genome.fa.s9610.2.7.7.80.10.50.1000.17.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  17  of  18  ( 2160 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)
3457932--3458125	60	3.2	60	78	5	212	20	19	24	35	1.95
3458112--3458194	21	4.0	21	73	6	78	25	16	24	33	1.96
3459104--3459225	22	5.5	22	89	0	190	30	30	25	13	1.94
3464030--3464079	18	2.8	18	93	0	82	26	32	22	20	1.98
3464068--3464122	22	2.5	22	91	5	85	25	27	27	20	1.99
3464645--3464768	42	3.1	40	79	10	130	51	4	3	41	1.37
3464730--3464829	30	3.2	30	88	7	137	48	7	3	42	1.45
3464794--3464982	37	5.2	35	85	9	245	43	6	4	44	1.52
3465655--3467221	84	18.7	84	84	1	1825	23	18	24	33	1.97
3468354--3468613	100	2.6	98	85	6	355	30	18	18	32	1.95
3470078--3470114	19	1.9	19	89	10	58	72	0	18	8	1.08
3471495--3471534	20	2.1	18	86	9	53	67	0	7	25	1.16
3473121--3473169	22	2.1	22	81	7	53	57	2	2	38	1.22
3473793--3473819	13	2.1	13	100	0	54	7	59	33	0	1.25
3474577--3474690	3	37.7	3	89	1	174	62	0	1	35	1.06
3474936--3475614	114	5.8	115	93	3	1091	29	19	13	37	1.90
3474936--3475614	349	1.9	348	96	2	1267	29	19	13	37	1.90
3476221--3476483	52	5.1	52	91	4	385	38	22	14	25	1.91
3476241--3476484	50	4.8	50	94	3	382	38	22	14	24	1.91
3476515--3476828	52	6.1	52	93	2	512	36	22	15	25	1.93
3477807--3477888	9	9.0	9	72	17	62	0	18	0	81	0.69
3477811--3477891	5	13.0	6	74	25	71	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477808--3477891	31	2.7	32	82	12	111	0	17	0	82	0.68
3477808--3477889	37	2.2	37	85	10	114	0	17	0	82	0.66
3488452--3488488	15	2.7	15	88	12	53	62	8	5	24	1.44
3488481--3488523	22	1.9	23	85	4	61	72	2	0	25	0.97
3488510--3488551	22	1.9	22	85	0	57	69	0	7	23	1.13
3489269--3489302	17	1.9	18	94	5	61	76	5	2	14	1.09
3490628--3490712	3	28.7	3	78	11	86	63	0	2	34	1.07
3490621--3490713	40	2.3	39	81	7	107	62	0	2	35	1.07
3490644--3490725	19	4.2	19	75	13	60	63	0	4	31	1.15
3490804--3490843	12	3.2	12	89	10	55	70	0	0	30	0.88
3490825--3490940	37	3.1	38	77	14	118	50	3	4	42	1.39
3490858--3490929	35	2.1	35	84	10	94	44	4	4	47	1.41
3490856--3490972	32	3.3	35	74	16	91	48	5	3	42	1.42
3490902--3490994	32	2.9	31	88	6	132	48	6	4	40	1.48
3490967--3491162	37	5.5	36	86	8	260	43	7	5	43	1.55
3490967--3491187	73	3.1	72	83	9	258	44	7	4	43	1.53
3491899--3491962	3	21.0	3	79	3	56	59	0	1	39	1.07
3491905--3491961	12	4.7	12	84	4	69	57	0	1	40	1.09
3491896--3491952	16	3.9	15	80	17	75	56	0	1	42	1.10
3491890--3491961	25	3.0	25	83	4	85	55	0	1	43	1.08
3492406--3492462	15	3.7	15	79	9	69	21	33	28	17	1.96
3492406--3492474	15	4.3	16	78	10	61	21	31	27	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3492406--3492474	32	2.2	32	91	0	111	21	31	27	18	1.97
3498126--3498205	6	13.8	6	77	7	67	11	68	3	16	1.33
3498123--3498202	24	3.2	24	79	11	88	10	68	3	17	1.32
3498135--3498202	21	3.1	21	80	12	73	10	69	2	17	1.30
3498141--3498202	3	20.7	3	79	0	52	9	69	1	19	1.25
3499325--3499370	16	2.7	17	78	18	51	28	2	4	65	1.23
3502795--3502863	13	5.5	13	70	16	56	65	14	2	17	1.39
3502817--3502862	13	3.5	13	79	8	58	63	19	2	15	1.41
3502795--3502863	25	2.8	24	87	8	95	65	14	2	17	1.39
3502797--3502887	24	3.8	23	78	9	85	63	13	3	19	1.42
3502795--3502888	49	1.9	49	84	4	127	64	12	3	19	1.40
3505591--3505648	20	2.7	22	81	10	66	27	27	25	18	1.98
3505660--3505876	98	2.2	96	87	6	312	36	23	13	26	1.92
3506073--3506195	57	2.2	58	97	2	232	34	15	3	47	1.62
3510864--3510921	22	2.6	22	86	2	80	25	29	27	17	1.97
3510937--3511148	100	2.1	99	91	5	338	36	23	14	25	1.92
3513347--3513380	9	3.9	9	84	7	52	61	2	0	35	1.11
3513343--3513381	17	2.4	17	95	4	71	61	5	0	33	1.18
3516413--3516545	43	3.1	43	78	4	151	40	19	12	27	1.87
3519229--3519279	26	2.1	25	85	10	70	49	23	9	17	1.77
3519611--3519718	39	2.8	38	84	5	126	27	25	27	19	1.99
3531257--3531329	20	3.6	21	83	7	89	34	23	15	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531274--3531338	20	3.2	20	80	6	69	33	20	13	32	1.91
3531522--3531575	21	2.7	20	88	2	72	31	25	14	27	1.95
3531505--3531575	20	3.5	20	79	7	81	29	25	14	30	1.94
3531363--3531574	113	1.9	112	82	3	264	32	22	13	32	1.92
3531567--3531775	79	2.8	74	79	8	217	36	20	12	30	1.89
3544073--3544145	2	37.5	2	94	5	132	49	0	0	50	1.00
3544227--3544262	16	2.1	17	90	10	56	52	0	0	47	1.00
3544226--3544266	17	2.3	19	84	16	61	51	0	0	48	1.00
3546544--3546994	222	2.0	225	96	3	849	48	12	17	21	1.80
3549171--3549255	2	43.0	2	97	2	163	50	0	0	49	1.00
3549430--3549473	3	14.3	3	81	13	54	29	0	0	70	0.88
3549432--3549474	10	4.2	10	83	13	52	27	0	0	72	0.85
3550320--3550346	6	4.5	6	100	0	54	29	0	0	70	0.88
3552966--3553025	11	4.9	12	82	12	52	80	5	13	1	0.96
3552966--3553073	12	9.1	12	72	15	57	79	5	11	3	1.02
3553006--3553036	7	4.4	7	100	0	62	87	12	0	0	0.55
3552979--3553069	11	8.2	10	81	12	74	81	5	9	3	0.97
3553866--3553927	23	2.8	21	79	13	61	33	11	6	48	1.65
3554709--3555035	36	8.8	36	77	12	193	26	20	13	39	1.90
3554841--3554888	21	2.3	21	100	0	96	27	29	10	33	1.90
3554860--3555046	73	2.7	67	82	8	216	25	21	14	38	1.91
3554957--3555036	15	4.9	15	72	20	63	25	22	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3554965--3555018	18	3.3	16	73	21	58	27	20	14	37	1.92
3555149--3555315	84	2.0	84	85	0	226	34	22	20	22	1.97
3555646--3555702	3	19.7	3	86	13	84	29	0	0	70	0.88
3571331--3571384	22	2.5	22	82	8	58	42	0	1	55	1.10
3571323--3571394	39	2.0	38	84	13	98	41	0	1	56	1.07
3578394--3578504	54	2.1	54	94	0	195	53	17	15	14	1.74
3579759--3579786	14	2.0	14	100	0	56	42	0	7	50	1.30
3583226--3583267	2	21.5	2	95	4	77	52	0	0	47	1.00
3583781--3583847	23	2.9	23	84	0	89	19	23	22	34	1.97
3584271--3584299	13	2.3	13	94	5	51	55	6	37	0	1.27
3588178--3588219	21	2.0	22	85	4	59	30	28	16	23	1.96
3588927--3589049	31	4.0	31	89	4	167	38	23	17	21	1.93
3591529--3591693	31	5.3	31	90	2	233	40	21	16	21	1.91
3591529--3591697	62	2.7	62	90	0	257	40	20	16	21	1.91
3592912--3592944	11	3.0	11	95	0	57	36	18	15	30	1.91
3594144--3594233	33	2.7	34	89	6	139	37	21	16	24	1.93
3594235--3594266	9	3.8	9	84	16	50	25	31	6	37	1.81
3594234--3594269	16	2.2	16	100	0	72	27	30	5	36	1.80
3596610--3596668	31	1.9	31	89	6	93	16	6	1	74	1.11
3598638--3598671	11	3.1	11	95	0	59	67	0	2	29	1.05
3600266--3600336	29	2.4	29	97	0	133	39	15	12	32	1.85
3602601--3602702	35	2.9	34	86	4	134	30	1	24	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3608365--3608418	20	2.6	21	74	11	58	57	3	1	37	1.27
3608367--3608417	21	2.5	22	75	12	54	58	3	1	35	1.28
3615226--3615351	24	5.2	24	87	7	107	42	19	16	22	1.89
3615233--3615347	48	2.4	47	88	5	160	40	19	17	22	1.91
3615233--3615364	48	2.7	47	80	11	151	42	18	16	21	1.89
3616456--3616491	18	2.0	18	88	0	54	30	16	0	52	1.44
3617788--3617821	15	2.3	15	100	0	68	23	26	35	14	1.94
3617787--3617818	7	4.4	7	92	7	55	25	28	34	12	1.92
3617814--3617851	13	2.9	13	100	0	76	21	15	47	15	1.82
3617829--3617874	18	2.6	18	92	0	74	13	19	50	17	1.78

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