genome.fa.s8979.2.7.7.80.10.50.1000.4.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: VEPZ01008979.1 Hibiscus syriacus cultivar Beakdansim tig00112339_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1115631

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 693 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)
508087--508114	2	14.0	2	100	0	56	50	0	0	50	1.00
511182--511207	11	2.4	11	100	0	52	23	0	15	61	1.33
520894--520954	13	4.8	13	82	6	81	24	26	24	24	2.00
520894--520951	12	4.7	12	82	6	71	25	25	24	24	2.00
520894--520954	25	2.4	25	94	0	113	24	26	24	24	2.00
521012--521045	17	2.0	17	94	0	59	38	5	11	44	1.65
535633--535742	57	1.9	57	90	0	175	39	17	20	23	1.92
537066--537139	20	3.7	20	80	3	94	40	18	22	17	1.91
537083--537158	21	3.7	21	78	3	91	42	18	23	15	1.89
537066--537158	41	2.3	41	98	0	177	40	18	23	17	1.90
537155--537281	20	6.2	21	77	9	95	32	25	18	23	1.97
537144--537281	41	3.4	40	76	7	127	34	24	17	23	1.96
537735--537793	20	3.0	20	85	5	66	15	18	23	42	1.88
539084--539128	18	2.5	18	88	0	72	26	44	15	13	1.83
539671--539700	15	2.0	15	100	0	60	40	20	26	13	1.89
539717--539771	14	3.9	14	86	11	76	9	16	23	50	1.73
539717--539820	30	3.4	30	73	15	97	11	20	22	46	1.82
541639--541674	14	2.6	14	90	0	54	30	0	22	47	1.52
541780--541855	19	4.7	15	72	24	50	46	18	22	13	1.83
541790--541837	19	2.6	19	96	3	89	47	16	20	14	1.82
541874--541911	20	1.9	20	94	0	67	15	21	23	39	1.92
542955--543008	24	2.2	24	90	0	81	24	16	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545471--545598	33	3.9	33	88	4	204	42	19	22	14	1.88
545472--545597	66	1.9	66	98	0	243	42	19	23	15	1.89
545778--545811	14	2.4	14	90	0	50	47	17	2	32	1.63
547157--547223	21	3.2	21	65	4	55	19	19	35	25	1.95
549257--549315	20	3.0	19	78	9	64	44	18	23	13	1.86
549306--549342	14	2.6	14	95	0	65	40	24	24	10	1.87
549282--549375	47	2.0	48	89	2	145	38	25	24	11	1.89
549366--549455	19	4.7	19	88	2	135	47	21	18	12	1.81
549319--549394	33	2.3	33	83	0	107	40	27	21	10	1.86
549366--549455	39	2.3	38	92	1	153	47	21	18	12	1.81
549451--549493	17	2.4	19	88	11	72	4	16	25	53	1.62
550084--550137	20	2.7	20	97	0	99	25	18	24	31	1.97
550044--550158	61	1.9	61	81	3	142	21	20	23	34	1.96
555884--555956	24	3.0	24	83	0	92	20	10	16	52	1.74
559208--559242	6	5.7	6	86	6	52	80	0	2	17	0.84
559208--559242	13	2.8	13	86	4	54	80	0	2	17	0.84
567593--567631	21	1.9	20	84	5	51	35	20	15	28	1.93
579123--579157	18	1.9	18	88	0	52	54	0	17	28	1.43
584520--584554	18	1.9	18	88	0	52	54	0	17	28	1.43
589453--589970	43	12.1	42	75	11	378	49	5	19	25	1.69
589453--589971	86	6.0	86	80	7	511	49	5	19	25	1.69
589467--589970	128	3.9	126	80	7	518	49	5	19	25	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589467--590054	215	2.7	214	80	6	543	50	5	18	25	1.69
600960--601074	42	2.7	42	89	0	158	18	18	13	49	1.79
601261--601352	22	3.8	23	75	19	73	51	0	0	48	1.00
601272--601439	29	5.8	30	68	27	107	45	0	1	52	1.11
601316--601361	18	2.6	19	83	10	53	54	0	2	43	1.12
601265--601384	52	2.3	51	78	17	140	47	0	0	51	1.06
601368--601409	21	2.0	21	81	9	50	40	0	4	54	1.21
601246--601367	54	2.3	52	83	9	140	49	0	0	50	1.06
601374--601437	28	2.2	28	86	8	85	45	0	3	51	1.17
601539--601645	48	2.2	47	77	12	108	50	0	0	48	1.07
601747--601803	29	1.9	30	96	3	107	33	17	7	42	1.76
601747--601823	15	5.4	15	74	12	72	33	16	7	41	1.78
601747--601831	42	2.0	43	84	9	111	31	17	7	43	1.76
604390--604421	16	2.0	16	93	0	55	59	0	3	37	1.13
605271--605311	17	2.5	17	84	7	50	43	2	0	53	1.13
615588--616042	128	3.6	128	95	0	806	34	21	23	21	1.97
616122--616162	8	5.2	8	88	5	66	36	26	0	36	1.57
616122--616162	15	2.6	16	84	7	57	36	26	0	36	1.57
623528--623564	19	1.9	19	88	0	56	56	2	2	37	1.28
623741--623836	41	2.3	41	89	0	147	25	26	16	32	1.96
623811--624050	132	1.8	133	86	4	351	30	13	24	32	1.93
623823--624296	228	2.1	226	89	2	727	29	15	23	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624049--624974	134	6.9	134	86	2	1126	28	16	23	31	1.96
626578--626648	2	36.0	2	97	2	135	49	0	0	50	1.00
632436--632466	12	2.6	12	100	0	62	25	16	38	19	1.92
633490--633748	133	1.9	133	84	9	348	38	6	14	40	1.73
636808--636864	27	2.1	27	100	0	114	38	7	10	43	1.66
636816--636874	27	2.2	27	87	6	84	42	8	8	40	1.66
639200--639264	21	3.1	21	93	2	105	20	24	16	38	1.93
639279--639321	20	2.2	19	91	4	68	53	23	9	13	1.69
639293--639407	20	5.8	19	78	10	90	42	21	14	20	1.88
639563--639613	22	2.3	22	96	0	93	19	45	15	19	1.86
640005--640036	14	2.3	14	94	0	55	6	21	21	50	1.71
640019--640062	20	2.2	20	83	0	52	13	18	18	50	1.79
641735--641849	42	2.7	42	84	7	128	22	35	18	23	1.95
641731--641825	21	4.5	21	77	5	93	23	35	16	24	1.95
643176--643349	79	2.4	76	82	14	206	29	2	16	52	1.56
643260--643296	14	2.6	14	86	0	56	27	0	24	48	1.51
643209--643361	79	1.9	78	93	3	263	29	1	17	51	1.54
646151--646178	12	2.3	12	100	0	56	14	0	32	53	1.41
648796--648868	21	3.4	21	79	11	76	60	0	1	38	1.06
648801--648865	3	21.7	3	84	12	80	61	0	0	38	0.96
649202--649988	113	6.9	112	87	5	969	27	18	15	38	1.91
649202--649988	227	3.4	225	84	7	959	27	18	15	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651093--651164	19	3.7	19	81	10	76	55	5	6	31	1.50
651093--651136	18	2.4	18	88	3	61	59	6	2	31	1.36
651491--651535	19	2.4	19	85	14	58	8	20	0	71	1.12
658733--658764	15	2.1	15	94	0	55	46	9	18	25	1.79
659547--659583	15	2.5	15	100	0	74	24	32	0	43	1.55
663122--663146	13	1.9	13	100	0	50	40	12	0	48	1.40
664297--664357	3	20.7	3	84	15	83	65	0	0	34	0.93
664285--664358	21	3.4	21	77	15	78	62	0	0	37	0.96
664284--664357	24	3.2	24	85	9	93	62	0	0	37	0.96
664284--664358	27	2.7	27	87	8	98	61	0	0	38	0.96
664277--664358	10	8.6	10	83	11	93	59	0	1	39	1.05
664579--664758	20	9.1	20	86	7	165	25	13	23	37	1.92
664587--664678	19	4.7	19	93	4	139	30	10	23	34	1.89
664585--664912	40	8.2	40	76	12	246	22	13	23	40	1.90
664585--664899	60	5.3	60	72	16	190	22	13	23	39	1.90
664645--664912	20	13.4	20	79	12	198	20	14	23	41	1.88
664684--664948	140	1.9	140	87	3	390	19	14	23	42	1.88
664907--664945	20	2.0	20	94	0	69	20	17	23	38	1.93
664949--664989	21	2.0	21	95	0	73	46	17	17	19	1.85
665574--665605	15	2.1	15	94	0	55	40	0	6	53	1.26
671064--671127	21	3.0	21	90	4	103	14	26	39	20	1.90
672431--672499	21	3.3	21	93	2	113	28	17	33	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673619--673666	19	2.5	20	82	3	62	29	12	6	52	1.63
674933--675008	21	3.7	21	91	1	118	28	18	31	21	1.97
675188--675247	30	2.0	30	96	0	111	45	20	5	30	1.72
675954--675980	14	1.9	14	100	0	54	40	0	7	51	1.30
676070--676117	19	2.5	20	82	3	62	29	12	6	52	1.63
676974--677045	35	2.2	32	85	7	90	22	29	15	33	1.94
677391--677454	20	3.2	20	86	2	92	12	26	40	20	1.88
677391--677454	21	3.1	21	84	4	94	12	26	40	20	1.88
681625--681680	23	2.5	21	81	13	67	30	0	5	64	1.16
681535--681678	52	2.7	52	75	14	134	28	0	7	63	1.27

Tables:   1   2   3   4   5   6