genome.fa.s9583.2.7.7.80.10.50.1000.3.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: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1341443

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 696 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)
426660--426730	15	4.7	15	80	0	79	33	2	18	45	1.64
438787--439047	132	2.0	133	81	5	305	35	21	16	27	1.94
439576--439720	5	28.0	5	68	21	61	37	2	5	55	1.35
439576--439675	25	4.1	26	80	12	99	36	2	5	57	1.32
439579--439670	16	5.7	15	75	19	71	33	2	5	58	1.33
439601--439642	14	3.2	14	77	19	54	33	0	4	61	1.17
439577--439721	51	2.8	51	77	19	140	36	2	5	55	1.35
439644--439792	35	4.2	37	71	19	129	38	2	9	50	1.46
439756--439803	20	2.4	21	79	6	55	37	2	10	50	1.49
440586--440624	2	19.5	2	100	0	78	51	0	48	0	1.00
445274--445321	21	2.3	21	78	7	53	33	6	0	60	1.22
448789--448832	20	2.1	21	87	4	63	25	15	4	54	1.60
450307--450345	17	2.3	17	95	0	69	28	20	12	38	1.89
452300--452346	19	2.6	17	78	15	58	61	2	6	29	1.32
452305--452346	20	2.2	19	87	12	59	69	2	4	23	1.20
456399--456428	15	1.9	16	93	6	53	76	0	0	23	0.78
458317--458929	244	2.5	243	79	9	684	27	15	19	37	1.92
465258--465284	3	9.0	3	100	0	54	66	0	0	33	0.92
466370--466418	23	2.0	23	84	7	62	42	2	0	55	1.11
481190--481232	21	2.0	21	100	0	86	34	27	18	18	1.95
483908--483964	21	2.7	21	81	8	62	56	1	0	42	1.10
484635--484679	20	2.2	20	100	0	90	26	37	15	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488205--488248	20	2.2	20	87	0	61	27	6	6	59	1.49
490906--490951	17	2.7	18	90	9	71	69	0	0	30	0.89
496480--496525	18	2.5	19	82	10	60	60	4	10	23	1.47
502166--502222	24	2.4	24	93	0	96	26	19	35	19	1.95
504655--504696	3	13.7	3	95	5	75	33	0	0	66	0.92
504838--504928	31	2.9	31	91	0	146	24	36	19	19	1.95
506214--506521	131	2.4	130	85	0	418	32	10	15	41	1.81
506215--506521	130	2.4	131	85	0	418	32	10	15	41	1.81
512793--512840	20	2.4	20	100	0	96	31	6	14	47	1.69
518779--519899	232	4.8	232	84	4	1308	32	15	17	34	1.91
519718--519836	41	2.9	41	78	10	109	25	23	21	29	1.99
519705--519836	42	3.2	41	75	11	117	26	21	22	28	1.99
520164--520700	133	4.0	133	79	3	481	31	20	15	32	1.94
522765--523122	131	2.7	131	89	0	518	31	10	18	39	1.85
524599--525068	167	2.8	166	87	1	683	43	8	7	40	1.63
531527--531584	20	2.6	22	89	10	84	24	22	20	32	1.98
531575--531733	64	2.5	64	84	2	194	25	22	17	34	1.96
534993--535044	26	2.0	26	100	0	104	23	38	19	19	1.93
536032--536084	26	2.0	27	96	3	99	49	15	7	28	1.71
538999--539047	21	2.3	21	85	0	62	30	28	12	28	1.93
551105--551168	31	2.1	31	93	0	110	26	23	14	35	1.93
552600--552680	41	2.0	41	95	4	146	65	9	1	23	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553208--553291	44	1.9	44	92	0	141	28	15	26	29	1.96
553990--554034	17	2.7	17	80	13	58	71	2	6	20	1.20
556719--556765	19	2.5	19	75	6	51	74	0	6	19	1.03
557366--557401	12	2.8	14	88	12	51	66	0	19	13	1.24
558727--558866	70	2.0	70	100	0	280	24	22	12	40	1.89
563601--563661	3	20.7	3	82	15	74	36	1	0	62	1.05
565035--565105	24	3.2	21	75	13	70	29	2	4	63	1.27
565053--565108	24	2.3	24	82	11	78	30	3	3	62	1.29
565043--565111	24	2.7	27	72	25	76	28	2	4	63	1.28
584185--584401	47	4.8	45	84	6	249	30	20	6	41	1.78
584185--584401	91	2.4	92	85	3	287	30	20	6	41	1.78
585263--585303	2	20.5	2	100	0	82	48	0	0	51	1.00
586533--586557	9	2.8	9	100	0	50	24	0	44	32	1.54
589598--589730	55	2.4	55	80	0	140	43	13	20	22	1.86
595759--595894	34	3.9	34	90	2	209	34	22	22	20	1.97
595898--596767	215	4.0	216	93	1	1481	34	15	18	31	1.93
597160--597210	2	25.5	2	100	0	102	49	0	0	50	1.00
598505--598542	15	2.5	15	95	0	67	47	5	31	15	1.68
603749--603823	20	3.9	20	75	10	75	38	30	16	14	1.88
604978--605003	2	13.0	2	100	0	52	50	0	0	50	1.00
607417--607461	21	2.1	21	95	0	81	22	11	44	22	1.84
621184--621245	24	2.6	24	82	10	90	19	17	43	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621449--621490	18	2.4	18	88	11	61	66	0	0	33	0.92
625186--625224	16	2.4	17	78	8	53	30	5	5	58	1.41
630968--631074	1	107.0	1	67	0	52	83	0	15	0	0.71
630966--631063	6	17.0	6	80	16	86	82	0	16	1	0.72
630966--631074	8	13.1	8	74	18	98	82	0	16	0	0.72
630966--631066	41	2.5	40	84	13	136	82	0	16	0	0.73
630966--631074	50	2.2	50	85	6	141	82	0	16	0	0.72
630966--631074	34	3.3	32	82	13	123	82	0	16	0	0.72
630966--631072	42	2.6	41	86	11	139	82	0	16	0	0.73
632365--632556	52	3.7	52	80	2	181	37	16	22	23	1.94
632361--632511	51	2.9	52	83	2	196	38	15	22	23	1.92
632361--632558	103	1.9	104	83	5	258	36	16	22	23	1.94
634033--634458	117	3.6	117	88	4	653	39	14	21	24	1.91
634372--634544	91	1.9	91	85	2	240	41	15	19	24	1.89
634479--634543	20	3.3	20	68	14	55	46	12	18	23	1.82
634754--635143	129	3.0	128	79	7	331	26	26	17	28	1.98
643891--643935	19	2.4	19	100	0	90	46	11	6	35	1.66
646770--646824	25	2.2	24	78	9	56	14	20	5	60	1.54
647266--647657	131	2.9	134	82	4	479	32	19	17	29	1.95
651441--651473	2	17.0	2	93	6	59	48	0	0	51	1.00
654470--654677	80	2.6	80	90	1	310	30	25	21	23	1.99
657534--657568	16	2.1	17	89	5	54	17	34	2	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657695--657743	21	2.3	21	89	0	71	16	30	8	44	1.76
661491--661529	16	2.4	17	82	8	53	53	2	2	41	1.28
661457--661645	58	3.1	58	66	25	163	50	12	6	31	1.65
661462--661648	56	3.1	56	65	25	146	50	11	6	31	1.64
661411--661648	125	1.9	125	97	0	449	50	13	6	28	1.66
662450--662513	26	2.5	26	84	2	76	12	23	9	54	1.66
663391--663437	21	2.3	21	96	3	87	8	8	38	44	1.65
664230--664279	21	2.4	21	80	6	57	22	2	6	70	1.20
670680--670722	21	2.0	21	90	0	68	44	0	2	53	1.13
671111--671175	17	3.8	17	76	8	53	53	1	0	44	1.09
671282--671313	2	16.0	2	100	0	64	50	0	0	50	1.00
676057--676096	13	3.2	12	82	10	53	57	0	2	40	1.12
676055--676135	33	2.5	33	76	13	87	55	0	4	39	1.21
676156--676185	3	10.0	3	92	0	51	63	0	3	33	1.11
677805--677889	3	29.0	3	85	4	84	57	0	0	42	0.98
677856--677901	22	2.1	21	84	11	58	67	0	0	32	0.91
678105--678761	112	5.6	123	79	9	530	27	18	14	39	1.89
678354--678791	112	3.9	112	83	2	549	28	18	13	39	1.89
678354--678791	225	2.0	223	88	1	662	28	18	13	39	1.89
680326--680384	2	29.5	2	100	0	118	49	0	0	50	1.00
680398--680453	18	3.3	17	85	7	78	7	16	0	76	0.99
686098--686473	187	2.0	187	99	0	743	26	20	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691296--691364	2	35.0	2	97	2	131	49	0	0	50	1.00
692125--692205	33	2.5	33	76	13	87	56	0	3	39	1.17
693463--693522	22	2.7	22	97	0	111	23	18	28	30	1.98
693909--693994	3	29.0	3	90	6	140	66	0	0	33	0.92
697776--697978	77	2.6	78	82	7	241	20	23	24	32	1.98
698115--698203	22	4.0	22	92	0	151	35	22	16	24	1.95
698708--698758	12	3.9	14	87	7	56	49	0	0	50	1.00
698721--698763	2	22.5	2	90	9	72	48	0	0	51	1.00
700486--700528	18	2.4	18	100	0	86	30	18	4	46	1.69
703793--703849	21	2.8	21	86	2	71	36	28	19	15	1.92

Tables:   1   2   3   4   5   6