genome.fa.s2341.2.7.7.80.10.50.1000.5.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: VEPZ01002341.1 Hibiscus syriacus cultivar Beakdansim tig00004779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1266629

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 574 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)
1058096--1058249	31	5.0	31	88	3	222	38	22	18	20	1.93
1062659--1062690	12	2.7	12	90	0	55	34	21	21	21	1.97
1063380--1063564	31	6.0	31	89	2	266	38	20	18	23	1.93
1065629--1065692	28	2.3	27	89	5	92	20	15	18	45	1.86
1071278--1071311	16	2.1	17	88	5	52	23	5	0	70	1.09
1077976--1078008	16	2.1	16	100	0	66	57	24	12	6	1.57
1078078--1078138	16	3.8	16	93	0	104	54	24	13	8	1.66
1079236--1079288	14	4.1	14	76	18	69	52	26	13	7	1.66
1079227--1079287	24	2.5	24	91	0	95	55	24	9	9	1.63
1081911--1081948	2	19.0	2	100	0	76	0	50	0	50	1.00
1088381--1088420	19	2.1	19	100	0	80	32	15	20	32	1.93
1093686--1093715	2	15.0	2	100	0	60	50	0	0	50	1.00
1096084--1096139	20	2.8	20	94	0	94	28	14	26	30	1.95
1096087--1096155	20	3.3	20	89	4	75	27	14	28	28	1.95
1096299--1096390	42	2.2	40	84	3	112	27	9	28	34	1.88
1096277--1096374	20	4.8	20	83	5	106	31	10	27	30	1.90
1097396--1097447	21	2.5	22	84	9	65	55	1	5	36	1.35
1100743--1100803	32	1.9	32	83	6	79	37	8	11	42	1.71
1104376--1104438	24	2.7	22	78	11	63	42	9	1	46	1.46
1104381--1104438	23	2.5	23	78	13	57	44	10	1	43	1.48
1106448--1106488	17	2.4	17	91	0	73	43	7	19	29	1.78
1107575--1107640	24	2.7	24	78	4	69	54	1	0	43	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112785--1112874	38	2.4	37	81	7	119	47	0	0	52	1.00
1114593--1114673	25	3.2	25	80	0	90	11	17	39	32	1.85
1117327--1117405	29	2.7	29	92	3	124	34	12	22	30	1.92
1133166--1133244	40	1.9	40	87	7	113	37	11	15	35	1.83
1133276--1133337	24	2.6	24	84	0	88	12	11	19	56	1.66
1133960--1134039	10	8.6	10	67	25	59	8	10	22	58	1.57
1133965--1134035	16	4.1	16	73	19	70	7	11	23	57	1.58
1133975--1134025	22	2.3	22	93	0	84	5	11	25	56	1.57
1134060--1134104	21	2.1	21	100	0	90	44	15	4	35	1.67
1141699--1141783	34	2.5	34	94	0	143	38	2	0	58	1.11
1141776--1141813	20	1.9	20	89	10	60	18	10	31	39	1.85
1142572--1142660	30	3.0	29	85	4	106	47	1	4	47	1.30
1145737--1145769	12	2.8	12	100	0	66	39	18	24	18	1.92
1146660--1146757	3	32.7	3	96	0	178	67	1	0	31	0.98
1147070--1147166	50	1.9	50	100	0	194	47	13	20	18	1.82
1154865--1154902	12	3.2	12	88	0	58	42	0	5	52	1.24
1155653--1155772	59	2.0	61	82	9	149	53	4	2	40	1.34
1156270--1156306	2	19.0	2	94	5	67	48	0	0	51	1.00
1157515--1157544	15	1.9	16	93	6	53	16	6	0	76	0.99
1157515--1157559	15	2.7	17	83	16	51	22	4	0	73	1.01
1159131--1159168	13	3.0	13	96	3	69	39	0	31	28	1.57
1159413--1159466	20	2.6	22	85	14	87	40	9	0	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173188--1173218	15	2.1	14	94	5	53	54	6	0	38	1.26
1173193--1173239	16	3.0	16	84	9	53	59	10	0	29	1.31
1173402--1173492	45	2.0	47	87	8	134	47	12	0	40	1.41
1173678--1173728	27	1.9	26	88	11	77	1	39	0	58	1.09
1173687--1173729	19	2.4	19	88	11	65	0	39	0	60	0.97
1173732--1173777	23	2.0	23	100	0	92	8	39	4	47	1.54
1173790--1173841	25	2.1	25	100	0	104	26	34	11	26	1.91
1174013--1174044	13	2.5	13	100	0	64	31	0	46	21	1.52
1174045--1174135	29	3.1	29	98	0	173	23	35	30	10	1.89
1174201--1174260	17	3.6	17	65	4	50	18	26	35	20	1.95
1174176--1174289	26	4.1	26	85	14	165	18	26	35	20	1.95
1174176--1174341	26	5.5	32	81	18	157	19	23	34	21	1.96
1174174--1174306	59	2.3	59	96	3	245	20	25	34	19	1.96
1174277--1174364	35	2.5	35	96	0	158	18	20	32	28	1.96
1174359--1174400	12	3.5	12	93	0	75	19	35	19	26	1.95
1174409--1174474	35	2.0	32	86	13	91	19	19	36	24	1.95
1176396--1176421	3	8.7	3	100	0	52	0	30	0	69	0.89
1180713--1180770	17	3.4	17	81	9	57	46	1	1	50	1.22
1182644--1182676	2	16.5	2	100	0	66	51	0	0	48	1.00
1199020--1200705	423	4.0	423	98	0	3192	45	15	16	23	1.85
1202418--1202487	34	2.1	32	86	5	95	22	31	12	32	1.92
1202771--1202812	21	2.0	21	95	0	75	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202895--1202953	19	3.1	19	87	2	82	33	10	11	44	1.75
1202895--1202961	19	3.5	19	80	8	73	34	11	10	43	1.76
1203026--1203084	29	2.0	31	86	6	86	42	16	3	37	1.66
1210403--1210437	3	11.7	3	100	0	70	0	0	31	68	0.90
1217826--1217929	41	2.8	36	72	16	93	61	3	3	30	1.32
1219965--1220030	31	2.1	31	88	0	96	42	4	7	45	1.53
1224898--1224946	19	2.6	19	80	0	62	40	8	14	36	1.75
1230911--1230983	3	23.7	3	88	5	110	34	0	1	64	1.02
1230911--1230985	22	3.5	22	87	1	116	34	0	1	64	1.02
1230912--1230983	25	2.9	25	89	6	119	34	0	1	63	1.03
1233007--1233060	3	17.7	3	78	21	51	27	0	0	72	0.85
1233004--1233060	15	3.9	14	80	13	62	26	0	0	73	0.83
1233006--1233060	13	4.2	12	88	11	65	27	0	0	72	0.85
1233006--1233060	26	2.1	25	86	10	74	27	0	0	72	0.85
1234643--1234695	14	3.7	14	85	5	70	22	13	9	54	1.67
1237943--1237974	1	32.0	1	93	0	55	96	0	3	0	0.20
1237940--1237973	11	3.2	11	95	4	61	94	0	5	0	0.32
1237937--1237974	14	2.8	14	92	4	60	92	0	7	0	0.40
1240182--1240363	83	2.2	83	92	2	303	28	13	20	37	1.90
1242546--1242625	40	2.0	40	92	4	135	35	15	21	28	1.93
1243416--1244516	113	9.9	113	91	5	1750	36	14	20	28	1.92
1244810--1244873	3	21.7	3	81	15	80	34	0	1	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244810--1244873	26	2.5	26	87	5	94	34	0	1	64	1.03
1244807--1244873	20	3.4	20	84	11	86	34	0	1	64	1.03
1244810--1244875	29	2.2	30	89	7	100	34	0	1	63	1.04
1256861--1256895	6	5.8	6	100	0	70	17	14	68	0	1.21
1257016--1257072	26	2.1	28	83	6	73	42	0	5	52	1.24
1257831--1257875	16	2.6	18	75	10	58	48	2	0	48	1.13

Tables:   1   2   3   4   5

The End!