genome.fa.s8624.2.7.7.80.10.50.1000.3.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: VEPZ01008624.1 Hibiscus syriacus cultivar Beakdansim tig00111587_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  642794

Tables:   1   2   3   4   

This is table  3  of  4  ( 420 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)
360292--360325	2	17.0	2	100	0	68	50	0	0	50	1.00
364416--364460	21	2.1	21	87	0	63	31	28	24	15	1.96
365291--365386	32	3.0	32	78	14	117	30	16	18	34	1.93
365297--365385	31	2.8	31	78	8	99	31	15	20	32	1.94
365378--365469	29	3.1	30	92	4	152	20	22	26	30	1.98
366717--366757	20	2.0	20	100	0	82	34	9	19	36	1.85
367226--367263	16	2.5	15	84	12	51	65	0	5	28	1.14
367431--367493	21	3.0	21	93	2	101	25	19	25	30	1.98
367483--367535	20	2.7	20	84	0	70	22	15	22	39	1.91
367541--367607	20	3.3	20	87	0	89	23	14	23	37	1.93
367604--367649	21	2.2	21	96	0	83	36	17	26	19	1.94
367819--367845	13	2.1	13	100	0	54	37	25	14	22	1.93
370750--370783	16	2.1	16	94	0	59	50	8	8	32	1.64
372495--372535	20	2.0	20	100	0	82	34	9	17	39	1.82
372639--372679	20	2.0	20	100	0	82	34	9	17	39	1.82
372431--372718	144	2.0	143	99	0	567	42	13	16	28	1.86
372956--373001	20	2.3	19	78	10	56	54	10	15	19	1.70
375216--375280	21	3.1	21	93	0	103	43	10	30	15	1.81
376578--376610	4	8.2	4	100	0	66	24	0	27	48	1.51
377449--378418	200	4.8	200	91	1	1471	37	15	15	32	1.89
377460--378418	401	2.4	401	90	0	1499	37	15	15	32	1.89
384186--384894	200	3.5	196	79	8	691	38	13	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384996--385040	23	2.0	23	86	0	63	40	20	4	35	1.72
384912--385074	87	1.9	87	92	0	272	33	14	10	41	1.80
385093--385140	16	2.7	18	75	18	55	33	22	6	37	1.80
387355--387396	2	21.0	2	100	0	84	50	0	0	50	1.00
389953--390072	58	2.0	60	82	3	145	34	25	5	35	1.80
393893--393999	3	37.3	3	77	14	84	61	0	4	32	1.23
394809--395018	40	5.1	40	76	13	162	25	16	6	51	1.67
395181--395323	38	3.6	39	76	13	132	27	14	6	51	1.66
395139--395346	80	2.6	85	78	15	210	25	15	5	52	1.65
394698--395353	326	2.0	326	94	4	1164	24	17	8	48	1.76
395166--395343	40	4.4	39	77	14	157	24	15	5	53	1.63
395325--395429	44	2.4	44	87	4	142	21	22	9	45	1.81
395805--395939	66	2.0	69	95	4	249	37	27	13	22	1.91
396342--396367	2	13.0	2	100	0	52	50	0	0	50	1.00
399011--399308	122	2.5	120	80	7	325	29	19	17	33	1.95
399010--399457	41	10.9	41	75	8	347	30	19	17	32	1.95
401316--401383	19	3.6	18	74	16	57	42	1	1	54	1.18
401316--401377	31	2.0	30	87	9	90	43	1	1	53	1.20
401321--401384	11	6.5	10	73	20	55	39	1	1	57	1.17
402093--402177	31	2.7	30	78	10	82	55	3	1	40	1.25
406222--406408	93	2.0	93	100	0	374	37	18	5	39	1.73
406406--406584	36	4.9	36	92	2	288	48	15	5	31	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406412--406584	73	2.4	73	94	0	301	47	15	5	31	1.68
415824--415866	20	2.0	22	86	8	63	41	9	23	25	1.84
417329--417475	42	3.4	43	75	7	127	43	12	21	23	1.86
417329--417475	44	3.4	43	74	4	143	43	12	21	23	1.86
423980--424065	3	29.0	3	97	2	165	33	0	0	66	0.92
424277--424389	35	3.2	34	87	5	154	42	21	0	35	1.59
425419--425530	35	3.2	35	91	2	172	35	0	21	41	1.59
426178--426234	15	3.7	15	75	9	60	21	33	26	19	1.97
427402--427431	16	1.9	16	93	6	53	63	6	0	30	1.20
427668--427711	19	2.2	19	84	12	52	34	4	9	52	1.54
429132--429189	26	2.2	28	77	22	72	34	0	1	63	1.04
432433--432483	2	25.5	2	87	0	75	56	0	0	43	0.99
433436--433495	26	2.3	25	79	20	70	55	1	1	41	1.20
433643--433692	18	2.8	17	82	17	57	40	2	0	58	1.10
433801--433828	2	14.0	2	100	0	56	50	0	0	50	1.00
438218--438264	7	6.7	7	82	0	58	6	55	29	8	1.55
438218--438264	21	2.2	21	84	0	67	6	55	29	8	1.55
447135--447249	38	3.0	38	97	0	221	33	14	7	43	1.75
447225--447828	51	11.9	51	80	2	545	37	18	11	33	1.87
447225--447828	101	6.0	102	79	3	567	37	18	11	33	1.87
447232--447828	151	3.9	151	82	3	608	37	18	11	33	1.87
447224--447905	202	3.4	202	79	5	669	37	17	11	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447263--447927	51	13.1	50	79	4	442	38	17	11	33	1.85
447980--448044	29	2.2	29	83	5	78	29	10	6	53	1.59
448008--448253	117	2.1	118	84	10	317	29	10	4	55	1.54
451911--451985	35	2.1	35	97	0	141	33	28	29	9	1.88
452067--452127	23	2.7	23	85	7	88	40	19	9	29	1.84
454589--454630	18	2.3	18	100	0	84	14	21	47	16	1.82
455485--455515	16	1.9	16	93	0	53	54	16	12	16	1.71
455938--456103	31	5.3	32	84	4	187	39	16	15	28	1.89
455938--456103	63	2.7	63	82	4	185	39	16	15	28	1.89
456816--456871	21	2.6	22	86	8	71	33	14	21	30	1.93
459892--459942	24	2.0	26	85	7	70	0	29	15	54	1.41
460375--460436	3	20.0	3	83	6	79	59	0	4	35	1.19
460377--460436	16	3.8	16	91	8	97	60	0	5	35	1.19
460676--460989	45	7.0	45	89	3	454	32	19	23	24	1.97
465773--465813	20	2.0	20	85	4	55	7	26	19	46	1.76
465947--466014	8	8.4	8	80	15	77	0	22	1	76	0.87
465952--465984	10	3.5	10	84	16	52	0	18	0	81	0.68
465947--466016	18	4.2	17	81	17	85	0	22	1	75	0.88
468759--468793	14	2.4	15	85	9	54	57	0	14	28	1.38
472811--472853	3	14.0	3	85	4	59	65	0	2	32	1.06
473922--473955	16	2.1	17	88	5	52	32	0	2	64	1.08
477701--477749	17	2.8	18	84	9	57	20	0	2	77	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486103--486149	2	24.0	2	82	4	51	48	8	0	42	1.33
486110--486147	13	2.8	14	84	8	51	50	10	0	39	1.37
487270--487397	43	3.0	43	79	8	147	35	27	17	20	1.95
487283--487395	21	5.3	21	74	10	113	36	28	15	20	1.92
487904--488094	55	3.5	55	93	1	312	27	21	20	29	1.98
494227--494278	23	2.3	23	90	3	79	30	23	23	23	1.99
494272--494320	21	2.3	21	85	0	62	34	28	12	24	1.91
494784--494960	55	3.2	55	86	1	248	31	21	17	29	1.96
494918--494995	35	2.2	35	95	0	138	30	15	23	30	1.95
495199--495263	29	2.2	29	97	0	121	41	29	0	29	1.56
497350--497500	39	3.9	39	98	0	284	49	9	22	18	1.75
498232--498285	25	2.2	25	96	0	99	25	27	16	29	1.97
510281--510503	117	1.9	113	90	5	358	26	17	19	37	1.93
514157--514209	20	2.7	20	96	0	97	37	22	20	18	1.94
514196--514298	20	5.2	20	91	0	161	29	25	19	26	1.99
515145--515198	24	2.2	24	90	0	81	20	18	18	42	1.89
517612--517703	20	4.6	19	84	8	112	39	23	17	19	1.92
517677--517772	33	2.8	33	88	3	138	42	18	23	14	1.88
517710--517776	20	3.7	19	74	22	81	46	17	22	13	1.83
517765--517814	20	2.5	20	80	3	57	18	20	22	40	1.92
517787--517882	33	2.9	34	87	3	131	13	22	19	43	1.86
517988--518024	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520001--520089	20	4.4	20	92	0	142	38	24	19	17	1.93
520112--520267	34	4.4	34	72	10	143	16	18	21	44	1.87
520134--520290	20	8.5	20	75	17	133	17	17	21	43	1.88
522163--522232	20	3.5	20	88	1	106	50	22	15	11	1.76
522569--522634	22	3.0	22	90	0	105	21	15	39	24	1.91
522830--522962	20	6.7	20	95	0	239	21	20	19	39	1.93
522959--523004	21	2.2	21	88	0	65	36	17	28	17	1.92
523799--523867	29	2.4	29	97	0	129	33	27	2	36	1.72
526280--526365	2	43.5	2	88	2	129	45	0	54	0	0.99
529354--529453	50	2.0	50	96	0	182	38	14	16	32	1.88

Tables:   1   2   3   4