genome.fa.s8027.2.7.7.80.10.50.1000.34.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  34  of  38  ( 4505 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)
6889437--6889532	44	2.2	44	81	5	106	51	7	3	38	1.46
6889836--6889955	32	3.7	31	69	11	96	38	20	20	20	1.94
6889764--6890023	67	3.8	67	83	4	281	40	18	17	23	1.92
6889880--6889987	36	3.1	36	63	12	91	38	18	21	21	1.93
6889764--6890027	134	1.9	135	82	7	329	39	18	18	23	1.92
6891448--6891507	31	1.9	31	90	6	95	41	6	6	45	1.57
6891967--6892015	18	2.6	19	78	18	57	63	0	0	36	0.95
6891987--6892179	64	3.0	61	84	10	178	56	2	1	39	1.18
6892044--6892128	40	2.2	37	83	12	100	54	1	1	43	1.15
6892079--6892160	24	3.2	27	77	13	77	56	1	1	41	1.15
6893024--6893064	21	1.9	22	85	5	57	41	17	17	24	1.89
6894953--6895098	78	1.9	78	97	0	274	34	18	19	26	1.95
6896299--6896339	21	1.9	22	85	5	57	41	14	17	26	1.88
6897564--6897621	30	2.0	30	83	10	75	39	6	22	31	1.80
6898407--6898439	12	2.6	13	85	4	50	87	6	6	0	0.65
6900143--6900618	124	3.8	124	85	1	632	26	17	25	30	1.98
6902223--6902277	2	27.5	2	100	0	110	49	0	0	50	1.00
6905924--6905968	20	2.3	19	84	3	54	37	13	15	33	1.86
6908251--6908293	13	3.1	14	80	12	54	72	9	2	16	1.21
6911586--6911648	19	3.4	19	70	16	69	1	17	7	73	1.16
6916170--6916689	22	23.6	22	83	6	619	48	8	0	42	1.35
6917511--6917567	25	2.3	25	100	0	114	42	0	7	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6918745--6919821	539	2.0	541	90	1	1698	34	17	19	27	1.95
6920536--6920568	13	2.3	15	90	10	52	60	3	12	24	1.46
6927282--6927423	40	3.5	40	90	3	214	54	9	4	30	1.53
6933097--6933130	2	17.0	2	100	0	68	50	0	0	50	1.00
6938387--6938511	64	1.9	65	82	4	155	29	20	19	30	1.97
6944283--6944358	23	3.4	23	76	8	95	26	26	22	25	2.00
6944278--6944380	44	2.4	42	81	9	127	27	25	23	24	2.00
6947003--6947190	65	2.9	63	80	9	202	31	21	18	28	1.97
6947031--6947190	65	2.5	63	85	6	214	31	21	18	28	1.97
6953031--6953090	30	2.0	30	100	0	120	23	33	20	23	1.97
6955226--6955271	20	2.2	21	84	3	58	52	0	2	45	1.13
6959198--6959298	31	3.3	31	79	4	98	34	13	2	48	1.58
6959435--6959467	15	2.1	16	88	5	50	36	0	0	63	0.95
6962044--6962092	19	2.5	20	86	3	64	51	6	12	30	1.64
6962064--6962133	20	3.5	20	70	14	56	50	4	14	31	1.62
6965164--6965218	25	2.2	26	93	3	94	40	1	7	50	1.40
6967536--6967574	17	2.2	18	86	4	53	66	17	2	12	1.35
6967545--6967595	26	2.0	26	84	0	66	64	9	3	21	1.40
6967553--6967623	26	2.8	25	81	14	76	64	8	2	23	1.35
6970136--6970179	18	2.4	18	96	0	79	27	27	27	18	1.98
6978167--6978265	46	2.1	47	81	5	112	25	22	19	33	1.97
6983748--6983809	24	2.6	24	78	0	70	24	24	19	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6985195--6985243	20	2.5	19	83	3	53	32	12	2	53	1.50
6992173--6992299	66	1.9	65	91	1	209	22	25	17	34	1.96
6998213--6998307	33	2.9	33	81	7	106	18	17	26	36	1.94
7001128--7001200	22	3.3	22	94	0	128	35	9	13	41	1.77
7001413--7001497	31	2.7	32	78	8	93	51	1	1	45	1.16
7001856--7001901	24	1.9	24	95	0	83	10	15	21	52	1.73
7001859--7001914	24	2.3	24	84	0	67	14	12	17	55	1.69
7002021--7002050	7	4.4	7	91	8	53	40	43	0	16	1.48
7002021--7002048	13	2.2	13	100	0	56	42	42	0	14	1.45
7002070--7002136	7	9.4	7	80	6	64	40	37	2	19	1.67
7003346--7003384	20	2.0	20	89	0	60	33	10	23	33	1.88
7011466--7011530	11	5.8	11	80	3	67	27	21	24	26	1.99
7011466--7011509	23	1.9	23	100	0	88	31	22	22	22	1.98
7011753--7011800	15	3.1	15	85	5	69	12	12	18	56	1.67
7011751--7011809	16	3.8	16	81	4	75	13	11	18	55	1.68
7011879--7011909	16	1.9	16	100	0	62	6	12	22	58	1.58
7014830--7015058	119	1.9	118	98	0	440	46	7	8	37	1.62
7016923--7016964	21	2.0	22	90	4	68	40	0	0	59	0.97
7017424--7017469	23	2.0	23	83	8	58	34	10	30	23	1.89
7018661--7018690	15	1.9	16	93	6	53	43	20	30	6	1.77
7031622--7031654	2	16.5	2	93	0	57	51	3	0	45	1.16
7033787--7033818	15	2.0	17	88	11	50	31	15	6	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7035498--7035556	23	2.6	23	77	15	61	47	1	0	50	1.11
7039085--7039148	3	21.7	3	87	9	96	65	0	1	32	1.02
7039135--7039180	23	2.0	22	84	12	58	71	2	10	15	1.23
7039082--7039209	15	8.6	14	74	14	62	70	0	4	24	1.11
7040800--7041332	106	5.0	106	87	1	737	21	17	25	34	1.95
7041875--7042170	102	2.9	102	94	0	502	37	11	18	32	1.87
7042012--7042166	37	4.4	37	66	19	116	36	12	20	30	1.90
7042986--7043041	22	2.5	23	88	5	96	21	10	28	39	1.87
7044401--7044442	17	2.6	16	82	10	50	73	2	7	16	1.15
7045373--7045477	37	2.8	37	86	0	147	30	14	14	40	1.85
7046208--7047271	106	10.0	106	92	0	1711	23	18	24	33	1.97
7048235--7048290	22	2.5	22	94	0	103	26	12	25	35	1.91
7048893--7048937	15	3.0	14	81	12	54	4	8	2	84	0.84
7048892--7048960	25	2.8	24	80	10	68	2	11	5	79	1.01
7048894--7048960	24	2.7	25	79	9	75	2	10	5	80	0.99
7053294--7053340	8	5.3	9	87	10	62	76	0	2	21	0.89
7053304--7053347	4	11.2	4	86	13	65	75	0	2	22	0.92
7053261--7053347	16	5.0	18	79	12	76	73	0	6	19	1.05
7053310--7053382	39	1.9	38	75	10	69	65	0	4	30	1.11
7053590--7053631	2	21.0	2	100	0	84	50	0	0	50	1.00
7054667--7054709	3	14.7	3	81	13	54	65	0	2	32	1.06
7054696--7054741	23	2.0	22	84	12	58	71	2	10	15	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7054738--7054785	23	2.1	22	81	11	53	75	4	6	14	1.16
7060544--7060595	2	26.0	2	100	0	104	50	0	0	50	1.00
7061771--7061795	5	5.0	5	100	0	50	80	0	0	20	0.72
7062085--7062110	5	5.2	5	100	0	52	19	23	0	57	1.40
7063325--7063355	16	2.0	15	93	6	53	41	6	6	45	1.55
7063245--7063420	40	4.6	37	78	13	162	42	9	5	43	1.60
7063245--7063420	36	4.6	37	78	12	160	42	9	5	43	1.60
7063342--7063481	64	2.2	61	92	3	226	42	8	4	44	1.54
7063387--7063445	24	2.5	24	88	5	84	44	8	3	44	1.51
7063410--7063518	37	3.0	37	80	10	143	43	9	2	44	1.50
7063467--7063502	14	2.5	14	86	4	54	44	8	2	44	1.48
7063481--7063527	22	2.2	21	88	3	67	44	6	2	46	1.40
7063481--7063562	26	3.3	24	79	14	69	42	3	2	51	1.32
7063353--7063537	99	1.9	101	83	15	251	43	7	3	45	1.48
7063497--7063562	26	2.5	26	87	7	89	42	1	1	54	1.18
7063542--7063579	18	2.1	19	90	5	60	44	5	0	50	1.24
7065385--7065412	2	14.0	2	100	0	56	50	0	0	50	1.00
7072450--7072475	13	2.0	13	100	0	52	46	23	23	7	1.78
7075097--7075229	36	3.7	36	87	2	178	35	21	21	21	1.96
7080344--7080499	66	2.3	66	83	4	179	38	8	11	41	1.71
7080410--7080596	93	2.0	93	84	4	243	35	9	14	40	1.78
7080683--7080902	93	2.4	94	90	2	336	36	8	13	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7083873--7083975	31	3.1	34	65	16	90	47	9	8	33	1.67
7083871--7083993	64	1.9	64	93	0	210	47	8	8	34	1.66
7084118--7084583	200	2.3	198	86	2	641	30	16	13	38	1.88
7084684--7084768	30	2.8	31	80	15	83	48	1	1	49	1.16
7085438--7085521	42	2.0	43	81	6	100	51	0	1	47	1.08
7085475--7085560	30	2.9	30	80	13	81	47	1	1	50	1.16
7085479--7085568	28	3.0	29	80	13	87	48	1	1	48	1.15
7085500--7085572	14	5.3	14	67	8	51	46	1	1	50	1.18
7085942--7085982	21	2.0	21	90	0	64	41	19	0	39	1.52
7086266--7086351	30	2.9	30	80	13	81	47	1	1	50	1.16

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