genome.fa.s8909.2.7.7.80.10.50.1000.4.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: VEPZ01008909.1 Hibiscus syriacus cultivar Beakdansim tig00112206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2327114

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 959 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)
993416--993458	22	2.0	22	100	0	86	34	0	13	51	1.42
993141--993490	86	4.1	84	76	14	314	34	0	11	53	1.40
993636--993678	22	2.0	22	95	0	77	32	0	16	51	1.45
993702--993792	31	2.9	31	96	0	164	43	8	6	40	1.62
995479--995507	15	1.9	15	100	0	58	51	6	20	20	1.70
996501--996837	174	1.9	174	97	0	638	39	9	18	32	1.83
1000103--1000157	28	2.0	28	85	0	74	36	7	21	34	1.81
1000901--1000942	14	3.0	14	80	10	50	23	2	7	66	1.28
1003651--1003688	20	1.9	20	100	0	76	36	10	28	23	1.88
1003651--1003694	20	2.3	19	92	7	72	36	9	31	22	1.86
1003843--1003917	37	2.0	37	82	10	91	50	4	0	45	1.20
1016716--1016762	21	2.3	21	89	7	71	31	2	0	65	1.04
1028512--1028540	10	2.9	10	100	0	58	58	20	0	20	1.39
1030068--1030102	18	1.9	18	88	0	52	22	5	17	54	1.64
1031221--1031259	20	2.0	20	89	0	60	41	7	25	25	1.82
1033897--1033931	2	17.5	2	100	0	70	48	0	0	51	1.00
1038265--1038293	2	14.5	2	100	0	58	51	0	0	48	1.00
1042339--1042379	22	1.9	21	90	5	64	60	4	2	31	1.30
1045377--1045411	15	2.4	14	90	9	52	42	5	0	51	1.25
1045789--1045833	20	2.4	19	82	10	56	48	4	20	26	1.68
1048019--1048044	2	13.0	2	100	0	52	50	0	0	50	1.00
1050390--1050419	14	2.2	13	94	5	51	46	0	13	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064834--1064872	2	19.5	2	94	0	69	46	0	2	51	1.14
1069221--1069265	23	2.0	23	100	0	90	26	22	4	46	1.70
1073292--1073326	18	2.1	16	89	10	52	74	0	0	25	0.82
1074125--1074174	26	1.9	26	83	0	64	56	4	8	32	1.47
1078502--1078539	20	1.9	20	88	0	58	21	26	10	42	1.85
1079113--1079227	60	1.9	60	82	3	142	43	4	18	33	1.70
1083207--1083264	3	20.0	3	75	7	57	60	0	1	37	1.07
1083214--1083276	18	3.5	18	77	16	60	55	1	1	41	1.19
1091581--1091711	11	11.0	11	67	20	59	48	0	2	48	1.19
1091547--1091811	36	7.3	36	82	7	313	49	2	3	44	1.32
1091547--1091796	72	3.5	73	91	3	391	49	2	3	45	1.31
1093124--1093168	19	2.4	18	82	10	54	15	8	2	73	1.18
1096528--1097738	325	3.8	324	85	5	1497	28	15	18	37	1.91
1098416--1098456	20	2.0	20	86	9	57	58	4	0	36	1.20
1098938--1098994	29	1.9	30	85	7	80	42	7	10	40	1.66
1101332--1101368	2	18.5	2	100	0	74	51	0	0	48	1.00
1107349--1107393	23	2.0	22	83	16	56	44	15	22	17	1.86
1107388--1107497	52	2.1	53	96	1	204	30	24	15	30	1.96
1113658--1114087	215	2.0	216	97	0	808	30	22	17	29	1.97
1117018--1117077	2	30.0	2	100	0	120	50	0	0	50	1.00
1119946--1120019	37	2.0	37	84	10	98	27	6	29	36	1.82
1126096--1126142	21	2.2	21	96	0	85	29	34	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126157--1126203	21	2.2	21	92	0	76	25	23	21	29	1.99
1126267--1126340	21	3.6	21	74	7	80	20	20	25	33	1.97
1126292--1126361	21	3.5	19	72	12	68	20	20	22	37	1.95
1126273--1126365	40	2.3	42	94	3	163	21	19	23	35	1.96
1126292--1126370	19	3.9	19	75	12	77	22	20	21	35	1.96
1127476--1127542	30	2.2	30	100	0	134	47	5	2	43	1.43
1127476--1127568	30	3.0	30	88	6	105	47	7	2	43	1.43
1127557--1127581	2	12.5	2	100	0	50	48	0	0	52	1.00
1132236--1132267	14	2.3	14	94	0	55	37	9	0	53	1.34
1137791--1137853	13	5.1	13	69	18	53	33	25	15	25	1.95
1137771--1137875	36	3.0	36	94	2	178	34	24	12	28	1.92
1145498--1145531	13	2.7	13	95	4	61	61	0	0	38	0.96
1147092--1147128	19	1.9	19	88	0	56	40	5	10	43	1.63
1153755--1153803	21	2.3	21	100	0	98	18	18	32	30	1.95
1153774--1153956	42	4.2	42	92	4	276	21	18	22	37	1.94
1153808--1153958	21	7.2	21	69	19	118	22	17	20	39	1.93
1154636--1154751	21	5.6	21	82	10	139	23	21	23	31	1.98
1155907--1155963	29	2.0	29	89	0	87	29	10	14	45	1.78
1157001--1157047	22	2.0	24	84	8	62	38	0	0	61	0.96
1159914--1159967	20	2.7	19	76	18	65	33	33	18	14	1.92
1159996--1160048	20	2.7	20	88	5	72	43	22	18	15	1.87
1160057--1160126	20	3.5	20	80	3	86	37	25	18	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160240--1160295	20	2.8	20	78	5	60	33	23	19	23	1.97
1161143--1161196	24	2.2	24	93	0	90	20	18	20	40	1.91
1163628--1163716	20	4.4	20	88	2	135	34	24	22	17	1.96
1163721--1163883	19	8.8	19	84	9	221	46	16	20	15	1.84
1164039--1164075	14	2.6	14	86	0	56	48	21	0	29	1.50
1165431--1165540	42	2.6	42	77	5	116	24	19	36	20	1.95
1166019--1166067	20	2.5	20	96	0	89	38	22	20	18	1.93
1166019--1166085	20	3.3	20	89	0	80	38	20	17	22	1.93
1166120--1166163	19	2.3	19	88	0	61	13	15	27	43	1.85
1166129--1166166	19	2.0	19	94	0	67	7	15	28	47	1.74
1166135--1166226	33	2.8	33	83	3	107	11	20	22	44	1.84
1166178--1166226	17	3.1	17	71	17	59	12	24	20	42	1.86
1166314--1166693	94	4.1	94	95	1	656	47	18	12	22	1.81
1172346--1172412	33	2.1	32	91	8	109	43	22	16	17	1.88
1173410--1173486	34	2.3	34	84	4	102	23	19	18	38	1.93
1174906--1174958	26	2.0	26	82	7	63	39	0	15	45	1.46
1176138--1176167	2	15.5	2	93	6	53	50	0	0	50	1.00
1176312--1176338	2	13.5	2	100	0	54	48	0	0	51	1.00
1192659--1192967	130	2.3	130	85	4	415	26	29	19	24	1.99
1193156--1193213	9	5.8	10	84	15	68	37	0	0	62	0.96
1193156--1193201	3	15.7	3	82	13	60	34	0	0	65	0.93
1193330--1193428	25	4.0	25	92	7	159	36	19	15	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200216--1200274	21	2.9	21	85	5	68	44	1	0	54	1.10
1200279--1200314	18	2.1	17	89	5	54	58	2	2	36	1.27
1200333--1200461	18	7.1	18	66	19	54	49	1	0	48	1.16
1200356--1200441	27	3.1	27	73	18	79	47	1	1	50	1.16
1200456--1200501	24	2.0	24	82	4	58	52	2	2	43	1.25
1200601--1200628	11	2.5	11	100	0	56	75	0	0	25	0.81
1210285--1210324	3	13.3	3	100	0	80	32	0	0	67	0.91
1218204--1218265	30	2.1	30	100	0	124	32	19	14	33	1.92
1218295--1218326	17	1.9	16	93	6	55	0	59	31	9	1.29
1218296--1218343	20	2.4	20	82	0	60	2	58	29	10	1.43
1220653--1220683	1	31.0	1	100	0	62	100	0	0	0	0.00
1232327--1232516	94	2.0	94	96	0	353	40	16	11	32	1.84
1233883--1233912	14	2.1	14	100	0	60	26	6	40	26	1.81
1233886--1233918	14	2.5	13	90	9	50	30	3	33	33	1.73
1233944--1234007	31	2.3	27	79	15	67	34	25	18	21	1.96
1238208--1238332	34	3.8	34	73	19	129	42	10	16	31	1.81
1238666--1238759	34	2.9	32	79	7	91	29	4	5	60	1.38
1238700--1238750	22	2.4	21	78	18	52	31	0	5	62	1.19
1238829--1238866	20	1.9	20	88	0	58	26	7	2	63	1.35
1238877--1238911	16	2.1	18	89	10	56	25	8	0	65	1.21
1239007--1239045	16	2.4	16	83	8	53	23	7	0	69	1.14
1242078--1242160	16	5.1	16	73	22	59	77	8	14	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242101--1242184	23	3.7	23	74	6	64	76	8	14	1	1.07
1242811--1242859	22	2.2	22	92	0	80	32	24	14	28	1.94
1243816--1243855	21	1.9	21	94	0	71	30	20	10	40	1.85
1243837--1244057	36	6.3	36	75	10	197	27	19	14	38	1.91
1243838--1244020	102	1.8	101	87	1	276	27	18	14	38	1.90
1243852--1244108	138	1.9	138	85	1	354	27	20	13	38	1.90
1244032--1244188	68	2.4	68	84	3	203	32	22	8	35	1.86
1244827--1245239	105	4.0	101	78	9	368	33	25	20	21	1.97
1245789--1245913	34	3.8	34	72	19	120	42	10	15	32	1.80
1246246--1246345	34	3.0	34	81	7	98	30	4	5	61	1.36

Tables:   1   2   3   4   5   6   7   8