genome.fa.s8092.2.7.7.80.10.50.1000.4.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  4  of  12  ( 1399 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)
551005--551045	18	2.3	18	87	8	57	43	21	31	2	1.66
553004--553083	21	3.8	21	74	0	79	31	15	26	27	1.95
555059--555189	60	2.2	59	83	2	163	19	37	24	18	1.94
555672--555765	49	1.9	49	86	4	136	47	17	9	25	1.77
557167--557286	29	4.2	29	79	4	109	42	20	18	19	1.89
557815--557874	18	3.4	17	75	9	57	33	20	25	21	1.97
558919--558957	16	2.4	16	86	0	60	56	20	5	17	1.60
561331--561457	55	2.3	55	94	4	220	21	24	25	29	1.99
563676--563713	13	2.9	14	84	11	53	47	7	15	28	1.74
563738--563775	20	1.9	20	100	0	76	68	10	0	21	1.19
564168--564233	23	2.9	23	78	14	75	27	25	27	19	1.99
570002--570202	76	2.7	76	86	6	284	16	23	29	30	1.97
573678--573807	50	2.6	50	82	3	145	23	16	12	47	1.80
575559--575589	2	16.0	2	93	6	55	51	0	0	48	1.00
576105--576138	16	2.1	16	88	0	50	50	0	2	47	1.16
576180--576213	16	2.0	18	88	11	54	26	2	5	64	1.30
576680--576926	129	1.9	130	92	0	415	35	12	15	36	1.85
577322--577397	35	2.2	35	92	0	125	35	1	23	39	1.63
580497--580529	16	2.1	16	94	0	57	39	0	21	39	1.53
581319--581354	18	2.0	18	100	0	72	22	11	16	50	1.77
595415--595453	20	2.0	20	94	0	69	43	12	17	25	1.85
596637--596755	32	3.7	32	75	0	112	32	14	20	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601553--601604	20	2.5	21	81	3	61	40	19	23	17	1.91
601593--601686	20	4.7	20	80	7	91	31	25	19	23	1.98
602246--602287	19	2.2	19	91	0	66	52	26	16	4	1.63
602283--602433	19	8.1	19	77	10	132	13	22	19	45	1.85
604469--604535	21	3.2	21	66	6	55	23	35	20	19	1.95
604417--604535	42	2.8	42	76	12	102	23	36	17	22	1.95
605893--605928	14	2.6	14	95	0	63	30	0	25	44	1.54
606053--606109	14	3.7	14	70	20	51	47	22	21	8	1.78
606035--606124	33	2.7	33	89	0	135	45	21	20	13	1.84
606124--606250	33	3.9	32	86	8	184	14	22	19	43	1.88
606120--606250	19	7.7	19	65	23	85	14	22	19	43	1.87
606117--606249	66	2.0	66	95	0	239	16	21	19	42	1.89
607781--607808	14	2.0	14	100	0	56	50	14	21	14	1.78
608699--608752	24	2.2	24	90	0	81	38	20	16	24	1.92
609809--609866	20	2.9	20	92	0	98	37	22	22	17	1.93
609889--609962	19	4.5	16	83	16	66	13	20	18	47	1.82
609885--609952	19	3.8	19	87	12	101	13	22	17	47	1.82
609866--609980	52	2.2	52	82	0	131	19	21	20	38	1.94
610069--610105	14	2.6	14	86	0	56	48	21	0	29	1.50
612016--612073	14	3.9	14	75	16	62	12	17	22	48	1.80
611999--612089	32	2.8	33	91	3	157	13	18	20	47	1.82
612074--612128	20	2.8	19	83	8	65	16	23	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612610--612654	18	2.5	18	85	0	63	13	15	42	28	1.85
614281--614324	22	2.0	22	95	0	79	18	15	45	20	1.85
614512--614625	20	5.7	20	80	6	113	25	18	25	30	1.98
614492--614627	41	3.3	41	76	6	141	25	17	23	33	1.96
617822--617947	63	2.0	63	98	0	243	29	20	24	25	1.99
622645--622678	18	1.9	17	88	5	50	38	2	0	58	1.13
629861--629960	28	3.4	28	76	12	110	13	6	35	46	1.67
630536--630584	16	2.9	16	87	6	71	28	24	6	40	1.79
631667--631786	64	1.9	64	98	0	231	42	13	12	31	1.81
631829--632531	200	3.5	197	79	8	740	30	14	14	40	1.87
635640--636131	251	2.0	251	86	3	686	31	15	15	37	1.89
637401--637446	6	7.7	6	82	0	56	17	32	10	39	1.84
637401--637446	12	3.8	12	88	0	65	17	32	10	39	1.84
638456--638532	38	2.0	38	97	0	145	27	27	20	24	1.99
638943--640238	201	6.7	201	90	3	1856	31	17	14	36	1.90
639696--640238	180	3.0	179	92	2	849	31	18	14	36	1.90
642317--642377	32	1.9	32	89	0	95	22	44	0	32	1.54
642408--642459	21	2.5	21	100	0	104	13	34	9	42	1.77
644705--644750	20	2.3	19	78	10	56	28	17	2	52	1.56
645193--645241	24	2.0	24	96	0	89	55	10	20	14	1.68
648612--648877	42	6.4	42	81	11	225	34	27	19	18	1.95
648680--648886	20	10.1	20	84	10	260	38	27	18	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648667--648886	82	2.7	82	89	5	322	37	27	19	16	1.93
648673--648879	102	2.0	102	95	1	371	36	28	18	16	1.93
648982--649145	6	27.5	6	99	0	321	32	50	16	0	1.45
649642--649723	6	14.5	6	98	1	129	0	17	53	29	1.44
649819--650128	20	15.2	20	79	8	277	16	18	24	40	1.90
649819--650128	62	5.1	62	84	6	384	16	18	24	40	1.90
653505--653572	21	3.2	21	89	0	91	19	23	17	39	1.92
653560--653705	20	7.3	20	85	4	188	33	18	20	27	1.96
654566--654619	24	2.2	24	93	0	90	20	18	20	40	1.91
657128--657182	20	2.8	19	83	2	65	38	21	20	20	1.94
657173--657260	14	5.6	14	70	23	59	44	19	25	11	1.84
657155--657260	33	3.2	33	98	0	203	44	18	24	12	1.84
657135--657246	19	6.4	19	72	20	100	43	19	22	14	1.87
657494--657532	14	2.8	14	84	0	51	35	28	12	23	1.91
658326--658362	14	2.6	14	91	0	65	45	21	0	32	1.52
659418--659454	14	2.6	14	95	0	65	10	24	24	40	1.87
660023--660136	20	5.7	20	89	2	183	20	21	20	38	1.94
660023--660136	41	2.8	40	89	2	183	20	21	20	38	1.94
660025--660158	41	3.3	40	85	5	180	22	20	20	36	1.95
660025--660158	61	2.2	61	89	0	196	22	20	20	36	1.95
660025--660177	61	2.5	61	86	4	175	22	20	22	34	1.97
669293--669327	2	17.5	2	100	0	70	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669330--669401	2	36.0	2	100	0	144	50	0	0	50	1.00
669713--669745	2	16.5	2	100	0	66	0	48	0	51	1.00
669745--669782	2	19.0	2	100	0	76	50	0	0	50	1.00
670534--670624	32	3.2	32	60	33	80	26	8	7	57	1.56
670519--670635	52	2.3	52	95	4	213	29	6	6	57	1.51
673283--673358	27	2.8	27	70	9	73	40	3	0	55	1.18
673903--673935	6	5.5	6	100	0	66	33	18	30	18	1.94
676679--676714	16	2.2	16	95	0	63	38	5	22	33	1.77
677743--677845	30	3.6	30	72	15	92	15	9	18	56	1.66
677870--677952	35	2.4	35	84	8	107	25	15	16	42	1.88
677848--677922	23	3.2	23	81	3	96	24	16	16	44	1.86
677848--677985	47	3.0	46	78	3	132	23	14	17	44	1.85
677954--678018	22	3.0	22	83	0	85	10	9	23	56	1.61
678234--678259	12	2.2	12	100	0	52	42	7	15	34	1.75
682008--682174	83	2.0	83	100	0	334	38	7	26	28	1.83
682745--682851	51	2.1	50	91	1	169	52	2	6	38	1.42
683568--683619	26	2.0	26	85	7	70	36	3	0	59	1.16
683884--683938	27	2.1	26	83	10	67	36	1	9	52	1.44
684276--684302	13	2.1	13	100	0	54	48	0	0	51	1.00
684311--684348	18	2.1	18	90	0	58	76	7	0	15	1.01
684621--684687	31	2.2	31	89	5	102	49	2	1	46	1.26
685219--685295	36	2.1	36	85	7	102	57	6	6	29	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690412--690448	20	1.9	19	89	10	58	45	10	24	18	1.81
695914--695954	18	2.3	18	91	0	64	56	14	7	21	1.63
698610--698724	43	2.7	44	81	6	119	31	17	22	28	1.97
699158--699204	21	2.3	20	85	3	58	4	40	17	38	1.69
699178--699240	18	3.3	18	77	6	63	3	41	20	34	1.68
699192--699250	20	2.9	21	84	5	75	6	40	18	33	1.77
699185--699253	21	3.5	20	81	13	81	5	40	20	33	1.76
699193--699261	21	3.3	21	83	4	68	7	39	17	36	1.77
699572--699621	19	2.6	19	75	22	50	56	6	12	26	1.58
702824--703126	151	2.0	150	96	3	556	36	19	12	31	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12