genome.fa.s8228.2.7.7.80.10.50.1000.3.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2363 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)
454202--454399	99	2.0	99	90	0	315	33	17	18	30	1.94
455214--455619	151	2.6	152	87	5	557	36	21	16	25	1.94
455571--455877	65	4.9	65	75	11	289	37	21	15	25	1.93
455573--455920	184	1.9	185	91	0	572	37	21	15	25	1.93
456058--456381	84	3.9	84	90	0	488	35	24	18	21	1.96
457119--457149	3	10.0	3	93	6	53	64	0	0	35	0.94
457308--458089	112	7.1	111	84	2	932	28	15	25	30	1.96
464441--464473	3	10.7	3	93	6	57	63	0	0	36	0.95
465282--465314	7	4.7	7	100	0	66	27	0	45	27	1.54
467333--467366	17	2.0	17	88	0	50	14	8	8	67	1.41
470977--471025	23	2.1	23	85	7	64	28	2	14	55	1.51
471517--471541	11	2.3	11	100	0	50	16	8	8	68	1.38
477538--477573	17	2.2	16	90	5	54	19	0	2	77	0.88
481141--481189	23	2.1	23	85	7	64	28	2	12	57	1.46
484058--484163	56	1.9	56	90	0	167	32	28	16	22	1.96
484337--484481	56	2.6	56	88	1	202	30	22	22	24	1.99
483968--484442	138	3.4	138	84	4	614	34	23	18	23	1.96
484687--484734	3	16.0	3	82	8	62	31	0	2	66	1.03
486993--487018	6	4.3	6	100	0	52	30	0	0	69	0.89
488596--488643	23	2.0	24	84	4	62	22	4	8	64	1.38
489341--489688	116	3.0	116	96	0	651	21	26	27	24	1.99
489692--489766	21	3.6	21	87	0	105	18	36	33	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491449--491496	17	2.7	18	77	9	53	52	6	0	41	1.27
492107--492158	21	2.5	21	81	3	61	38	19	25	17	1.93
492189--492237	20	2.5	20	93	0	80	24	30	20	24	1.98
492429--492472	22	2.0	22	100	0	88	22	45	13	18	1.84
492735--492783	20	2.5	20	82	0	62	16	18	28	36	1.92
492930--492984	25	2.2	24	78	15	58	20	9	18	52	1.71
494113--494157	18	2.5	18	85	0	63	26	42	15	15	1.87
494650--494727	20	4.3	19	78	15	76	44	17	20	16	1.86
494658--494773	19	6.6	19	73	21	101	44	20	20	13	1.85
494694--494751	14	3.9	14	81	16	71	50	22	17	10	1.76
494678--494768	32	2.8	33	93	3	157	48	20	18	12	1.80
494785--494875	14	5.9	14	76	20	83	10	17	21	49	1.77
494769--494891	65	1.9	66	96	1	230	12	18	21	47	1.80
494769--494891	33	3.8	33	94	2	221	12	18	21	47	1.80
494876--494931	20	2.8	19	86	7	76	16	25	23	35	1.94
495299--495387	42	2.1	42	85	0	124	21	43	14	20	1.87
496806--496841	14	2.6	14	90	0	54	30	0	22	47	1.52
496968--497002	14	2.5	14	100	0	70	48	22	20	8	1.76
497026--497101	20	3.8	20	72	6	73	17	18	21	43	1.88
497315--497406	20	4.6	20	71	2	67	19	18	22	39	1.93
498207--498260	24	2.2	24	90	0	81	22	16	20	40	1.91
498435--498459	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500753--500844	19	5.4	19	66	24	78	43	19	20	16	1.88
500753--500866	33	3.5	33	86	4	176	42	19	22	15	1.89
500876--500911	14	2.6	14	95	0	63	11	25	19	44	1.83
501036--501072	14	2.6	14	91	0	65	45	24	0	29	1.53
502429--502495	21	3.2	20	70	4	53	20	20	34	23	1.97
502468--502631	42	3.9	42	81	0	193	23	17	37	21	1.94
502459--502634	84	2.1	84	97	0	334	24	17	36	21	1.94
502853--503037	91	2.0	90	90	6	291	47	18	11	21	1.81
504749--504836	33	2.6	33	96	1	158	39	22	26	11	1.88
504724--504907	19	10.1	19	77	13	181	44	21	22	11	1.85
504903--504946	18	2.4	19	84	3	54	9	13	27	50	1.72
505523--505598	40	1.9	40	88	0	116	21	18	23	36	1.95
505503--505595	20	4.7	20	79	10	82	24	19	24	31	1.98
505707--505775	28	2.5	28	95	0	120	28	14	31	24	1.95
512783--512858	23	3.3	23	85	3	82	15	25	26	32	1.95
512852--512908	24	2.4	23	91	2	87	15	21	26	36	1.93
518149--518191	15	2.9	15	96	0	77	34	18	18	27	1.95
518607--518650	21	2.1	21	83	8	54	36	9	13	40	1.76
518820--518944	23	5.4	23	79	0	133	17	23	23	36	1.95
518820--518987	69	2.4	70	80	8	184	19	23	21	35	1.96
523282--523353	9	7.7	9	72	25	60	50	15	30	4	1.63
523281--523353	19	3.8	19	96	3	130	49	15	30	5	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525479--525517	19	2.1	19	85	9	53	64	2	0	33	1.08
528720--528767	20	2.4	20	78	0	51	35	16	18	29	1.93
536462--536507	24	1.9	24	90	0	74	54	2	2	41	1.25
540181--540224	12	3.7	12	84	0	61	29	34	11	25	1.91
540178--540229	24	2.2	24	96	0	95	30	28	13	26	1.94
541942--541987	20	2.3	20	92	0	74	36	39	13	10	1.79
546500--546730	115	2.0	115	98	0	444	29	17	24	28	1.98
554997--555038	21	2.0	21	95	0	75	23	35	19	21	1.96
556173--556280	31	3.4	31	79	3	99	18	22	26	32	1.97
560832--560944	31	3.5	32	90	3	174	15	28	30	26	1.96
562541--562588	21	2.3	21	100	0	96	10	33	8	47	1.68
563488--563532	21	2.1	22	84	12	58	35	4	6	53	1.47
567934--567971	20	1.9	20	94	0	67	21	18	15	44	1.86
575317--575371	20	2.6	21	72	18	51	18	20	20	41	1.90
575612--575666	20	2.6	22	83	8	71	25	20	23	30	1.98
576783--576818	2	18.0	2	100	0	72	50	0	0	50	1.00
580856--580894	2	19.5	2	100	0	78	51	0	0	48	1.00
586662--586696	2	17.5	2	100	0	70	51	0	0	48	1.00
587162--587240	14	5.9	14	78	11	85	12	12	15	59	1.61
587161--587240	24	3.0	27	78	12	94	12	12	15	60	1.60
587412--587453	10	4.2	10	84	0	57	16	11	9	61	1.55
587436--587524	23	3.8	23	73	2	79	13	12	15	58	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587825--587864	18	2.2	18	90	0	62	50	10	0	40	1.36
587870--588114	30	8.1	29	77	11	217	37	7	2	53	1.41
587888--587956	29	2.6	25	72	22	59	39	7	1	52	1.38
587899--588069	93	1.8	94	82	6	222	38	7	2	52	1.42
587995--588114	58	2.1	59	87	7	174	35	7	0	55	1.34
593057--593291	11	22.0	11	70	20	87	37	0	5	56	1.27
593118--593297	2	98.0	2	66	25	87	38	0	5	56	1.21
593055--593295	43	5.3	43	75	21	171	37	0	4	56	1.27
593063--593297	58	4.1	57	74	18	152	37	0	5	56	1.28
593054--593295	92	2.6	91	83	13	268	38	0	4	56	1.27
593055--593300	28	8.7	27	72	21	136	37	0	4	56	1.26
595753--595983	30	7.8	30	80	1	241	58	12	12	16	1.64
595753--595983	59	3.9	61	81	7	235	58	12	12	16	1.64
595753--595989	89	2.7	89	81	7	266	58	13	12	16	1.64
595962--596014	26	2.0	26	86	13	74	54	9	13	22	1.67
597677--598073	131	3.0	129	83	2	492	24	17	31	25	1.97
598207--598379	66	2.6	66	84	10	246	42	14	12	31	1.82
604263--604496	30	7.8	30	80	3	213	58	9	13	18	1.63
605962--606012	3	17.3	3	84	11	70	62	0	0	37	0.95
609950--610019	3	23.7	3	82	8	90	35	0	1	62	1.04
611233--611280	16	2.9	17	80	20	57	31	2	0	66	1.03
611649--611708	2	30.0	2	100	0	120	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614630--614707	22	3.6	21	85	10	104	19	32	24	24	1.98
617378--617417	21	1.9	21	94	0	71	25	40	22	12	1.89
624453--624483	16	1.9	16	100	0	62	51	12	16	19	1.76
626713--626824	38	2.9	38	95	0	206	35	12	13	38	1.82
627846--628066	112	2.0	108	85	11	297	16	24	29	29	1.97
628321--628367	18	2.6	18	100	0	94	25	14	36	23	1.93
631730--632412	8	92.5	8	66	20	161	40	3	5	50	1.43
631742--632423	37	18.1	37	84	10	796	40	3	5	50	1.43
631730--632412	14	49.9	14	73	14	371	40	3	5	50	1.43
632147--632423	81	3.5	80	93	5	451	41	2	5	50	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20