genome.fa.s2616.2.7.7.80.10.50.1000.3.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: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1287628

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 819 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)
400721--400862	30	4.8	30	73	18	86	36	6	0	56	1.30
400719--400794	31	2.4	31	82	6	91	35	6	1	56	1.34
400852--400885	16	2.2	16	89	5	52	47	8	0	44	1.34
400886--400943	27	2.1	27	90	6	91	56	1	0	41	1.09
400894--400956	27	2.3	27	81	5	65	65	1	0	33	1.03
400902--400987	42	2.0	42	97	0	163	60	0	1	38	1.04
400952--401039	25	3.3	28	78	16	98	53	0	3	43	1.17
402125--402153	2	14.5	2	100	0	58	48	0	0	51	1.00
402300--402335	15	2.5	15	90	4	56	72	0	0	27	0.85
410078--410128	26	1.9	27	84	4	68	23	5	25	45	1.75
410266--410334	25	2.8	25	82	4	77	34	0	18	46	1.50
410274--410338	25	2.6	25	90	0	94	33	0	18	47	1.49
410998--411051	20	2.7	20	91	0	90	25	14	37	22	1.93
410998--411127	20	6.7	20	75	13	69	24	16	33	26	1.96
411073--411129	22	2.7	21	78	10	64	22	19	31	26	1.98
411121--411157	13	2.9	13	92	4	58	27	13	43	16	1.85
411232--411294	30	2.1	29	85	11	83	49	12	6	31	1.66
411243--411301	30	2.0	29	93	3	100	44	13	6	35	1.71
413918--414015	21	4.7	21	78	10	94	24	18	32	24	1.97
421100--421162	29	2.2	29	82	5	74	31	23	6	38	1.80
421108--421560	245	1.8	245	89	2	705	32	17	16	33	1.93
429216--429329	21	5.6	21	76	8	101	37	21	21	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429207--429329	62	2.0	61	85	4	167	36	21	20	21	1.95
429380--429447	19	3.5	19	78	7	82	38	22	20	19	1.94
429373--429468	40	2.4	40	94	0	165	34	22	20	21	1.97
429373--429489	21	5.8	21	77	6	107	33	23	20	23	1.97
429516--429590	21	3.6	21	71	10	73	21	16	24	38	1.92
429537--429610	20	3.7	20	70	10	69	22	17	25	33	1.96
429515--429612	41	2.4	41	87	0	151	23	16	23	36	1.94
429626--429672	21	2.2	21	80	0	58	34	19	21	25	1.96
430419--430528	38	2.9	38	97	0	211	30	20	15	33	1.94
432696--432853	61	2.6	61	97	0	298	46	14	5	33	1.66
440594--440624	14	2.2	14	94	0	53	83	0	16	0	0.64
443626--443653	13	2.2	13	100	0	56	21	46	7	25	1.76
455559--455625	18	3.8	18	74	3	57	74	0	5	19	1.02
455712--455785	33	2.3	33	88	6	107	47	5	6	40	1.53
455677--456073	38	10.2	37	72	16	209	43	9	4	43	1.56
456023--456123	50	2.1	45	82	8	112	44	7	3	43	1.52
456188--456233	2	23.0	2	100	0	92	50	0	0	50	1.00
455836--456180	165	2.1	163	90	8	545	42	11	5	40	1.63
456686--456753	21	3.3	21	66	12	59	26	13	10	50	1.73
456630--457021	128	3.0	130	83	9	405	25	18	6	48	1.73
456630--457021	43	9.1	43	77	11	342	25	18	6	48	1.73
457068--457100	16	2.1	16	100	0	66	33	6	6	54	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457582--457628	19	2.6	18	77	12	51	53	4	2	40	1.32
471019--471065	6	7.8	6	100	0	94	17	0	48	34	1.47
472182--472236	16	3.4	16	92	0	92	56	20	12	10	1.66
473311--473354	14	3.1	14	83	0	61	54	27	11	6	1.61
474633--474677	3	15.0	3	100	0	90	33	0	0	66	0.92
474975--475020	22	2.1	22	83	0	56	19	34	23	21	1.96
474828--475196	184	2.0	184	100	0	738	21	42	22	13	1.88
481754--481890	72	1.9	72	95	0	247	27	21	16	34	1.95
483782--483961	75	2.4	75	79	3	211	32	16	21	30	1.95
484836--485099	54	4.9	55	78	4	241	40	12	18	28	1.88
486382--486525	77	1.9	75	89	2	225	25	19	20	34	1.96
486459--486572	45	2.5	45	88	2	156	27	19	20	33	1.96
486504--486647	77	1.9	75	85	2	198	25	20	18	36	1.95
486371--486818	122	3.6	122	86	5	549	25	21	18	34	1.96
486581--486916	45	7.4	45	91	0	483	23	23	18	34	1.96
486927--487038	45	2.5	45	89	0	179	20	21	21	36	1.95
486851--486993	76	1.9	74	91	2	232	21	20	20	36	1.95
486806--487337	121	4.4	121	87	2	714	23	21	20	34	1.97
487046--487144	45	2.2	45	96	0	180	21	22	21	35	1.96
487177--487282	47	2.3	47	81	6	133	28	24	20	26	1.99
487512--487580	3	23.3	3	97	2	131	34	0	0	65	0.93
488944--488981	2	19.0	2	100	0	76	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)
490601--490757	20	7.8	20	73	6	93	38	24	17	19	1.92
490660--490757	41	2.4	41	77	6	110	37	22	18	21	1.94
490744--490917	20	8.6	20	79	5	118	34	25	20	20	1.96
490600--490776	61	2.9	61	76	6	182	39	24	16	18	1.91
490724--490918	40	4.9	39	80	3	183	35	24	20	19	1.95
490724--490917	60	3.2	60	83	0	244	35	24	20	19	1.95
491300--491370	33	2.2	33	94	0	124	11	23	16	47	1.79
491449--491526	41	1.9	41	97	0	147	44	16	25	12	1.83
491450--491525	21	3.7	21	83	3	109	46	17	25	11	1.82
491510--491566	14	3.7	14	75	20	60	43	21	24	10	1.83
491505--491569	33	2.0	33	96	0	121	44	20	24	10	1.83
493440--493475	14	2.6	14	95	0	63	33	0	22	44	1.53
493582--493660	19	4.4	19	80	16	105	45	17	22	13	1.84
493685--493942	33	7.5	33	72	18	188	14	22	17	44	1.85
493707--494028	19	18.4	19	77	19	353	14	22	18	45	1.84
493685--494000	52	6.0	52	96	1	587	14	23	17	45	1.85
493685--494000	105	3.0	105	98	0	607	14	23	17	45	1.85
493726--494028	33	8.8	33	73	16	251	14	22	18	45	1.84
496509--496555	24	2.0	24	87	8	69	38	21	14	25	1.92
497238--497447	20	10.5	20	84	2	206	19	18	24	37	1.94
497414--497515	20	4.9	20	76	5	78	24	17	22	35	1.95
497414--497506	41	2.3	41	77	7	100	22	19	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499516--499550	17	2.1	16	89	5	52	42	0	2	54	1.15
500210--500306	46	2.1	46	100	0	194	28	8	29	32	1.86
500754--500812	28	2.1	28	87	6	84	22	10	8	59	1.56
503350--503420	36	2.0	36	100	0	142	26	16	25	30	1.97
504156--504203	22	2.2	22	85	7	62	54	0	6	39	1.26
504919--504949	7	4.6	7	96	4	55	25	0	12	61	1.32
506537--506582	23	2.0	22	91	4	74	39	8	15	36	1.78
513981--514023	13	3.2	13	77	6	50	48	0	4	46	1.22
514152--514227	29	2.5	30	95	4	136	31	3	5	59	1.38
515851--515900	19	2.6	19	80	0	55	50	0	0	50	1.00
515885--515956	37	2.0	36	88	2	108	62	2	2	31	1.24
516501--516562	30	2.1	30	84	0	79	46	1	14	37	1.54
516552--516618	30	2.2	31	86	2	91	50	7	10	31	1.64
516707--516740	3	11.3	3	100	0	68	67	32	0	0	0.91
522845--522957	58	1.9	58	87	0	163	28	16	16	38	1.91
525741--525868	64	2.0	64	92	0	211	42	12	13	32	1.81
526271--526942	182	3.7	182	90	1	1026	27	15	12	43	1.84
529810--529869	29	2.0	31	90	6	97	35	6	16	41	1.75
529945--529999	19	2.9	19	94	0	92	38	12	12	36	1.82
531161--531212	24	2.2	24	82	6	61	51	11	3	32	1.56
531239--531312	33	2.3	33	84	11	91	40	9	9	40	1.70
532438--532477	12	3.3	12	85	0	53	17	35	7	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532438--532477	18	2.2	18	90	0	62	17	35	7	40	1.78
533639--533682	15	2.9	15	82	0	61	25	4	47	22	1.70
534044--535127	199	5.4	199	94	0	1898	27	14	15	41	1.87
536987--537025	18	2.2	18	100	0	78	5	38	0	56	1.22
537665--537720	24	2.4	23	85	8	78	50	5	1	42	1.35
538982--539041	18	3.3	18	95	2	102	36	15	0	48	1.45
539429--540639	182	6.6	182	84	5	1498	27	14	13	45	1.82
539429--540639	365	3.3	364	90	1	1866	27	14	13	45	1.82
540560--540613	21	2.7	20	81	16	74	16	11	11	61	1.57
542166--542310	64	2.3	64	95	0	254	42	12	13	31	1.82

Tables:   1   2   3   4   5   6   7