genome.fa.s9343.2.7.7.80.10.50.1000.3.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1269 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)
394131--394207	23	3.4	23	80	10	97	27	23	22	27	1.99
395776--395832	27	2.1	27	83	0	69	24	3	14	57	1.52
397216--397261	3	15.3	3	100	0	92	0	32	0	67	0.91
398418--398481	21	3.0	21	82	8	76	29	17	26	26	1.97
398875--398943	26	2.7	26	71	8	61	47	2	10	39	1.52
400436--400495	21	2.9	21	82	5	68	48	6	16	28	1.71
402407--402472	26	2.4	27	82	7	80	18	9	0	72	1.10
402434--402489	21	2.6	22	83	16	73	17	5	1	75	1.09
402438--402502	19	3.3	20	75	18	57	20	4	1	73	1.08
402570--402625	23	2.4	23	82	5	60	12	5	3	78	1.05
403548--403583	18	2.0	18	94	0	63	25	0	0	75	0.81
405856--405894	20	2.1	19	90	9	62	15	5	5	74	1.17
411450--411799	175	2.0	175	100	0	700	29	20	22	28	1.98
413806--413854	26	1.9	25	91	4	80	53	4	6	36	1.45
413806--413860	26	2.2	25	86	3	74	50	5	5	38	1.48
415035--415186	78	1.9	78	81	7	184	57	10	22	9	1.62
416133--416330	88	2.2	89	88	5	283	32	24	16	26	1.96
416225--416444	124	1.8	119	87	4	323	32	26	16	24	1.96
416060--416444	212	1.8	211	90	0	626	31	25	16	25	1.97
418087--418137	22	2.4	20	81	12	57	27	0	1	70	0.98
418155--418234	3	27.7	3	75	7	76	33	6	1	58	1.31
418244--418515	6	43.2	6	67	22	64	14	6	2	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418244--418485	16	15.3	15	69	23	92	15	6	2	76	1.10
418280--418363	26	3.4	24	75	14	64	14	9	1	75	1.11
420431--420459	5	5.8	5	100	0	58	62	0	37	0	0.96
426520--426550	15	2.1	15	93	0	53	54	0	0	45	0.99
435106--435176	28	2.5	28	88	0	106	29	21	28	21	1.98
438425--438496	37	1.9	37	85	0	99	23	18	8	50	1.74
438587--438712	63	2.0	63	93	0	216	41	15	5	37	1.71
446993--447031	2	20.0	2	94	5	71	0	48	0	51	1.00
448714--448792	24	3.2	26	66	20	78	48	7	3	40	1.50
459077--459156	5	14.8	5	80	14	56	72	0	5	22	1.04
459124--459159	3	12.3	3	88	5	56	72	0	0	27	0.85
459152--459478	37	8.9	35	80	8	323	44	5	2	47	1.40
459154--459480	73	4.4	73	83	6	378	44	5	2	47	1.40
459153--459480	108	3.0	109	85	4	401	44	5	2	47	1.40
460070--460767	84	8.4	83	79	3	615	24	21	23	30	1.99
460178--460756	164	3.5	165	81	4	650	25	20	24	30	1.99
460234--460691	245	1.9	246	91	0	756	25	21	22	29	1.99
465991--466043	27	2.0	26	88	3	79	69	0	3	26	1.05
466019--466064	20	2.3	20	81	7	58	71	2	0	26	0.97
466002--466057	27	2.1	27	83	3	69	71	1	1	25	1.05
466083--466120	17	2.2	17	86	9	51	76	0	5	18	0.97
466253--466283	6	5.3	6	92	7	55	83	0	0	16	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466253--466283	11	2.7	11	95	5	53	83	0	0	16	0.64
468012--468093	30	2.8	30	85	3	105	36	29	17	17	1.92
468069--468192	63	2.0	62	88	4	187	33	20	18	27	1.96
468068--468195	31	4.1	31	80	9	143	34	21	17	26	1.96
473254--473378	31	4.0	31	78	6	135	34	20	16	28	1.95
473254--473375	63	2.0	62	88	4	183	33	20	17	28	1.95
474570--474613	21	2.0	22	91	4	72	45	18	13	22	1.84
475010--475134	68	1.9	64	85	8	171	43	6	3	47	1.45
476194--476226	15	2.3	15	89	5	50	51	3	3	42	1.32
476905--476958	22	2.5	22	84	3	65	40	3	3	51	1.37
479005--479319	133	2.4	135	87	4	444	24	18	30	26	1.98
479553--479732	93	1.9	92	82	6	220	47	11	11	30	1.75
479676--479786	29	3.8	29	77	13	102	50	15	7	27	1.70
479718--479837	33	3.9	31	78	13	115	42	12	14	30	1.82
479815--480025	64	3.2	65	81	5	228	43	14	10	31	1.80
480506--480544	16	2.4	16	86	0	51	23	2	30	43	1.67
484367--484427	32	1.9	32	96	3	115	59	9	16	14	1.61
489127--489197	23	3.1	23	78	8	81	46	16	19	16	1.84
493898--493956	27	2.1	28	84	3	75	32	13	6	47	1.69
495770--495805	19	1.9	18	88	5	54	30	5	5	58	1.44
501039--501116	31	2.5	31	85	0	93	26	25	10	37	1.88
509139--509209	32	2.2	33	85	7	92	67	1	9	21	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509193--509227	18	2.0	17	88	5	52	77	0	2	20	0.90
513144--513188	19	2.6	18	82	13	58	71	0	4	24	1.05
513256--513393	72	1.9	72	86	4	199	45	11	3	39	1.58
513232--513393	36	4.6	35	80	9	159	45	10	4	40	1.58
513361--513448	24	3.6	24	87	1	113	44	6	2	46	1.42
515339--515384	9	4.7	10	76	12	51	45	0	0	54	0.99
517262--517287	3	8.7	3	100	0	52	69	30	0	0	0.89
522367--522399	2	16.5	2	100	0	66	0	48	0	51	1.00
522911--522995	27	3.5	24	76	18	79	38	15	16	29	1.89
523551--523612	2	31.0	2	100	0	124	50	0	0	50	1.00
523718--523748	2	15.5	2	100	0	62	48	0	0	51	1.00
537527--537823	135	2.2	134	84	3	384	31	15	15	37	1.89
539397--539526	46	2.8	46	95	0	224	36	15	13	34	1.87
540894--540918	11	2.3	11	100	0	50	40	20	8	32	1.81
544972--545005	2	17.0	2	100	0	68	50	0	0	50	1.00
546486--546524	18	2.2	18	86	9	53	43	0	0	56	0.99
546604--546647	18	2.5	17	82	17	54	36	6	0	56	1.26
556049--556109	23	2.7	23	89	0	95	32	27	22	16	1.96
556364--556501	66	2.1	66	100	0	276	31	22	8	36	1.85
560055--560133	16	5.1	16	81	9	65	81	3	13	1	0.90
560058--560163	9	12.2	9	74	21	52	81	1	15	1	0.87
560100--560156	1	57.0	1	75	0	51	87	0	10	1	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560074--560160	25	3.1	27	82	16	88	82	0	14	2	0.76
560074--560163	9	9.9	9	76	19	80	82	0	15	2	0.77
560074--560160	36	2.2	36	86	11	111	82	0	14	2	0.76
560058--560163	31	3.4	31	79	11	117	81	1	15	1	0.87
561413--561483	20	3.5	20	70	14	72	23	21	21	33	1.97
561433--561507	22	3.5	22	66	14	66	22	18	24	34	1.96
561412--561520	42	2.6	42	97	0	200	24	20	23	31	1.98
561504--561659	85	1.8	85	91	0	258	24	24	17	33	1.96
561727--561772	20	2.3	20	92	0	74	23	21	26	28	1.99
562831--563194	139	2.7	134	86	5	455	35	18	21	25	1.95
565554--565607	20	2.7	20	94	0	90	11	18	18	51	1.74
565594--565644	19	2.6	20	87	3	68	17	17	21	43	1.88
565797--565827	15	2.1	14	94	5	53	0	38	0	61	0.96
567768--567806	13	3.0	13	96	0	69	23	17	28	30	1.97
567891--567998	30	3.6	30	94	0	180	20	22	39	17	1.92
568138--568239	50	2.0	50	98	0	195	25	1	14	57	1.48
573148--573198	2	25.5	2	100	0	102	49	0	0	50	1.00
575404--575444	20	2.0	20	100	0	82	43	14	0	41	1.45
577960--577998	3	13.0	3	100	0	78	33	0	0	66	0.92
578185--578226	11	4.1	11	76	17	54	64	19	0	16	1.30
584372--584413	21	2.0	21	100	0	84	57	14	14	14	1.66
585110--585802	54	12.9	54	79	6	669	29	9	18	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585110--585801	107	6.5	108	82	5	719	29	9	18	43	1.81
586719--586902	37	5.0	37	76	4	140	24	14	14	46	1.81
586719--586893	74	2.4	73	75	10	160	23	14	14	47	1.81
588941--589019	23	3.5	23	78	10	83	17	24	24	34	1.96
589223--589264	21	2.0	22	85	4	59	45	2	23	28	1.66
590291--590486	42	4.6	42	80	8	200	32	22	14	29	1.94
590458--590935	239	2.0	243	84	5	632	36	18	17	27	1.94
590462--590935	120	3.9	120	84	4	546	36	18	17	27	1.93
590464--590961	122	4.1	119	80	8	490	36	18	18	27	1.94
591118--591149	3	10.7	3	100	0	64	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11