genome.fa.s3208.2.7.7.80.10.50.1000.3.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: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1278004

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 729 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)
395191--395229	20	2.0	20	89	0	60	33	23	10	33	1.88
395348--395415	35	1.9	35	85	5	93	35	19	16	29	1.93
397648--397712	19	3.4	19	86	0	76	32	13	29	24	1.94
397684--397734	19	2.7	19	78	0	57	33	9	29	27	1.89
402105--402253	75	2.0	75	89	2	228	40	17	12	28	1.86
404277--404326	12	4.2	12	82	7	57	58	0	4	38	1.17
404516--405074	134	4.2	134	86	3	680	30	16	22	31	1.95
406244--406344	11	9.1	11	70	19	59	5	13	1	78	1.03
406253--406332	18	4.6	18	79	16	89	6	15	0	78	0.93
406252--406344	41	2.2	41	84	5	116	6	13	1	78	1.00
406246--406352	42	2.6	43	79	10	125	6	14	1	77	1.05
406253--406349	52	1.9	50	82	15	121	7	14	1	77	1.03
410160--410209	24	2.1	24	85	7	66	60	14	2	24	1.45
418869--418918	24	2.1	24	85	7	66	60	14	2	24	1.45
428379--428484	18	5.7	18	84	8	140	18	22	32	26	1.97
428379--428484	40	2.8	38	87	5	144	18	22	32	26	1.97
432577--432664	18	4.7	18	78	10	86	22	23	28	25	1.99
432590--432650	22	3.0	21	81	13	74	24	22	26	26	2.00
438022--438384	132	2.8	132	86	2	480	41	16	11	30	1.84
438852--439051	54	3.7	54	89	2	303	32	21	20	26	1.97
443400--443789	54	7.2	53	74	9	281	30	11	17	40	1.85
443400--443789	109	3.6	108	81	6	389	30	11	17	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443400--443795	163	2.4	162	74	10	367	30	10	17	41	1.84
445410--446212	203	4.0	201	84	3	966	34	17	19	28	1.95
445410--446190	405	1.9	406	86	2	1113	34	18	19	28	1.95
446223--446375	40	3.8	40	82	4	184	28	25	16	28	1.97
446233--446391	40	4.0	40	82	0	174	28	25	17	28	1.98
446642--446685	2	22.5	2	95	4	81	50	0	0	50	1.00
466323--466516	94	2.1	95	87	2	275	39	11	23	25	1.88
467382--467410	2	14.5	2	100	0	58	48	0	0	51	1.00
467533--468458	81	11.5	81	91	0	1437	30	21	11	36	1.89
467500--468458	323	3.0	320	89	2	1431	30	21	11	36	1.89
467563--468455	404	2.2	404	91	0	1453	31	21	11	35	1.89
468544--468753	55	3.9	55	84	4	273	35	17	10	37	1.83
469384--469821	54	8.1	54	89	1	545	32	12	18	36	1.88
470812--471249	54	8.1	54	91	1	610	31	13	18	36	1.90
477360--477408	18	2.6	19	83	9	64	38	12	24	24	1.90
477917--478571	54	12.1	54	91	0	925	31	12	17	37	1.88
480107--480154	19	2.6	19	96	3	71	45	8	20	25	1.79
480802--480840	21	1.9	20	89	5	60	66	20	0	12	1.24
489935--489970	9	4.0	9	96	0	63	25	19	33	22	1.97
494625--494686	26	2.4	25	94	0	88	58	4	6	30	1.44
495610--495634	12	2.1	12	100	0	50	68	0	0	32	0.90
495598--495635	15	2.6	15	84	15	53	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495634--495759	41	3.1	42	74	12	138	46	8	3	41	1.50
495648--495908	38	6.9	38	72	13	166	42	8	3	44	1.53
495633--495740	42	2.6	43	79	7	132	46	8	2	42	1.48
495633--495909	75	3.6	75	81	9	251	43	9	3	44	1.53
495648--495897	37	6.6	37	71	17	142	42	8	4	44	1.54
500229--500289	27	2.2	28	85	8	81	27	14	9	47	1.76
504055--504131	22	3.6	22	89	3	113	33	15	24	25	1.95
504458--505225	54	14.2	54	87	1	1013	34	21	17	26	1.95
507369--507453	2	42.5	2	100	0	170	50	0	0	49	1.00
512333--512400	27	2.4	28	85	9	86	22	16	13	48	1.80
512333--512400	28	2.4	28	85	11	86	22	16	13	48	1.80
526543--526602	20	3.1	19	83	11	68	33	11	15	40	1.83
530730--530758	2	15.0	2	92	7	51	51	0	0	48	1.00
531057--531146	30	3.0	30	98	0	171	33	24	20	22	1.97
531471--531507	17	2.1	19	85	10	51	40	18	0	40	1.51
532854--532994	64	2.2	63	82	7	169	25	23	17	33	1.96
535354--535403	23	2.2	23	82	3	57	54	4	4	38	1.38
537733--537785	17	3.5	15	73	14	54	39	11	13	35	1.80
537736--537769	17	2.0	17	94	0	59	38	8	11	41	1.73
537829--537937	33	3.4	33	87	3	161	44	12	9	33	1.74
537926--537967	21	2.0	21	95	0	75	47	7	14	30	1.71
546138--546248	57	1.9	57	87	0	159	24	25	11	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546977--547003	14	1.9	14	100	0	54	51	11	22	14	1.73
551690--551716	14	1.9	14	100	0	54	51	11	22	14	1.73
553828--553919	46	2.0	46	95	0	166	38	10	15	35	1.82
568180--568316	60	2.3	59	80	6	159	29	18	18	34	1.94
572194--572245	27	1.9	27	84	7	70	36	1	3	57	1.28
572416--572486	20	3.5	20	88	0	106	23	23	9	42	1.84
575182--575236	28	2.0	28	96	0	101	45	20	10	23	1.82
577247--577541	80	3.7	79	90	2	432	31	25	21	22	1.98
577252--577541	159	1.8	159	90	3	476	31	25	20	22	1.98
580458--580498	17	2.4	17	95	0	73	24	31	29	14	1.95
580562--580612	22	2.3	23	80	13	61	49	25	3	21	1.67
583714--583804	45	2.0	46	91	2	148	26	18	26	28	1.98
592412--592496	45	1.9	45	97	2	163	35	14	21	29	1.92
592412--592517	45	2.4	45	88	6	144	34	13	21	30	1.92
592500--592537	20	1.9	20	88	0	58	21	13	34	31	1.91
601469--601599	63	2.1	63	97	0	244	26	22	28	22	1.99
603864--603937	35	2.1	35	92	0	121	44	24	0	31	1.54
603978--604004	10	2.7	10	100	0	54	7	0	7	85	0.75
604962--605278	81	3.9	81	89	0	481	27	22	13	36	1.92
605266--605756	68	7.2	68	91	0	723	29	23	15	31	1.95
606447--606592	76	1.9	77	88	4	224	27	21	17	34	1.95
610473--610519	23	2.0	23	95	0	85	25	23	27	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611093--611216	53	2.3	53	82	8	153	28	20	20	30	1.98
611205--611296	20	4.5	21	73	15	77	30	26	13	30	1.93
611247--611318	21	3.5	21	69	17	69	27	25	13	33	1.94
611224--611325	41	2.5	41	93	0	168	28	27	11	32	1.92
612106--612164	18	3.3	18	77	11	59	30	18	1	49	1.58
628110--628142	16	2.0	17	88	5	50	36	9	12	42	1.74
628296--628385	24	3.8	24	79	4	76	22	10	17	50	1.76
628319--628396	12	6.5	12	70	5	50	19	10	17	52	1.73
628319--628396	24	3.2	24	79	0	102	19	10	17	52	1.73
629639--629797	29	5.5	29	86	5	232	36	4	22	36	1.74
629647--629797	57	2.6	58	86	6	225	37	3	23	35	1.74
630673--630748	31	2.4	31	78	6	82	17	26	28	27	1.97
630813--630865	25	2.1	25	85	0	70	26	7	18	47	1.75
634001--634367	131	2.8	131	83	2	477	39	16	11	31	1.85
636392--636458	3	23.0	3	88	11	104	65	0	0	34	0.93
638853--638974	24	5.1	24	78	11	124	40	19	13	26	1.89
643607--643718	24	4.7	24	82	7	111	39	19	12	28	1.88
647542--647602	6	10.2	6	100	0	122	67	0	16	16	1.24
647665--647725	5	12.2	5	80	11	63	60	0	3	36	1.13
647664--647747	27	3.0	27	75	16	80	58	0	4	36	1.19
649365--649389	13	1.9	13	100	0	50	16	28	0	56	1.41
651025--652128	6	189.0	6	89	9	1724	33	16	0	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661896--662063	6	28.0	6	93	2	266	32	15	3	48	1.62
664976--665005	15	1.9	16	93	6	53	46	6	6	40	1.56
668827--668851	13	1.9	13	100	0	50	32	12	0	56	1.36
669153--669648	246	2.0	248	98	1	962	30	17	18	32	1.95
671394--671501	42	2.6	41	82	2	117	27	21	18	32	1.97
671836--672312	135	3.5	134	85	3	618	31	20	16	31	1.95
672722--672824	45	2.3	45	89	3	154	24	35	14	25	1.93
673943--673969	5	5.4	5	100	0	54	18	0	0	81	0.69
683433--683631	106	1.9	105	98	1	389	39	16	23	21	1.92
686699--687454	55	13.7	55	84	5	870	30	20	19	29	1.97

Tables:   1   2   3   4   5   6   7