genome.fa.s8645.2.7.7.80.10.50.1000.17.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  17  of  22  ( 2605 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)
3148499--3148550	21	2.5	21	77	0	59	32	11	9	46	1.73
3157127--3157170	17	2.5	17	85	14	63	31	2	0	65	1.05
3157429--3157476	20	2.4	19	76	10	51	47	0	0	52	1.00
3166471--3166579	33	3.2	33	83	6	103	63	3	0	33	1.12
3166524--3166579	17	3.2	17	73	12	51	66	5	0	28	1.14
3166501--3166579	35	2.4	34	85	6	99	65	5	0	29	1.13
3167014--3167056	21	2.0	21	81	0	50	32	11	20	34	1.89
3167480--3167564	40	2.1	42	81	18	126	40	3	11	44	1.58
3167492--3167571	40	2.0	40	100	0	160	37	5	12	45	1.64
3167964--3167990	2	13.5	2	100	0	54	48	0	0	51	1.00
3168542--3168602	30	2.0	30	83	0	77	42	13	6	37	1.70
3168555--3168619	30	2.2	30	83	5	78	46	10	4	38	1.60
3169572--3169621	3	16.7	3	100	0	100	0	32	0	68	0.90
3172780--3172838	30	2.0	29	83	9	75	38	1	1	57	1.19
3183793--3184031	119	2.0	119	100	0	478	23	26	16	33	1.96
3184790--3184886	45	2.2	45	83	3	124	17	40	11	30	1.85
3191061--3191232	61	2.9	59	75	6	168	39	25	16	18	1.91
3191184--3191413	20	11.5	20	86	1	237	37	25	17	19	1.93
3192096--3192142	24	2.0	24	87	8	69	25	14	21	38	1.92
3194667--3194764	19	5.4	19	84	13	143	14	22	17	45	1.84
3194648--3194764	53	2.2	53	98	1	227	13	23	17	44	1.85
3194823--3194984	33	4.7	33	74	16	150	45	17	22	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3194823--3194990	19	9.6	19	75	18	168	44	17	22	14	1.86
3194823--3194990	52	3.2	52	96	0	300	44	17	22	14	1.86
3194997--3195096	19	5.5	19	84	12	147	15	23	17	45	1.85
3194980--3195096	53	2.2	53	95	1	209	14	24	17	43	1.86
3195203--3195240	14	2.7	15	88	12	62	47	18	0	34	1.49
3197220--3197276	14	3.7	14	77	20	60	45	22	21	10	1.82
3197201--3197293	33	2.8	33	95	0	168	47	21	20	10	1.80
3197164--3197298	19	7.6	19	76	16	128	45	23	19	11	1.82
3197288--3197329	19	2.2	19	91	0	66	9	19	28	42	1.82
3197294--3197389	19	5.3	19	79	13	103	9	16	28	45	1.78
3197433--3197905	93	5.1	93	98	0	912	45	19	12	22	1.83
3197433--3197905	185	2.5	186	97	0	912	45	19	12	22	1.83
3199612--3199668	14	3.7	14	79	20	69	40	24	26	8	1.84
3199604--3199687	33	2.5	33	92	0	150	44	21	25	9	1.82
3199626--3199709	19	4.7	19	81	14	97	42	22	23	10	1.85
3199722--3199777	14	3.6	14	74	21	58	8	23	23	44	1.81
3199705--3199785	33	2.5	33	93	0	135	8	20	22	48	1.77
3199762--3199837	21	3.7	21	83	3	109	11	25	17	46	1.82
3199761--3199838	41	1.9	41	97	0	147	12	25	16	44	1.83
3199917--3199987	33	2.2	33	89	0	106	47	16	23	11	1.79
3200169--3200223	22	2.5	22	81	0	74	20	16	40	23	1.91
3200369--3200562	20	9.6	20	82	5	221	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3200369--3200562	60	3.2	60	83	0	253	19	19	25	35	1.95
3200549--3200631	21	4.0	21	73	6	78	25	16	24	33	1.96
3200529--3200627	42	2.4	43	77	11	100	21	18	23	37	1.94
3206165--3206268	22	4.6	22	86	7	129	48	7	0	44	1.31
3206164--3206268	44	2.3	47	86	6	144	47	7	0	44	1.31
3206252--3206294	21	1.9	21	86	13	59	51	0	0	48	1.00
3206165--3206288	44	2.7	43	80	8	106	49	6	0	44	1.28
3206252--3206294	12	3.8	12	79	14	56	51	0	0	48	1.00
3207070--3207146	37	2.1	37	85	4	102	48	1	3	46	1.28
3207849--3207879	2	15.5	2	93	0	53	54	0	0	45	0.99
3210238--3210616	189	2.1	178	88	5	560	25	13	25	36	1.92
3211233--3211278	18	2.7	18	90	6	69	28	28	6	36	1.82
3216768--3216835	26	2.6	26	100	0	136	35	10	14	39	1.80
3231866--3231913	19	2.5	19	89	3	69	12	22	25	39	1.89
3231866--3231922	20	2.9	20	86	2	89	12	22	21	43	1.85
3233477--3233942	94	5.1	93	91	4	705	21	11	18	47	1.81
3234033--3234133	19	5.2	19	85	3	121	50	20	20	7	1.73
3234038--3234133	39	2.5	39	87	3	131	50	21	20	7	1.73
3234033--3234143	58	1.9	58	83	3	143	48	21	19	9	1.78
3234164--3234199	14	2.6	14	90	0	54	13	19	22	44	1.86
3234191--3234280	19	4.6	19	83	5	108	11	20	21	47	1.80
3234183--3234280	39	2.5	39	88	1	133	12	20	19	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235996--3236031	14	2.6	14	95	0	63	33	0	22	44	1.53
3236194--3236312	33	3.6	33	93	0	193	12	22	16	47	1.80
3236240--3236294	14	3.6	14	73	21	56	10	23	20	45	1.82
3236224--3236332	19	6.2	19	69	21	76	13	22	19	44	1.85
3236305--3236378	20	3.7	20	67	16	62	25	18	22	32	1.97
3238621--3238658	14	2.9	13	81	11	51	7	15	28	47	1.74
3238852--3238905	24	2.2	24	96	0	99	42	20	16	20	1.89
3238852--3238919	24	2.8	24	86	0	73	39	20	16	23	1.91
3239766--3239893	20	6.3	21	86	5	138	25	20	18	35	1.95
3239766--3239893	41	3.2	40	79	8	143	25	20	18	35	1.95
3239822--3239908	41	2.1	41	85	4	113	25	20	19	34	1.96
3239890--3239935	21	2.2	21	88	0	65	36	17	28	17	1.92
3240896--3241577	341	2.0	330	88	4	1001	43	6	4	44	1.51
3243561--3243826	21	12.7	21	73	12	183	20	19	24	34	1.96
3243631--3243777	65	2.3	65	92	2	244	19	19	25	36	1.94
3243561--3243804	107	2.3	105	90	2	384	19	19	25	35	1.95
3243696--3243823	42	3.0	42	97	0	238	19	21	25	34	1.96
3245321--3245394	37	2.0	37	100	0	148	56	2	5	35	1.36
3251404--3251470	31	2.2	31	91	0	107	31	4	10	53	1.55
3255319--3255344	7	3.7	7	100	0	52	11	0	0	88	0.52
3256875--3256944	31	2.4	28	86	9	88	34	4	0	61	1.16
3257202--3257254	21	2.5	21	84	0	70	20	26	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257244--3257338	20	4.7	20	78	2	100	38	17	23	20	1.93
3257244--3257338	41	2.3	40	85	1	127	38	17	23	20	1.93
3257532--3257597	22	3.0	22	84	0	87	24	37	16	21	1.93
3257968--3258013	20	2.3	20	88	0	65	19	17	26	36	1.94
3257981--3258035	20	2.8	20	91	0	83	10	16	23	49	1.77
3258000--3258043	20	2.2	20	87	0	61	13	13	20	52	1.74
3259911--3260004	33	2.8	34	80	3	100	45	20	18	15	1.85
3259978--3260066	20	4.4	20	89	0	133	39	21	17	21	1.93
3260111--3260177	20	3.3	20	95	0	116	17	17	22	41	1.90
3260092--3260247	34	4.4	34	75	10	143	13	19	22	44	1.86
3260724--3260835	42	2.7	42	81	2	118	21	37	17	23	1.94
3260728--3260832	21	5.0	21	76	3	104	20	36	19	23	1.95
3262213--3262246	13	2.6	13	90	9	52	29	0	23	47	1.52
3262352--3262430	33	2.4	33	84	2	104	40	18	25	15	1.90
3262437--3262546	20	5.4	20	86	2	132	16	20	25	38	1.92
3262450--3262546	41	2.4	40	86	8	135	17	20	23	38	1.93
3264960--3265019	24	2.5	24	83	0	84	38	18	18	25	1.93
3265860--3265903	20	2.2	20	91	0	70	22	20	27	29	1.99
3265892--3266003	20	5.6	20	87	2	161	21	21	21	35	1.96
3265993--3266045	21	2.5	21	81	0	61	33	16	26	22	1.96
3275758--3275892	53	2.4	55	77	16	127	31	4	5	59	1.39
3287716--3287765	20	2.5	20	72	15	50	20	18	0	62	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3293004--3293055	16	3.5	14	82	15	52	55	3	3	36	1.36
3293596--3293650	23	2.5	22	82	5	67	61	3	0	34	1.13
3307512--3307570	21	2.8	21	78	0	64	13	30	33	22	1.92
3307790--3307822	11	3.0	11	91	8	50	69	0	0	30	0.88
3307794--3307826	11	3.0	11	91	8	50	66	0	0	33	0.92
3309411--3309453	20	2.3	19	84	11	61	25	30	6	37	1.82
3312861--3312921	31	2.0	31	96	0	113	37	6	22	32	1.80
3313615--3313662	20	2.5	20	90	10	73	25	14	29	31	1.95
3313783--3313834	20	2.6	20	81	0	59	32	21	19	26	1.97
3314369--3314399	15	2.1	15	100	0	62	32	19	22	25	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22