499601	26	2.2	26	81	12	64	45	7	1	45	1.40
499940--499983	24	1.9	23	86	9	63	45	0	4	50	1.22
505947--505983	2	18.5	2	94	0	65	48	0	2	48	1.15
506520--506549	4	7.5	4	100	0	60	73	0	0	26	0.84
518550--518584	2	17.5	2	100	0	70	51	0	0	48	1.00
520176--520260	32	2.8	30	78	13	102	42	9	22	25	1.83
523074--523116	21	2.0	22	86	4	61	41	16	0	41	1.48
523464--523494	2	15.5	2	100	0	62	48	0	51	0	1.00
523496--523522	2	13.5	2	100	0	54	51	0	0	48	1.00
536615--536645	6	5.2	6	96	0	53	16	32	19	32	1.94
537093--537164	30	2.4	31	83	2	110	38	2	4	54	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543986--544071	12	7.3	11	69	19	57	52	16	11	19	1.74
543984--544088	48	2.2	47	83	8	131	53	15	11	20	1.72
543980--544077	24	4.1	24	82	5	126	53	16	10	20	1.72
547479--547524	2	23.5	2	91	4	76	47	2	0	50	1.13
550587--550699	56	2.0	56	98	0	217	38	10	20	30	1.86
551640--551723	23	3.6	23	78	1	87	34	9	5	50	1.60
556052--556210	80	2.0	80	91	0	255	37	8	15	38	1.77
567840--568127	153	1.9	153	95	0	522	24	20	17	37	1.94
571430--571477	25	1.9	25	84	16	64	62	4	0	33	1.14
579844--579885	2	21.5	2	95	4	77	47	0	0	52	1.00

Tables:   1   2   3