genome.fa.s8029.2.7.7.80.10.50.1000.15.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

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

This is table  15  of  18  ( 2124 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)
3073122--3073309	78	2.4	78	81	5	218	37	11	28	22	1.89
3075635--3075682	17	2.8	17	80	3	60	41	2	2	54	1.24
3078671--3078701	15	2.1	15	100	0	62	19	22	38	19	1.93
3080309--3080344	18	2.0	18	100	0	72	27	27	11	33	1.91
3100897--3100924	2	14.0	2	100	0	56	50	0	0	50	1.00
3101067--3101141	37	2.0	37	92	0	123	41	9	12	37	1.74
3104167--3104223	26	2.2	26	96	0	105	40	24	15	19	1.90
3104160--3104230	26	2.4	30	73	22	87	38	29	15	16	1.90
3104385--3104472	32	2.7	32	91	3	131	42	34	10	13	1.78
3104467--3104524	27	2.2	26	84	9	82	43	18	8	29	1.80
3111740--3111869	66	2.0	65	87	1	188	24	19	16	39	1.92
3122940--3122970	15	2.1	15	93	0	53	6	48	9	35	1.62
3128564--3128597	9	3.9	9	84	7	52	61	2	0	35	1.11
3128560--3128598	17	2.4	17	95	4	71	61	5	0	33	1.18
3128576--3128622	24	1.9	25	83	12	62	65	4	0	29	1.11
3130074--3130121	3	16.0	3	87	8	71	29	0	2	68	1.01
3130411--3130464	18	3.0	18	88	0	72	53	0	12	33	1.39
3130421--3130472	3	17.3	3	95	0	77	61	0	5	32	1.20
3130899--3130964	21	3.2	21	80	2	71	33	13	13	39	1.84
3133560--3133659	25	4.0	25	81	10	84	29	23	25	23	1.99
3133600--3133647	24	2.0	25	95	4	89	29	20	29	20	1.98
3133607--3133656	24	2.1	24	88	7	75	34	22	24	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3136266--3136332	23	2.9	23	97	0	125	23	28	11	35	1.91
3141194--3141247	21	2.6	21	87	0	72	38	14	16	29	1.89
3143973--3144000	2	14.0	2	100	0	56	50	0	0	50	1.00
3145627--3145652	2	13.0	2	100	0	52	50	0	0	50	1.00
3149165--3149271	41	2.6	42	82	8	141	55	8	5	30	1.53
3151226--3151274	20	2.5	20	93	0	80	36	14	18	30	1.90
3152276--3152323	25	2.0	25	88	12	73	27	0	16	56	1.41
3165710--3165763	15	3.7	14	80	7	54	31	3	22	42	1.71
3168966--3169321	176	2.0	178	98	1	689	37	7	21	33	1.82
3174863--3174902	19	2.1	19	100	0	80	47	10	20	22	1.79
3180604--3180746	27	5.3	27	100	0	286	44	0	0	55	0.99
3180604--3180777	81	2.1	81	89	2	251	41	0	2	56	1.12
3183107--3183181	3	24.3	3	79	5	78	33	1	4	61	1.23
3184676--3184706	10	3.1	10	100	0	62	32	0	0	67	0.91
3185321--3185682	131	2.8	127	78	5	359	33	11	14	40	1.81
3189078--3189226	72	2.1	72	89	2	228	33	12	32	21	1.91
3198187--3198265	21	4.0	21	69	24	73	21	37	26	13	1.91
3198193--3198264	36	2.0	36	94	5	128	20	36	27	15	1.93
3198377--3198416	21	1.9	21	94	0	71	25	17	30	27	1.97
3198447--3198486	20	1.9	21	85	10	55	37	37	10	15	1.80
3198701--3198770	34	2.1	32	84	5	86	31	14	30	24	1.94
3199629--3199676	19	2.5	20	82	3	62	52	6	12	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201213--3201254	21	2.0	21	95	0	75	23	21	28	26	1.99
3201284--3201323	20	1.9	21	85	10	55	37	35	10	17	1.83
3201539--3201608	34	2.1	32	84	5	86	32	14	28	24	1.94
3205416--3205488	23	3.2	23	76	3	76	21	34	21	21	1.97
3207072--3207112	18	2.3	18	91	0	64	51	19	26	2	1.59
3209783--3209813	10	3.2	10	95	4	55	83	0	16	0	0.64
3211023--3211594	134	4.3	135	83	3	703	32	22	15	29	1.94
3211023--3211594	267	2.1	266	86	3	792	32	22	15	29	1.94
3213890--3214219	131	2.5	131	85	0	426	31	12	17	39	1.86
3216182--3216207	2	13.0	2	100	0	52	50	0	0	50	1.00
3217791--3217826	17	2.1	17	94	0	63	47	2	13	36	1.58
3231357--3231425	3	23.0	3	79	5	77	40	0	0	59	0.97
3231427--3231454	2	14.0	2	100	0	56	50	0	0	50	1.00
3232073--3232098	5	5.2	5	100	0	52	61	0	38	0	0.96
3232863--3232904	11	3.6	12	78	15	52	28	2	2	66	1.16
3240889--3240964	22	3.5	22	94	1	136	34	11	14	39	1.83
3241478--3241802	165	2.0	167	89	4	505	35	13	12	38	1.82
3241806--3242670	76	11.4	76	96	0	1561	22	20	22	34	1.97
3242816--3242881	3	22.0	3	80	6	71	40	0	0	59	0.98
3243523--3243548	5	5.2	5	100	0	52	61	0	38	0	0.96
3250770--3250819	23	2.1	23	81	3	55	74	2	0	24	0.93
3254187--3254223	2	18.5	2	100	0	74	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)
3255265--3255293	6	4.8	6	100	0	58	31	0	34	34	1.58
3259301--3259422	22	5.5	22	87	0	163	28	23	18	29	1.97
3259301--3259422	44	2.8	44	92	0	190	28	23	18	29	1.97
3259301--3259433	66	2.0	66	88	0	194	28	22	18	30	1.97
3262593--3262983	54	7.2	54	90	1	566	25	19	21	33	1.97
3262593--3262983	109	3.6	109	90	1	581	25	19	21	33	1.97
3262602--3262983	163	2.3	163	89	0	586	25	19	21	33	1.97
3264760--3264862	21	4.9	21	89	0	125	30	28	17	24	1.97
3265559--3265636	24	3.4	24	72	13	83	32	19	14	34	1.91
3265559--3265656	44	2.2	44	90	3	153	30	19	16	33	1.94
3279516--3279540	12	2.1	12	100	0	50	44	16	8	32	1.76
3287186--3287226	18	2.3	18	91	0	64	41	26	29	2	1.69
3293564--3293598	18	1.9	18	88	0	52	25	31	20	22	1.98
3295269--3295322	15	3.1	16	76	23	56	22	27	16	33	1.95
3295571--3295608	20	2.0	20	89	5	60	28	28	2	39	1.70
3301466--3301586	47	2.6	47	100	0	242	34	7	19	38	1.80
3306856--3306935	35	2.3	35	84	4	108	42	21	0	36	1.53
3306873--3306951	35	2.3	35	81	0	95	41	30	0	27	1.56
3309528--3309553	11	2.4	11	100	0	52	61	0	0	38	0.96
3309517--3309570	28	2.0	26	82	13	65	57	0	1	40	1.09
3309515--3309585	29	2.5	28	78	10	74	49	1	1	47	1.18
3309753--3309810	30	2.0	30	83	10	75	27	18	3	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3311312--3311345	17	1.9	18	88	5	52	50	0	2	47	1.16
3315460--3315731	46	5.9	46	91	2	404	27	18	8	45	1.78
3315953--3316261	55	5.7	53	88	5	404	33	18	10	37	1.85
3321896--3322052	81	1.9	81	80	2	181	28	22	8	40	1.84
3321997--3322123	68	1.9	68	86	0	182	29	21	12	37	1.90
3322516--3322770	45	5.7	45	85	2	298	29	21	9	40	1.84
3322705--3323017	79	4.0	79	89	0	464	30	24	10	34	1.89
3327164--3327290	68	1.9	68	86	0	182	29	21	12	37	1.90
3327680--3327845	45	3.7	44	85	3	208	27	21	10	40	1.86
3327825--3328136	79	3.9	79	87	0	435	30	25	9	34	1.88
3327992--3328121	45	3.1	44	65	26	111	32	26	8	32	1.86
3328900--3328940	21	2.0	21	85	9	57	19	24	19	36	1.95
3333222--3333262	22	1.9	21	85	5	55	43	2	4	48	1.37
3333240--3333537	97	3.1	96	62	23	228	35	9	9	44	1.70
3333189--3333574	191	2.0	194	97	1	742	35	8	10	45	1.70
3333842--3333893	22	2.4	21	81	6	59	51	0	5	42	1.25
3335285--3335332	2	25.0	2	87	8	73	50	0	2	47	1.12
3335897--3335956	27	2.2	26	85	8	75	65	11	6	16	1.46
3336119--3336248	14	9.2	14	66	9	50	62	3	11	22	1.45
3338157--3338515	130	2.7	131	81	2	427	34	11	10	42	1.76
3339777--3339842	22	3.0	22	88	2	107	37	12	4	45	1.62
3344222--3344341	31	3.9	31	80	5	127	26	15	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3344221--3344341	32	3.9	30	78	10	120	26	15	19	38	1.91
3344222--3344339	63	1.9	62	84	8	159	26	16	17	39	1.90
3345579--3345603	8	3.1	8	100	0	50	12	0	48	40	1.40
3345689--3345722	17	2.1	16	88	5	50	76	0	8	14	1.01
3346195--3346244	24	2.1	24	85	7	66	60	12	2	26	1.43
3349590--3350066	231	2.0	243	94	5	852	40	10	24	24	1.87
3356645--3356694	24	2.1	24	85	7	66	60	12	2	26	1.43
3367359--3367417	19	3.1	19	92	0	100	30	25	15	28	1.96
3376680--3376749	32	2.2	32	82	2	79	50	8	27	14	1.72
3382838--3382864	2	13.5	2	100	0	54	48	0	0	51	1.00

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