genome.fa.s1465.2.7.7.80.10.50.1000.3.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  3  of  55  ( 6520 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)
425259--427609	199	11.9	198	97	1	4457	36	15	16	31	1.91
427756--427819	23	2.8	23	82	0	83	35	6	18	39	1.76
427756--427828	23	3.2	23	78	7	76	34	5	19	41	1.74
428187--428250	23	2.8	23	87	0	92	35	6	20	37	1.78
428187--428259	23	3.2	23	82	7	85	34	5	20	39	1.76
427661--428920	431	2.9	431	98	0	2408	39	8	12	39	1.73
428618--428681	23	2.8	23	87	0	92	35	6	20	37	1.78
428618--428690	23	3.2	23	82	7	85	34	5	20	39	1.76
428952--429002	25	2.0	25	92	0	84	33	7	19	39	1.81
429251--429287	18	2.1	18	89	0	56	32	5	10	51	1.60
429243--429289	24	2.0	24	86	0	67	34	4	14	46	1.64
429546--429632	39	2.2	39	95	0	156	48	20	13	17	1.81
430036--430099	23	2.8	23	87	0	92	35	6	20	37	1.78
430036--430108	23	3.2	23	82	7	85	34	5	20	39	1.76
439773--439824	15	3.5	15	89	5	79	36	7	19	36	1.80
440114--440177	23	2.7	23	82	4	74	40	3	4	51	1.38
440196--440238	21	2.0	21	86	8	61	53	0	0	46	1.00
440160--440269	31	3.6	32	78	14	108	50	1	0	46	1.18
440196--440235	10	3.9	10	80	6	53	52	0	0	47	1.00
440176--440345	52	3.0	59	71	20	148	51	1	0	45	1.15
440213--440321	52	2.2	51	85	9	161	51	1	0	45	1.18
440304--440392	24	3.7	22	69	21	56	48	0	2	49	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441786--441826	21	2.0	21	95	0	73	21	36	0	41	1.54
442602--442647	23	2.0	23	82	0	56	43	6	8	41	1.61
443770--443809	16	2.5	16	83	0	53	47	25	15	12	1.80
443808--443894	16	5.4	16	70	0	57	49	28	12	9	1.71
444477--444507	16	1.9	16	93	0	53	29	32	12	25	1.93
446434--446543	43	2.7	41	74	12	116	32	10	16	40	1.83
446588--446689	45	2.3	45	96	0	186	34	13	21	30	1.92
446892--446947	21	2.7	22	91	5	82	53	19	7	19	1.68
448116--448154	19	2.1	19	100	0	78	46	5	5	43	1.48
450135--450234	41	2.4	41	86	0	137	41	21	12	26	1.87
450372--450479	41	2.6	41	91	0	171	31	17	20	30	1.96
456453--456506	21	2.6	21	93	0	81	40	24	7	27	1.81
457037--457084	20	2.5	19	83	12	62	12	16	22	47	1.80
457046--457090	20	2.2	20	84	0	63	13	17	22	46	1.83
459041--459082	4	10.5	4	84	0	57	28	0	2	69	1.01
459251--459302	21	2.5	21	72	12	52	25	38	19	17	1.93
460649--460822	65	2.6	65	89	7	244	28	2	16	52	1.57
461240--461275	18	2.0	18	94	0	63	16	2	25	55	1.55
464322--464359	16	2.5	15	84	12	51	65	2	2	28	1.19
464539--464586	19	2.5	19	82	3	60	37	12	16	33	1.86
464555--464764	20	10.6	19	75	16	151	20	14	23	40	1.90
464670--464764	40	2.4	40	96	0	172	17	14	25	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464592--464728	60	2.3	60	94	2	240	20	16	24	37	1.93
464634--464801	20	8.4	20	71	18	91	22	16	24	37	1.93
464789--464842	20	2.7	19	75	8	63	24	14	33	27	1.94
465429--465536	30	3.6	29	76	12	76	75	5	0	18	1.06
465491--465520	7	4.4	7	91	8	53	86	0	0	13	0.57
465488--465544	13	4.4	13	74	24	57	80	1	0	17	0.79
465479--465544	15	4.3	15	80	16	57	78	3	0	18	0.87
465491--465544	20	2.8	20	75	13	58	81	1	0	16	0.78
465512--465608	14	6.2	15	72	18	56	70	5	5	19	1.26
466237--466266	9	3.4	9	90	9	53	90	0	0	10	0.47
466673--467019	84	4.2	83	82	5	398	25	17	25	31	1.97
466707--467022	167	1.9	168	90	0	508	25	16	25	31	1.96
467011--467103	35	2.8	33	88	9	143	30	8	20	40	1.82
467161--467394	36	6.6	36	78	10	232	39	13	20	26	1.89
467161--467300	73	1.9	72	86	1	199	40	14	21	24	1.90
467688--467807	43	2.8	43	82	2	143	24	14	28	33	1.94
469076--469336	95	2.7	95	88	3	380	31	19	17	32	1.95
471629--471686	30	2.0	29	83	16	75	74	8	1	15	1.14
471644--471723	17	4.9	18	75	16	52	76	6	1	16	1.05
471691--471720	14	2.2	14	94	5	53	80	6	0	13	0.91
471630--471723	21	4.4	21	72	17	54	75	6	2	15	1.10
471691--471787	16	6.2	15	73	18	56	71	5	5	18	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472417--472468	17	3.1	17	81	13	63	71	0	0	28	0.87
472417--472469	19	3.0	18	84	13	58	69	0	0	30	0.88
472494--472536	2	21.5	2	100	0	86	51	0	0	48	1.00
476184--476258	31	2.4	31	81	0	96	44	6	26	22	1.78
478565--478889	43	7.5	43	78	4	278	32	20	15	32	1.93
478566--478881	87	3.6	85	82	4	310	31	20	14	33	1.93
478565--478804	130	1.8	131	81	2	304	29	18	15	36	1.92
478569--478889	173	1.9	174	80	5	391	32	19	14	32	1.93
478567--478956	44	8.9	44	73	10	165	32	20	14	32	1.93
480218--480255	20	1.9	20	84	10	51	42	15	0	42	1.47
480393--480456	23	2.8	23	79	9	85	34	26	23	15	1.95
483431--483460	13	2.4	13	94	5	53	26	30	0	43	1.55
486248--486283	19	1.9	18	94	5	63	13	30	11	44	1.79
492023--492075	25	2.1	26	82	10	65	54	0	1	43	1.11
492752--492797	23	2.0	24	86	4	67	23	6	0	69	1.11
498853--498893	20	2.0	20	85	4	55	36	7	24	31	1.83
498984--499038	20	2.8	20	80	0	65	30	27	16	25	1.96
504035--504089	16	3.4	16	78	16	60	70	0	12	16	1.16
507082--507136	28	2.0	28	100	0	110	29	3	23	43	1.71
507090--507153	28	2.3	28	81	7	69	35	3	18	42	1.66
509093--509168	6	13.8	6	69	22	60	46	1	1	51	1.17
509090--509168	22	3.6	22	70	16	74	45	1	1	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509116--509168	16	3.2	16	84	5	61	49	1	0	49	1.12
519874--520005	30	4.4	30	88	0	165	20	12	8	59	1.58
527753--527972	62	3.5	62	86	5	287	23	17	21	37	1.94
532285--532326	2	21.5	2	95	4	77	52	0	0	47	1.00
540219--540250	15	2.2	15	94	5	57	50	0	0	50	1.00
540276--540335	21	2.9	20	75	7	66	50	1	0	48	1.11
541838--541876	17	2.4	16	84	16	53	41	5	0	53	1.23
543455--543621	33	5.1	33	82	2	201	40	17	10	31	1.84
544060--544224	51	3.2	51	87	1	215	24	20	13	41	1.88
544274--544321	25	1.9	25	86	0	69	45	22	8	22	1.79
547306--547493	102	1.8	103	84	1	261	20	20	28	29	1.98
547855--547879	5	5.0	5	100	0	50	20	0	0	80	0.72
548576--548630	28	2.0	28	100	0	110	36	18	14	30	1.91
548578--548638	28	2.2	28	93	0	104	36	19	16	27	1.93
549261--549370	42	2.6	43	78	5	134	27	20	17	34	1.95
552453--552497	22	2.0	22	100	0	90	46	31	17	4	1.68
553337--553391	19	2.8	20	89	8	87	54	0	0	45	0.99
553337--553391	20	2.9	18	82	17	60	54	0	0	45	0.99
553580--553650	3	23.0	3	82	5	88	36	1	1	60	1.14
553584--553650	25	2.7	25	92	0	116	37	1	1	59	1.16
553962--553996	17	2.1	17	94	0	61	22	34	37	5	1.78
554949--555011	11	5.8	11	77	17	69	25	3	1	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554952--555017	19	3.2	19	75	19	69	25	3	1	69	1.11
555052--555457	148	2.7	145	80	8	411	39	8	7	44	1.63
558021--558107	43	2.0	44	88	2	131	31	10	22	35	1.88
558268--558334	20	3.3	20	74	0	62	19	13	8	58	1.61
564019--564210	75	2.7	71	83	5	226	31	15	22	30	1.95
565550--565604	22	2.5	22	90	0	83	36	9	12	41	1.75
566069--566440	45	8.2	45	95	0	663	23	23	19	33	1.97
566069--566440	181	2.1	180	95	0	663	23	23	19	33	1.97
566627--566691	3	21.0	3	81	6	76	40	1	0	58	1.07
566627--566691	28	2.3	28	97	0	121	40	1	0	58	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55