genome.fa.s9463.2.7.7.80.10.50.1000.17.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  17  of  20  ( 2327 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)
3251548--3251616	23	3.0	23	76	0	84	28	24	26	20	1.99
3252021--3252057	2	18.5	2	100	0	74	48	0	0	51	1.00
3253173--3253230	20	2.7	20	86	10	71	27	22	18	31	1.97
3254455--3254601	73	2.0	74	89	1	224	44	20	10	24	1.82
3255531--3255575	16	2.6	19	76	16	53	28	0	4	66	1.11
3255526--3255631	34	3.1	34	80	14	96	35	0	2	61	1.11
3255559--3255636	33	2.4	33	85	8	97	38	0	1	60	1.05
3257357--3257404	21	2.3	21	85	0	60	25	39	12	22	1.89
3257408--3257501	21	4.5	21	85	7	111	18	36	25	20	1.95
3257354--3257493	42	3.3	42	69	13	108	20	38	18	22	1.93
3258021--3258117	28	3.2	28	70	20	77	53	4	3	39	1.36
3258503--3258985	127	3.8	128	97	1	920	32	19	25	22	1.97
3258503--3258982	255	1.9	252	97	1	915	32	20	25	22	1.97
3259051--3259091	8	5.2	8	82	5	57	36	29	0	34	1.58
3262269--3262294	13	2.0	13	100	0	52	38	0	0	61	0.96
3265005--3265045	21	2.0	21	95	0	73	41	0	17	41	1.49
3265837--3265875	2	19.5	2	100	0	78	51	0	0	48	1.00
3269007--3269133	2	65.5	2	80	12	149	49	2	0	48	1.14
3269348--3269430	2	45.5	2	71	17	65	48	0	0	51	1.00
3270208--3270381	82	2.1	85	94	5	309	42	9	13	33	1.78
3273385--3273623	118	2.0	118	90	4	376	38	15	12	33	1.85
3273503--3273988	180	2.7	179	92	4	816	33	16	14	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3273687--3274280	299	2.0	296	92	4	984	34	16	14	34	1.89
3273226--3274464	479	2.6	480	93	4	2129	33	16	14	35	1.89
3273986--3274552	180	3.2	181	90	5	879	33	17	13	35	1.89
3275735--3275786	12	4.3	12	82	0	59	21	30	5	42	1.76
3275735--3275786	6	8.7	6	80	0	50	21	30	5	42	1.76
3277010--3277733	198	3.7	195	92	3	1167	30	18	14	36	1.91
3277010--3277733	395	1.8	391	92	3	1240	30	18	14	36	1.91
3277856--3277916	19	3.3	18	88	2	59	52	11	1	34	1.47
3277868--3277916	19	2.6	19	96	0	89	55	10	2	32	1.45
3279764--3279806	20	2.1	21	91	4	70	16	32	11	39	1.84
3279887--3279917	14	2.2	14	94	0	53	9	61	9	19	1.54
3282005--3282051	20	2.4	19	82	10	67	19	17	10	53	1.72
3282182--3282228	20	2.4	19	82	10	67	19	17	10	53	1.72
3283133--3283239	45	2.4	44	87	10	146	29	20	16	32	1.95
3288932--3289028	21	4.4	21	76	13	72	27	22	21	27	1.99
3290291--3290354	22	3.0	22	84	4	87	18	29	32	18	1.95
3290681--3290744	27	2.4	27	100	0	128	25	43	0	31	1.55
3292321--3292358	3	13.0	3	86	5	51	0	28	2	68	1.03
3293763--3293843	21	3.9	21	82	14	87	20	30	32	16	1.95
3293763--3293834	22	3.5	19	81	16	74	22	26	36	15	1.93
3296092--3296299	65	3.2	63	79	12	217	31	24	18	26	1.97
3299282--3299396	59	1.9	59	98	0	221	28	14	20	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310952--3311069	42	2.8	42	77	10	107	22	35	19	22	1.96
3310953--3311047	21	4.5	21	71	5	75	24	34	18	22	1.96
3312475--3312514	14	2.9	14	80	0	53	30	0	17	52	1.45
3312424--3312565	66	2.2	64	83	9	175	31	1	16	50	1.55
3312835--3312959	39	3.2	39	98	0	241	16	16	20	47	1.83
3313265--3313301	18	2.1	18	89	0	56	51	10	5	32	1.60
3313687--3313736	25	2.0	25	100	0	100	44	20	8	28	1.79
3316424--3316477	24	2.2	24	93	0	90	40	20	18	20	1.91
3317370--3317499	20	6.6	20	75	9	106	26	13	27	32	1.93
3317781--3317814	17	2.1	15	89	10	50	47	26	2	23	1.66
3323310--3323348	19	2.1	19	85	9	53	12	2	30	53	1.52
3325155--3325229	33	2.2	36	79	15	88	30	2	4	62	1.27
3326135--3326330	80	2.4	83	86	5	265	30	6	13	49	1.68
3327890--3327928	20	1.9	20	85	15	53	38	0	25	35	1.56
3332172--3332347	85	2.1	85	84	6	223	30	19	18	31	1.96
3332367--3332391	2	12.5	2	100	0	50	48	0	0	52	1.00
3337598--3337641	22	2.0	22	86	0	61	68	0	2	29	1.02
3340005--3340538	267	2.0	265	97	0	996	38	21	17	23	1.94
3341345--3341711	183	2.0	183	95	1	655	31	16	16	35	1.91
3340272--3341528	621	2.0	610	93	2	1617	33	20	17	27	1.96
3342158--3342526	184	2.0	184	96	0	684	30	15	17	36	1.91
3340730--3343157	815	3.0	815	95	0	4255	33	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3342343--3344160	631	2.9	629	93	0	3055	33	20	17	28	1.96
3344160--3347799	630	5.8	631	84	7	4803	33	20	18	27	1.96
3346222--3347799	621	2.5	625	93	2	2626	33	20	17	27	1.96
3347531--3348066	267	2.0	267	98	0	1036	37	20	18	23	1.94
3347798--3349062	630	2.0	626	94	1	2117	33	20	17	28	1.96
3348882--3349246	184	2.0	184	96	1	669	30	16	16	37	1.91
3348264--3349876	814	2.0	813	93	0	2787	32	19	17	30	1.95
3349079--3361516	631	19.7	631	87	3	17735	33	19	18	28	1.95
3361248--3361783	267	2.0	267	95	0	955	38	20	17	23	1.93
3360617--3362414	898	2.0	898	94	0	3182	34	20	17	27	1.95
3361515--3365045	631	5.6	630	94	0	6050	33	20	18	27	1.96
3367013--3367037	11	2.3	11	100	0	50	44	32	0	24	1.54
3367097--3367135	17	2.4	17	95	4	71	43	0	5	51	1.24
3367974--3368272	38	8.2	37	77	11	187	45	5	3	45	1.45
3367982--3368285	75	4.1	74	81	7	320	45	5	3	44	1.45
3367974--3368337	113	3.4	110	81	8	391	45	5	3	45	1.43
3368218--3368348	64	2.1	63	90	7	203	49	5	3	41	1.41
3368250--3368310	25	2.3	27	86	5	90	50	4	0	44	1.23
3368001--3368322	75	4.4	74	80	11	278	45	5	3	45	1.44
3368272--3368375	37	2.8	37	82	5	120	47	5	2	44	1.42
3377915--3377952	5	7.6	5	100	0	76	39	0	0	60	0.97
3379523--3379550	6	4.7	6	100	0	56	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381632--3382032	121	3.3	120	85	2	523	23	17	25	33	1.96
3381941--3382098	66	2.4	66	88	0	226	25	15	24	33	1.95
3381821--3382219	186	2.1	186	88	0	591	25	16	24	33	1.95
3382185--3382275	45	2.0	45	84	0	119	28	12	19	39	1.88
3383237--3383295	23	2.5	23	81	13	59	0	16	3	79	0.86
3383260--3383288	13	2.3	13	94	5	51	0	13	0	86	0.58
3383255--3383295	17	2.4	16	84	11	55	0	17	0	82	0.66
3390338--3390370	16	2.1	16	100	0	66	12	33	12	42	1.79
3391611--3391639	11	2.6	11	100	0	58	37	51	0	10	1.36
3393236--3393279	16	2.6	18	79	20	58	56	25	0	18	1.41
3394979--3395018	20	2.0	21	85	5	55	25	17	10	47	1.78
3404361--3405095	128	5.7	128	96	0	1335	21	24	21	33	1.97
3405491--3405597	34	3.1	34	86	0	151	36	1	4	57	1.31
3406118--3406232	21	5.5	21	83	8	153	22	24	33	19	1.97
3406118--3406226	42	2.6	42	92	0	173	23	23	33	19	1.97
3406236--3406283	21	2.3	21	88	0	69	20	12	41	25	1.87
3407972--3408041	34	2.1	32	84	10	86	61	4	0	34	1.16
3407994--3408041	16	2.8	18	75	18	57	64	4	0	31	1.12
3408672--3408721	8	6.0	8	81	6	55	32	0	0	68	0.90
3408672--3408713	17	2.5	17	88	3	59	28	0	0	71	0.86
3408881--3408928	24	2.0	24	87	0	69	8	47	25	18	1.76
3411078--3411118	21	1.9	22	90	5	66	21	17	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411577--3411605	7	4.1	7	100	0	58	41	13	31	13	1.84
3413777--3413860	15	5.7	15	78	10	84	29	1	0	69	0.97
3413774--3413862	21	4.4	20	80	17	105	29	1	0	69	0.95
3413774--3413867	18	5.1	18	82	11	68	29	2	0	68	1.02
3414371--3414404	17	1.9	18	94	5	61	47	29	17	5	1.71
3415230--3415501	149	1.9	146	82	9	331	36	7	8	47	1.63
3416039--3416079	11	3.7	11	81	18	50	24	0	0	75	0.80
3416029--3416087	26	2.3	26	85	11	77	23	1	0	74	0.91
3416030--3416087	23	2.8	21	80	19	68	24	1	0	74	0.92
3417587--3417628	7	6.0	7	81	8	50	14	16	14	54	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20