genome.fa.s8185.2.7.7.80.10.50.1000.15.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  15  of  16  ( 1911 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)
3129572--3129625	13	4.0	13	80	20	58	25	0	0	74	0.83
3137789--3137860	21	3.3	21	68	21	58	55	1	6	36	1.35
3137778--3137879	44	2.3	44	91	3	161	50	2	4	41	1.39
3137822--3137923	52	2.0	52	92	0	168	49	4	4	41	1.46
3138147--3138178	15	2.1	15	94	0	55	31	15	0	53	1.43
3138524--3138563	17	2.3	19	87	12	59	47	0	2	50	1.14
3148417--3148461	2	22.5	2	100	0	90	48	0	51	0	1.00
3150457--3150483	2	13.5	2	100	0	54	48	0	0	51	1.00
3166939--3166980	18	2.3	18	84	8	50	7	40	4	47	1.52
3174596--3174697	34	2.9	36	88	11	165	27	14	14	43	1.85
3175239--3175690	105	4.3	106	85	5	594	22	18	26	32	1.97
3176293--3176450	68	2.4	65	82	4	190	36	8	21	33	1.85
3176426--3176706	36	8.0	35	78	12	272	40	13	19	25	1.89
3176374--3176680	138	2.2	137	86	2	411	40	13	19	27	1.89
3176462--3176650	102	1.9	102	89	2	299	40	13	18	26	1.88
3176728--3176843	36	3.2	36	70	3	101	42	14	17	25	1.87
3177166--3177201	18	2.0	18	88	0	54	41	30	8	19	1.81
3177634--3177696	29	2.2	29	100	0	126	23	14	33	28	1.94
3178311--3178345	12	3.2	11	92	8	54	0	11	5	82	0.82
3181420--3181521	34	2.9	36	88	11	165	27	14	14	43	1.85
3190249--3190337	29	3.1	29	85	0	124	17	40	28	13	1.88
3190554--3190637	29	2.9	29	83	0	96	13	29	39	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3192690--3192844	64	2.4	64	78	12	158	34	19	20	25	1.96
3193221--3193301	29	2.8	29	94	3	137	44	14	22	18	1.86
3200142--3200222	29	2.8	29	92	3	128	45	16	19	18	1.85
3201458--3201500	21	2.0	21	86	0	59	30	27	25	16	1.97
3202703--3202755	24	2.2	24	83	9	65	28	5	24	41	1.77
3202868--3203085	103	2.1	103	94	0	382	26	13	22	37	1.91
3203102--3203169	23	3.0	23	88	0	91	22	27	25	25	1.99
3206690--3206732	21	2.0	21	86	0	59	30	27	25	16	1.97
3207932--3207984	24	2.2	24	83	9	65	28	5	24	41	1.77
3208101--3208314	103	2.1	103	92	0	356	27	13	21	36	1.91
3208330--3208375	23	2.0	23	86	0	65	21	26	23	28	1.99
3210285--3210340	2	28.0	2	100	0	112	50	0	0	50	1.00
3213254--3213509	20	12.6	20	73	11	148	38	24	18	18	1.93
3213315--3213506	40	4.7	41	90	1	280	38	24	18	18	1.93
3213592--3213706	20	5.8	20	84	5	126	34	24	19	21	1.96
3214564--3214617	24	2.2	24	93	0	90	20	18	20	40	1.91
3217004--3217090	20	4.4	20	82	4	106	39	24	17	19	1.92
3217096--3217260	19	9.4	19	69	19	126	46	15	20	16	1.84
3217087--3217228	52	2.7	52	91	2	232	46	16	21	16	1.84
3217156--3217260	33	3.2	33	76	14	108	47	13	20	18	1.82
3217277--3217361	33	2.5	33	88	1	116	15	23	16	44	1.85
3217474--3217510	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3218867--3218925	21	2.8	21	71	5	57	22	20	35	22	1.96
3218886--3218978	42	2.2	42	78	3	98	24	17	38	19	1.92
3219458--3219506	20	2.5	20	86	0	71	34	24	20	20	1.96
3219567--3219636	17	3.7	19	79	11	72	12	20	20	47	1.82
3219700--3220079	94	4.1	94	95	1	656	47	18	12	21	1.82
3221784--3221839	20	2.8	20	81	10	78	41	21	23	14	1.89
3221875--3221950	20	3.8	20	87	1	100	11	17	21	50	1.77
3222508--3222721	20	10.6	20	79	6	243	18	18	25	37	1.93
3222510--3222721	41	5.2	41	93	1	347	18	18	25	37	1.93
3222507--3222782	20	13.6	20	73	11	168	18	17	25	38	1.92
3222755--3222847	21	4.5	21	70	16	68	21	19	19	39	1.92
3222831--3222885	20	2.8	20	68	15	51	20	16	29	34	1.94
3226782--3226827	22	2.1	22	100	0	92	15	19	26	39	1.91
3227644--3227705	28	2.1	30	88	5	92	20	3	8	67	1.31
3234484--3234573	5	18.2	5	98	1	173	60	0	0	40	0.97
3237039--3237225	60	3.1	58	81	6	189	40	6	22	30	1.80
3245700--3245810	51	2.2	51	91	3	179	42	8	26	23	1.82
3251074--3251130	20	2.8	19	84	10	69	29	22	21	26	1.99
3251184--3251220	19	1.9	19	88	0	56	40	2	27	29	1.70
3251638--3251743	21	5.2	21	62	8	67	38	20	18	21	1.93
3251637--3251760	40	3.1	40	88	0	167	37	21	18	21	1.94
3251708--3251768	19	3.1	19	75	13	52	37	22	21	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3251787--3251857	21	3.3	21	80	9	90	18	14	22	45	1.85
3252498--3252629	60	2.2	59	87	5	185	40	24	15	19	1.90
3252520--3252689	60	2.8	60	79	11	172	41	23	12	22	1.88
3252637--3252728	19	4.7	19	84	8	105	34	23	10	30	1.89
3252506--3252656	80	1.9	80	87	1	221	41	23	15	19	1.90
3252506--3252689	80	2.3	80	83	7	214	40	23	14	21	1.90
3252537--3252729	20	9.7	20	76	13	141	38	23	12	25	1.90
3253660--3253713	24	2.2	24	93	0	90	20	18	20	40	1.91
3253888--3253912	3	8.3	3	100	0	50	64	0	36	0	0.94
3256221--3256285	20	3.3	20	67	4	60	23	21	21	33	1.97
3256348--3256491	66	2.2	64	91	2	234	50	17	2	29	1.57
3257866--3257959	21	4.5	21	83	1	109	27	20	31	20	1.97
3257842--3257963	42	2.9	42	82	3	140	27	22	31	18	1.97
3258240--3258289	21	2.4	21	82	0	64	30	26	20	24	1.98
3260132--3260181	20	2.5	20	96	0	91	10	20	24	46	1.81
3260538--3260575	20	1.9	20	89	10	60	21	18	39	21	1.93
3260755--3260858	19	5.4	19	83	13	92	19	17	23	40	1.91
3271805--3271880	20	3.8	20	91	1	109	43	13	22	21	1.86
3272034--3272107	37	2.0	37	84	7	96	51	4	0	44	1.20
3272236--3272266	14	2.2	14	100	0	62	32	0	0	67	0.91
3277722--3277765	15	2.6	17	79	17	56	29	36	20	13	1.91
3277734--3277767	15	2.3	15	100	0	68	35	32	17	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3277852--3278021	29	5.8	29	89	4	252	18	21	15	45	1.85
3278386--3278542	64	2.5	63	77	10	158	26	17	19	36	1.94
3279516--3279572	21	2.6	23	70	16	57	40	17	1	40	1.60
3281049--3281131	38	2.2	39	82	4	98	44	20	6	28	1.75
3283346--3283407	23	2.6	24	85	12	76	25	22	29	22	1.99
3283346--3283409	24	2.7	25	86	11	82	26	21	29	21	1.99
3284185--3284226	15	2.8	15	80	20	52	33	16	7	42	1.75
3284673--3284833	64	2.5	64	83	5	191	27	20	18	34	1.95
3286033--3286089	29	2.0	28	83	10	71	36	21	0	42	1.53
3289131--3289230	35	2.8	37	81	6	114	43	5	5	47	1.47
3289123--3289447	37	9.0	36	74	11	218	45	5	4	44	1.46
3289217--3289275	28	2.0	30	83	6	77	45	1	3	49	1.28
3289099--3289435	71	4.7	72	76	7	233	45	5	4	43	1.47
3289281--3289403	35	3.5	32	78	14	95	48	5	2	43	1.39
3290112--3290866	84	9.2	83	80	6	824	23	21	25	29	1.99
3290066--3290866	164	4.9	164	82	5	899	24	20	25	29	1.99
3290066--3290866	245	3.3	246	89	4	1154	24	20	25	29	1.99
3290030--3290866	329	2.6	324	80	7	893	24	21	25	29	1.99
3294211--3294256	19	2.4	19	96	0	83	65	10	13	10	1.48
3295948--3295993	14	3.1	14	79	11	56	80	8	2	8	0.99
3297445--3297511	31	2.2	31	84	7	84	43	2	5	47	1.43
3297445--3297529	26	3.0	29	81	8	95	44	2	5	47	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3297374--3297694	73	4.5	70	76	13	248	45	5	4	44	1.47
3297393--3297710	35	8.9	37	73	14	204	45	5	4	45	1.45
3302208--3302265	26	2.2	26	84	6	73	39	8	12	39	1.73
3304060--3304124	27	2.4	27	92	0	103	33	23	12	30	1.91
3310497--3310539	21	2.0	21	90	0	68	39	2	0	58	1.11
3325194--3325222	11	2.5	12	88	11	51	72	0	6	20	1.07
3332322--3332549	114	2.0	114	92	0	375	43	9	8	38	1.68
3332887--3332946	31	1.9	32	93	3	104	23	18	8	50	1.74
3344083--3344139	3	19.0	3	100	0	114	66	0	33	0	0.92
3346491--3346757	43	6.2	43	91	0	401	28	20	25	24	1.99

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