genome.fa.s8053.2.7.7.80.10.50.1000.20.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  20  of  32  ( 3749 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)
3963504--3963551	21	2.3	21	92	0	78	31	27	22	18	1.97
3963513--3963558	21	2.2	21	84	0	56	39	28	19	13	1.89
3964001--3964062	31	2.0	31	100	0	124	38	6	12	41	1.69
3964657--3964682	2	13.0	2	100	0	52	50	0	0	50	1.00
3967501--3967545	21	2.1	21	92	8	74	40	15	17	26	1.90
3970901--3970954	22	2.6	20	77	11	63	44	3	1	50	1.30
3971684--3971722	19	2.0	21	85	10	55	51	2	5	41	1.38
3971711--3971735	12	2.1	12	100	0	50	52	0	0	48	1.00
3974294--3974457	54	3.0	54	93	0	274	43	10	14	31	1.79
3976234--3976283	16	3.2	16	88	2	75	22	22	14	42	1.88
3976456--3976516	23	2.7	21	80	12	59	54	0	3	42	1.17
3976534--3976583	23	2.1	24	92	3	84	48	2	4	46	1.32
3977068--3977101	18	1.9	17	88	5	50	32	20	0	47	1.51
3977180--3977230	2	25.5	2	88	7	77	50	1	1	45	1.24
3977668--3977692	2	12.5	2	100	0	50	48	0	0	52	1.00
3977761--3977835	19	3.9	19	67	19	66	42	0	30	26	1.56
3977766--3977845	18	4.3	19	71	17	60	45	0	27	27	1.54
3978174--3978234	2	30.5	2	93	0	104	50	3	0	45	1.17
3978395--3978430	15	2.4	15	90	0	54	38	2	5	52	1.39
3978434--3978458	2	12.5	2	100	0	50	52	48	0	0	1.00
3978458--3978555	2	50.0	2	92	8	166	50	1	0	48	1.07
3978555--3978597	18	2.4	18	88	0	59	32	6	2	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3978565--3978604	18	2.2	18	100	0	80	30	5	5	60	1.40
3978594--3978771	13	12.8	13	69	15	99	42	5	6	46	1.51
3978595--3978772	28	6.9	26	70	19	90	43	5	6	45	1.51
3978657--3978811	18	8.2	18	71	19	102	44	3	5	46	1.43
3978614--3978807	98	2.0	98	95	0	352	43	4	5	45	1.48
3978755--3978835	36	2.2	36	82	8	103	44	1	3	50	1.27
3978775--3978840	30	2.2	30	78	10	73	43	0	3	53	1.16
3981195--3981273	40	2.0	40	94	0	140	35	21	7	35	1.82
3990448--3990508	32	1.9	31	93	3	104	47	24	0	27	1.52
3991004--3991296	148	2.0	148	90	0	460	47	8	6	37	1.59
4000025--4000063	19	2.0	18	85	14	51	33	0	2	64	1.08
4001088--4001126	18	2.2	18	95	0	69	17	33	28	20	1.96
4002556--4002656	45	2.2	46	77	8	109	38	5	19	35	1.77
4002758--4002871	23	5.0	23	84	0	138	18	26	23	31	1.97
4003017--4003075	30	1.9	31	86	3	84	30	5	18	45	1.71
4008795--4008881	48	1.9	45	86	11	124	32	22	5	39	1.78
4009383--4009439	24	2.4	24	79	5	62	54	10	12	22	1.68
4009395--4009453	24	2.5	24	88	2	84	52	8	10	28	1.64
4020248--4020576	20	16.5	20	84	5	396	35	25	18	20	1.95
4021257--4021303	24	2.0	24	87	8	69	25	14	21	38	1.92
4021478--4021502	12	2.1	12	100	0	50	72	0	28	0	0.86
4023812--4024076	19	14.7	19	85	11	389	47	16	21	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4023812--4024098	128	2.3	128	91	6	459	46	17	21	14	1.83
4023785--4024098	52	5.9	52	87	10	321	46	18	20	14	1.84
4024105--4024205	19	5.6	19	86	11	158	14	22	17	44	1.86
4024312--4024348	14	2.6	14	91	0	65	45	21	0	32	1.52
4026303--4026359	14	3.7	14	77	20	60	45	22	21	10	1.82
4026284--4026376	33	2.8	33	93	0	159	47	20	20	11	1.81
4026247--4026381	19	7.6	19	75	16	119	45	22	19	11	1.83
4026377--4026505	19	7.3	19	75	17	125	8	17	28	45	1.77
4026377--4026468	33	2.8	33	93	3	150	7	18	28	45	1.76
4026549--4027016	185	2.5	185	99	0	918	46	18	12	22	1.82
4026549--4027016	93	5.1	93	98	1	904	46	18	12	22	1.82
4028720--4028809	14	5.7	14	74	23	81	42	23	25	8	1.83
4028712--4028826	33	3.5	33	95	0	212	45	20	24	9	1.81
4028719--4028831	19	6.8	18	72	23	88	43	22	24	9	1.83
4028843--4028898	14	3.7	14	78	17	67	8	25	23	42	1.82
4028838--4028918	32	2.5	33	93	4	137	8	24	22	44	1.81
4028882--4028937	20	2.8	20	91	2	85	12	23	17	46	1.82
4029017--4029087	33	2.2	33	92	0	115	47	18	22	11	1.80
4029269--4029323	22	2.5	22	81	0	74	20	16	40	23	1.91
4029469--4029623	20	7.7	20	84	4	213	21	20	25	32	1.97
4029719--4029770	20	2.6	20	96	0	95	21	13	26	38	1.90
4035754--4036159	41	10.0	41	85	4	432	25	21	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4035754--4036159	20	20.0	20	85	4	415	25	21	17	35	1.95
4035782--4035885	19	5.3	19	85	6	127	34	19	22	24	1.96
4036521--4036575	19	2.8	20	83	2	67	38	21	21	18	1.94
4036566--4036634	14	4.6	14	80	16	84	44	20	24	10	1.82
4036580--4036688	33	3.3	33	96	0	191	45	19	23	11	1.82
4036698--4036743	14	3.3	14	81	0	56	6	19	23	50	1.71
4036865--4036901	14	2.6	14	91	0	65	45	21	0	32	1.52
4038767--4038819	19	2.8	19	94	0	97	49	22	18	9	1.76
4038816--4038892	19	4.3	19	76	18	67	10	20	24	44	1.83
4038825--4038894	19	3.9	19	76	17	87	7	21	24	47	1.76
4038989--4039364	94	4.1	94	92	2	584	47	18	11	22	1.81
4041052--4041166	20	6.2	20	67	22	79	46	17	22	13	1.83
4041050--4041126	40	1.9	39	84	7	102	45	18	23	12	1.84
4041099--4041188	33	2.7	33	92	0	153	45	21	21	12	1.83
4041050--4041188	19	7.7	19	69	18	109	45	18	23	12	1.84
4041185--4041235	19	2.7	19	100	0	102	5	17	31	45	1.72
4041820--4041893	20	3.6	21	87	3	107	20	21	20	37	1.94
4041822--4041908	41	2.1	41	82	0	102	24	20	20	34	1.97
4041890--4041935	21	2.2	21	88	0	65	36	17	28	17	1.92
4046585--4047000	231	1.8	231	86	2	602	29	22	20	27	1.98
4053324--4053365	11	3.7	11	81	15	50	33	0	0	66	0.92
4053404--4053436	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4053494--4053576	29	2.9	28	76	13	71	28	3	3	63	1.28
4053610--4053696	41	2.1	43	82	8	108	27	3	0	68	1.05
4053629--4053684	25	2.2	25	80	20	64	25	1	0	73	0.93
4054457--4054516	23	2.6	23	97	0	111	23	31	26	18	1.97
4055120--4055268	66	2.3	66	95	0	262	16	26	28	28	1.97
4060270--4060325	17	3.1	19	82	17	75	80	5	14	0	0.88
4060250--4060325	16	4.6	17	76	20	72	76	7	15	0	1.01
4060297--4060335	16	2.5	15	84	12	51	76	7	12	2	1.09
4060304--4060348	23	2.0	23	86	8	65	73	8	15	2	1.18
4061161--4061223	24	2.8	21	77	13	63	33	11	6	49	1.64
4061937--4063000	106	10.0	106	91	0	1651	34	24	17	23	1.96
4063750--4063853	37	2.8	37	86	0	136	40	14	14	30	1.86
4064269--4064316	23	2.0	24	84	11	64	27	2	0	70	0.98
4064351--4064393	2	21.5	2	100	0	86	48	0	0	51	1.00
4064470--4064537	29	2.4	27	77	18	68	27	2	4	64	1.27
4064598--4064658	28	2.3	26	83	11	79	27	3	0	68	1.05
4064594--4064659	34	2.0	34	85	8	91	27	3	0	69	1.03
4064746--4064801	19	2.9	19	75	19	62	23	8	1	66	1.30
4068810--4068841	16	2.0	16	100	0	64	43	18	18	18	1.88
4072011--4072058	23	2.1	23	92	0	78	54	0	2	43	1.12
4078050--4078140	27	3.6	25	78	18	84	53	1	3	41	1.24
4081420--4081480	29	2.1	29	84	0	77	31	9	13	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4081568--4081634	28	2.3	30	84	5	84	38	8	8	43	1.68
4085662--4086029	182	2.0	185	98	1	715	34	9	14	41	1.78
4086040--4086113	35	2.1	35	97	0	139	24	18	14	41	1.89
4092219--4092278	30	2.0	30	96	0	111	40	15	13	31	1.85
4092546--4092570	13	1.9	13	100	0	50	12	0	0	88	0.53
4100076--4100129	20	2.6	21	79	8	56	38	22	12	25	1.90
4105914--4105987	23	3.3	22	69	14	62	28	24	22	24	2.00
4109826--4109868	21	2.0	21	82	8	52	39	4	4	51	1.44
4111761--4111900	65	2.2	64	80	6	158	27	16	22	32	1.96
4118038--4118106	23	3.0	23	82	0	84	34	24	5	34	1.80

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