genome.fa.s8912.2.7.7.80.10.50.1000.16.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

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

This is table  16  of  18  ( 2121 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)
3147775--3147825	13	3.5	13	76	23	57	52	29	13	3	1.58
3147775--3147825	14	3.5	14	78	17	59	52	29	13	3	1.58
3153909--3153938	15	2.0	15	93	0	51	43	0	26	30	1.55
3154076--3154294	64	3.4	63	79	10	200	33	20	18	27	1.96
3154616--3154651	18	2.0	18	88	0	54	30	8	16	44	1.77
3158546--3158575	15	2.0	15	93	0	51	43	0	26	30	1.55
3158713--3158850	64	2.2	63	84	7	172	31	18	20	29	1.96
3158822--3158886	18	3.6	17	75	20	69	32	20	23	24	1.98
3158838--3158907	19	3.7	19	78	17	92	31	20	24	24	1.98
3158822--3158905	37	2.3	37	97	2	161	32	20	23	23	1.98
3158758--3158951	101	1.9	101	83	8	252	33	20	20	26	1.97
3159290--3159325	18	2.0	18	88	0	54	30	8	16	44	1.77
3162275--3162318	21	2.1	21	86	0	61	25	4	27	43	1.74
3165009--3165062	20	2.8	20	81	13	69	24	7	1	66	1.27
3168947--3168989	22	2.0	22	90	0	68	41	13	27	16	1.86
3171190--3171384	97	2.0	97	81	7	227	34	15	17	32	1.91
3172949--3172992	23	2.0	23	81	4	54	27	0	4	68	1.09
3174250--3174306	21	2.7	21	94	0	96	26	26	26	21	1.99
3174502--3174556	13	4.2	13	75	13	58	49	12	3	34	1.59
3174542--3174640	33	3.0	33	94	1	164	45	15	7	32	1.73
3174635--3174676	21	2.0	21	95	0	75	47	7	14	30	1.71
3186123--3186205	43	1.9	43	97	0	157	40	16	13	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3194045--3194143	44	2.2	45	83	5	139	33	19	16	31	1.93
3194064--3194142	24	3.5	24	70	19	78	35	16	16	31	1.91
3196339--3196393	28	2.0	28	85	0	74	47	3	9	40	1.53
3202542--3202634	44	2.1	44	85	0	123	34	18	17	30	1.94
3206970--3207012	15	2.9	15	83	13	61	69	0	0	30	0.88
3207019--3207181	13	11.8	14	64	18	56	74	2	4	17	1.10
3206975--3207162	43	4.3	43	79	13	206	72	2	5	19	1.15
3206968--3207083	4	28.8	4	71	20	73	73	1	3	21	1.07
3206985--3207166	85	2.1	84	88	9	264	73	2	5	18	1.16
3207104--3207218	54	2.2	53	81	9	135	73	1	4	20	1.10
3208491--3208574	31	2.7	30	83	10	107	71	0	2	26	0.98
3208522--3208575	17	3.0	17	75	19	56	70	0	0	29	0.88
3208599--3208902	39	8.1	37	77	13	196	44	7	0	47	1.38
3208613--3208974	38	9.6	37	78	13	348	44	8	1	45	1.43
3210256--3210351	22	4.4	22	100	0	192	22	22	27	27	1.99
3211107--3211150	20	2.2	20	92	8	72	59	22	0	18	1.38
3220829--3221044	85	2.6	85	85	2	294	26	18	19	35	1.95
3222505--3222695	98	1.9	99	89	1	294	31	16	17	34	1.92
3223649--3223929	150	1.9	151	84	3	388	22	24	15	37	1.93
3226709--3226887	6	29.5	6	64	22	54	74	1	7	16	1.11
3226709--3226887	36	4.7	36	69	13	101	74	1	7	16	1.11
3226709--3226845	43	3.2	45	67	27	111	74	1	6	17	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226750--3226819	30	2.3	30	85	2	86	75	0	5	18	0.99
3226779--3226847	17	4.2	18	72	26	55	79	1	4	14	0.95
3226813--3226879	32	2.1	32	88	5	100	74	2	8	13	1.17
3226773--3226847	24	3.2	23	72	24	66	77	1	6	14	1.04
3226780--3226851	14	5.2	13	71	17	56	79	1	4	15	0.96
3226687--3226887	12	16.8	11	68	25	51	74	1	6	17	1.11
3228191--3228248	30	1.9	31	82	3	73	77	3	1	17	0.99
3228191--3228286	6	15.8	6	70	16	56	75	2	1	21	0.98
3228238--3228284	11	4.6	10	75	15	51	72	0	0	27	0.85
3228204--3228252	22	2.3	20	77	16	53	77	0	2	20	0.87
3228204--3228287	31	2.7	31	85	8	111	75	0	1	23	0.88
3228289--3228640	35	9.9	34	70	18	131	44	7	2	45	1.48
3228361--3228421	26	2.3	26	85	0	86	45	6	0	47	1.28
3228388--3228605	36	5.9	35	78	11	143	44	8	2	44	1.46
3228387--3228669	38	7.6	37	76	13	235	43	8	2	45	1.49
3229626--3229664	18	2.2	18	90	0	60	17	23	5	53	1.63
3244189--3244286	20	4.8	20	77	3	88	36	23	18	21	1.95
3244130--3244286	41	3.9	41	70	11	126	38	25	17	18	1.93
3244273--3244443	20	8.6	20	84	5	107	35	26	18	20	1.95
3244253--3244462	60	3.5	58	80	7	208	37	25	17	20	1.94
3244307--3244462	20	7.8	20	87	4	174	35	25	17	21	1.95
3244273--3244462	40	4.8	40	86	5	208	36	25	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3245145--3245191	24	2.0	24	87	8	69	25	14	21	38	1.92
3247672--3247869	33	5.8	33	76	14	188	46	19	21	13	1.83
3247700--3247921	52	4.2	52	94	1	383	46	17	22	13	1.82
3247758--3247943	33	5.5	33	84	13	204	46	18	22	13	1.83
3247950--3248047	19	5.4	19	84	13	143	14	23	17	44	1.85
3248016--3248059	19	2.3	19	88	0	61	20	18	15	45	1.85
3248158--3248194	14	2.6	14	91	0	65	45	21	0	32	1.52
3250175--3250231	14	3.7	14	77	20	60	45	22	21	10	1.82
3250156--3250248	33	2.8	33	95	0	168	47	21	20	10	1.80
3250119--3250253	19	7.6	19	76	16	128	45	23	19	11	1.82
3250249--3250377	19	7.3	18	70	17	85	10	17	24	46	1.80
3250265--3250321	14	3.7	14	77	20	60	10	21	22	45	1.82
3250249--3250336	33	2.7	33	90	0	140	9	20	23	46	1.79
3250425--3250893	93	5.1	93	99	0	913	46	18	12	21	1.83
3252593--3252654	20	3.2	20	79	4	81	43	19	24	12	1.86
3252638--3252694	14	3.7	14	75	20	60	43	22	24	8	1.81
3252591--3252711	33	3.5	33	89	6	170	45	20	23	10	1.82
3252591--3252716	19	7.1	19	71	18	92	44	20	23	11	1.83
3252728--3252784	14	3.7	14	75	20	60	8	24	22	43	1.81
3252742--3252830	19	4.9	19	72	15	80	11	23	21	43	1.84
3252712--3252830	33	3.4	33	88	6	157	10	22	22	44	1.82
3252922--3252992	33	2.2	33	94	0	124	47	16	23	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3253174--3253228	22	2.5	22	81	0	74	20	16	40	23	1.91
3253375--3253548	20	8.6	20	78	5	181	20	19	24	35	1.96
3253377--3253548	60	2.8	60	83	0	218	20	19	24	35	1.96
3253375--3253568	60	3.2	60	81	0	217	20	19	23	36	1.95
3253535--3253632	20	4.8	20	77	3	88	22	18	22	36	1.95
3253535--3253691	41	3.9	41	71	14	119	19	17	24	38	1.93
3254477--3254551	13	5.8	13	75	0	69	29	34	26	9	1.88
3254477--3254536	26	2.3	26	88	0	84	30	36	26	6	1.82
3254476--3254551	26	2.9	25	76	7	80	28	34	27	9	1.88
3254593--3254631	13	3.0	13	88	0	60	25	17	15	41	1.89
3256590--3256687	47	2.2	45	84	10	137	28	8	17	45	1.77
3256601--3256695	47	2.0	47	93	0	163	28	9	17	44	1.80
3263594--3263656	18	3.5	17	80	10	63	65	1	0	33	1.03
3265821--3265898	29	2.6	30	74	11	72	39	1	2	56	1.21
3268308--3268362	28	2.0	28	82	13	69	60	9	3	27	1.44
3277352--3277411	21	3.0	19	77	15	59	66	0	3	30	1.07
3277316--3277382	34	2.0	34	82	5	82	59	0	4	35	1.18
3277379--3277412	17	2.0	17	88	0	50	61	0	2	35	1.11
3277467--3277505	16	2.5	16	87	4	53	51	0	5	43	1.24
3282126--3282281	65	2.4	65	84	5	201	30	17	22	29	1.97
3282938--3282966	13	2.2	13	100	0	58	51	31	0	17	1.45
3282939--3282986	22	2.2	22	85	14	64	54	29	0	16	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3284926--3284999	23	3.3	22	72	14	71	28	21	24	25	1.99
3288679--3288718	20	2.0	21	85	5	55	25	17	10	47	1.78
3290747--3290899	65	2.4	65	82	5	168	30	16	20	32	1.95
3296843--3296867	4	6.2	4	100	0	50	76	0	0	24	0.80
3297493--3297545	24	2.2	24	100	0	106	41	3	30	24	1.72
3298244--3298282	2	19.5	2	100	0	78	48	0	0	51	1.00
3298315--3298350	17	2.2	17	90	5	56	16	5	0	77	0.94
3298314--3298358	16	2.6	17	80	13	56	20	6	0	73	1.05
3305693--3305752	23	2.8	21	87	7	77	23	35	25	16	1.95
3305694--3305779	21	4.1	20	74	14	66	23	34	26	15	1.94

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