genome.fa.s8105.2.7.7.80.10.50.1000.17.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  17  of  30  ( 3521 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)
3159534--3159559	2	13.0	2	100	0	52	50	0	0	50	1.00
3160524--3160553	6	5.0	6	95	0	51	16	0	46	36	1.47
3164530--3164556	14	1.9	14	100	0	54	51	14	11	22	1.73
3165757--3165877	47	2.6	47	88	5	181	19	41	0	38	1.57
3169349--3169408	19	3.2	19	85	0	75	33	13	31	21	1.92
3175297--3175969	113	5.9	113	85	4	802	37	14	20	27	1.91
3175297--3175969	225	2.9	225	85	4	857	37	14	20	27	1.91
3175909--3176004	39	2.5	39	93	3	158	46	8	22	21	1.78
3175787--3176109	161	2.0	160	92	1	540	41	13	20	24	1.89
3176188--3176269	3	27.7	3	80	11	98	32	1	0	65	1.00
3176188--3176266	22	3.6	23	83	13	105	32	1	0	65	1.00
3177548--3177587	19	2.0	20	85	4	55	32	5	0	62	1.17
3177563--3177621	29	2.0	29	81	12	68	28	1	6	62	1.30
3177678--3177707	16	1.9	16	93	6	53	46	6	0	46	1.29
3181532--3181596	29	2.2	29	83	0	76	56	10	7	24	1.59
3186036--3186090	19	2.8	21	76	18	55	45	10	12	30	1.77
3188593--3188636	19	2.2	20	84	11	56	27	9	22	40	1.84
3197180--3197244	28	2.3	28	80	15	80	23	0	26	50	1.49
3201987--3202101	53	2.2	53	96	0	212	41	23	17	17	1.89
3204274--3204377	46	2.3	45	83	6	129	46	7	5	40	1.57
3207700--3207760	28	2.2	28	96	0	113	39	0	4	55	1.21
3208534--3208600	22	2.9	22	76	8	71	44	4	0	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3208766--3208828	31	2.0	31	90	0	99	52	7	7	31	1.59
3209057--3209142	40	2.2	40	85	4	111	17	26	40	15	1.89
3209073--3209165	40	2.3	39	94	1	159	15	25	45	13	1.83
3209357--3209425	26	3.0	22	76	21	61	31	0	2	65	1.08
3209384--3209419	9	4.1	9	85	7	56	33	0	2	63	1.08
3209386--3209423	17	2.3	17	95	4	69	34	0	2	63	1.09
3210189--3210317	44	2.9	44	89	0	195	29	18	27	24	1.98
3211248--3211317	36	1.9	36	88	5	106	14	44	18	22	1.86
3213972--3214306	179	1.9	179	87	6	500	34	26	15	22	1.95
3214994--3215066	26	2.9	24	74	11	65	65	5	13	15	1.43
3215017--3215092	40	1.9	40	86	5	109	65	5	14	14	1.43
3219914--3219960	21	2.3	21	88	3	69	8	12	34	44	1.73
3220066--3220099	17	1.9	18	88	5	52	29	14	23	32	1.94
3221875--3221987	32	3.6	31	84	3	120	36	15	17	30	1.91
3223815--3223884	27	2.4	29	81	9	81	28	2	0	68	1.04
3223798--3223877	35	2.4	33	83	8	99	30	2	0	67	1.04
3223746--3223908	73	2.3	70	80	11	172	29	1	1	66	1.12
3223799--3223939	4	35.8	4	72	14	53	24	2	1	70	1.08
3227100--3227148	13	3.8	13	84	15	66	75	4	18	2	1.06
3227098--3227149	27	2.0	27	92	7	90	75	3	17	3	1.11
3227221--3227358	69	2.0	69	84	2	179	38	21	13	27	1.90
3228947--3229164	106	2.1	106	84	0	283	33	23	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3229532--3229622	37	2.4	37	81	5	94	28	18	13	39	1.88
3229425--3229597	87	2.0	87	88	0	256	34	17	10	37	1.84
3229652--3229722	37	1.9	37	91	0	115	23	21	12	42	1.87
3229512--3229749	104	2.3	102	88	1	350	31	18	11	37	1.87
3229870--3229983	37	3.1	36	77	5	122	27	20	11	41	1.86
3229870--3229983	36	3.1	36	77	5	122	27	20	11	41	1.86
3229969--3230058	39	2.5	35	79	13	108	40	23	8	27	1.84
3229981--3230058	39	2.0	39	89	0	120	43	24	7	24	1.80
3231191--3231234	22	2.0	22	90	4	70	29	0	2	68	1.02
3231243--3231477	4	58.2	4	69	16	51	23	6	0	69	1.11
3231280--3231333	29	1.9	30	88	11	87	24	1	0	74	0.92
3231287--3231336	22	2.3	21	80	19	59	24	2	0	74	0.93
3231263--3231389	34	3.5	37	77	15	115	22	4	0	72	1.03
3231284--3231414	38	3.6	35	75	20	92	19	6	0	73	1.06
3232120--3232366	36	7.1	38	78	17	204	43	2	8	45	1.49
3232145--3232366	60	3.4	61	78	19	234	43	2	8	45	1.47
3232183--3232240	26	2.4	24	86	13	75	43	1	8	46	1.44
3232120--3232393	135	2.0	135	87	6	394	43	3	8	44	1.51
3232205--3232366	36	4.4	38	88	6	246	44	2	7	45	1.45
3232315--3232366	28	1.9	27	88	7	79	44	0	5	50	1.26
3233635--3233685	25	2.0	24	85	11	66	15	7	0	76	1.00
3233749--3233777	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235362--3235399	2	19.0	2	100	0	76	50	0	0	50	1.00
3235599--3235679	39	2.1	38	93	2	135	55	2	3	38	1.31
3237183--3237233	22	2.3	22	93	0	84	27	11	25	35	1.91
3237838--3237901	20	3.2	20	80	8	60	1	14	6	78	1.02
3237858--3237910	23	2.4	22	84	6	72	0	15	5	79	0.91
3240970--3241030	26	2.3	27	80	8	72	63	1	6	27	1.28
3241206--3241252	21	2.2	21	85	7	60	63	2	4	29	1.25
3241233--3241270	16	2.4	16	82	4	51	63	0	5	31	1.17
3241442--3241499	12	4.8	12	81	14	66	62	0	0	37	0.96
3241441--3241499	27	2.2	27	87	6	84	62	0	0	37	0.95
3241443--3241563	27	4.3	28	67	22	67	60	1	0	37	1.13
3241942--3242042	35	2.8	37	83	7	109	32	14	14	37	1.88
3242503--3243004	106	4.9	103	79	6	516	22	20	23	33	1.97
3242503--3243004	206	2.5	202	83	2	592	22	20	23	33	1.97
3242827--3243162	160	2.1	158	92	1	564	20	20	25	33	1.97
3243529--3243753	102	2.2	103	80	3	249	40	13	20	25	1.89
3243660--3243825	65	2.6	65	93	0	287	36	11	19	31	1.88
3243790--3244195	37	11.9	36	66	20	212	36	13	20	29	1.91
3243725--3244156	101	4.3	102	93	1	744	36	12	20	30	1.90
3244094--3244190	34	2.8	34	85	6	124	37	12	22	27	1.90
3245055--3245105	22	2.3	22	93	0	84	27	11	25	35	1.91
3245714--3245765	20	2.6	20	81	6	61	1	9	7	80	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3249094--3249153	22	2.6	24	82	12	72	63	1	5	30	1.25
3249125--3249162	16	2.4	16	82	4	51	63	0	5	31	1.17
3249333--3249390	12	4.8	12	81	14	66	62	0	0	37	0.96
3249332--3249390	27	2.2	27	87	6	84	62	0	0	37	0.95
3249836--3249927	35	2.6	37	82	5	100	33	11	16	38	1.85
3250949--3250974	12	2.2	12	100	0	52	76	0	0	23	0.78
3257822--3257876	26	2.1	26	100	0	110	34	16	25	23	1.95
3259562--3259748	40	4.7	40	83	2	160	42	24	14	18	1.88
3259541--3259748	60	3.5	59	84	5	238	42	23	15	18	1.88
3259594--3259748	20	7.8	20	86	0	211	42	25	15	16	1.87
3259859--3259914	22	2.5	22	86	8	78	21	42	16	19	1.89
3262343--3262389	4	11.8	4	86	0	67	27	2	0	70	0.99
3262530--3262652	21	5.9	21	73	11	74	25	31	18	24	1.98
3263980--3264124	66	2.2	64	92	2	236	30	1	16	51	1.53
3264576--3264611	18	2.0	18	94	0	63	16	2	25	55	1.55
3265985--3266034	25	2.0	25	96	0	91	44	22	8	26	1.80
3266095--3266134	20	1.9	21	90	10	64	37	22	22	17	1.94
3266152--3266202	20	2.5	20	93	0	84	43	23	15	17	1.88
3266541--3266576	18	2.0	18	94	0	63	16	2	25	55	1.55
3268841--3268894	24	2.2	24	86	0	72	44	16	14	24	1.85
3269047--3269090	19	2.3	19	92	0	70	36	6	22	34	1.81
3269651--3269684	16	2.1	16	88	0	50	64	0	5	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3269863--3269974	19	5.7	19	82	6	107	27	11	22	38	1.89
3269902--3270173	20	13.6	20	75	12	193	22	16	22	39	1.92
3269939--3270128	40	4.8	40	80	7	224	20	17	23	39	1.92
3269941--3270116	60	2.9	60	85	6	266	21	17	22	39	1.92
3269933--3270146	100	2.1	100	90	0	329	21	17	21	39	1.93
3270164--3270210	21	2.2	21	88	0	76	38	17	23	21	1.93
3270224--3270271	20	2.4	20	85	0	60	25	12	35	27	1.92
3271577--3271624	19	2.6	19	80	3	53	62	4	2	31	1.26
3272271--3272314	20	2.2	20	100	0	88	59	4	0	36	1.18
3274801--3274831	8	4.0	8	95	4	55	25	0	12	61	1.32

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